Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold334
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 1116604
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.28
Warning! 144470 characters in sequence are not A, C, G, or T
File 3 of 6
Found at i:204490 original size:40 final size:38
Alignment explanation
Indices: 204297--204524 Score: 181
Period size: 40 Copynumber: 5.7 Consensus size: 38
204287 AGGTGTGTAT
*
204297 ATAACAGTAAGTCTTACCCCCAGGTGTGTAAACAGGTAC
1 ATAACAGTAAGTCTTA-CCCCAGGTGTGTACACAGGTAC
* *
204336 ATAACGGTAAGTCTTACCCCCAGGTGTGTAAACAGGTAC
1 ATAACAGTAAGTCTTA-CCCCAGGTGTGTACACAGGTAC
* * * * * *
204375 AAAACAGTAAAAGACTTACCCCAGATATGTACATAGGAAC
1 ATAACAGT--AAGTCTTACCCCAGGTGTGTACACAGGTAC
* * * * * *
204415 AAAAAAGTAAAATTTTTACACCAGGTGTGTGCACAGGTAC
1 ATAACAGT--AAGTCTTACCCCAGGTGTGTACACAGGTAC
*
204455 ATAACAGTAAGTCTTACCACAGGTGTGTCTACACAGGTAGATC
1 ATAACAGTAAGTCTTACCCCAGGTGTG--TACACAGGT--A-C
*
204498 ATAGA-AG-AAGTCTTACCCCAGGAGTGT
1 ATA-ACAGTAAGTCTTACCCCAGGTGTGT
204525 CTATCACAAT
Statistics
Matches: 153, Mismatches: 28, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
38 15 0.10
39 44 0.29
40 62 0.41
41 7 0.05
42 18 0.12
43 6 0.04
44 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (38 bp):
ATAACAGTAAGTCTTACCCCAGGTGTGTACACAGGTAC
Found at i:205133 original size:74 final size:74
Alignment explanation
Indices: 205001--205147 Score: 199
Period size: 74 Copynumber: 2.0 Consensus size: 74
204991 CAAGATTGAG
* * * * *
205001 AAATCCATGTCACAGGAAGATTCTTACTTATAGCTTGTATTCCAGTGAACAGATAGAC-AGACAG
1 AAATCCATGTCACAGGAAGATTCTTACTGATAGCATGTATTCCAGTGAACACACAGACAAAACA-
205065 ACAGACAGAC
65 ACAGACAGAC
* *
205075 AAATCCATGTCACGGGAAGATTCTTACTGATAGCATGT-TTCCTAGTGAATACACAGACAAAACA
1 AAATCCATGTCACAGGAAGATTCTTACTGATAGCATGTATTCC-AGTGAACACACAGACAAAACA
205139 ACAGACAGA
65 ACAGACAGA
205148 TAGACAGATG
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
73 4 0.06
74 56 0.88
75 4 0.06
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.22
Consensus pattern (74 bp):
AAATCCATGTCACAGGAAGATTCTTACTGATAGCATGTATTCCAGTGAACACACAGACAAAACAA
CAGACAGAC
Found at i:206988 original size:52 final size:52
Alignment explanation
Indices: 206910--207036 Score: 245
Period size: 52 Copynumber: 2.4 Consensus size: 52
206900 GAAACCTGCA
206910 GGCTCCCCGATACCTGGCATTATATACCTGGATATAAAGGGTGAACAGCTCC
1 GGCTCCCCGATACCTGGCATTATATACCTGGATATAAAGGGTGAACAGCTCC
206962 GGCTCCCCGATACCTGGCATTATATACCTGGATATAAAGGGTGAACAGCTCC
1 GGCTCCCCGATACCTGGCATTATATACCTGGATATAAAGGGTGAACAGCTCC
*
207014 GGCTCCCTGATACCTGGCATTAT
1 GGCTCCCCGATACCTGGCATTAT
207037 GAATGTAAAG
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (52 bp):
GGCTCCCCGATACCTGGCATTATATACCTGGATATAAAGGGTGAACAGCTCC
Found at i:207184 original size:2 final size:2
Alignment explanation
Indices: 207177--207229 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
207167 TCAAATTCAT
207177 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
207219 TC TC TC TC TC T
1 TC TC TC TC TC T
207230 GGGGGGGGGG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:209514 original size:30 final size:30
Alignment explanation
Indices: 209478--209534 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
209468 CCCCAAAAAA
* * *
209478 AAATCACTCCCCCATTTCTATATGCCACCC
1 AAATCACTCCCACATCTCTATAGGCCACCC
*
209508 AAATCACTTCCACATCTCTATAGGCCA
1 AAATCACTCCCACATCTCTATAGGCCA
209535 TACCCACCTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.30, C:0.39, G:0.05, T:0.26
Consensus pattern (30 bp):
AAATCACTCCCACATCTCTATAGGCCACCC
Found at i:216299 original size:22 final size:22
Alignment explanation
Indices: 216274--217827 Score: 1697
Period size: 22 Copynumber: 71.2 Consensus size: 22
216264 CTAATAGCAT
* *
216274 CTTGTAGGGTCTGTGACAATTA
1 CTTGTAGGGTCTGTTACAATGA
* *
216296 CTTGTAGTGTGTGTTACAATGA
1 CTTGTAGGGTCTGTTACAATGA
216318 CTTGTAGGGTCTGTTACAATGA
1 CTTGTAGGGTCTGTTACAATGA
216340 CTTGTAAGGGTCTGTTACAATGA
1 CTTGT-AGGGTCTGTTACAATGA
* *
216363 CTTGTAGGGTCTGTGACAATTA
1 CTTGTAGGGTCTGTTACAATGA
* *
216385 CTTGTAGTGTGTGTTACAATGA
1 CTTGTAGGGTCTGTTACAATGA
216407 CTTGTAGGGTCTGTTACAATGA
1 CTTGTAGGGTCTGTTACAATGA
* *
216429 CTTGTAGGGTCTGTGACAATTA
1 CTTGTAGGGTCTGTTACAATGA
*
216451 CTTGTAGTGTCTGTTACAATGA
1 CTTGTAGGGTCTGTTACAATGA
*
216473 CTTGTAGGGTCTGTTACAATTA
1 CTTGTAGGGTCTGTTACAATGA
*
216495 CTTGTAGGGTCTGTTACAATTA
1 CTTGTAGGGTCTGTTACAATGA
*
216517 CTTGTAGTGTCTGTTACAATGA
1 CTTGTAGGGTCTGTTACAATGA
216539 CTTGTAGGGTCTGTTACAATGA
1 CTTGTAGGGTCTGTTACAATGA
* * *
216561 CTTGTAGTGTGTGTTACAATTA
1 CTTGTAGGGTCTGTTACAATGA
* *
216583 CTTGTAGGGTCTGTGACAATTA
1 CTTGTAGGGTCTGTTACAATGA
* *
216605 CTTGTAGTGTGTGTTACAATGA
1 CTTGTAGGGTCTGTTACAATGA
216627 CTTGTAGGGTCTGTTACAATGA
1 CTTGTAGGGTCTGTTACAATGA
* * *
216649 TTTGTAGTGTGTGTTACAATGA
1 CTTGTAGGGTCTGTTACAATGA
* * *
216671 CTTGTAGTGTGTGTTACAATTA
1 CTTGTAGGGTCTGTTACAATGA
* *
216693 CTTGTAGTGTGTGTTACAATGA
1 CTTGTAGGGTCTGTTACAATGA
* * *
216715 CTTGTAGTGTGTGTTACAATTA
1 CTTGTAGGGTCTGTTACAATGA
*
216737 CTTGTAGGGGCTGTTACAATGA
1 CTTGTAGGGTCTGTTACAATGA
216759 CTTGTAGGGTCTGTTACAATGA
1 CTTGTAGGGTCTGTTACAATGA
216781 CTTGTAGGGTCTGTTACAATGA
1 CTTGTAGGGTCTGTTACAATGA
*
216803 CTTGTAAGGGTCTGTTACAATTA
1 CTTGT-AGGGTCTGTTACAATGA
216826 CTTGTAGGGTCTGTTACAATGA
1 CTTGTAGGGTCTGTTACAATGA
*
216848 CTTGTAGAGTCTGTTACAATGA
1 CTTGTAGGGTCTGTTACAATGA
216870 CTTGTAGGGTCTGTTACAATGA
1 CTTGTAGGGTCTGTTACAATGA
*
216892 CTTGTAGTGTCTGTTACAATGA
1 CTTGTAGGGTCTGTTACAATGA
* * * * *
216914 CTTGTTGAGTTTCTTACAATGT
1 CTTGTAGGGTCTGTTACAATGA
* *
216936 TTTGCT-GTGTCTGTT-CAATGA
1 CTTG-TAGGGTCTGTTACAATGA
216957 CTTGTAGGGTCTGTTACAATGA
1 CTTGTAGGGTCTGTTACAATGA
*
216979 CTTGTTGGGTCTGTTACAATGA
1 CTTGTAGGGTCTGTTACAATGA
* * * *
217001 CTTGTAGGGTTTCTTGCAATGT
1 CTTGTAGGGTCTGTTACAATGA
* * *
217023 TTTGTTGTGTCTGTT-CAATGA
1 CTTGTAGGGTCTGTTACAATGA
* ** *
217044 CTTGAAAAGTCTGTTACAATTA
1 CTTGTAGGGTCTGTTACAATGA
*
217066 CTTGTAGGGTCTGTAACAATGA
1 CTTGTAGGGTCTGTTACAATGA
* * *
217088 CTTTTTGGGTCTGTTACAATAA
1 CTTGTAGGGTCTGTTACAATGA
* * *
217110 CTTGTAGGGTTTCTTACAATGT
1 CTTGTAGGGTCTGTTACAATGA
* * *
217132 TTTGTTGTGTCTGTT-CAATGA
1 CTTGTAGGGTCTGTTACAATGA
*
217153 CTTGTTGGGTCTGTTACAATGA
1 CTTGTAGGGTCTGTTACAATGA
* *
217175 CTTGTAGTGTCTGTT-CAAGGA
1 CTTGTAGGGTCTGTTACAATGA
* *
217196 CTTGTATGGTCTGTTATAATGA
1 CTTGTAGGGTCTGTTACAATGA
* *
217218 CTTGTAGTGTCTGTTACAGTGA
1 CTTGTAGGGTCTGTTACAATGA
* *
217240 CTTGTAGAGTCTGTAACAATGA
1 CTTGTAGGGTCTGTTACAATGA
** *
217262 CTTGTAGCATCTGTT---A--N
1 CTTGTAGGGTCTGTTACAATGA
* *
217279 CTTGTAGGGGT-TTTTACAATTA
1 CTTGTA-GGGTCTGTTACAATGA
217301 CTTGTAAGGGTCTGTTACAATGA
1 CTTGT-AGGGTCTGTTACAATGA
217324 CTTGTAGGGTCTGTTACAATGA
1 CTTGTAGGGTCTGTTACAATGA
*
217346 CTTGTAGTGTCTGTTACAATGA
1 CTTGTAGGGTCTGTTACAATGA
* * * * *
217368 CTTGTTGAGTTTCTTACAATGT
1 CTTGTAGGGTCTGTTACAATGA
* *
217390 TTTGCT-GTGTCTGTT-CAATGA
1 CTTG-TAGGGTCTGTTACAATGA
217411 CTTGTAGGGTCTGTTACAATGA
1 CTTGTAGGGTCTGTTACAATGA
*
217433 CTTGTTGGGTCTGTTACAATGA
1 CTTGTAGGGTCTGTTACAATGA
* * * *
217455 CTTGTAGGGTTTCTTGCAATGT
1 CTTGTAGGGTCTGTTACAATGA
* * *
217477 TTTGTTGTGTCTGTT-CAATGA
1 CTTGTAGGGTCTGTTACAATGA
* ** *
217498 CTTGAAAAGTCTGTTACAATTA
1 CTTGTAGGGTCTGTTACAATGA
*
217520 CTTGTAGGGTCTGTAACAATGA
1 CTTGTAGGGTCTGTTACAATGA
* * *
217542 CTTTTTGGGTCTGTTACAATAA
1 CTTGTAGGGTCTGTTACAATGA
* * *
217564 CTTGTAGGGTTTCTTACAATGT
1 CTTGTAGGGTCTGTTACAATGA
* * *
217586 TTTGTTGTGTCTGTT-CAATGA
1 CTTGTAGGGTCTGTTACAATGA
*
217607 CTTGTTGGGTCTGTTACAATGA
1 CTTGTAGGGTCTGTTACAATGA
* *
217629 CTTGTAGTGTCTGTT-CAAGGA
1 CTTGTAGGGTCTGTTACAATGA
* *
217650 CTTGTATGGTCTGTTATAATGA
1 CTTGTAGGGTCTGTTACAATGA
* *
217672 CTTGTAGTGTCTGTTACAGTGA
1 CTTGTAGGGTCTGTTACAATGA
* *
217694 CTTGTAGAGTCTGTAACAATGA
1 CTTGTAGGGTCTGTTACAATGA
**
217716 CTTGTAGCATCTGTTACAATGA
1 CTTGTAGGGTCTGTTACAATGA
** *
217738 CTTACAGGGTCTTTTAC-A--A
1 CTTGTAGGGTCTGTTACAATGA
* * **
217757 CTTGTAGGATTTGAAACAATGA
1 CTTGTAGGGTCTGTTACAATGA
* * * * *
217779 CTCGTTGGGTTTATAACAATGA
1 CTTGTAGGGTCTGTTACAATGA
* * *
217801 CTTGCATGGTCTGTTAAAATGA
1 CTTGTAGGGTCTGTTACAATGA
*
217823 TTTGT
1 CTTGT
217828 GGCATTTGTT
Statistics
Matches: 1279, Mismatches: 228, Indels: 50
0.82 0.15 0.03
Matches are distributed among these distances:
17 9 0.01
18 2 0.00
19 12 0.01
20 4 0.00
21 135 0.11
22 1057 0.83
23 60 0.05
ACGTcount: A:0.22, C:0.13, G:0.24, T:0.40
Consensus pattern (22 bp):
CTTGTAGGGTCTGTTACAATGA
Found at i:217902 original size:454 final size:454
Alignment explanation
Indices: 216274--217827 Score: 2032
Period size: 454 Copynumber: 3.4 Consensus size: 454
216264 CTAATAGCAT
* * * * * * * *
216274 CTTGTAGGGTCTGTGACAATTACTTGTAGTGTGTGTTACAATGACTTGTAGGGTCTGTTACAATG
1 CTTGTATGGTCTGTTATAATGACTTGTAGTGTCTGTTACAGTGACTTGTAGAGTCTGTAACAATG
** * * * *
216339 ACTTGTAAGGGTCTGTTACAATGACTTGTAGGGTCTGTGACAATTACTTGTAGTG-TGTGTTACA
66 ACTTGT-AGCATCTGTTACAATGACTT-AAGGGTCTTTTACAA-TACTTGTAG-GATCTGTTACA
* * * * * * *
216403 ATGACTTGTAGGGTCTGTTACAATGACTTGTAGGGTCTGTGACAATTACTTGTAGTGTCTGTTAC
127 ATGACTTGTAGGGTCTGTTACAATGACTTGTAGTGTCTGTTACAATGACTTGTTGAGTTTCTTAC
** * * * * *
216468 AATGACTTG-TAGGGTCTGTTACAATTACTTGTAGGGTCTGTTACAATTACTTGTAGTGTCTGTT
192 AATGTTTTGCT-GTGTCTGTT-CAATGA-TTGTA-GGTCTGTTACAATGACTTGTTGGGTCTGTT
* * * ** * * * * **
216532 ACAATGACTTGTAGGGTCTGTTACAATGACTTGTAGTGTGTGTTACAATTACTTGTAGGGTCTGT
253 ACAATGACTTGTAGGGTTTCTTGCAATGTTTTGTTGTGTCTGTT-CAATGACTTGAAAAGTCTGT
* * * * * * * * * * *
216597 GACAATTACTTGTAGTGTGTGTTACAATGACTTGTAGGGTCTGTTACAATGATTTGTAGTGTGTG
317 TACAATTACTTGTAGGGTCTGTAACAATGACTTTTTGGGTCTGTTACAATAACTTGTAGGGTTTC
** * * * * * * *
216662 TTACAATGACTTGTAGTGTGTGTTACAATTACTTGTAGTGTGTGTTACAATGACTTGTAGTGTGT
382 TTACAATGTTTTGTTGTGTCTGTT-CAATGACTTGTTGGGTCTGTTACAATGACTTGTAGTGTCT
**
216727 GTTACAATTA
446 GTT-CAAGGA
* * * * * * *
216737 CTTGTAGGGGCTGTTACAATGACTTGTAGGGTCTGTTACAATGACTTGTAGGGTCTGTTACAATG
1 CTTGTATGGTCTGTTATAATGACTTGTAGTGTCTGTTACAGTGACTTGTAGAGTCTGTAACAATG
** * * *
216802 ACTTGTAAGGGTCTGTTACAATTACTTGTAGGGTCTGTTACAATGACTTGTA-GAGTCTGTTACA
66 ACTTGT-AGCATCTGTTACAATGACTT-AAGGGTCTTTTACAAT-ACTTGTAGGA-TCTGTTACA
216866 ATGACTTGTAGGGTCTGTTACAATGACTTGTAGTGTCTGTTACAATGACTTGTTGAGTTTCTTAC
127 ATGACTTGTAGGGTCTGTTACAATGACTTGTAGTGTCTGTTACAATGACTTGTTGAGTTTCTTAC
216931 AATGTTTTGCTGTGTCTGTTCAATGACTTGTAGGGTCTGTTACAATGACTTGTTGGGTCTGTTAC
192 AATGTTTTGCTGTGTCTGTTCAATGA-TTGTA-GGTCTGTTACAATGACTTGTTGGGTCTGTTAC
216996 AATGACTTGTAGGGTTTCTTGCAATGTTTTGTTGTGTCTGTTCAATGACTTGAAAAGTCTGTTAC
255 AATGACTTGTAGGGTTTCTTGCAATGTTTTGTTGTGTCTGTTCAATGACTTGAAAAGTCTGTTAC
217061 AATTACTTGTAGGGTCTGTAACAATGACTTTTTGGGTCTGTTACAATAACTTGTAGGGTTTCTTA
320 AATTACTTGTAGGGTCTGTAACAATGACTTTTTGGGTCTGTTACAATAACTTGTAGGGTTTCTTA
217126 CAATGTTTTGTTGTGTCTGTTCAATGACTTGTTGGGTCTGTTACAATGACTTGTAGTGTCTGTTC
385 CAATGTTTTGTTGTGTCTGTTCAATGACTTGTTGGGTCTGTTACAATGACTTGTAGTGTCTGTTC
217191 AAGGA
450 AAGGA
217196 CTTGTATGGTCTGTTATAATGACTTGTAGTGTCTGTTACAGTGACTTGTAGAGTCTGTAACAATG
1 CTTGTATGGTCTGTTATAATGACTTGTAGTGTCTGTTACAGTGACTTGTAGAGTCTGTAACAATG
* * *
217261 ACTTGTAGCATCTGTTANC-TTG---TAGGGGT-TTTTACAATTACTTGTAAGGGTCTGTTACAA
66 ACTTGTAGCATCTGTTA-CAATGACTTAAGGGTCTTTTACAA-TACTTGT-AGGATCTGTTACAA
217321 TGACTTGTAGGGTCTGTTACAATGACTTGTAGTGTCTGTTACAATGACTTGTTGAGTTTCTTACA
128 TGACTTGTAGGGTCTGTTACAATGACTTGTAGTGTCTGTTACAATGACTTGTTGAGTTTCTTACA
217386 ATGTTTTGCTGTGTCTGTTCAATGACTTGTAGGGTCTGTTACAATGACTTGTTGGGTCTGTTACA
193 ATGTTTTGCTGTGTCTGTTCAATGA-TTGTA-GGTCTGTTACAATGACTTGTTGGGTCTGTTACA
217451 ATGACTTGTAGGGTTTCTTGCAATGTTTTGTTGTGTCTGTTCAATGACTTGAAAAGTCTGTTACA
256 ATGACTTGTAGGGTTTCTTGCAATGTTTTGTTGTGTCTGTTCAATGACTTGAAAAGTCTGTTACA
217516 ATTACTTGTAGGGTCTGTAACAATGACTTTTTGGGTCTGTTACAATAACTTGTAGGGTTTCTTAC
321 ATTACTTGTAGGGTCTGTAACAATGACTTTTTGGGTCTGTTACAATAACTTGTAGGGTTTCTTAC
217581 AATGTTTTGTTGTGTCTGTTCAATGACTTGTTGGGTCTGTTACAATGACTTGTAGTGTCTGTTCA
386 AATGTTTTGTTGTGTCTGTTCAATGACTTGTTGGGTCTGTTACAATGACTTGTAGTGTCTGTTCA
217646 AGGA
451 AGGA
217650 CTTGTATGGTCTGTTATAATGACTTGTAGTGTCTGTTACAGTGACTTGTAGAGTCTGTAACAATG
1 CTTGTATGGTCTGTTATAATGACTTGTAGTGTCTGTTACAGTGACTTGTAGAGTCTGTAACAATG
* **
217715 ACTTGTAGCATCTGTTACAATGACTTACAGGGTCTTTTAC-A-ACTTGTAGGATTTGAAACAATG
66 ACTTGTAGCATCTGTTACAATGACTTA-AGGGTCTTTTACAATACTTGTAGGATCTGTTACAATG
* * * * * * * *
217778 ACTCGTTGGGTTTATAACAATGACTTGCA-TGGTCTGTTAAAATGATTTGT
130 ACTTGTAGGGTCTGTTACAATGACTTGTAGT-GTCTGTTACAATGACTTGT
217828 GGCATTTGTT
Statistics
Matches: 992, Mismatches: 84, Indels: 38
0.89 0.08 0.03
Matches are distributed among these distances:
453 14 0.01
454 430 0.43
455 54 0.05
456 6 0.01
457 2 0.00
458 15 0.02
459 75 0.08
460 38 0.04
461 91 0.09
462 77 0.08
463 189 0.19
464 1 0.00
ACGTcount: A:0.22, C:0.13, G:0.24, T:0.40
Consensus pattern (454 bp):
CTTGTATGGTCTGTTATAATGACTTGTAGTGTCTGTTACAGTGACTTGTAGAGTCTGTAACAATG
ACTTGTAGCATCTGTTACAATGACTTAAGGGTCTTTTACAATACTTGTAGGATCTGTTACAATGA
CTTGTAGGGTCTGTTACAATGACTTGTAGTGTCTGTTACAATGACTTGTTGAGTTTCTTACAATG
TTTTGCTGTGTCTGTTCAATGATTGTAGGTCTGTTACAATGACTTGTTGGGTCTGTTACAATGAC
TTGTAGGGTTTCTTGCAATGTTTTGTTGTGTCTGTTCAATGACTTGAAAAGTCTGTTACAATTAC
TTGTAGGGTCTGTAACAATGACTTTTTGGGTCTGTTACAATAACTTGTAGGGTTTCTTACAATGT
TTTGTTGTGTCTGTTCAATGACTTGTTGGGTCTGTTACAATGACTTGTAGTGTCTGTTCAAGGA
Found at i:218103 original size:30 final size:30
Alignment explanation
Indices: 218067--219102 Score: 1589
Period size: 30 Copynumber: 34.7 Consensus size: 30
218057 CAGAGAAAAT
* * *
218067 CCACAGACTAATACTACAGACTCACTGTGA
1 CCACAGACTAATTCCATAGACTCACTGTGA
*
218097 CCACAGACTAATTCCATACACTCACTGTGA
1 CCACAGACTAATTCCATAGACTCACTGTGA
* **
218127 CCACAGACTAATTCCATACACTCACTGAAA
1 CCACAGACTAATTCCATAGACTCACTGTGA
* *
218157 CCACATACTAATTCTATAGACTCACTGTGA
1 CCACAGACTAATTCCATAGACTCACTGTGA
*
218187 CCACAGACTAATTCCATACACTCACTGTGA
1 CCACAGACTAATTCCATAGACTCACTGTGA
218217 CCACAGACTAATTCCATAGACTCACTGTGA
1 CCACAGACTAATTCCATAGACTCACTGTGA
* * **
218247 CTACAGACTAATTCCATACACTCACTGAAA
1 CCACAGACTAATTCCATAGACTCACTGTGA
* * *
218277 CCACAGACTAATCCCTTAGACTCGCTGTGA
1 CCACAGACTAATTCCATAGACTCACTGTGA
*
218307 CCACAGACTAATTCCATAGACTCACTGTAA
1 CCACAGACTAATTCCATAGACTCACTGTGA
* **
218337 CCACAGACTAATTCTATAGACTCACTGAAA
1 CCACAGACTAATTCCATAGACTCACTGTGA
*
218367 CCACAGACTAATTCCATACACTCACTGTGA
1 CCACAGACTAATTCCATAGACTCACTGTGA
* *
218397 CCACAGGCTAATTCCATAGACTCGCTGTGA
1 CCACAGACTAATTCCATAGACTCACTGTGA
*
218427 CCACAGACTAATTCCATAGACTCGCTGTGA
1 CCACAGACTAATTCCATAGACTCACTGTGA
* *
218457 CCACAGACTAATTCCATAGACTCACTCTAA
1 CCACAGACTAATTCCATAGACTCACTGTGA
*
218487 CCACAGACTAATTCTATAGACTCACTGTGA
1 CCACAGACTAATTCCATAGACTCACTGTGA
** *
218517 CCTTAGAC----T--ATAGACTCACTGTAA
1 CCACAGACTAATTCCATAGACTCACTGTGA
**
218541 CCACAGACTAATTCCATAGACTCACTGTCT
1 CCACAGACTAATTCCATAGACTCACTGTGA
218571 CCACAGACTAATTCCATAGACTCACTGTGA
1 CCACAGACTAATTCCATAGACTCACTGTGA
218601 CCACAGACTAATTCCATAGACTCACTGTGA
1 CCACAGACTAATTCCATAGACTCACTGTGA
*
218631 CCACAGACTAATTCTATAGACTCACTGTGA
1 CCACAGACTAATTCCATAGACTCACTGTGA
218661 CCACAGACTAATTCCATAGACTCACTGTGA
1 CCACAGACTAATTCCATAGACTCACTGTGA
218691 CCACAGACTAATTCCATAGACTCACTGTGA
1 CCACAGACTAATTCCATAGACTCACTGTGA
218721 CCACAGACTAATTCCATAGACTCACTGTGA
1 CCACAGACTAATTCCATAGACTCACTGTGA
218751 CCACAGACTAATTCCATAGACTCACTGTGA
1 CCACAGACTAATTCCATAGACTCACTGTGA
*
218781 CCACAGACTAATTCTATAGACTCACTGTGA
1 CCACAGACTAATTCCATAGACTCACTGTGA
*
218811 CCACAGACTAATTCTATAGACTCACTGTGA
1 CCACAGACTAATTCCATAGACTCACTGTGA
218841 CCACAGACTAATTCCATAGACTCACTGTGA
1 CCACAGACTAATTCCATAGACTCACTGTGA
* *
218871 CCACAGACTAATTCCATAGATTCACTGTAA
1 CCACAGACTAATTCCATAGACTCACTGTGA
* *
218901 CCACAGACTAATTCTATAGACTCATTGTGA
1 CCACAGACTAATTCCATAGACTCACTGTGA
*
218931 CCACAGACTAATTCTATAGACTCACTGTGA
1 CCACAGACTAATTCCATAGACTCACTGTGA
* *
218961 CCACAGGCTAATTCTATAGACTCACTGTGA
1 CCACAGACTAATTCCATAGACTCACTGTGA
* *
218991 CCACAGACTAATTACATAGACTCGCTGTGA
1 CCACAGACTAATTCCATAGACTCACTGTGA
* *
219021 CCACAGACTAATTCCATAGATTCACTGTAA
1 CCACAGACTAATTCCATAGACTCACTGTGA
*
219051 CCACAGACTAATTCTATAGACTCACTGTGA
1 CCACAGACTAATTCCATAGACTCACTGTGA
*
219081 CCACAGACTATTTCCATAGACT
1 CCACAGACTAATTCCATAGACT
219103 GATACACCAG
Statistics
Matches: 920, Mismatches: 80, Indels: 12
0.91 0.08 0.01
Matches are distributed among these distances:
24 20 0.02
26 1 0.00
28 1 0.00
30 898 0.98
ACGTcount: A:0.34, C:0.29, G:0.12, T:0.25
Consensus pattern (30 bp):
CCACAGACTAATTCCATAGACTCACTGTGA
Found at i:218104 original size:17 final size:17
Alignment explanation
Indices: 218082--218135 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
218072 GACTAATACT
218082 ACAGACTCACTGTGACC
1 ACAGACTCACTGTGACC
*
218099 ACAGACT-AAT-T--CC
1 ACAGACTCACTGTGACC
* *
218112 ATACACTCACTGTGACC
1 ACAGACTCACTGTGACC
218129 ACAGACT
1 ACAGACT
218136 AATTCCATAC
Statistics
Matches: 27, Mismatches: 6, Indels: 8
0.66 0.15 0.20
Matches are distributed among these distances:
13 7 0.26
14 2 0.07
15 2 0.07
16 2 0.07
17 14 0.52
ACGTcount: A:0.33, C:0.33, G:0.13, T:0.20
Consensus pattern (17 bp):
ACAGACTCACTGTGACC
Found at i:218548 original size:24 final size:24
Alignment explanation
Indices: 218500--218550 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
218490 CAGACTAATT
* **
218500 CTATAGACTCACTGTGACCTTAGA
1 CTATAGACTCACTGTAACCACAGA
218524 CTATAGACTCACTGTAACCACAGA
1 CTATAGACTCACTGTAACCACAGA
218548 CTA
1 CTA
218551 ATTCCATAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.25
Consensus pattern (24 bp):
CTATAGACTCACTGTAACCACAGA
Found at i:219153 original size:25 final size:26
Alignment explanation
Indices: 219118--219175 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 26
219108 ACCAGAGTTT
* * *
219118 AACCACCCACTAATTCCACAGTGT-A
1 AACCACACACTAATACCACAGAGTAA
*
219143 AACCACACACTAATACCACTGAGTAA
1 AACCACACACTAATACCACAGAGTAA
219169 AACCACA
1 AACCACA
219176 GTCTTATACT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 20 0.71
26 8 0.29
ACGTcount: A:0.43, C:0.34, G:0.07, T:0.16
Consensus pattern (26 bp):
AACCACACACTAATACCACAGAGTAA
Found at i:221456 original size:73 final size:74
Alignment explanation
Indices: 221369--221511 Score: 234
Period size: 73 Copynumber: 1.9 Consensus size: 74
221359 GCAAATTTCC
* *
221369 AAATTTTTCAGCTTTCGATAATGAACAAAAGATTTTTT-GTTACTGAACATTGATGACAAGGATA
1 AAATTTTTCAGCTTTCGATAATGAACAAAAGATTTTTTGGTTACTGAACATTGACGACAAGGAAA
221433 TTCTTCAGG
66 TTCTTCAGG
* * *
221442 AAATTTTTCAGCTTTCGATAATGAACAGAAGCTTTTTTGGTTACTGAATATTGACGACAAGGAAA
1 AAATTTTTCAGCTTTCGATAATGAACAAAAGATTTTTTGGTTACTGAACATTGACGACAAGGAAA
221507 TTCTT
66 TTCTT
221512 AATGTTGTGG
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
73 36 0.56
74 28 0.44
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.37
Consensus pattern (74 bp):
AAATTTTTCAGCTTTCGATAATGAACAAAAGATTTTTTGGTTACTGAACATTGACGACAAGGAAA
TTCTTCAGG
Found at i:226753 original size:24 final size:25
Alignment explanation
Indices: 226726--226904 Score: 90
Period size: 27 Copynumber: 6.7 Consensus size: 25
226716 CAAATCAGTT
*
226726 TGGAGGCCCC-CCAACGAGCCAATA
1 TGGAGGCCCCACCAACAAGCCAATA
*
226750 TGGAGGTGCCCCACCGACAAGCCAATA
1 TGGA-G-GCCCCACCAACAAGCCAATA
** * * *
226777 TGGAGGTGTTCCACCTACAAGTCAGTA
1 TGGA-G-GCCCCACCAACAAGCCAATA
* * *
226804 TGGAGGTGCTCCACCTACAAGTCAATA
1 TGGA-G-GCCCCACCAACAAGCCAATA
* * *
226831 TGGAGGTGCCCCACCCACAAGTCAGTA
1 TGGA-G-GCCCCACCAACAAGCCAATA
* * *
226858 TGGAGGTGCCCCACCCACAAGTCAGTA
1 TGGA-G-GCCCCACCAACAAGCCAATA
*
226885 TGGGGGTGCCCCACCAACAA
1 T-GGAG-GCCCCACCAACAA
226905 CTCATACAGG
Statistics
Matches: 137, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
24 4 0.03
25 1 0.01
26 5 0.04
27 125 0.91
28 2 0.01
ACGTcount: A:0.27, C:0.31, G:0.26, T:0.16
Consensus pattern (25 bp):
TGGAGGCCCCACCAACAAGCCAATA
Found at i:226779 original size:27 final size:27
Alignment explanation
Indices: 226745--226904 Score: 212
Period size: 27 Copynumber: 5.9 Consensus size: 27
226735 CCCAACGAGC
* *
226745 CAATATGGAGGTGCCCCACCGACAAGC
1 CAATATGGAGGTGCCCCACCCACAAGT
** *
226772 CAATATGGAGGTGTTCCACCTACAAGT
1 CAATATGGAGGTGCCCCACCCACAAGT
* * *
226799 CAGTATGGAGGTGCTCCACCTACAAGT
1 CAATATGGAGGTGCCCCACCCACAAGT
226826 CAATATGGAGGTGCCCCACCCACAAGT
1 CAATATGGAGGTGCCCCACCCACAAGT
*
226853 CAGTATGGAGGTGCCCCACCCACAAGT
1 CAATATGGAGGTGCCCCACCCACAAGT
* * *
226880 CAGTATGGGGGTGCCCCACCAACAA
1 CAATATGGAGGTGCCCCACCCACAA
226905 CTCATACAGG
Statistics
Matches: 121, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 121 1.00
ACGTcount: A:0.28, C:0.30, G:0.25, T:0.17
Consensus pattern (27 bp):
CAATATGGAGGTGCCCCACCCACAAGT
Found at i:226860 original size:81 final size:81
Alignment explanation
Indices: 226731--226904 Score: 242
Period size: 81 Copynumber: 2.2 Consensus size: 81
226721 CAGTTTGGAG
* * * ** *
226731 GCCCC-CCAACGAGCCAATATGGAGGTGCCCCACCGACAAGCCAATATGGAGGTGTTCCACCTAC
1 GCCCCACCAACAAGTCAATATGGAGGTGCCCCACCCACAAGCCAATATGGAGGTGCCCCACCCAC
226795 AAGTCAGTATGGAGGT
66 AAGTCAGTATGGAGGT
* * * *
226811 GCTCCACCTACAAGTCAATATGGAGGTGCCCCACCCACAAGTCAGTATGGAGGTGCCCCACCCAC
1 GCCCCACCAACAAGTCAATATGGAGGTGCCCCACCCACAAGCCAATATGGAGGTGCCCCACCCAC
*
226876 AAGTCAGTATGGGGGT
66 AAGTCAGTATGGAGGT
226892 GCCCCACCAACAA
1 GCCCCACCAACAA
226905 CTCATACAGG
Statistics
Matches: 80, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
80 4 0.05
81 76 0.95
ACGTcount: A:0.28, C:0.32, G:0.25, T:0.16
Consensus pattern (81 bp):
GCCCCACCAACAAGTCAATATGGAGGTGCCCCACCCACAAGCCAATATGGAGGTGCCCCACCCAC
AAGTCAGTATGGAGGT
Found at i:227231 original size:36 final size:36
Alignment explanation
Indices: 227189--227283 Score: 136
Period size: 36 Copynumber: 2.6 Consensus size: 36
227179 GGCTGGACCC
* *
227189 GGGCAGTTTCCCCCTCAACCAGGCCAAACTCCTCCA
1 GGGCAGTTCCCCCCTCAACCAGGCCAAACTCCCCCA
* *
227225 GGGCAGTTCCCCCCTCAACCAGGTCAAGCTCCCCCA
1 GGGCAGTTCCCCCCTCAACCAGGCCAAACTCCCCCA
* *
227261 GGGCAGATGCCCCCTCAACCAGG
1 GGGCAGTTCCCCCCTCAACCAGG
227284 ACAGCCCCGG
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 53 1.00
ACGTcount: A:0.21, C:0.44, G:0.21, T:0.14
Consensus pattern (36 bp):
GGGCAGTTCCCCCCTCAACCAGGCCAAACTCCCCCA
Found at i:228517 original size:17 final size:17
Alignment explanation
Indices: 228495--228528 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
228485 ATTCAAAAGT
228495 CTCTATTCAA-AGGTCAC
1 CTCTATT-AAGAGGTCAC
228512 CTCTATTAAGAGGTCAC
1 CTCTATTAAGAGGTCAC
228529 TTTGGGTGCC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 14 0.88
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.29
Consensus pattern (17 bp):
CTCTATTAAGAGGTCAC
Found at i:228699 original size:68 final size:69
Alignment explanation
Indices: 228590--228866 Score: 495
Period size: 68 Copynumber: 4.0 Consensus size: 69
228580 AATCAATGTT
228590 TGTTGTATTTCATGTATTATAGGGAACTGTTACCCTCGTTTTATGAGGTCCACTCTATATAA-GT
1 TGTTGTATTTCATGTATTATAGGGAACTGTTACCCTCGTTTTATGAGGTCCACTCTATATAATGT
228654 ACCC
66 ACCC
*
228658 TGTTGTATTTCATGTATTGTAGGGAACTGTTACCCTCGTTTTATGAGGTCCACTCTATATAA-GT
1 TGTTGTATTTCATGTATTATAGGGAACTGTTACCCTCGTTTTATGAGGTCCACTCTATATAATGT
228722 ACCC
66 ACCC
228726 TGTTGTATTTCATGTATTATAGGGAACTGTTACCCTCGTTTTATGAGGTCCACTCTATATAATGT
1 TGTTGTATTTCATGTATTATAGGGAACTGTTACCCTCGTTTTATGAGGTCCACTCTATATAATGT
*
228791 GCCC
66 ACCC
* *
228795 TGTTGTATTTCATGTATTTTAGGGAACTGTAACCCTCGTTTTATGAGGTCCACTCTATATAATGT
1 TGTTGTATTTCATGTATTATAGGGAACTGTTACCCTCGTTTTATGAGGTCCACTCTATATAATGT
*
228860 GCCC
66 ACCC
228864 TGT
1 TGT
228867 ACCTCGGATA
Statistics
Matches: 203, Mismatches: 5, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
68 128 0.63
69 75 0.37
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.40
Consensus pattern (69 bp):
TGTTGTATTTCATGTATTATAGGGAACTGTTACCCTCGTTTTATGAGGTCCACTCTATATAATGT
ACCC
Found at i:230840 original size:20 final size:20
Alignment explanation
Indices: 230803--230841 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
230793 TAATTGTGGT
** *
230803 ATTTATTAAATTAGATATAA
1 ATTTATTAAAACAAATATAA
230823 ATTTATTAAAACAAATATA
1 ATTTATTAAAACAAATATA
230842 GTTTATTTCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (20 bp):
ATTTATTAAAACAAATATAA
Found at i:233745 original size:23 final size:23
Alignment explanation
Indices: 233711--233796 Score: 136
Period size: 23 Copynumber: 3.7 Consensus size: 23
233701 TATCATATCG
233711 TTACATAAACTTGTTATAATTGA
1 TTACATAAACTTGTTATAATTGA
* * *
233734 TTATATAAACTTGTTGTAATTAA
1 TTACATAAACTTGTTATAATTGA
*
233757 TTACATAAACTTGTTACAATTGA
1 TTACATAAACTTGTTATAATTGA
233780 TTACATAAACTTGTTAT
1 TTACATAAACTTGTTAT
233797 GATTACAGAG
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 55 1.00
ACGTcount: A:0.38, C:0.09, G:0.08, T:0.44
Consensus pattern (23 bp):
TTACATAAACTTGTTATAATTGA
Found at i:237239 original size:30 final size:30
Alignment explanation
Indices: 237151--237400 Score: 419
Period size: 30 Copynumber: 8.3 Consensus size: 30
237141 TTACATACCA
*
237151 CTGACCTTGGGTCACTACAGAAAACATAACC
1 CTGACCTTGGGTCACTAAAG-AAACATAACC
* *
237182 CTGACCTTTGGTCACTAATGAAAACATAACC
1 CTGACCTTGGGTCACTAAAG-AAACATAACC
237213 CTGACCTTGGGTCACTAAAGAAACATAACC
1 CTGACCTTGGGTCACTAAAGAAACATAACC
*
237243 CTGACCTTGGGTCACTGAAGAAACATAACC
1 CTGACCTTGGGTCACTAAAGAAACATAACC
237273 CTGACCTTGGGTCACTAAAGAAACATAACC
1 CTGACCTTGGGTCACTAAAGAAACATAACC
**
237303 CTGACCTTGGGTTGCTAAAGAAACATAACC
1 CTGACCTTGGGTCACTAAAGAAACATAACC
*
237333 CTGACCTTGGGTCACTGAAGAAACATAACC
1 CTGACCTTGGGTCACTAAAGAAACATAACC
237363 CTGACCTTGGGTCACTAAAGAAACATAACC
1 CTGACCTTGGGTCACTAAAGAAACATAACC
237393 CTGACCTT
1 CTGACCTT
237401 CTCTTGAGCT
Statistics
Matches: 206, Mismatches: 13, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
30 160 0.78
31 46 0.22
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (30 bp):
CTGACCTTGGGTCACTAAAGAAACATAACC
Found at i:242004 original size:23 final size:23
Alignment explanation
Indices: 241971--242017 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
241961 ATTCTCTGGT
* *
241971 ATTTTTTGACATCTAATGAGCAA
1 ATTTTTAGACATCTAATGAACAA
*
241994 ATTTTTAGACATCTTATGAACAA
1 ATTTTTAGACATCTAATGAACAA
242017 A
1 A
242018 AATATGGCTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (23 bp):
ATTTTTAGACATCTAATGAACAA
Found at i:242320 original size:2 final size:2
Alignment explanation
Indices: 242313--242364 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
242303 CATACTAATC
242313 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
242355 AG AG AG AG AG
1 AG AG AG AG AG
242365 NTCTTCAAAC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:242407 original size:31 final size:31
Alignment explanation
Indices: 242369--242874 Score: 764
Period size: 31 Copynumber: 16.3 Consensus size: 31
242359 AGAGAGNTCT
* *
242369 TCAAACAAAATGAATAAATCAAGTTACCTCA
1 TCAAACAAGAGGAATAAATCAAGTTACCTCA
* * * *
242400 TCAAACAAGATGAATAAATCAACTGACTTCA
1 TCAAACAAGAGGAATAAATCAAGTTACCTCA
* *
242431 TCAAACAAGATGAATAAATCAAGCTACCTCA
1 TCAAACAAGAGGAATAAATCAAGTTACCTCA
242462 TCAAACAAGAGGAATAAATCAAGTTACCTCA
1 TCAAACAAGAGGAATAAATCAAGTTACCTCA
* * * * *
242493 TCAAACAAGATGAATAAGTCAACTGACTTCA
1 TCAAACAAGAGGAATAAATCAAGTTACCTCA
* * * *
242524 TCAAACAAGATGAATAAATCAACTGACTTCA
1 TCAAACAAGAGGAATAAATCAAGTTACCTCA
*
242555 TCAAACAAGATGAATAAATCAAGTTACCTCA
1 TCAAACAAGAGGAATAAATCAAGTTACCTCA
* *
242586 TCAAACACGACGAATAAATCAAGTTACCTCA
1 TCAAACAAGAGGAATAAATCAAGTTACCTCA
*
242617 TCAAACAAGAGGAAAAAATCAAGTTACCTCA
1 TCAAACAAGAGGAATAAATCAAGTTACCTCA
*
242648 TCAAACAAGAGGAATAAATCAAGTTACTTCA
1 TCAAACAAGAGGAATAAATCAAGTTACCTCA
242679 -CAAAACAAGAGGAATAAATCAAGTTACCTCA
1 TC-AAACAAGAGGAATAAATCAAGTTACCTCA
**
242710 TCAAACAAGAGGAATAAATCAAGTTATTTCA
1 TCAAACAAGAGGAATAAATCAAGTTACCTCA
242741 -CAAAACAAGAGGAATAAATCAAGTTACCTCA
1 TC-AAACAAGAGGAATAAATCAAGTTACCTCA
242772 TCAAACAAGAGGAATAAATCAAGTTACCTCA
1 TCAAACAAGAGGAATAAATCAAGTTACCTCA
242803 TCAAACAAGAGGAATAAATCAAGTTACCTCA
1 TCAAACAAGAGGAATAAATCAAGTTACCTCA
242834 TCAAACAAGAGGAATAAATCAAGTTACCTCA
1 TCAAACAAGAGGAATAAATCAAGTTACCTCA
242865 TCAAACAAGA
1 TCAAACAAGA
242875 TGAGCGAGGT
Statistics
Matches: 440, Mismatches: 31, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
30 2 0.00
31 436 0.99
32 2 0.00
ACGTcount: A:0.49, C:0.19, G:0.11, T:0.20
Consensus pattern (31 bp):
TCAAACAAGAGGAATAAATCAAGTTACCTCA
Found at i:244770 original size:16 final size:16
Alignment explanation
Indices: 244749--244780 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
244739 TCTTTCTCTG
244749 TTTTCCCTTTCATTTC
1 TTTTCCCTTTCATTTC
*
244765 TTTTCCCTTTGATTTC
1 TTTTCCCTTTCATTTC
244781 CCTTCTGTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.28, G:0.03, T:0.62
Consensus pattern (16 bp):
TTTTCCCTTTCATTTC
Found at i:249600 original size:16 final size:15
Alignment explanation
Indices: 249581--249631 Score: 57
Period size: 16 Copynumber: 3.3 Consensus size: 15
249571 CGGAAATGTT
249581 TGTATACGAGTTGACC
1 TGTATACGAGTTGA-C
*
249597 TGTATACGAGTTGGTC
1 TGTATACGAGTT-GAC
* *
249613 TGTGTACGACTTGAC
1 TGTATACGAGTTGAC
249628 TGTA
1 TGTA
249632 AATCAAATCA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
15 5 0.17
16 23 0.79
17 1 0.03
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.35
Consensus pattern (15 bp):
TGTATACGAGTTGAC
Found at i:250978 original size:13 final size:13
Alignment explanation
Indices: 250960--250987 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
250950 TTGATTCAGC
250960 TTGATTGTGATAA
1 TTGATTGTGATAA
250973 TTGATTGTGATAA
1 TTGATTGTGATAA
250986 TT
1 TT
250988 TATGTAGCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (13 bp):
TTGATTGTGATAA
Found at i:253004 original size:39 final size:39
Alignment explanation
Indices: 252801--252987 Score: 330
Period size: 39 Copynumber: 4.9 Consensus size: 39
252791 TCACAAGGAG
252801 CACTTCTCAGATTACA-T-TA---TATATTTTATCATAC
1 CACTTCTCAGATTACATTATATCCTATATTTTATCATAC
252835 CACTTCTCAGATTACATTATATCCTATATTTTATCATAC
1 CACTTCTCAGATTACATTATATCCTATATTTTATCATAC
*
252874 CATTTCTCAGATTACATTATATCCTATATTTTATCATAC
1 CACTTCTCAGATTACATTATATCCTATATTTTATCATAC
252913 CACTTCTCAGATTACATTATATCCTATATTTTATCATAC
1 CACTTCTCAGATTACATTATATCCTATATTTTATCATAC
252952 CACTTCTCAGATTACATTATATCCTATATTTTATCA
1 CACTTCTCAGATTACATTATATCCTATATTTTATCA
252988 GACAGTTCAC
Statistics
Matches: 146, Mismatches: 2, Indels: 5
0.95 0.01 0.03
Matches are distributed among these distances:
34 16 0.11
35 1 0.01
36 2 0.01
39 127 0.87
ACGTcount: A:0.31, C:0.22, G:0.03, T:0.44
Consensus pattern (39 bp):
CACTTCTCAGATTACATTATATCCTATATTTTATCATAC
Found at i:256503 original size:2 final size:2
Alignment explanation
Indices: 256496--256533 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
256486 CCCTGTACAA
* *
256496 TC TC TC TC TC TC TC TC TC TC TC TA TC TC CC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
256534 CCCCTCTATC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.03, C:0.50, G:0.00, T:0.47
Consensus pattern (2 bp):
TC
Found at i:256534 original size:10 final size:10
Alignment explanation
Indices: 256496--256540 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
256486 CCCTGTACAA
*
256496 TCTCTCTCTC
1 TCTCTCTCCC
*
256506 TCTCTCTCTC
1 TCTCTCTCCC
*
256516 TCTATCTCCC
1 TCTCTCTCCC
256526 TCTCTCTCCC
1 TCTCTCTCCC
*
256536 CCTCT
1 TCTCT
256541 ATCGCACANC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 31 1.00
ACGTcount: A:0.02, C:0.53, G:0.00, T:0.44
Consensus pattern (10 bp):
TCTCTCTCCC
Found at i:256587 original size:2 final size:2
Alignment explanation
Indices: 256580--256630 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
256570 CCCTCTACAA
256580 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
256622 TC TC TC TC T
1 TC TC TC TC T
256631 GCCTGCCAAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:257566 original size:22 final size:22
Alignment explanation
Indices: 257541--257590 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
257531 ACCGCAACAA
* * *
257541 TGCACAGCGAACTGCAGTATGC
1 TGCACAGCGAACCGCAATAGGC
*
257563 TGCACAGTGAACCGCAATAGGC
1 TGCACAGCGAACCGCAATAGGC
257585 TGCACA
1 TGCACA
257591 TTTCTTGTAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (22 bp):
TGCACAGCGAACCGCAATAGGC
Found at i:257927 original size:47 final size:47
Alignment explanation
Indices: 257836--258017 Score: 312
Period size: 47 Copynumber: 3.8 Consensus size: 47
257826 TACAAACATA
*
257836 TAGATCTAT-ACAAGTTATAACAAAAAATCAGGTATACAACATACACTAG
1 TAGATCT-TCACAAGATATAAC--AAAATCAGGTATACAACATACACTAG
257885 TAGATCTTCACAAGATATAACAAAATCAGGTATACAACATACACTAG
1 TAGATCTTCACAAGATATAACAAAATCAGGTATACAACATACACTAG
*
257932 TAGATCTCCACAAGATATAACAAAATCAGGTATACAACATACACTAG
1 TAGATCTTCACAAGATATAACAAAATCAGGTATACAACATACACTAG
257979 TAGATCTTCACAAGATATAACAAAATCAGGTATACAACA
1 TAGATCTTCACAAGATATAACAAAATCAGGTATACAACA
258018 AATAGATCTA
Statistics
Matches: 129, Mismatches: 3, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
47 110 0.85
48 1 0.01
49 18 0.14
ACGTcount: A:0.48, C:0.19, G:0.10, T:0.23
Consensus pattern (47 bp):
TAGATCTTCACAAGATATAACAAAATCAGGTATACAACATACACTAG
Found at i:258083 original size:55 final size:55
Alignment explanation
Indices: 257999--258173 Score: 269
Period size: 55 Copynumber: 3.2 Consensus size: 55
257989 CAAGATATAA
*
257999 CAAAATCAGGTATACAACAAATAGATCTATATATAATATAACACCTCAACACTGT
1 CAAAATCAGGTATATAACAAATAGATCTATATATAATATAACACCTCAACACTGT
*
258054 CAAAATCAGGTATTTAACAAATAGATCTATATATAATATAACACCTCAACACTGT
1 CAAAATCAGGTATATAACAAATAGATCTATATATAATATAACACCTCAACACTGT
* * * * ** *
258109 CAAAATCATGTATATAACATATAGGTCTATAAACGATATAACAACTCAACACTGT
1 CAAAATCAGGTATATAACAAATAGATCTATATATAATATAACACCTCAACACTGT
258164 CAAAATCAGG
1 CAAAATCAGG
258174 AATACTAAAT
Statistics
Matches: 109, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 109 1.00
ACGTcount: A:0.46, C:0.19, G:0.09, T:0.26
Consensus pattern (55 bp):
CAAAATCAGGTATATAACAAATAGATCTATATATAATATAACACCTCAACACTGT
Found at i:259895 original size:70 final size:70
Alignment explanation
Indices: 259761--259896 Score: 177
Period size: 70 Copynumber: 1.9 Consensus size: 70
259751 AACAGAAGAC
* * * **
259761 CTAGTGGGGGTGTAGAAGAAAGCAAAATTAGAAAATCAGAAGAGTCTTCATTGTCATTTTATCCC
1 CTAGTGGGGGTGTAGAAGAAAGCAAAA-TACAAAAACACAAGAGTCTTCAAGGTCATTTTATCCC
259826 CCAGAT
65 CCAGAT
*
259832 CTAGTGGGGGTGTA-AAGGAAAGCAAAA-ACAACAAACCCAAGAGTCTTCAAGGTCATTTTATCC
1 CTAGTGGGGGTGTAGAA-GAAAGCAAAATACAA-AAACACAAGAGTCTTCAAGGTCATTTTATCC
259895 CC
64 CC
259897 AATCCTTCAT
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
69 3 0.05
70 30 0.53
71 24 0.42
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (70 bp):
CTAGTGGGGGTGTAGAAGAAAGCAAAATACAAAAACACAAGAGTCTTCAAGGTCATTTTATCCCC
CAGAT
Found at i:260411 original size:44 final size:43
Alignment explanation
Indices: 260270--261373 Score: 1049
Period size: 44 Copynumber: 25.6 Consensus size: 43
260260 GTTTATATTA
* * *
260270 GTGTGATATGGTAGGATTATTCCTTTAAAGGACTGTTTATGTT-
1 GTGTGATATGGTAGGATTGTTTCTCTAAAGGACTG-TTATGTTG
* * * *
260313 G-GTGATATGGTAGGACTGTTTATCTAAAGGA-TCATTATGTTA
1 GTGTGATATGGTAGGATTGTTTCTCTAAAGGACT-GTTATGTTG
260355 GTGTGATATGGTAGGATTGTTTCTCTAAAGGACTGTCTATGTTG
1 GTGTGATATGGTAGGATTGTTTCTCTAAAGGACTGT-TATGTTG
* * *
260399 GTGTGATATGGTAGGATTGCTTCTCTAAAGGA-TCATTATGTTA
1 GTGTGATATGGTAGGATTGTTTCTCTAAAGGACT-GTTATGTTG
* * *
260442 GTGTGATATTGTAGGACTGTTTCTCTAAAGGATCAT-TAATGTTG
1 GTGTGATATGGTAGGATTGTTTCTCTAAAGGA-C-TGTTATGTTG
* *
260486 GTGTGATATGGTAGGACTGTTTCTCTAAAGGA-TCATTATGTT-
1 GTGTGATATGGTAGGATTGTTTCTCTAAAGGACT-GTTATGTTG
* *
260528 G-GTGATATGGTAGGATTGTTTCTCTAAAGGA-TCATTATGTTA
1 GTGTGATATGGTAGGATTGTTTCTCTAAAGGACT-GTTATGTTG
*
260570 GTGTGATATGGTAGGATTGTTTCTCTAAAGGATCAT-TTGTGTTG
1 GTGTGATATGGTAGGATTGTTTCTCTAAAGGA-C-TGTTATGTTG
* * *
260614 GTGTGTTATGGTAGGATTGTTTCTCTAAAGGA-TCATTATGTTA
1 GTGTGATATGGTAGGATTGTTTCTCTAAAGGACT-GTTATGTTG
* * *
260657 GTGTGATATGGTAGGACTGTTTCTCTAAAGG-GTCATTAGTGTTG
1 GTGTGATATGGTAGGATTGTTTCTCTAAAGGACT-GTTA-TGTTG
* * *
260701 GTGTGATATGGTAGAATTGTTTCTCTAAAGGA-TCATTATGTTA
1 GTGTGATATGGTAGGATTGTTTCTCTAAAGGACT-GTTATGTTG
*
260744 GTGTGATATGGTAGGATTGTTTCTCTAAAGGA-TCATTAGTGTTG
1 GTGTGATATGGTAGGATTGTTTCTCTAAAGGACT-GTTA-TGTTG
* * * *
260788 GTGTGTTATGGTAGGATTGTTTCTCTAAAGGA-TCATTGTGTTA
1 GTGTGATATGGTAGGATTGTTTCTCTAAAGGACT-GTTATGTTG
*
260831 GTGTGATATGGTAGGACTGTTTCTCTAAAGGATCAT-TT-TGTTG
1 GTGTGATATGGTAGGATTGTTTCTCTAAAGGA-C-TGTTATGTTG
* * * *
260874 GTGTGTTATGGTAGGACTGTTTCTCCAAAGGA-TCATTAGTGTTG
1 GTGTGATATGGTAGGATTGTTTCTCTAAAGGACT-GTTA-TGTTG
* *
260918 GTGTGATACGGTAGGATTGTTTCTGTAAAGGACTGTTTATGTT-
1 GTGTGATATGGTAGGATTGTTTCTCTAAAGGACTG-TTATGTTG
* * * *
260961 AT-TGATATAGTAGTATTGTTT-TTTAAAGGACTGTTTATGTTG
1 GTGTGATATGGTAGGATTGTTTCTCTAAAGGACTG-TTATGTTG
* * *
261003 GTGTGTTATCGTAGGATTGTTTCTCTAAAGGA-TCATTAGTGTTG
1 GTGTGATATGGTAGGATTGTTTCTCTAAAGGACT-GTTA-TGTTG
* *
261047 GTGTGATATGGTAGGACTGTTTCTCTATAGGACTGTTTATGTT-
1 GTGTGATATGGTAGGATTGTTTCTCTAAAGGACTG-TTATGTTG
* * * * *
261090 G-ATGATATGGTAGTATTGTTTTTTTAAAAGGACTGTTTATGCT-
1 GTGTGATATGGTAGGATTGTTTCTCT-AAAGGACTG-TTATGTTG
* * * *
261133 G-GTGATATGGTAGGATTGGTTCTCAAAAGAACTGTTTAAGTTG
1 GTGTGATATGGTAGGATTGTTTCTCTAAAGGACTG-TTATGTTG
* ** *
261176 ATGTGATATTATAGGATTGTTTCTCTAAAGGATTGATTATGTTG
1 GTGTGATATGGTAGGATTGTTTCTCTAAAGGACTG-TTATGTTG
* * * * *
261220 TTGTGATATGGGAGGATTGTTCCTTTTAAGGACTGTTTATGTT-
1 GTGTGATATGGTAGGATTGTTTCTCTAAAGGACTG-TTATGTTG
* *
261263 G-GTGATATTGTAGGATTGTTTCTCTAAAGGACTGTTCATTTTG
1 GTGTGATATGGTAGGATTGTTTCTCTAAAGGACTGTT-ATGTTG
* * * *
261306 GTATGATATGGCAGGACTGTTTCTCTAAAGGACTGTCTATTTTG
1 GTGTGATATGGTAGGATTGTTTCTCTAAAGGACTGT-TATGTTG
* *
261350 GTGCGATATGGTAGGATTATTTCT
1 GTGTGATATGGTAGGATTGTTTCT
261374 TTATCCCATT
Statistics
Matches: 902, Mismatches: 114, Indels: 89
0.82 0.10 0.08
Matches are distributed among these distances:
40 1 0.00
41 70 0.08
42 112 0.12
43 309 0.34
44 398 0.44
45 9 0.01
46 3 0.00
ACGTcount: A:0.23, C:0.08, G:0.27, T:0.42
Consensus pattern (43 bp):
GTGTGATATGGTAGGATTGTTTCTCTAAAGGACTGTTATGTTG
Found at i:260449 original size:87 final size:86
Alignment explanation
Indices: 260270--261373 Score: 1177
Period size: 87 Copynumber: 12.8 Consensus size: 86
260260 GTTTATATTA
* * * *
260270 GTGTGATATGGTAGGATTATTCCTTTAAAGGACTGTTTATGTT-G-GTGATATGGTAGGACTGTT
1 GTGTGATATGGTAGGATTGTTTCTCTAAAGGACTG-TTATGTTGGTGTGATATGGTAGGATTGTT
* *
260333 TATCTAAAGGATCATTATGTTA
65 TCTCTAAAGGATCATTATGTTG
*
260355 GTGTGATATGGTAGGATTGTTTCTCTAAAGGACTGTCTATGTTGGTGTGATATGGTAGGATTGCT
1 GTGTGATATGGTAGGATTGTTTCTCTAAAGGACTGT-TATGTTGGTGTGATATGGTAGGATTGTT
*
260420 TCTCTAAAGGATCATTATGTTA
65 TCTCTAAAGGATCATTATGTTG
* * * *
260442 GTGTGATATTGTAGGACTGTTTCTCTAAAGGATCAT-TAATGTTGGTGTGATATGGTAGGACTGT
1 GTGTGATATGGTAGGATTGTTTCTCTAAAGGA-C-TGTTATGTTGGTGTGATATGGTAGGATTGT
260506 TTCTCTAAAGGATCATTATGTT-
64 TTCTCTAAAGGATCATTATGTTG
* *
260528 G-GTGATATGGTAGGATTGTTTCTCTAAAGGA-TCATTATGTTAGTGTGATATGGTAGGATTGTT
1 GTGTGATATGGTAGGATTGTTTCTCTAAAGGACT-GTTATGTTGGTGTGATATGGTAGGATTGTT
*
260591 TCTCTAAAGGATCATTTGTGTTG
65 TCTCTAAAGGATCA-TTATGTTG
* * * *
260614 GTGTGTTATGGTAGGATTGTTTCTCTAAAGGA-TCATTATGTTAGTGTGATATGGTAGGACTGTT
1 GTGTGATATGGTAGGATTGTTTCTCTAAAGGACT-GTTATGTTGGTGTGATATGGTAGGATTGTT
*
260678 TCTCTAAAGGGTCATTAGTGTTG
65 TCTCTAAAGGATCATTA-TGTTG
* * *
260701 GTGTGATATGGTAGAATTGTTTCTCTAAAGGA-TCATTATGTTAGTGTGATATGGTAGGATTGTT
1 GTGTGATATGGTAGGATTGTTTCTCTAAAGGACT-GTTATGTTGGTGTGATATGGTAGGATTGTT
260765 TCTCTAAAGGATCATTAGTGTTG
65 TCTCTAAAGGATCATTA-TGTTG
* * * * *
260788 GTGTGTTATGGTAGGATTGTTTCTCTAAAGGA-TCATTGTGTTAGTGTGATATGGTAGGACTGTT
1 GTGTGATATGGTAGGATTGTTTCTCTAAAGGACT-GTTATGTTGGTGTGATATGGTAGGATTGTT
*
260852 TCTCTAAAGGATCATTTTGTTG
65 TCTCTAAAGGATCATTATGTTG
* * * * *
260874 GTGTGTTATGGTAGGACTGTTTCTCCAAAGGA-TCATTAGTGTTGGTGTGATACGGTAGGATTGT
1 GTGTGATATGGTAGGATTGTTTCTCTAAAGGACT-GTTA-TGTTGGTGTGATATGGTAGGATTGT
* **
260938 TTCTGTAAAGGACTGTTTATGTT-
64 TTCTCTAAAGGA-TCATTATGTTG
* * * * * *
260961 AT-TGATATAGTAGTATTGTTT-TTTAAAGGACTGTTTATGTTGGTGTGTTATCGTAGGATTGTT
1 GTGTGATATGGTAGGATTGTTTCTCTAAAGGACTG-TTATGTTGGTGTGATATGGTAGGATTGTT
261024 TCTCTAAAGGATCATTAGTGTTG
65 TCTCTAAAGGATCATTA-TGTTG
* * * *
261047 GTGTGATATGGTAGGACTGTTTCTCTATAGGACTGTTTATGTT-G-ATGATATGGTAGTATTGTT
1 GTGTGATATGGTAGGATTGTTTCTCTAAAGGACTG-TTATGTTGGTGTGATATGGTAGGATTGTT
* * ** *
261110 TTTTTAAAAGGACTGTTTATGCT-
65 TCTCT-AAAGGA-TCATTATGTTG
* * * * * **
261133 G-GTGATATGGTAGGATTGGTTCTCAAAAGAACTGTTTAAGTTGATGTGATATTATAGGATTGTT
1 GTGTGATATGGTAGGATTGTTTCTCTAAAGGACTG-TTATGTTGGTGTGATATGGTAGGATTGTT
*
261197 TCTCTAAAGGATTGATTATGTTG
65 TCTCTAAAGGA-TCATTATGTTG
* * * * * *
261220 TTGTGATATGGGAGGATTGTTCCTTTTAAGGACTGTTTATGTT-G-GTGATATTGTAGGATTGTT
1 GTGTGATATGGTAGGATTGTTTCTCTAAAGGACTG-TTATGTTGGTGTGATATGGTAGGATTGTT
* *
261283 TCTCTAAAGGA-CTGTTCATTTTG
65 TCTCTAAAGGATC-ATT-ATGTTG
* * * * * *
261306 GTATGATATGGCAGGACTGTTTCTCTAAAGGACTGTCTATTTTGGTGCGATATGGTAGGATTATT
1 GTGTGATATGGTAGGATTGTTTCTCTAAAGGACTGT-TATGTTGGTGTGATATGGTAGGATTGTT
261371 TCT
65 TCT
261374 TTATCCCATT
Statistics
Matches: 879, Mismatches: 110, Indels: 57
0.84 0.11 0.05
Matches are distributed among these distances:
82 1 0.00
84 45 0.05
85 154 0.18
86 165 0.19
87 430 0.49
88 83 0.09
89 1 0.00
ACGTcount: A:0.23, C:0.08, G:0.27, T:0.42
Consensus pattern (86 bp):
GTGTGATATGGTAGGATTGTTTCTCTAAAGGACTGTTATGTTGGTGTGATATGGTAGGATTGTTT
CTCTAAAGGATCATTATGTTG
Found at i:260811 original size:302 final size:301
Alignment explanation
Indices: 260262--261337 Score: 1252
Period size: 302 Copynumber: 3.6 Consensus size: 301
260252 ATATTAGTGT
* * * * *
260262 TTATATTAGTGTGATATGGTAGGATTATTCCTTTAAAGGA-CTGTTTATGTT-G-GTGATATGGT
1 TTATGTTAGTGTGATATGGTAGGATTGTTTCTCTAAAGGATC-ATTTATGTTGGTGTGATATGGT
* *
260324 AGGACTGTTTATCTAAAGGA-TCATTATGTTAGTGTGATATGGTAGGATTGTTTCTCTAAAGGAC
65 AGGATTGTTTCTCTAAAGGACTCATTATGTTAGTGTGATATGGTAGGATTGTTTCTCTAAAGGA-
* *
260388 TGTC-TATGTTGGTGTGATATGGTAGGATTGCTTCTCTAAAGGATCATTATGTTAGTGTGATATT
129 -GTCTTATGTTGGTGTGATATGGTAGGATTGTTTCTCTAAAGGATCATTATGTTAGTGTGATATG
*
260452 GTAGGACTGTTTCTCTAAAGGATCATTAATGTTGGTGTGATATGGTAGGACTGTTTCTCTAAAGG
193 GTAGGACTGTTTCTCTAAAGGATCATT-ATGTTGGTGTGATATGGTAGGATTGTTTCTCTAAAGG
260517 ATCATTATGTTGGTGATATGGTAGGATTGTTTCTCTAAAGGATCA
257 ATCATTATGTTGGTGATATGGTAGGATTGTTTCTCTAAAGGATCA
* *
260562 TTATGTTAGTGTGATATGGTAGGATTGTTTCTCTAAAGGATCATTTGTGTTGGTGTGTTATGGTA
1 TTATGTTAGTGTGATATGGTAGGATTGTTTCTCTAAAGGATCATTTATGTTGGTGTGATATGGTA
*
260627 GGATTGTTTCTCTAAAGGA-TCATTATGTTAGTGTGATATGGTAGGACTGTTTCTCTAAAGG-GT
66 GGATTGTTTCTCTAAAGGACTCATTATGTTAGTGTGATATGGTAGGATTGTTTCTCTAAAGGAGT
*
260690 CATTAGTGTTGGTGTGATATGGTAGAATTGTTTCTCTAAAGGATCATTATGTTAGTGTGATATGG
131 C-TTA-TGTTGGTGTGATATGGTAGGATTGTTTCTCTAAAGGATCATTATGTTAGTGTGATATGG
* *
260755 TAGGATTGTTTCTCTAAAGGATCATTAGTGTTGGTGTGTTATGGTAGGATTGTTTCTCTAAAGGA
194 TAGGACTGTTTCTCTAAAGGATCATTA-TGTTGGTGTGATATGGTAGGATTGTTTCTCTAAAGGA
* *
260820 TCATTGTGTTAGTGTGATATGGTAGGACTGTTTCTCTAAAGGATCA
258 TCATTATGTT-G-GTGATATGGTAGGATTGTTTCTCTAAAGGATCA
* * * * * *
260866 TTTTGTTGGTGTGTTATGGTAGGACTGTTTCTCCAAAGGATCA-TTAGTGTTGGTGTGATACGGT
1 TTATGTTAGTGTGATATGGTAGGATTGTTTCTCTAAAGGATCATTTA-TGTTGGTGTGATATGGT
* ** * * *
260930 AGGATTGTTTCTGTAAAGGACTGTTTATGTTA-T-TGATATAGTAGTATTGTTT-TTTAAAGGAC
65 AGGATTGTTTCTCTAAAGGACTCATTATGTTAGTGTGATATGGTAGGATTGTTTCTCTAAAGGA-
* * *
260992 TGT-TTATGTTGGTGTGTTATCGTAGGATTGTTTCTCTAAAGGATCATTAGTGTTGGTGTGATAT
129 -GTCTTATGTTGGTGTGATATGGTAGGATTGTTTCTCTAAAGGATCATTA-TGTTAGTGTGATAT
* ** * * * *
261056 GGTAGGACTGTTTCTCTATAGGACTGTTTATGTT-G-ATGATATGGTAGTATTGTTTTTTTAAAA
192 GGTAGGACTGTTTCTCTAAAGGA-TCATTATGTTGGTGTGATATGGTAGGATTGTTTCTCT-AAA
** * * * * **
261119 GGACTGTTTATGCTGGTGATATGGTAGGATTGGTTCTCAAAAGAACTGT
255 GGA-TCATTATGTTGGTGATATGGTAGGATTGTTTCTCTAAAGGA-TCA
* ** * *
261168 TTAAGTT-GATGTGATATTATAGGATTGTTTCTCTAAAGGATTGA-TTATGTTGTTGTGATATGG
1 TTATGTTAG-TGTGATATGGTAGGATTGTTTCTCTAAAGGA-TCATTTATGTTGGTGTGATATGG
* * * * ** *
261231 GAGGATTGTTCCTTTTAAGGACTGTTTATGTT-G-GTGATATTGTAGGATTGTTTCTCTAAAGGA
64 TAGGATTGTTTCTCTAAAGGACTCATTATGTTAGTGTGATATGGTAGGATTGTTTCTCTAAAGGA
* * * * * *
261294 CTGTTCATTTTGGTATGATATGGCAGGACTGTTTCTCTAAAGGA
129 GTCTT-ATGTTGGTGTGATATGGTAGGATTGTTTCTCTAAAGGA
261338 CTGTCTATTT
Statistics
Matches: 670, Mismatches: 80, Indels: 49
0.84 0.10 0.06
Matches are distributed among these distances:
299 3 0.00
300 43 0.06
301 52 0.08
302 341 0.51
303 111 0.17
304 109 0.16
305 11 0.02
ACGTcount: A:0.23, C:0.08, G:0.27, T:0.42
Consensus pattern (301 bp):
TTATGTTAGTGTGATATGGTAGGATTGTTTCTCTAAAGGATCATTTATGTTGGTGTGATATGGTA
GGATTGTTTCTCTAAAGGACTCATTATGTTAGTGTGATATGGTAGGATTGTTTCTCTAAAGGAGT
CTTATGTTGGTGTGATATGGTAGGATTGTTTCTCTAAAGGATCATTATGTTAGTGTGATATGGTA
GGACTGTTTCTCTAAAGGATCATTATGTTGGTGTGATATGGTAGGATTGTTTCTCTAAAGGATCA
TTATGTTGGTGATATGGTAGGATTGTTTCTCTAAAGGATCA
Found at i:261635 original size:17 final size:17
Alignment explanation
Indices: 261610--261646 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
261600 TACAATATAG
261610 ATTGAATCAATTATTGT
1 ATTGAATCAATTATTGT
*
261627 ATTGTATCAATTATTGT
1 ATTGAATCAATTATTGT
261644 ATT
1 ATT
261647 CCTAATGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (17 bp):
ATTGAATCAATTATTGT
Found at i:263324 original size:9 final size:9
Alignment explanation
Indices: 263288--263327 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
263278 AGTGTCGTTA
263288 AAAACAAAC
1 AAAACAAAC
*
263297 CAAACAAAC
1 AAAACAAAC
263306 -AAACAAAAC
1 AAAAC-AAAC
263315 AAAACAAAC
1 AAAACAAAC
263324 AAAA
1 AAAA
263328 ACAATAAACC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
8 4 0.14
9 20 0.71
10 4 0.14
ACGTcount: A:0.78, C:0.23, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAACAAAC
Found at i:267374 original size:37 final size:37
Alignment explanation
Indices: 267187--270642 Score: 3687
Period size: 37 Copynumber: 92.4 Consensus size: 37
267177 TATCTCATCC
267187 AATGACGGTAGTCTGTTGTATATAGGTACGTGTATCACT
1 AATGACGGTAGTCTGTTG--TATAGGTACGTGTATCACT
* *
267226 AATGAAGGTAGTCTGTTGTATATAGGTACGTGTATCACA
1 AATGACGGTAGTCTGTTG--TATAGGTACGTGTATCACT
* ** *
267265 AATAATAGTAGTTTGTTGTATATAGGTACGTGTATCACT
1 AATGACGGTAGTCTGTTG--TATAGGTACGTGTATCACT
*
267304 AATGACTGTAGTCTGTTGTATATAGGTACGTGTATCACT
1 AATGACGGTAGTCTGTTG--TATAGGTACGTGTATCACT
*
267343 AATGACAGTAGTCTGTTGTATAGGTACGTGTATCACT
1 AATGACGGTAGTCTGTTGTATAGGTACGTGTATCACT
* * * *
267380 ATTGTA-AGTAGTCTATTGTATAGGAACGTGTATCACT
1 AATG-ACGGTAGTCTGTTGTATAGGTACGTGTATCACT
*
267417 AATGACGGTAGTCTGTTGTATAGGAACGTGTATCACT
1 AATGACGGTAGTCTGTTGTATAGGTACGTGTATCACT
267454 AATGACGGTAGTCTGTTGTATAGGTACGTGTATCACT
1 AATGACGGTAGTCTGTTGTATAGGTACGTGTATCACT
*
267491 AATGACTGTAGTCTGTTGTATATAGGTACGTGTATCACT
1 AATGACGGTAGTCTGTTG--TATAGGTACGTGTATCACT
*
267530 AATGACAGTAGTCTGTTGTATAGGTACGTGTATCACT
1 AATGACGGTAGTCTGTTGTATAGGTACGTGTATCACT
* * *
267567 ATTGTA-AGTAGTCTGTTGT-TAAGGTACGAGTATCACT
1 AATG-ACGGTAGTCTGTTGTAT-AGGTACGTGTATCACT
* *
267604 AATGACGGTTGTCTGTTGTATTGGTACGTGTATCACT
1 AATGACGGTAGTCTGTTGTATAGGTACGTGTATCACT
* *
267641 AATAACTGTAGTCTGTTGTATAGGTACGTGTATCACT
1 AATGACGGTAGTCTGTTGTATAGGTACGTGTATCACT
* *
267678 AATGACTGTAGTCTGTTGTGTAGGTACGTGTATCACT
1 AATGACGGTAGTCTGTTGTATAGGTACGTGTATCACT
** * *
267715 AATGACTATAGTCTATTGTATAGGTACGTGAATCACT
1 AATGACGGTAGTCTGTTGTATAGGTACGTGTATCACT
* *
267752 AATGACTGTAGTCTGTTGTATAGGTACATGTATCACT
1 AATGACGGTAGTCTGTTGTATAGGTACGTGTATCACT
* *
267789 AATGACTGTAGTCTGTTTTATAGGTACGTGTATCACT
1 AATGACGGTAGTCTGTTGTATAGGTACGTGTATCACT
* * * * *
267826 ATTGTA-AGTAGTTTATTGTATAGGAACGTGTATCACT
1 AATG-ACGGTAGTCTGTTGTATAGGTACGTGTATCACT
* * *
267863 AATGACTGTTA-TATGTTGTATAGGAACGTGTATCACT
1 AATGAC-GGTAGTCTGTTGTATAGGTACGTGTATCACT
*
267900 AATGACGGTAATCTGTTGTATAGGTACGTGTATCACT
1 AATGACGGTAGTCTGTTGTATAGGTACGTGTATCACT
* **
267937 AATGACTGTAGTCTGTTGTATATAGGTACACGTATCACT
1 AATGACGGTAGTCTGTTG--TATAGGTACGTGTATCACT
*
267976 AATGACAGTAGTCTGTTGTATAGGTACGTGTATCACT
1 AATGACGGTAGTCTGTTGTATAGGTACGTGTATCACT
* * * *
268013 ATTGTA-AGTAGTCTGTTGT-TAAAGTACGAGTATCACT
1 AATG-ACGGTAGTCTGTTGTAT-AGGTACGTGTATCACT
* * *
268050 AATGACGGTAGTCTGTCGTATTGGTACGTGTATCACA
1 AATGACGGTAGTCTGTTGTATAGGTACGTGTATCACT
* *
268087 AATGACGGTTGTCTGTTGTATTGGTACGTGTATCACT
1 AATGACGGTAGTCTGTTGTATAGGTACGTGTATCACT
* * *
268124 AATGATGGTAGTCTGTTGTACAGGTACGTGTATCAAT
1 AATGACGGTAGTCTGTTGTATAGGTACGTGTATCACT
* * * *
268161 AATGACTGTAGTCTGGTGTATATAGGTACGTGTATTACA
1 AATGACGGTAGTCT-GT-TGTATAGGTACGTGTATCACT
* * *
268200 AATGACGGCAGTCTATTGTATAGGTACGTGGATCACT
1 AATGACGGTAGTCTGTTGTATAGGTACGTGTATCACT
*
268237 AATGACAGTAGTCTGTTGTATAGGTACGTGTATCACT
1 AATGACGGTAGTCTGTTGTATAGGTACGTGTATCACT
*
268274 AATGTA-AGTAGTCTGTTGTATAGGTACGTGTATCACT
1 AATG-ACGGTAGTCTGTTGTATAGGTACGTGTATCACT
** * *
268311 AATGTA-AATAGTATATTGTATAGGTACGTGTATCACT
1 AATG-ACGGTAGTCTGTTGTATAGGTACGTGTATCACT
* *
268348 AATGACTGTAGTCTGTTGTATAGGTACGTGTCTCACT
1 AATGACGGTAGTCTGTTGTATAGGTACGTGTATCACT
** *
268385 AATGACTTTAGTCTGTTGTATAGGTACGTGTCTCACT
1 AATGACGGTAGTCTGTTGTATAGGTACGTGTATCACT
**
268422 AATGACTTTAGTCTGTTGTATAGGTACGTGTATCAC-
1 AATGACGGTAGTCTGTTGTATAGGTACGTGTATCACT
* *
268458 ATATTACTGTAGTCTGTTGTATATAGGTACGTGTATCACT
1 A-ATGACGGTAGTCTGTTG--TATAGGTACGTGTATCACT
268498 AATGACGGTAGTCTGTTGTATATAGGTACGTGTATCACT
1 AATGACGGTAGTCTGTTG--TATAGGTACGTGTATCACT
268537 AATGACGGTAGTCTGTTGTATATAGGTACGTGTATCACT
1 AATGACGGTAGTCTGTTG--TATAGGTACGTGTATCACT
* **
268576 AATGACTGTAGTCTGTTGTATAGGTACGTAAATCACT
1 AATGACGGTAGTCTGTTGTATAGGTACGTGTATCACT
* * * * *
268613 AAAGACAGTAGTCTGTTGCATAAGTACGTGTATCACA
1 AATGACGGTAGTCTGTTGTATAGGTACGTGTATCACT
* *
268650 AATTACGGTAGGCTGTTGTATAGGTACGTGTATCACT
1 AATGACGGTAGTCTGTTGTATAGGTACGTGTATCACT
*
268687 AATGTA-AGTAGTCTGTTGTATAGGTACGTGTATCACT
1 AATG-ACGGTAGTCTGTTGTATAGGTACGTGTATCACT
*
268724 AATGACGGTTGTCTGTTGTATAGGTACGTGTATCACT
1 AATGACGGTAGTCTGTTGTATAGGTACGTGTATCACT
* * *
268761 AATGTCGGTAGTCTGTTGTATATAAGAACGTGTATCACT
1 AATGACGGTAGTCTGTTG--TATAGGTACGTGTATCACT
* * * *
268800 AATGTA-AGAAGTCTGTCGTATATAGGTATGTGTATCACT
1 AATG-ACGGTAGTCTGT--TGTATAGGTACGTGTATCACT
268839 AATGACGGTAGTCTGTTGTATATAGGTACGTGTATCACT
1 AATGACGGTAGTCTGTTG--TATAGGTACGTGTATCACT
* * * *
268878 AATTACTGTAGTCTATTGTATAGGTACGTGTATCACA
1 AATGACGGTAGTCTGTTGTATAGGTACGTGTATCACT
* * *
268915 AATGACGGTTGTCTGTTGTATAGGTACGTGTATCGCA
1 AATGACGGTAGTCTGTTGTATAGGTACGTGTATCACT
*
268952 AATGAGGGTAGTC-------TA--TACGTGTA-CTACT
1 AATGACGGTAGTCTGTTGTATAGGTACGTGTATC-ACT
* * * * *
268980 AATAACAGTAG--TATTGTATAAGTACGTGTCTCACT
1 AATGACGGTAGTCTGTTGTATAGGTACGTGTATCACT
* *
269015 AATGACTGTAGTCTGTTGT-TAAGGTACGTGTAACACT
1 AATGACGGTAGTCTGTTGTAT-AGGTACGTGTATCACT
* * *
269052 AATGAC--TACTCTGTTGTATATAAGTACGTGTATCATT
1 AATGACGGTAGTCTGTTG--TATAGGTACGTGTATCACT
* * *
269089 AGTGACGTTAGTCTGTTGTATAGGCACGTGTATCACT
1 AATGACGGTAGTCTGTTGTATAGGTACGTGTATCACT
*
269126 AATAACGGTAGTCTGTTGGATATAGGTACGTGTATCACT
1 AATGACGGTAGTCTGTT-G-TATAGGTACGTGTATCACT
* * * *
269165 AATTTA-AGTAGAT-TGTCGTATAAAGGTATGTGTATCACT
1 AA-TGACGGTAG-TCTGTTGTAT--AGGTACGTGTATCACT
269204 AATGACGGTAGTCTGTTGTATATAGGTACGTGTATCACT
1 AATGACGGTAGTCTGTTG--TATAGGTACGTGTATCACT
* * *
269243 AATGACTGTAGTCTATTGTATAGGTACGTGTATCACA
1 AATGACGGTAGTCTGTTGTATAGGTACGTGTATCACT
* * *
269280 AATGACGGTTGTCTGTTGTATAGGTACGTGTATCGCA
1 AATGACGGTAGTCTGTTGTATAGGTACGTGTATCACT
*
269317 AATGAGGGTAGTC---TG--T---T-CGTGTATCACT
1 AATGACGGTAGTCTGTTGTATAGGTACGTGTATCACT
* * *
269345 AATAACGGTAGTCTGTTGTATAGATACGTGTATCAAT
1 AATGACGGTAGTCTGTTGTATAGGTACGTGTATCACT
* *
269382 AAAGACGGTAGTCTGTTGTATAGGTATGTGTATCACT
1 AATGACGGTAGTCTGTTGTATAGGTACGTGTATCACT
* * *
269419 AATGTA-AGTAGTATGATGTATATAGGTACGTGTATCACT
1 AATG-ACGGTAGTCTG-T-TGTATAGGTACGTGTATCACT
* * *
269458 AATGACTGTAGTCTGTTATATAGGTACGTGTTTCACT
1 AATGACGGTAGTCTGTTGTATAGGTACGTGTATCACT
* * * *
269495 AAAGACGGTAGTCTGTTGTATATACGTAACGTGTAACACA
1 AATGACGGTAGTCTGTTG--TATAGGT-ACGTGTATCACT
* *
269535 AATGACTGTAGTCTGTTGTATAGGTACGTGAATCACT
1 AATGACGGTAGTCTGTTGTATAGGTACGTGTATCACT
* * * * *
269572 AAAGACAGTAGTTTGTTGTATTGGTACGGGTATCACT
1 AATGACGGTAGTCTGTTGTATAGGTACGTGTATCACT
* * *
269609 AA-GTACGGTAGTCTGTTGTATAGGTAAGTATCTCACT
1 AATG-ACGGTAGTCTGTTGTATAGGTACGTGTATCACT
* * * *
269646 AAGGACAGTAGTCTGTTGTAAAAGGTACGTGTATCGCT
1 AATGACGGTAGTCTGTTGT-ATAGGTACGTGTATCACT
* * * * *
269684 AGTGTA-AGTAGTCTATTGTATATGTACGTGTATTACT
1 AATG-ACGGTAGTCTGTTGTATAGGTACGTGTATCACT
* * *
269721 AATGACGGTAGTCTGTTCTATATACGTAACGTGTATCACA
1 AATGACGGTAGTCTG-T-TGTATAGGT-ACGTGTATCACT
* * * *
269761 AATGACTGTAGTCTGTTATATAGGTACGTGAATCATT
1 AATGACGGTAGTCTGTTGTATAGGTACGTGTATCACT
* * * * *
269798 AAAGACAGTAGTCTGTTGTATAAGTACGTGTATCGCA
1 AATGACGGTAGTCTGTTGTATAGGTACGTGTATCACT
*
269835 AATGACTGTAGTCTGTTGTATAGGTACGTGTATCACT
1 AATGACGGTAGTCTGTTGTATAGGTACGTGTATCACT
* * * * *
269872 TATGTA-AGTAGACTGTTGT-GAGGTACGTGTATCACA
1 AATG-ACGGTAGTCTGTTGTATAGGTACGTGTATCACT
* * * *
269908 AATAACGGTTGTCTGTTGTATAGGTAAGTGTCTCACT
1 AATGACGGTAGTCTGTTGTATAGGTACGTGTATCACT
* * * * * * *
269945 AAAGACGATAGTTTGTATGTTGAAAAGGTTCGTGTATTACA
1 AATGACGGTAGTCTGT-TG-T--ATAGGTACGTGTATCACT
269986 AATGACGGTAGTCTGTTGTATAGGTACGTGTATCACT
1 AATGACGGTAGTCTGTTGTATAGGTACGTGTATCACT
* * * *
270023 AAAGACGGAAGTCTGTATGTTGAATAGGTACGTGTATCGCA
1 AATGACGGTAGTCTGT-TG-T--ATAGGTACGTGTATCACT
*
270064 AATGACTGTAGTCTGTTGTATAGGTACGTGTATCACT
1 AATGACGGTAGTCTGTTGTATAGGTACGTGTATCACT
270101 AATGTAAC--TAGTCTGTTGT-TAAGGTACGTGTATCACT
1 AATG--ACGGTAGTCTGTTGTAT-AGGTACGTGTATCACT
* *
270138 AATGACGGTAGTCTGTTCTATATGTACGTGTATCACT
1 AATGACGGTAGTCTGTTGTATAGGTACGTGTATCACT
* * * *
270175 AAAGACGATAGTTTGTATGTTGAATAGATACGTGTATCAC-
1 AATGACGGTAGTCTGT-TG-T--ATAGGTACGTGTATCACT
* * *
270215 ACATGACGGCAGTCTGTTGTATATGTACGTGTATCATT
1 A-ATGACGGTAGTCTGTTGTATAGGTACGTGTATCACT
270253 AATGACGGTAGTCTGTTGTATATAGGTACGTGTATCACT
1 AATGACGGTAGTCTGTTG--TATAGGTACGTGTATCACT
* * * * *
270292 TATGACTGTAGACTGTTGTATGGGTACGTATATCACT
1 AATGACGGTAGTCTGTTGTATAGGTACGTGTATCACT
* * * *
270329 AATGACAGTAGACTGTTGTATGGGTACGTATATCACT
1 AATGACGGTAGTCTGTTGTATAGGTACGTGTATCACT
* * * * *
270366 CATGACAGTAGACTGTTGTATGGGTACGTGTATTACT
1 AATGACGGTAGTCTGTTGTATAGGTACGTGTATCACT
** * *
270403 AATGACATTAGTCTGTTGTATAAGTACGCGTATCACT
1 AATGACGGTAGTCTGTTGTATAGGTACGTGTATCACT
* * *
270440 AAAGACGGTAGTCTGTTGTATAGGTACGTTTATTACT
1 AATGACGGTAGTCTGTTGTATAGGTACGTGTATCACT
270477 AATGACGGTAGTCTGTTGTATAGGTACGTGTATCACT
1 AATGACGGTAGTCTGTTGTATAGGTACGTGTATCACT
* *
270514 AAAGACGGTAGTCTGTTGATTATAGGTACGTGTTTCACT
1 AATGACGGTAGTCTGTTG--TATAGGTACGTGTATCACT
* *
270553 AATGTA-AGTAGTCTGTTGTATGGGTACGTGTATCACT
1 AATG-ACGGTAGTCTGTTGTATAGGTACGTGTATCACT
* * *
270590 AATGACAGTAGACTGTTGTATGGGTACGTGTATCACT
1 AATGACGGTAGTCTGTTGTATAGGTACGTGTATCACT
*
270627 AATGACAGTAGTCTGT
1 AATGACGGTAGTCTGT
270643 ACGTTGTATA
Statistics
Matches: 2918, Mismatches: 381, Indels: 238
0.82 0.11 0.07
Matches are distributed among these distances:
27 1 0.00
28 37 0.01
29 1 0.00
30 2 0.00
31 2 0.00
32 1 0.00
33 3 0.00
34 2 0.00
35 31 0.01
36 46 0.02
37 1942 0.67
38 75 0.03
39 630 0.22
40 61 0.02
41 84 0.03
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.36
Consensus pattern (37 bp):
AATGACGGTAGTCTGTTGTATAGGTACGTGTATCACT
Found at i:268507 original size:21 final size:21
Alignment explanation
Indices: 268483--268546 Score: 55
Period size: 19 Copynumber: 3.2 Consensus size: 21
268473 GTTGTATATA
268483 GGTACGTGTATCACTAATGAC
1 GGTACGTGTATCACTAATGAC
* * **
268504 GGTA-GTCTGT-TGTATAT-A-
1 GGTACGTGTATCACTA-ATGAC
268522 GGTACGTGTATCACTAATGAC
1 GGTACGTGTATCACTAATGAC
268543 GGTA
1 GGTA
268547 GTCTGTTGTA
Statistics
Matches: 30, Mismatches: 8, Indels: 10
0.62 0.17 0.21
Matches are distributed among these distances:
18 4 0.13
19 9 0.30
20 9 0.30
21 8 0.27
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.33
Consensus pattern (21 bp):
GGTACGTGTATCACTAATGAC
Found at i:269392 original size:65 final size:65
Alignment explanation
Indices: 269269--269398 Score: 181
Period size: 65 Copynumber: 2.0 Consensus size: 65
269259 TGTATAGGTA
* * * * * *
269269 CGTGTATCACAAATGACGGTTGTCTGTTGTATAGGTACGTGTATCGCAAATGAGGGTAGTCTGTT
1 CGTGTATCACAAATAACGGTAGTCTGTTGTATAGATACGTGTATCGAAAAAGACGGTAGTCTGTT
*
269334 CGTGTATCACTAATAACGGTAGTCTGTTGTATAGATACGTGTATC-AATAAAGACGGTAGTCTGT
1 CGTGTATCACAAATAACGGTAGTCTGTTGTATAGATACGTGTATCGAA-AAAGACGGTAGTCTGT
269398 T
65 T
269399 GTATAGGTAT
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
64 1 0.02
65 56 0.98
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.34
Consensus pattern (65 bp):
CGTGTATCACAAATAACGGTAGTCTGTTGTATAGATACGTGTATCGAAAAAGACGGTAGTCTGTT
Found at i:269413 original size:102 final size:109
Alignment explanation
Indices: 269334--270642 Score: 735
Period size: 113 Copynumber: 11.6 Consensus size: 109
269324 GTAGTCTGTT
* * *
269334 CGTGTATCACTAATAACGGTAGTCTGTTGTATAGATACGTGTATCAATAAAGACGGTAGTCTGTT
1 CGTGTATCACTAATGACTGTAGTCTGTTGTATAGGTACGTGTATCAATAAAGACGGTAGTCTGTT
* *
269399 GTATAGGTATGTGTATCACTAATGTAAGTAGTATGATGTATATAGGTA
66 GTATAGGTACGTGTATCACAAATG-AAG-AGTATGATG-ATATA-GTA
* * *
269447 CGTGTATCACTAATGACTGTAGTCTGTTATATAGGTACGTGTTTCACTAAAGACGGTAGTCTGTT
1 CGTGTATCACTAATGACTGTAGTCTGTTGTATAGGTACGTGTATCAATAAAGACGGTAGTCTGTT
* * * * *
269512 GTATATACGTAACGTGTAACACAAATGACTGTAGTCTGTTG-TATAGGTA
66 G--TATAGGT-ACGTGTATCACAAATGA-AG-AGTATGATGATATA-GTA
* * * * * * *
269561 CGTGAATCACTAAAGACAGTAGTTTGTTGTATTGGTACGGGTATCACT-AAGTACGGTAGTCTGT
1 CGTGTATCACTAATGACTGTAGTCTGTTGTATAGGTACGTGTATCAATAAAG-ACGGTAGTCTGT
* * * * * * * *
269625 TGTATAGGTAAGTATCTCACTAAGGACAGTAGTCTGTTG-TAAAAGGTA
65 TGTATAGGTACGTGTATCACAAATGA-AG-AGTATGATGAT-ATA-GTA
* * * * * * * *
269673 CGTGTATCGCTAGTGTA-AGTAGTCTATTGTATATGTACGTGTATTACTAATGACGGTAGTCTGT
1 CGTGTATCACTAATG-ACTGTAGTCTGTTGTATAGGTACGTGTATCAATAAAGACGGTAGTCTG-
* * * * *
269737 TCTATATACGTAACGTGTATCACAAATGACTGTAGTCTG-TTATATAGGTA
64 T-TGTATAGGT-ACGTGTATCACAAATGA-AG-AGTATGATGATATA-GTA
* * * * * * * *
269787 CGTGAATCATTAAAGACAGTAGTCTGTTGTATAAGTACGTGTATCGCA-AATGACTGTAGTCTGT
1 CGTGTATCACTAATGACTGTAGTCTGTTGTATAGGTACGTGTATC-AATAAAGACGGTAGTCTGT
** * * *
269851 TGTATAGGTACGTGTATCACTTATGTA-AGTA-GACTGTTGTGAGGTA
65 TGTATAGGTACGTGTATCACAAATGAAGAGTATGA-TGATAT-A-GTA
* * * * * * * * *
269897 CGTGTATCACAAATAACGGTTGTCTGTTGTATAGGTAAGTGTCTCACTAAAGACGATAGTTTGTA
1 CGTGTATCACTAATGACTGTAGTCTGTTGTATAGGTACGTGTATCAATAAAGACGGTAGTCTGT-
* * * * * *
269962 TGTTGAAAAGGTTCGTGTATTACAAATGACGGTAGTCTGTTG-TATAGGTA
65 TG-T--ATAGGTACGTGTATCACAAATGA-AG-AGTATGATGATATA-GTA
* * * * * *
270012 CGTGTATCACTAAAGACGGAAGTCTGTATGTTGAATAGGTACGTGTATCGCA-AATGACTGTAGT
1 CGTGTATCACTAATGACTGTAGTCTGT-TG-T--ATAGGTACGTGTATC-AATAAAGACGGTAGT
* * * * *
270076 CTGTTGTATAGGTACGTGTATCACTAATGTAACTAGTCTGTTGTTA-AGGTA
61 CTGTTGTATAGGTACGTGTATCACAAATG-AA-GAGTATGATGATATA-GTA
* * * * * *
270127 CGTGTATCACTAATGACGGTAGTCTGTTCTATATGTACGTGTATCACTAAAGACGATAGTTTGTA
1 CGTGTATCACTAATGACTGTAGTCTGTTGTATAGGTACGTGTATCAATAAAGACGGTAGTCTGT-
* * * * *
270192 TGTTGAATAGATACGTGTATCACACATGACGGCAGTCTGTTG-TATATGTA
65 TG-T--ATAGGTACGTGTATCACAAATGA-AG-AGTATGATGATATA-GTA
* * * * * * *
270242 CGTGTATCATTAATGACGGTAGTCTGTTGTATATAGGTACGTGTATCACTTATGACTGTAGACTG
1 CGTGTATCACTAATGACTGTAGTCTGTTG--TATAGGTACGTGTATCAATAAAGACGGTAGTCTG
* * * * *
270307 TTGTATGGGTACGTATATCACTAATGACAGTAG-ACTGTTG-TATGGGTA
64 TTGTATAGGTACGTGTATCACAAATGA-AG-AGTA-TGATGATAT-AGTA
* * * * * * * * **
270355 CGTATATCACTCATGACAGTAGACTGTTGTATGGGTACGTGTATTACTAATGACATTAGTCTGTT
1 CGTGTATCACTAATGACTGTAGTCTGTTGTATAGGTACGTGTATCAATAAAGACGGTAGTCTGTT
* * * * *
270420 GTATAAGTACGCGTATCACTAAA-GACGGTAGTCTGTTG-TATAGGTA
66 GTATAGGTACGTGTATCAC-AAATGA-AG-AGTATGATGATATA-GTA
* * * *
270466 CGTTTATTACTAATGACGGTAGTCTGTTGTATAGGTACGTGTATCACTAAAGACGGTAGTCTGTT
1 CGTGTATCACTAATGACTGTAGTCTGTTGTATAGGTACGTGTATCAATAAAGACGGTAGTCTGTT
* * * * *
270531 GATTATAGGTACGTGTTTCACTAATGTAAGTAGTCTGTTG-TATGGGTA
66 G--TATAGGTACGTGTATCACAAATG-AAG-AGTATGATGATAT-AGTA
* * * * * *
270579 CGTGTATCACTAATGACAGTAGACTGTTGTATGGGTACGTGTATCACTAATGACAGTAGTCTGT
1 CGTGTATCACTAATGACTGTAGTCTGTTGTATAGGTACGTGTATCAATAAAGACGGTAGTCTGT
270643 ACGTTGTATA
Statistics
Matches: 949, Mismatches: 193, Indels: 108
0.76 0.15 0.09
Matches are distributed among these distances:
107 1 0.00
108 3 0.00
109 3 0.00
110 52 0.05
111 185 0.19
112 73 0.08
113 218 0.23
114 147 0.15
115 173 0.18
116 31 0.03
117 35 0.04
118 3 0.00
119 25 0.03
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.35
Consensus pattern (109 bp):
CGTGTATCACTAATGACTGTAGTCTGTTGTATAGGTACGTGTATCAATAAAGACGGTAGTCTGTT
GTATAGGTACGTGTATCACAAATGAAGAGTATGATGATATAGTA
Found at i:272158 original size:16 final size:17
Alignment explanation
Indices: 272121--272158 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
272111 TAACAACATT
272121 TATTG-TCTTTTTGAAA
1 TATTGCTCTTTTTGAAA
*
272137 TGTTGCTCTTTTTGAAA
1 TATTGCTCTTTTTGAAA
272154 -ATTGC
1 TATTGC
272159 ATTTAACATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.21, C:0.11, G:0.16, T:0.53
Consensus pattern (17 bp):
TATTGCTCTTTTTGAAA
Found at i:272314 original size:57 final size:57
Alignment explanation
Indices: 272243--272357 Score: 230
Period size: 57 Copynumber: 2.0 Consensus size: 57
272233 GATAAGCAGA
272243 TACGGTTGTTAGAAAGGATAGGATCCATCACAAGGCCGTACTGATGTCGGCTCCCCC
1 TACGGTTGTTAGAAAGGATAGGATCCATCACAAGGCCGTACTGATGTCGGCTCCCCC
272300 TACGGTTGTTAGAAAGGATAGGATCCATCACAAGGCCGTACTGATGTCGGCTCCCCC
1 TACGGTTGTTAGAAAGGATAGGATCCATCACAAGGCCGTACTGATGTCGGCTCCCCC
272357 T
1 T
272358 GCAGAGAAAT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.24, C:0.26, G:0.26, T:0.23
Consensus pattern (57 bp):
TACGGTTGTTAGAAAGGATAGGATCCATCACAAGGCCGTACTGATGTCGGCTCCCCC
Found at i:274706 original size:14 final size:14
Alignment explanation
Indices: 274687--274713 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
274677 CCAGATGATA
274687 ATTTTGTTATAAAC
1 ATTTTGTTATAAAC
274701 ATTTTGTTATAAA
1 ATTTTGTTATAAA
274714 TATAAATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.04, G:0.07, T:0.52
Consensus pattern (14 bp):
ATTTTGTTATAAAC
Found at i:277394 original size:55 final size:55
Alignment explanation
Indices: 277118--277499 Score: 423
Period size: 55 Copynumber: 7.0 Consensus size: 55
277108 GTCATTTGGC
* * * ** *
277118 AAAACGTTCCATATTAATACCCC-AGGAAAAA-TTACAATAACATTACAATATTT
1 AAAACGTTCCATGTAAATACCCCGGGGAAAAAGCCACACTAACATTACAATATTT
* * * * * *
277171 AAAACGTTCGATGTAAATACCACGGGG-GAAATCCCCACGAACATTACAATATTT
1 AAAACGTTCCATGTAAATACCCCGGGGAAAAAGCCACACTAACATTACAATATTT
* *
277225 AAAACTTTTCATGTAAATACCCCGGGAGAAAAAG-C-CACTAACATTACAATATTT
1 AAAACGTTCCATGTAAATACCCCGGG-GAAAAAGCCACACTAACATTACAATATTT
* ** ** *
277279 AAAATGTTCCATGTAAATACCCCAGGAAAAAAAAACACACTAACATTACAATATTG
1 AAAACGTTCCATGTAAATACCCC-GGGGAAAAAGCCACACTAACATTACAATATTT
* *
277335 AAAAAGTTCCATGTACATACCCCGGGGAAAAAGCCACACTAACATTACAATATTT
1 AAAACGTTCCATGTAAATACCCCGGGGAAAAAGCCACACTAACATTACAATATTT
* * * *
277390 AAAAAGTTCCATGTAAATACCCCGGGGAAAAAGCCTCACTAATAATACAATATTT
1 AAAACGTTCCATGTAAATACCCCGGGGAAAAAGCCACACTAACATTACAATATTT
* * * ** *
277445 AAAACGTTCGATGTAAATACCCCAGGAAAAAAAACACAGTAACATTACAATATTT
1 AAAACGTTCCATGTAAATACCCCGGGGAAAAAGCCACACTAACATTACAATATTT
277500 GAAAGGTAGT
Statistics
Matches: 276, Mismatches: 46, Indels: 12
0.83 0.14 0.04
Matches are distributed among these distances:
53 22 0.08
54 84 0.30
55 128 0.46
56 42 0.15
ACGTcount: A:0.45, C:0.20, G:0.11, T:0.24
Consensus pattern (55 bp):
AAAACGTTCCATGTAAATACCCCGGGGAAAAAGCCACACTAACATTACAATATTT
Found at i:279570 original size:27 final size:27
Alignment explanation
Indices: 279459--279568 Score: 193
Period size: 27 Copynumber: 4.1 Consensus size: 27
279449 CGAACGCAAG
*
279459 CAATCTCGGGGCCTAATGTTACGGTAA
1 CAATCTCGGGGCCCAATGTTACGGTAA
279486 CAATCTCGGGGCCCAATGTTACGGTAA
1 CAATCTCGGGGCCCAATGTTACGGTAA
*
279513 CAATCTCGGGGCCTAATGTTACGGTAA
1 CAATCTCGGGGCCCAATGTTACGGTAA
*
279540 CATTCTCGGGGCCCAATGTTACGGTAA
1 CAATCTCGGGGCCCAATGTTACGGTAA
279567 CA
1 CA
279569 TTGATATCAG
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 79 1.00
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (27 bp):
CAATCTCGGGGCCCAATGTTACGGTAA
Found at i:282819 original size:2 final size:2
Alignment explanation
Indices: 282812--282859 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
282802 AAACTATACT
282812 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
282854 GA GA GA
1 GA GA GA
282860 CTCTTAAAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:283968 original size:12 final size:12
Alignment explanation
Indices: 283951--283975 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
283941 TGAAATCTTT
283951 TTTTTTTTTTTA
1 TTTTTTTTTTTA
283963 TTTTTTTTTTTA
1 TTTTTTTTTTTA
283975 T
1 T
283976 AAAATTCTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (12 bp):
TTTTTTTTTTTA
Found at i:288848 original size:28 final size:28
Alignment explanation
Indices: 288817--289015 Score: 77
Period size: 28 Copynumber: 7.1 Consensus size: 28
288807 AATGGTAGAC
288817 CTACAAATACAGCAACAAACGGTTCATA
1 CTACAAATACAGCAACAAACGGTTCATA
* * *
288845 CTACAGCAACTTA-ATC-A-AAATGG-T-AGA
1 CTACA--AA--TACAGCAACAAACGGTTCATA
288872 CCTACAAATACAGCAACAAACGGTTCATA
1 -CTACAAATACAGCAACAAACGGTTCATA
* * *
288901 CTACAGCAACTTA-ATC-A-AAATGG-T-AGA
1 CTACA--AA--TACAGCAACAAACGGTTCATA
288928 CCTACAAATACAGCAACAAACGGTTCATA
1 -CTACAAATACAGCAACAAACGGTTCATA
* * *
288957 CTACAGCAACTTA-ATC-A-AAATGG-T-AGA
1 CTACA--AA--TACAGCAACAAACGGTTCATA
288984 CCTACAAATACAGCAACAAACGGTTCATA
1 -CTACAAATACAGCAACAAACGGTTCATA
289013 CTA
1 CTA
289016 TAGCAACTTA
Statistics
Matches: 123, Mismatches: 18, Indels: 60
0.61 0.09 0.30
Matches are distributed among these distances:
24 6 0.05
25 6 0.05
26 9 0.07
27 21 0.17
28 39 0.32
29 21 0.17
30 9 0.07
31 6 0.05
32 6 0.05
ACGTcount: A:0.45, C:0.24, G:0.12, T:0.20
Consensus pattern (28 bp):
CTACAAATACAGCAACAAACGGTTCATA
Found at i:288861 original size:56 final size:56
Alignment explanation
Indices: 288793--289087 Score: 572
Period size: 56 Copynumber: 5.3 Consensus size: 56
288783 ACAGAAACAA
288793 AGCAACTTAATCAAAATGGTAGACCTACAAATACAGCAACAAACGGTTCATACTAC
1 AGCAACTTAATCAAAATGGTAGACCTACAAATACAGCAACAAACGGTTCATACTAC
288849 AGCAACTTAATCAAAATGGTAGACCTACAAATACAGCAACAAACGGTTCATACTAC
1 AGCAACTTAATCAAAATGGTAGACCTACAAATACAGCAACAAACGGTTCATACTAC
288905 AGCAACTTAATCAAAATGGTAGACCTACAAATACAGCAACAAACGGTTCATACTAC
1 AGCAACTTAATCAAAATGGTAGACCTACAAATACAGCAACAAACGGTTCATACTAC
*
288961 AGCAACTTAATCAAAATGGTAGACCTACAAATACAGCAACAAACGGTTCATACTAT
1 AGCAACTTAATCAAAATGGTAGACCTACAAATACAGCAACAAACGGTTCATACTAC
*
289017 AGCAACTTAATCAAAATGGTAGACCTACACATACAGCAACAAACGGTTCATACTAC
1 AGCAACTTAATCAAAATGGTAGACCTACAAATACAGCAACAAACGGTTCATACTAC
289073 AGCAACTTAATCAAA
1 AGCAACTTAATCAAA
289088 TTATCCATTT
Statistics
Matches: 236, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 236 1.00
ACGTcount: A:0.45, C:0.23, G:0.12, T:0.20
Consensus pattern (56 bp):
AGCAACTTAATCAAAATGGTAGACCTACAAATACAGCAACAAACGGTTCATACTAC
Found at i:294661 original size:75 final size:76
Alignment explanation
Indices: 294577--294723 Score: 233
Period size: 75 Copynumber: 1.9 Consensus size: 76
294567 TTTTTTTATC
* * *
294577 ATATTTCATTTTACTAATTATAATATGCATAACTAACACAATGAAATTCAGAATTAATAACCT-T
1 ATATTTCATTTTACTAATTATAATATGCAGAACTAACACAATGAAATTAAGAACTAATAACCTAT
294641 CTTTTATTCCT
66 CTTTTATTCCT
* *
294652 ATATTTCATTTTACTTATTATAATATGCAGAACTAATACAATGAAATTAAGAACTAATAACCTAT
1 ATATTTCATTTTACTAATTATAATATGCAGAACTAACACAATGAAATTAAGAACTAATAACCTAT
*
294717 TTTTTAT
66 CTTTTAT
294724 CCACGAAAAC
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
75 58 0.89
76 7 0.11
ACGTcount: A:0.40, C:0.14, G:0.05, T:0.41
Consensus pattern (76 bp):
ATATTTCATTTTACTAATTATAATATGCAGAACTAACACAATGAAATTAAGAACTAATAACCTAT
CTTTTATTCCT
Found at i:298709 original size:45 final size:45
Alignment explanation
Indices: 298636--298871 Score: 141
Period size: 45 Copynumber: 5.2 Consensus size: 45
298626 TTCTTTGACT
* * *
298636 TTCGTGATTCTTTAGATTTGGCTATGCCGGTGTATGTCGAGGACA
1 TTCGTGAATCTTTAGATTTAGCTATGCCGGGGTATGTCGAGGACA
* * *
298681 TTCGTGAATCTTT-GAATTTAGCTTTGCCGGGGTATGTCGAGAATA
1 TTCGTGAATCTTTAG-ATTTAGCTATGCCGGGGTATGTCGAGGACA
** * * * * * * * *
298726 TTTATTAATCTGTAGGTTTAGCTATGCCGCGATATTTCTAGGATA
1 TTCGTGAATCTTTAGATTTAGCTATGCCGGGGTATGTCGAGGACA
* * * * * * * * *
298771 TTCATTAATCTGTAGGTTTAGCTATGCCGCGATATTTCTAGGATA
1 TTCGTGAATCTTTAGATTTAGCTATGCCGGGGTATGTCGAGGACA
* * * * * * * * *
298816 TTCATTAATCTATAGGTTTAGCTATGCCGCGATATTTCTAGGATA
1 TTCGTGAATCTTTAGATTTAGCTATGCCGGGGTATGTCGAGGACA
*
298861 TTCGTTAATCT
1 TTCGTGAATCT
298872 GTAAGCTACC
Statistics
Matches: 169, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
44 1 0.01
45 167 0.99
46 1 0.01
ACGTcount: A:0.23, C:0.15, G:0.22, T:0.40
Consensus pattern (45 bp):
TTCGTGAATCTTTAGATTTAGCTATGCCGGGGTATGTCGAGGACA
Found at i:299202 original size:66 final size:66
Alignment explanation
Indices: 299096--299223 Score: 175
Period size: 66 Copynumber: 1.9 Consensus size: 66
299086 ATAAACAATC
*****
299096 TGTCATGTTGTAAATTTTGAATTTACTGGGTGGCAGTAAATACAAAATTAACAACATGACAACTG
1 TGTCATGTTGTAAATTTTGAATTTACTGCCACCCAGTAAATACAAAATTAACAACATGACAACTG
299161 T
66 T
* * * *
299162 TGTCATGTTGTAAATTTTGTATTTACTGCCACCCGGTAAATTCAAAATTTACAACATGACAA
1 TGTCATGTTGTAAATTTTGAATTTACTGCCACCCAGTAAATACAAAATTAACAACATGACAA
299224 ATCAATTAAG
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
66 53 1.00
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (66 bp):
TGTCATGTTGTAAATTTTGAATTTACTGCCACCCAGTAAATACAAAATTAACAACATGACAACTG
T
Found at i:302784 original size:16 final size:16
Alignment explanation
Indices: 302763--302794 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
302753 AACGCTGTCT
302763 ACGTCACAAAGGGGAA
1 ACGTCACAAAGGGGAA
302779 ACGTCACAAAGGGGAA
1 ACGTCACAAAGGGGAA
302795 GTCACCCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.19, G:0.31, T:0.06
Consensus pattern (16 bp):
ACGTCACAAAGGGGAA
Found at i:304086 original size:48 final size:48
Alignment explanation
Indices: 304015--304753 Score: 1066
Period size: 48 Copynumber: 15.4 Consensus size: 48
304005 TTGCATTTTG
* *
304015 ACGTTAAGTTCTAATTCACTGGCGCTGTTCACACTGACTTTATCCATA
1 ACGTTATGTTCTAATTCACTGGCGCTGTTCACGCTGACTTTATCCATA
* *
304063 ACGTTCTGTTCTAATTCACTGGCGCTGTTCACACTGACTTTATCCATA
1 ACGTTATGTTCTAATTCACTGGCGCTGTTCACGCTGACTTTATCCATA
* *
304111 ACGTTCTGTTCTAATTCACTGGCGCTGTTCGCGCTGACTTTATCCATA
1 ACGTTATGTTCTAATTCACTGGCGCTGTTCACGCTGACTTTATCCATA
* **
304159 ACGGTT-TGTTCTAATTCAATGATGCTGTTCACGCTGACTTTATCCATA
1 AC-GTTATGTTCTAATTCACTGGCGCTGTTCACGCTGACTTTATCCATA
* *
304207 ACGTTATGTTGTAATTCACTGGCGCTGTTCACGCTGACTTTATCCAAA
1 ACGTTATGTTCTAATTCACTGGCGCTGTTCACGCTGACTTTATCCATA
* * *
304255 ACGTTGTGTTGTAATTCACTGGCGCTGTTCACGCTGACTTTATCCAAA
1 ACGTTATGTTCTAATTCACTGGCGCTGTTCACGCTGACTTTATCCATA
* * *
304303 ACGTTGTGTTGTAATTCACTGGCGCTGTTCACGCTGACTTTATCCAAA
1 ACGTTATGTTCTAATTCACTGGCGCTGTTCACGCTGACTTTATCCATA
* * *
304351 ACGTTGTGTTGTAATTCACTGGCGCTGTTCACGCTGACTTTATCCAAA
1 ACGTTATGTTCTAATTCACTGGCGCTGTTCACGCTGACTTTATCCATA
* * *
304399 ACGTTGTGTTGTAATTCACTGGCGCTGTTCACGCTGACTTTATCCAAA
1 ACGTTATGTTCTAATTCACTGGCGCTGTTCACGCTGACTTTATCCATA
* * *
304447 ACGTTGTGTTGTAATTCACTGGCGCTGTTCACGCTGACTTTATCCAAA
1 ACGTTATGTTCTAATTCACTGGCGCTGTTCACGCTGACTTTATCCATA
* *
304495 ACGTTTTGTTCTAATTCACTGGCGCTGTTCACGCTGACTTTATCCAAA
1 ACGTTATGTTCTAATTCACTGGCGCTGTTCACGCTGACTTTATCCATA
* * **
304543 ACGTTTTGTTCTAATTCAATGATGCTGTTCACGCTGACTTTATCCATA
1 ACGTTATGTTCTAATTCACTGGCGCTGTTCACGCTGACTTTATCCATA
* ** *
304591 ACGTTATGTTCTAATTCAATGATGCTGTTCACACTGACTTTATCCATA
1 ACGTTATGTTCTAATTCACTGGCGCTGTTCACGCTGACTTTATCCATA
* * * *
304639 ACGTTATGTTCTAATTGACTGACGCTGTTAATGCTGACTTTATCCATA
1 ACGTTATGTTCTAATTCACTGGCGCTGTTCACGCTGACTTTATCCATA
* *
304687 ACGTTATGTTTTAATTTCACTGGCGCCGTTCACGCTGACTTTATCCATA
1 ACGTTATGTTCTAA-TTCACTGGCGCTGTTCACGCTGACTTTATCCATA
*
304736 ACGTTATGTTCTTATTCA
1 ACGTTATGTTCTAATTCA
304754 ATGACACTTT
Statistics
Matches: 652, Mismatches: 36, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
47 3 0.00
48 605 0.93
49 44 0.07
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (48 bp):
ACGTTATGTTCTAATTCACTGGCGCTGTTCACGCTGACTTTATCCATA
Found at i:304796 original size:27 final size:27
Alignment explanation
Indices: 304766--305172 Score: 600
Period size: 27 Copynumber: 15.1 Consensus size: 27
304756 GACACTTTTA
* * *
304766 AGATTGTCTTAAACCGTTAGGTGTCTT
1 AGATTGACTTTAACCGTTAGGTGTCGT
304793 AGATT-ATCTTTAACCGTTAGGTGTCGT
1 AGATTGA-CTTTAACCGTTAGGTGTCGT
*
304820 AGATTGACTTTAACCGTTAGGTGTCTT
1 AGATTGACTTTAACCGTTAGGTGTCGT
*
304847 AGATTGACTTTAACCGCTAGGTGTCGT
1 AGATTGACTTTAACCGTTAGGTGTCGT
304874 AGATTGACTTTAACCGTTAGGTGTCGT
1 AGATTGACTTTAACCGTTAGGTGTCGT
* *
304901 AGATTGACTTTAACGGTTAGGTGTCTT
1 AGATTGACTTTAACCGTTAGGTGTCGT
* *
304928 AAATTGTCTTTAACCGTTAGGTGTCGT
1 AGATTGACTTTAACCGTTAGGTGTCGT
* * *
304955 AGATTGACATTAATCGTTAGCTGTCGT
1 AGATTGACTTTAACCGTTAGGTGTCGT
*
304982 AGATTGTCTTTAACCGTTAGGTGTCGT
1 AGATTGACTTTAACCGTTAGGTGTCGT
305009 AGATTGACTTTAACCGTTAGGTGTCGT
1 AGATTGACTTTAACCGTTAGGTGTCGT
*
305036 ATATTGACTTTAACCGTTAGGTGTCGT
1 AGATTGACTTTAACCGTTAGGTGTCGT
* * * *
305063 AGACTGACTTTAACTGTTAGATGTCTT
1 AGATTGACTTTAACCGTTAGGTGTCGT
* *
305090 AGATTGTCTTTTACCGTTAGGTGTCGT
1 AGATTGACTTTAACCGTTAGGTGTCGT
* *
305117 AGATTGACTTTAACCGCTAGATGTCGT
1 AGATTGACTTTAACCGTTAGGTGTCGT
305144 AGATTGACTTTAACCGTTAGGTGTCGT
1 AGATTGACTTTAACCGTTAGGTGTCGT
305171 AG
1 AG
305173 CCGTTATTTT
Statistics
Matches: 337, Mismatches: 41, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
27 336 1.00
28 1 0.00
ACGTcount: A:0.22, C:0.15, G:0.24, T:0.39
Consensus pattern (27 bp):
AGATTGACTTTAACCGTTAGGTGTCGT
Found at i:309012 original size:49 final size:49
Alignment explanation
Indices: 308936--309043 Score: 198
Period size: 49 Copynumber: 2.2 Consensus size: 49
308926 GATATTAAAG
*
308936 AAAATTCTGTAATATTTATCTATTAATGCTTTGTTACAGTGACATCTAT
1 AAAATTCTGTAATATTTATCTAATAATGCTTTGTTACAGTGACATCTAT
308985 AAAATTCTGTAATATTTATCTAATAATGCTTTGTTACAGTGACATCTAT
1 AAAATTCTGTAATATTTATCTAATAATGCTTTGTTACAGTGACATCTAT
*
309034 AAAACTCTGT
1 AAAATTCTGT
309044 GATTCTAACC
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 57 1.00
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.43
Consensus pattern (49 bp):
AAAATTCTGTAATATTTATCTAATAATGCTTTGTTACAGTGACATCTAT
Found at i:317455 original size:27 final size:27
Alignment explanation
Indices: 317419--317480 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
317409 ACAATACATG
317419 TACCTATGTCAGGTATATGTGATACAA
1 TACCTATGTCAGGTATATGTGATACAA
* *
317446 TACCTGTGTCAGGTATCTGTGATACAA
1 TACCTATGTCAGGTATATGTGATACAA
317473 TACCTATG
1 TACCTATG
317481 CAACAATATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (27 bp):
TACCTATGTCAGGTATATGTGATACAA
Found at i:320921 original size:72 final size:73
Alignment explanation
Indices: 320835--320980 Score: 231
Period size: 72 Copynumber: 2.0 Consensus size: 73
320825 ACATTGCAGG
* *
320835 CTTATTCTACTGCATGTAACATTATTTCTACATACAATA-ACATGTGTCACAAGGAGCAAGATTA
1 CTTATTCTACTGCATATAACATTATTTCTACATACAATATACATGTGTCACAAGGAGAAAGATTA
320899 TAACTACA
66 TAACTACA
* * *
320907 CTTATTCTACTGCATATAACATTATTTCTACTTACAATATTATATGTTTCACAAGGAGAAAGATT
1 CTTATTCTACTGCATATAACATTATTTCTACATACAATA-TACATGTGTCACAAGGAGAAAGATT
320972 ATAACTACA
65 ATAACTACA
320981 TCTACACAAT
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
72 37 0.55
74 30 0.45
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.35
Consensus pattern (73 bp):
CTTATTCTACTGCATATAACATTATTTCTACATACAATATACATGTGTCACAAGGAGAAAGATTA
TAACTACA
Found at i:327155 original size:36 final size:36
Alignment explanation
Indices: 327101--328021 Score: 1134
Period size: 36 Copynumber: 25.3 Consensus size: 36
327091 GAACAAGAAG
* **
327101 GTTATCACAATGTATAGAAACACAATTAACAGGGGA
1 GTTATCACAATGTATAGAAATACAATTAACAGGTAA
* * *
327137 GTTATCACACTGTTTAGAAATACAATTAACAGGTGA
1 GTTATCACAATGTATAGAAATACAATTAACAGGTAA
*
327173 GTTATCATAATGTATAGAAATACAATTAACAGGTAA
1 GTTATCACAATGTATAGAAATACAATTAACAGGTAA
* * * * * * *
327209 GTTATCATATTTGTGTAAAAACACAATAAACAGATAA
1 GTTATCACA-ATGTATAGAAATACAATTAACAGGTAA
* *
327246 GTTATCACACTGTATAGAAATAAAATTAACAGGTAA
1 GTTATCACAATGTATAGAAATACAATTAACAGGTAA
* *
327282 GTTATCATAATGTATAGAAATACAATTAACAGGTGA
1 GTTATCACAATGTATAGAAATACAATTAACAGGTAA
* *
327318 GTTTTCACAATGTATAGAAATACAATTAACAGGTGA
1 GTTATCACAATGTATAGAAATACAATTAACAGGTAA
* *
327354 GTTATCAAAATGTATAGAAATACAATAAACAGGTAA
1 GTTATCACAATGTATAGAAATACAATTAACAGGTAA
* *
327390 GTTATCACAATGTATAGAAATATAATTAACAGGTGA
1 GTTATCACAATGTATAGAAATACAATTAACAGGTAA
*
327426 GTTATCACAATGTATAGAAATACAATTAACAGGGAA
1 GTTATCACAATGTATAGAAATACAATTAACAGGTAA
*
327462 GTTATCACAATGTATAGAACATTAGAAATACAATAAACAGGTAA
1 GTTATCACAATG--T-----A-TAGAAATACAATTAACAGGTAA
327506 GTTATCACAATGTATAGAAATACAATTAACAGGTAA
1 GTTATCACAATGTATAGAAATACAATTAACAGGTAA
* * * * *
327542 GTTATCACACTGTTTAGAAATACAATTATCAGAT-G
1 GTTATCACAATGTATAGAAATACAATTAACAGGTAA
*
327577 GTTATCACAATGTATAGAAATACAATAAACAGGTAA
1 GTTATCACAATGTATAGAAATACAATTAACAGGTAA
* * *
327613 GTTATCACAAAGAATAGAAATACAATTAACAGGGAA
1 GTTATCACAATGTATAGAAATACAATTAACAGGTAA
**
327649 GTTATCACAATGTATAGAAATACAATTAACAGGGGA
1 GTTATCACAATGTATAGAAATACAATTAACAGGTAA
*
327685 GTTATCACACTGTATAGAAATACAATTAACAGGTAA
1 GTTATCACAATGTATAGAAATACAATTAACAGGTAA
* * * *
327721 GTTATTACAATGTTTAGAAATACAATTATCAGGT-G
1 GTTATCACAATGTATAGAAATACAATTAACAGGTAA
*
327756 GTTATCACAATGTATAGAAATACAATAAACAGGTAA
1 GTTATCACAATGTATAGAAATACAATTAACAGGTAA
* * **
327792 GTTATCACAAAGAATAGAAATACAATTAACAGGGGA
1 GTTATCACAATGTATAGAAATACAATTAACAGGTAA
*
327828 GTTATCACAATGTATAGAAATACAATTAACAGGGGAA
1 GTTATCACAATGTATAGAAATACAATTAACA-GGTAA
* *
327865 -TTATCA-AACTATATAGATATACAATTAACAGGTAA
1 GTTATCACAA-TGTATAGAAATACAATTAACAGGTAA
*
327900 GTTATCACAATGTATAGAAATACAATTAACAGGT-G
1 GTTATCACAATGTATAGAAATACAATTAACAGGTAA
*
327935 GTTATCACAATGCATAGAAATAC-ATTAAACAGGTAA
1 GTTATCACAATGTATAGAAATACAATT-AACAGGTAA
* * * * *
327971 GTTATAATTACAATGTATAGAAATGCATTTTACAGGCAA
1 G-T-T-ATCACAATGTATAGAAATACAATTAACAGGTAA
* *
328010 TTTATTACAATG
1 GTTATCACAATG
328022 ACTGATAGTT
Statistics
Matches: 768, Mismatches: 96, Indels: 42
0.85 0.11 0.05
Matches are distributed among these distances:
34 3 0.00
35 94 0.12
36 570 0.74
37 38 0.05
38 3 0.00
39 24 0.03
40 2 0.00
42 1 0.00
43 1 0.00
44 32 0.04
ACGTcount: A:0.46, C:0.11, G:0.15, T:0.28
Consensus pattern (36 bp):
GTTATCACAATGTATAGAAATACAATTAACAGGTAA
Found at i:327508 original size:44 final size:44
Alignment explanation
Indices: 327440--327524 Score: 152
Period size: 44 Copynumber: 1.9 Consensus size: 44
327430 TCACAATGTA
*
327440 TAGAAATACAATTAACAGGGAAGTTATCACAATGTATAGAACAT
1 TAGAAATACAATAAACAGGGAAGTTATCACAATGTATAGAACAT
*
327484 TAGAAATACAATAAACAGGTAAGTTATCACAATGTATAGAA
1 TAGAAATACAATAAACAGGGAAGTTATCACAATGTATAGAA
327525 ATACAATTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.49, C:0.11, G:0.15, T:0.25
Consensus pattern (44 bp):
TAGAAATACAATAAACAGGGAAGTTATCACAATGTATAGAACAT
Found at i:327760 original size:179 final size:179
Alignment explanation
Indices: 327101--327975 Score: 1228
Period size: 179 Copynumber: 4.8 Consensus size: 179
327091 GAACAAGAAG
* *
327101 GTTATCACAATGTATAGAAACACAATTAACAGGGGAGTTATCACACTGTTTAGAAATACAATTAA
1 GTTATCACAATGTATAGAAATACAATTAACAGGGGAGTTATCACACTGTATAGAAATACAATTAA
* * * * * * * *
327166 CAGGTGAGTTATCATAATGTATAGAAATACAATTAACAGGTAAGTTATCATATTTGTGTAAAAAC
66 CAGGTAAGTTATCACAATGTATAGAAATACAATTAACAGGT-GGTTATCACA-ATGTATAGAAAT
* ** * * *
327231 ACAATAAACAGATAAGTTATCACACTGTATAGAAATAAAATTAACAGGTAA
129 ACAATAAACAGGTAAGTTATCACAAAGAATAGAAATACAATTAACAGGGAA
* * * *
327282 GTTATCATAATGTATAGAAATACAATTAACAGGTGAGTTTTCACAATGTATAGAAATACAATTAA
1 GTTATCACAATGTATAGAAATACAATTAACAGGGGAGTTATCACACTGTATAGAAATACAATTAA
* * * *
327347 CAGGTGAGTTATCAAAATGTATAGAAATACAATAAACAGGTAAGTTATCACAATGTATAGAAATA
66 CAGGTAAGTTATCACAATGTATAGAAATACAATTAACAGGT-GGTTATCACAATGTATAGAAATA
* * * * *
327412 TAATTAACAGGTGAGTTATCACAATGTATAGAAATACAATTAACAGGGAA
130 CAATAAACAGGTAAGTTATCACAAAGAATAGAAATACAATTAACAGGGAA
* ** *
327462 GTTATCACAATGTATAGAACATTAGAAATACAATAAACAGGTAAGTTATCACAATGTATAGAAAT
1 GTTATCACAATG--T-----A-TAGAAATACAATTAACAGGGGAGTTATCACACTGTATAGAAAT
* * * *
327527 ACAATTAACAGGTAAGTTATCACACTGTTTAGAAATACAATTATCAGATGGTTATCACAATGTAT
58 ACAATTAACAGGTAAGTTATCACAATGTATAGAAATACAATTAACAGGTGGTTATCACAATGTAT
327592 AGAAATACAATAAACAGGTAAGTTATCACAAAGAATAGAAATACAATTAACAGGGAA
123 AGAAATACAATAAACAGGTAAGTTATCACAAAGAATAGAAATACAATTAACAGGGAA
327649 GTTATCACAATGTATAGAAATACAATTAACAGGGGAGTTATCACACTGTATAGAAATACAATTAA
1 GTTATCACAATGTATAGAAATACAATTAACAGGGGAGTTATCACACTGTATAGAAATACAATTAA
* * *
327714 CAGGTAAGTTATTACAATGTTTAGAAATACAATTATCAGGTGGTTATCACAATGTATAGAAATAC
66 CAGGTAAGTTATCACAATGTATAGAAATACAATTAACAGGTGGTTATCACAATGTATAGAAATAC
*
327779 AATAAACAGGTAAGTTATCACAAAGAATAGAAATACAATTAACAGGGGA
131 AATAAACAGGTAAGTTATCACAAAGAATAGAAATACAATTAACAGGGAA
* * * *
327828 GTTATCACAATGTATAGAAATACAATTAACAGGGGAATTATCAAACTATATAGATATACAATTAA
1 GTTATCACAATGTATAGAAATACAATTAACAGGGGAGTTATCACACTGTATAGAAATACAATTAA
*
327893 CAGGTAAGTTATCACAATGTATAGAAATACAATTAACAGGTGGTTATCACAATGCATAGAAATAC
66 CAGGTAAGTTATCACAATGTATAGAAATACAATTAACAGGTGGTTATCACAATGTATAGAAATAC
*
327958 ATTAAACAGGTAAGTTAT
131 AATAAACAGGTAAGTTAT
327976 AATTACAATG
Statistics
Matches: 632, Mismatches: 54, Indels: 18
0.90 0.08 0.03
Matches are distributed among these distances:
179 296 0.47
180 64 0.10
181 108 0.17
182 1 0.00
185 1 0.00
187 80 0.13
188 82 0.13
ACGTcount: A:0.46, C:0.11, G:0.15, T:0.28
Consensus pattern (179 bp):
GTTATCACAATGTATAGAAATACAATTAACAGGGGAGTTATCACACTGTATAGAAATACAATTAA
CAGGTAAGTTATCACAATGTATAGAAATACAATTAACAGGTGGTTATCACAATGTATAGAAATAC
AATAAACAGGTAAGTTATCACAAAGAATAGAAATACAATTAACAGGGAA
Found at i:330208 original size:30 final size:30
Alignment explanation
Indices: 330169--330401 Score: 175
Period size: 30 Copynumber: 7.7 Consensus size: 30
330159 TACTTTGTAC
* * **
330169 CATCGTTCCAGGATCCTTTAACTTGACTCC
1 CATCTTTCCAGGATCCTTTAACTTAACTAT
* * * *
330199 CATCTTTCCAGGATTCTTTTACTTGACTTT
1 CATCTTTCCAGGATCCTTTAACTTAACTAT
*
330229 CATCGTTT-CAGGATCCTTTAACTTGAC-ATT
1 CATC-TTTCCAGGATCCTTTAACTTAACTA-T
* * * *
330259 CATCTTTCAAGAATCCTTTAACTTCACTAA
1 CATCTTTCCAGGATCCTTTAACTTAACTAT
* * *
330289 CATCGTTCCTGGGTCCTTTAACTTAACTAT
1 CATCTTTCCAGGATCCTTTAACTTAACTAT
* * *
330319 CAT-TGTTTCAGGATCCTTAAACTTAACTTT
1 CATCT-TTCCAGGATCCTTTAACTTAACTAT
* * *
330349 CATCGTTCCCCAGGATTCTTTAACTTAACTCT
1 CATC-TT-TCCAGGATCCTTTAACTTAACTAT
* * *
330381 AATCATTGCAGGATCCTTTAA
1 CATCTTTCCAGGATCCTTTAA
330402 ATTGCAGGAT
Statistics
Matches: 160, Mismatches: 35, Indels: 16
0.76 0.17 0.08
Matches are distributed among these distances:
29 3 0.02
30 128 0.80
31 6 0.04
32 23 0.14
ACGTcount: A:0.24, C:0.26, G:0.11, T:0.39
Consensus pattern (30 bp):
CATCTTTCCAGGATCCTTTAACTTAACTAT
Found at i:330241 original size:60 final size:60
Alignment explanation
Indices: 330169--331382 Score: 570
Period size: 60 Copynumber: 19.9 Consensus size: 60
330159 TACTTTGTAC
* * * * *
330169 CATCGTTCCAGGATCCTTTAACTTGACTCCCATCTTTCCAGGATTCTTTTACTTGACTTT
1 CATCGTTCCAGGATCCTTTAACTTAACTCTCATCTTTCCAGGATCCTTTAACTTAACTTT
* * * * * **
330229 CATCGTTTCAGGATCCTTTAACTTGACAT-TCATCTTTCAAGAATCCTTTAACTTCACTAA
1 CATCGTTCCAGGATCCTTTAACTTAAC-TCTCATCTTTCCAGGATCCTTTAACTTAACTTT
* * * * *
330289 CATCGTTCCTGGGTCCTTTAACTTAACTATCAT-TGTTTCAGGATCCTTAAACTTAACTTT
1 CATCGTTCCAGGATCCTTTAACTTAACTCTCATCT-TTCCAGGATCCTTTAACTTAACTTT
* * * *
330349 CATCGTTCCCCAGGATTCTTTAACTTAACTCTAATCATTGCAGGATCCTTTAAATTGCAGGATCC
1 CATCGTT--CCAGGATCCTTTAACTTAACTCTCATCTTTCCAGGATCC--T---TT--A--A--C
330414 TTTAACTTAT
53 -TTAACTT-T
* * * * * * *
330424 CCCTTATCATTGCAGGATCCTTTAACTTAACTTTAATCATTGCAGGATCCTTTAACTTAAAC-CT
1 --C--ATCGTTCCAGGATCCTTTAACTTAACTCTCATCTTTCCAGGATCCTTTAACTT-AACTTT
* * * * * * * *
330488 AATCATTGCATGATCCTTTAACTTAACTCTAATCATTGCAGGATCCTTTAACTTAAAC-CT
1 CATCGTTCCAGGATCCTTTAACTTAACTCTCATCTTTCCAGGATCCTTTAACTT-AACTTT
* * * * * * * * *
330548 AATCATTGCAGGATCCTTTAACTTGACTCTAATCCTTGCATGATCCTTTAACTTATCTCTT
1 CATCGTTCCAGGATCCTTTAACTTAACTCTCATCTTTCCAGGATCCTTTAACTTAACT-TT
* * * * * * * **
330609 -ATCATTGCAGGATCCTTTAACTTAACTTTAATCATTGCAGAATCCTTTAACTTAACACT
1 CATCGTTCCAGGATCCTTTAACTTAACTCTCATCTTTCCAGGATCCTTTAACTTAACTTT
* * * * * * * *
330668 AATCATTGCATGATCCTTTAACTTAACTCTTATCATTGCAGGATCCTTTAACTTAAAC-CT
1 CATCGTTCCAGGATCCTTTAACTTAACTCTCATCTTTCCAGGATCCTTTAACTT-AACTTT
* * * * * * * * **
330728 AATCATTGCAGGATCCTTTAACTTGACTCTAATCCTTGCATGATCCTTTAACTTAACACT
1 CATCGTTCCAGGATCCTTTAACTTAACTCTCATCTTTCCAGGATCCTTTAACTTAACTTT
* * * * * * * *
330788 AATCATTGCAGGATCCTTTAACTTAACTCTAATCATTGCAGGATCCTTTAACTTAAAATCT
1 CATCGTTCCAGGATCCTTTAACTTAACTCTCATCTTTCCAGGATCCTTTAACTT-AACTTT
* * * * * * * * * *
330849 AATCCTTGCATGATCCTTTAACTTGACTCTAATCCTTGCATGATCCTTTAACTTAACTCT
1 CATCGTTCCAGGATCCTTTAACTTAACTCTCATCTTTCCAGGATCCTTTAACTTAACTTT
* ** * * * * * * * *
330909 AATCACTGCAAGATCCTTTAACTTGACTCTGTAT-GTTGCAAGATCCTTTAACTTTAACCTT
1 CATCGTTCCAGGATCCTTTAACTTAACTCT-CATCTTTCCAGGATCCTTTAAC-TTAACTTT
* * * * * * *
330970 -ATCATT-GAGGGATCCTTTAACTTGACTCTAATCATTGCAGGATCCTTTAACTTAACTCT
1 CATCGTTCCA-GGATCCTTTAACTTAACTCTCATCTTTCCAGGATCCTTTAACTTAACTTT
* * * * * * * *
331029 -ATTCATTGCAGGATCCTTTAACTTGACTCTGTAT-GTTGCAAGATCCTTTAACTTAAAC-CT
1 CA-TCGTTCCAGGATCCTTTAACTTAACTCT-CATCTTTCCAGGATCCTTTAACTT-AACTTT
* * ** * * * ** * * *
331089 AATCATTGAAGGATCCTTTAACTTGACTCTAATCATAGCAGGATCCTTTAATTTTACTCT
1 CATCGTTCCAGGATCCTTTAACTTAACTCTCATCTTTCCAGGATCCTTTAACTTAACTTT
* * * * * * * *
331149 AATCATTGCAGGATCCTTTAACTTGACTCTAATCATTGCAGGATCCTTTAACTTAACTCT
1 CATCGTTCCAGGATCCTTTAACTTAACTCTCATCTTTCCAGGATCCTTTAACTTAACTTT
* * * * ** * *
331209 GATCATTGCAGGATCCTTTAACTTAACTCTGATAATTGCAGGATCCTTTAACTTAACTCT
1 CATCGTTCCAGGATCCTTTAACTTAACTCTCATCTTTCCAGGATCCTTTAACTTAACTTT
* * * * * * * * *
331269 GATCATTGCAGGATCCTTTGACTTGACTCTGTAT-GTTGCAGGATCCTTTAACTTGACTCTGT
1 CATCGTTCCAGGATCCTTTAACTTAACTCT-CATCTTTCCAGGATCCTTTAACTTAACT-T-T
* * * * *
331331 -AT-GTTGCAGGATCCTTTAACTTGACTCTGTAT-GTTGCAGGATCCTTTAACTT
1 CATCGTTCCAGGATCCTTTAACTTAACTCT-CATCTTTCCAGGATCCTTTAACTT
331383 GACTCTGTAT
Statistics
Matches: 997, Mismatches: 113, Indels: 88
0.83 0.09 0.07
Matches are distributed among these distances:
59 22 0.02
60 799 0.80
61 77 0.08
62 32 0.03
64 2 0.00
65 2 0.00
66 4 0.00
67 1 0.00
68 1 0.00
69 1 0.00
70 1 0.00
71 1 0.00
72 2 0.00
73 1 0.00
74 7 0.01
75 2 0.00
77 37 0.04
79 5 0.01
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.38
Consensus pattern (60 bp):
CATCGTTCCAGGATCCTTTAACTTAACTCTCATCTTTCCAGGATCCTTTAACTTAACTTT
Found at i:330282 original size:90 final size:90
Alignment explanation
Indices: 330181--330352 Score: 218
Period size: 90 Copynumber: 1.9 Consensus size: 90
330171 TCGTTCCAGG
* ** * * * * *
330181 ATCCTTTAACTTGACTCCCATCTTTCCAGGATTCTTTTACTTGACTTTCATCGTTTCAGGATCCT
1 ATCCTTTAACTTCACTAACATCGTTCCAGGATCCTTTAACTTAACTATCATCGTTTCAGGATCCT
* *
330246 TTAACTTGACATTCATCTTTCAAGA
66 TAAACTTAACATTCATCTTTCAAGA
* * *
330271 ATCCTTTAACTTCACTAACATCGTTCCTGGGTCCTTTAACTTAACTATCATTGTTTCAGGATCCT
1 ATCCTTTAACTTCACTAACATCGTTCCAGGATCCTTTAACTTAACTATCATCGTTTCAGGATCCT
*
330336 TAAACTTAACTTTCATC
66 TAAACTTAACATTCATC
330353 GTTCCCCAGG
Statistics
Matches: 68, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
90 68 1.00
ACGTcount: A:0.24, C:0.26, G:0.09, T:0.41
Consensus pattern (90 bp):
ATCCTTTAACTTCACTAACATCGTTCCAGGATCCTTTAACTTAACTATCATCGTTTCAGGATCCT
TAAACTTAACATTCATCTTTCAAGA
Found at i:330407 original size:17 final size:17
Alignment explanation
Indices: 330385--330418 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
330375 AACTCTAATC
330385 ATTGCAGGATCCTTTAA
1 ATTGCAGGATCCTTTAA
330402 ATTGCAGGATCCTTTAA
1 ATTGCAGGATCCTTTAA
330419 CTTATCCCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (17 bp):
ATTGCAGGATCCTTTAA
Found at i:330433 original size:47 final size:47
Alignment explanation
Indices: 330359--330448 Score: 144
Period size: 47 Copynumber: 1.9 Consensus size: 47
330349 CATCGTTCCC
* *
330359 CAGGATTCTTTAACTTAACTCTAATCATTGCAGGATCCTTTAAATTG
1 CAGGATCCTTTAACTTAACCCTAATCATTGCAGGATCCTTTAAATTG
* *
330406 CAGGATCCTTTAACTTATCCCTTATCATTGCAGGATCCTTTAA
1 CAGGATCCTTTAACTTAACCCTAATCATTGCAGGATCCTTTAA
330449 CTTAACTTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 39 1.00
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.38
Consensus pattern (47 bp):
CAGGATCCTTTAACTTAACCCTAATCATTGCAGGATCCTTTAAATTG
Found at i:331400 original size:30 final size:30
Alignment explanation
Indices: 330402--331388 Score: 1258
Period size: 30 Copynumber: 32.9 Consensus size: 30
330392 GATCCTTTAA
* * *
330402 ATTGCAGGATCCTTTAACTTATCCCTTATC
1 ATTGCAGGATCCTTTAACTTAACTCTAATC
*
330432 ATTGCAGGATCCTTTAACTTAACTTTAATC
1 ATTGCAGGATCCTTTAACTTAACTCTAATC
330462 ATTGCAGGATCCTTTAACTTAAAC-CTAATC
1 ATTGCAGGATCCTTTAACTT-AACTCTAATC
*
330492 ATTGCATGATCCTTTAACTTAACTCTAATC
1 ATTGCAGGATCCTTTAACTTAACTCTAATC
330522 ATTGCAGGATCCTTTAACTTAAAC-CTAATC
1 ATTGCAGGATCCTTTAACTT-AACTCTAATC
*
330552 ATTGCAGGATCCTTTAACTTGACTCTAATC
1 ATTGCAGGATCCTTTAACTTAACTCTAATC
* * * *
330582 CTTGCATGATCCTTTAACTTATCTCTTATC
1 ATTGCAGGATCCTTTAACTTAACTCTAATC
*
330612 ATTGCAGGATCCTTTAACTTAACTTTAATC
1 ATTGCAGGATCCTTTAACTTAACTCTAATC
* *
330642 ATTGCAGAATCCTTTAACTTAACACTAATC
1 ATTGCAGGATCCTTTAACTTAACTCTAATC
* *
330672 ATTGCATGATCCTTTAACTTAACTCTTATC
1 ATTGCAGGATCCTTTAACTTAACTCTAATC
330702 ATTGCAGGATCCTTTAACTTAAAC-CTAATC
1 ATTGCAGGATCCTTTAACTT-AACTCTAATC
*
330732 ATTGCAGGATCCTTTAACTTGACTCTAATC
1 ATTGCAGGATCCTTTAACTTAACTCTAATC
* * *
330762 CTTGCATGATCCTTTAACTTAACACTAATC
1 ATTGCAGGATCCTTTAACTTAACTCTAATC
330792 ATTGCAGGATCCTTTAACTTAACTCTAATC
1 ATTGCAGGATCCTTTAACTTAACTCTAATC
*
330822 ATTGCAGGATCCTTTAACTTAAAATCTAATC
1 ATTGCAGGATCCTTTAACTT-AACTCTAATC
* * *
330853 CTTGCATGATCCTTTAACTTGACTCTAATC
1 ATTGCAGGATCCTTTAACTTAACTCTAATC
* *
330883 CTTGCATGATCCTTTAACTTAACTCTAATC
1 ATTGCAGGATCCTTTAACTTAACTCTAATC
* * * *
330913 ACTGCAAGATCCTTTAACTTGACTCTGTAT-
1 ATTGCAGGATCCTTTAACTTAACTCT-AATC
* * *
330943 GTTGCAAGATCCTTTAACTTTAAC-CTTATC
1 ATTGCAGGATCCTTTAAC-TTAACTCTAATC
*
330973 ATTG-AGGGATCCTTTAACTTGACTCTAATC
1 ATTGCA-GGATCCTTTAACTTAACTCTAATC
*
331003 ATTGCAGGATCCTTTAACTTAACTCTATTC
1 ATTGCAGGATCCTTTAACTTAACTCTAATC
* *
331033 ATTGCAGGATCCTTTAACTTGACTCTGTAT-
1 ATTGCAGGATCCTTTAACTTAACTCT-AATC
* *
331063 GTTGCAAGATCCTTTAACTTAAAC-CTAATC
1 ATTGCAGGATCCTTTAACTT-AACTCTAATC
* *
331093 ATTGAAGGATCCTTTAACTTGACTCTAATC
1 ATTGCAGGATCCTTTAACTTAACTCTAATC
* * *
331123 ATAGCAGGATCCTTTAATTTTACTCTAATC
1 ATTGCAGGATCCTTTAACTTAACTCTAATC
*
331153 ATTGCAGGATCCTTTAACTTGACTCTAATC
1 ATTGCAGGATCCTTTAACTTAACTCTAATC
*
331183 ATTGCAGGATCCTTTAACTTAACTCTGATC
1 ATTGCAGGATCCTTTAACTTAACTCTAATC
* *
331213 ATTGCAGGATCCTTTAACTTAACTCTGATA
1 ATTGCAGGATCCTTTAACTTAACTCTAATC
*
331243 ATTGCAGGATCCTTTAACTTAACTCTGATC
1 ATTGCAGGATCCTTTAACTTAACTCTAATC
* * *
331273 ATTGCAGGATCCTTTGACTTGACTCTGTAT-
1 ATTGCAGGATCCTTTAACTTAACTCT-AATC
* * *
331303 GTTGCAGGATCCTTTAACTTGACTCTGTAT-
1 ATTGCAGGATCCTTTAACTTAACTCT-AATC
* * *
331333 GTTGCAGGATCCTTTAACTTGACTCTGTAT-
1 ATTGCAGGATCCTTTAACTTAACTCT-AATC
* *
331363 GTTGCAGGATCCTTTAACTTGACTCT
1 ATTGCAGGATCCTTTAACTTAACTCT
331389 GTATGTTGCA
Statistics
Matches: 857, Mismatches: 82, Indels: 36
0.88 0.08 0.04
Matches are distributed among these distances:
29 19 0.02
30 790 0.92
31 48 0.06
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.38
Consensus pattern (30 bp):
ATTGCAGGATCCTTTAACTTAACTCTAATC
Found at i:336225 original size:6 final size:6
Alignment explanation
Indices: 336202--336244 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
336192 TGATCACAAT
*
336202 TTGTCCG TTGTC- -TGTCG TTGTCG TCGTCG TTGTCG TTGTCG TT
1 TTGT-CG TTGTCG TTGTCG TTGTCG TTGTCG TTGTCG TTGTCG TT
336245 AACTTTTCAC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
4 4 0.12
6 24 0.75
7 4 0.12
ACGTcount: A:0.00, C:0.21, G:0.30, T:0.49
Consensus pattern (6 bp):
TTGTCG
Found at i:336690 original size:166 final size:166
Alignment explanation
Indices: 336410--337729 Score: 1574
Period size: 166 Copynumber: 8.1 Consensus size: 166
336400 GTTGGTATTT
* * * * * * * *
336410 TTTAAAAATCTTCTTCTCAAAAACTATTCGGCCTGAAAAGCTAAAACTTGTGTGGAGGCATCCCC
1 TTTAAAAATCTTCTTCTCAAAAACTATTAGGCCAGGAAAGCTCAAATTTGAGTGGAAGCATCCTC
* **
336475 AGATAGTGTAGATTTAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAAGAGGG
66 AGATAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATTGGG
* *
336540 GGATGAATTTTTACATAGGAATATATAGAGAAAATC
131 GGATCAAGTTTTACATAGGAATATATAGAGAAAATC
* * *
336576 TTAAAAAATCTTCTTCTCAAAAACTATTAGGCCAGGAAAGCTCAAATTTGAGTGGAATCATCTTC
1 TTTAAAAATCTTCTTCTCAAAAACTATTAGGCCAGGAAAGCTCAAATTTGAGTGGAAGCATCCTC
* * * * *
336641 AGGTAGTGTAGATTCAAGCTCGTCCAAATCATGGTCCCCGGGAGTAGGGTGGGGCCAC-ATTGGG
66 AGATAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATTGGG
336705 GGATCAAGTTTTACATAGGAATATATATAGAGAAAAATC
131 GGATCAAGTTTTACATAGG-A-ATATATAGAG-AAAATC
* *
336744 TTTAAAAATCTTCTTCTCAAAAACTATTAGGCCAGGAAAGCTCAAATTTAAATGGAAGCATCCTC
1 TTTAAAAATCTTCTTCTCAAAAACTATTAGGCCAGGAAAGCTCAAATTTGAGTGGAAGCATCCTC
* * *
336809 AGGTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCTGGGGGTAGAGTGGGGCCACAATTGGG
66 AGATAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATTGGG
336874 GGATCAAGTTTTACATAGGAATATATAGAGAAAATC
131 GGATCAAGTTTTACATAGGAATATATAGAGAAAATC
* * * *
336910 TTTAAAAATCTTTTTCTCAAAAACTATTTGACCAAGAAAGCTCAAATTTGAGTGGAAGCATCCTC
1 TTTAAAAATCTTCTTCTCAAAAACTATTAGGCCAGGAAAGCTCAAATTTGAGTGGAAGCATCCTC
* * * *
336975 TGATAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCAGGAGTAGGTTGGGGCCACAATTGGG
66 AGATAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATTGGG
*
337040 GGATCAAGTTTTATATAGGAATATATAGAGAAAATC
131 GGATCAAGTTTTACATAGGAATATATAGAGAAAATC
* * * *
337076 TTTAAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAT-AATGGAATCATCTT
1 TTTAAAAATCTTCTTCTCAAAAACTATTAGGCCAGGAAAGCTCAAATT-TGAGTGGAAGCATCCT
* ** * * * *
337140 CAGGTAGTGTAGATTCAAACTCGTTCAAATCATGGTCCCCGGGGGTTGGGTGGGGCCAAAATGGG
65 CAGATAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATTGG
337205 GGGATCAAGTTTTACATAGGAATATATAGAG------
130 GGGATCAAGTTTTACATAGGAATATATAGAGAAAATC
* * *
337236 ----AAAA---TCTTCTCAAAAACTATTAGGCCAGGAAAGCTTAAATTTGAATGGAAGCATTCTC
1 TTTAAAAATCTTCTTCTCAAAAACTATTAGGCCAGGAAAGCTCAAATTTGAGTGGAAGCATCCTC
* * * * *
337294 AGGTATTGTAGATTTAAGTTTGTTAAAATCATGGTCCCTGGGGGTAGGGTGGGGCCACAATTGGG
66 AGATAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATTGGG
337359 GGATCAAGTTTTACATAGGAATATATAGAGAAAAT-
131 GGATCAAGTTTTACATAGGAATATATAGAGAAAATC
* * * * *
337394 TATTAAAAATCTTCTTCTCAAAAACTATTAGACCAAGAAAGCTCAAATTGGCG-GGTAACCATCC
1 T-TTAAAAATCTTCTTCTCAAAAACTATTAGGCCAGGAAAGCTCAAATTTGAGTGG-AAGCATCC
* * * *
337458 TCAGATAATGTAGATTTAAGTTTGTTCAAATCATGGTCCCTGGGGGTAGGGCGGGGCCACAA-TG
64 TCAGATAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATTG
337522 GGGGAT-ACA-TTTT---T----ATACT-TAGAGAAAATC
129 GGGGATCA-AGTTTTACATAGGAATA-TATAGAGAAAATC
* * * *
337552 TCTAAAAAATCTTCTTCTC-AAAACTA--AGGCCAGGAAAGCCCAAATCTGAGTGGAAGCATTAC
1 T-TTAAAAATCTTCTTCTCAAAAACTATTAGGCCAGGAAAGCTCAAATTTGAGTGGAAGCA-TCC
* * * * * * * * * * *
337614 -CAAATTGTATAGATTCAAGTTTTTTAAAAATAATAGT--CCAGTGGTATGGTGAGGCCACAATT
64 TCAGATAGTGTAGATTCAAGTTTGTT-CAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATT
* *
337676 GGGGGATGAATTTTTACATAGGAATATATAGAGAAAATC
128 GGGGGATCAAGTTTTACATAGGAATATATAGAGAAAATC
*
337715 TTTAGAAATCTTCTT
1 TTTAAAAATCTTCTT
337730 TTTAAAGTCC
Statistics
Matches: 997, Mismatches: 120, Indels: 78
0.83 0.10 0.07
Matches are distributed among these distances:
152 1 0.00
153 132 0.13
154 17 0.02
155 50 0.05
156 21 0.02
157 20 0.02
158 18 0.02
159 1 0.00
161 1 0.00
162 13 0.01
163 19 0.02
164 5 0.01
165 32 0.03
166 502 0.50
167 21 0.02
168 119 0.12
169 25 0.03
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (166 bp):
TTTAAAAATCTTCTTCTCAAAAACTATTAGGCCAGGAAAGCTCAAATTTGAGTGGAAGCATCCTC
AGATAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATTGGG
GGATCAAGTTTTACATAGGAATATATAGAGAAAATC
Found at i:336863 original size:334 final size:331
Alignment explanation
Indices: 336410--337756 Score: 1576
Period size: 334 Copynumber: 4.1 Consensus size: 331
336400 GTTGGTATTT
* * * *** * *
336410 TTTAAAAATCTTCTTCTCAAAAACTATTCGGCCTGAAAAGCTAAAACTTGTGTGGAGGCATCCCC
1 TTTAAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAA-TTAAATGGAAGCATCCTC
* *
336475 AGATAGTGTAGATTTAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAAGAGGG
65 AGATAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAAGTGGG
* *
336540 GGATGAATTTTTACATAGGAATATATAGAGAAAATCTTAAAAAATCTTCTTCTCAAAAACTATTA
130 GGATCAAGTTTTACATAGGAATATATAGAGAAAATCTTAAAAAATCTTCTTCTCAAAAACTATTA
* * * *
336605 GGCCAGGAAAGCTCAAATTTGAGTGGAATCATCTTCAGGTAGTGTAGATTCAAGCTCGTCCAAAT
195 GGCCAGGAAAGCTCAAATTTGAGTGGAAGCATCTTCAGGTAGTGTAGATTCAAGTTTGTTCAAAT
336670 CATGGTCCCCGGGAGTAGGGTGGGGCCAC-ATTGGGGGATCAAGTTTTACATAGGAATATATATA
260 CATGGTCCCCGGGAGTAGGGTGGGGCCACAATTGGGGGATCAAGTTTTACATAGG-A-ATATATA
336734 GAGAAAAATC
323 GAG-AAAATC
*
336744 TTTAAAAATCTTCTTCTCAAAAACTATTAGGCCAGGAAAGCTCAAATTTAAATGGAAGCATCCTC
1 TTTAAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAA-TTAAATGGAAGCATCCTC
* * * *
336809 AGGTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCTGGGGGTAGAGTGGGGCCACAATTGGG
65 AGATAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAAGTGGG
* * *
336874 GGATCAAGTTTTACATAGGAATATATAGAGAAAATCTTTAAAAATCTTTTTCTCAAAAACTATTT
130 GGATCAAGTTTTACATAGGAATATATAGAGAAAATCTTAAAAAATCTTCTTCTCAAAAACTATTA
* * * * *
336939 GACCAAGAAAGCTCAAATTTGAGTGGAAGCATCCTCTGATAGTGTAGATTCAAGTTTGTTCAAAT
195 GGCCAGGAAAGCTCAAATTTGAGTGGAAGCATCTTCAGGTAGTGTAGATTCAAGTTTGTTCAAAT
* * *
337004 CATGGTCCCCAGGAGTAGGTTGGGGCCACAATTGGGGGATCAAGTTTTATATAGGAATATATAGA
260 CATGGTCCCCGGGAGTAGGGTGGGGCCACAATTGGGGGATCAAGTTTTACATAGGAATATATAGA
337069 GAAAATC
325 GAAAATC
* *
337076 TTTAAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTATAATGGAATCATCTTC
1 TTTAAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTA-AATGGAAGCATCCTC
* ** * * *
337141 AGGTAGTGTAGATTCAAACTCGTTCAAATCATGGTCCCCGGGGGTTGGGTGGGGCCA-AAATGGG
65 AGATAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAAGT-GG
337205 GGGATCAAGTTTTACATAGGAATATATAGAG----------AAAA---TCTTCTCAAAAACTATT
129 GGGATCAAGTTTTACATAGGAATATATAGAGAAAATCTTAAAAAATCTTCTTCTCAAAAACTATT
* * * * *
337257 AGGCCAGGAAAGCTTAAATTTGAATGGAAGCAT-TCTCAGGTATTGTAGATTTAAGTTTGTTAAA
194 AGGCCAGGAAAGCTCAAATTTGAGTGGAAGCATCT-TCAGGTAGTGTAGATTCAAGTTTGTTCAA
* *
337321 ATCATGGTCCCTGGGGGTAGGGTGGGGCCACAATTGGGGGATCAAGTTTTACATAGGAATATATA
258 ATCATGGTCCCCGGGAGTAGGGTGGGGCCACAATTGGGGGATCAAGTTTTACATAGGAATATATA
337386 GAGAAAAT-
323 GAGAAAATC
* **** *
337394 TATTAAAAATCTTCTTCTCAAAAACTATTAGACCA-AGAAAGCTCAAATTGGCGGGTAACCATCC
1 T-TTAAAAATCTTCTTCTCAAAAACTATTAGGCCAGA-AAAGCTCAAATTAAATGG-AAGCATCC
* * * *
337458 TCAGATAATGTAGATTTAAGTTTGTTCAAATCATGGTCCCTGGGGGTAGGGCGGGGCCACAA-TG
63 TCAGATAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAAGTG
337522 GGGGAT-ACA-TTTT---T----ATACT-TAGAGAAAATCTCTAAAAAATCTTCTTCTC-AAAAC
128 GGGGATCA-AGTTTTACATAGGAATA-TATAGAGAAAATCT-TAAAAAATCTTCTTCTCAAAAAC
* * * ** * * *
337576 TA--AGGCCAGGAAAGCCCAAATCTGAGTGGAAGCAT-TACCAAATTGTATAGATTCAAGTTTTT
190 TATTAGGCCAGGAAAGCTCAAATTTGAGTGGAAGCATCT-TCAGGTAGTGTAGATTCAAGTTTGT
* * * * * * * * *
337638 TAAAAATAATAGT-CCAGTG-GTATGGTGAGGCCACAATTGGGGGATGAATTTTTACATAGGAAT
254 T-CAAATCATGGTCCCCGGGAGTAGGGTGGGGCCACAATTGGGGGATCAAGTTTTACATAGGAAT
337701 ATATAGAGAAAATC
318 ATATAGAGAAAATC
* * * ** * *
337715 TTTAGAAATCTTCTTTTTAAAGTCCATTTGGCCAGAAAAGCT
1 TTTAAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCT
337757 TTAACTTGTG
Statistics
Matches: 881, Mismatches: 105, Indels: 68
0.84 0.10 0.06
Matches are distributed among these distances:
310 8 0.01
311 1 0.00
314 1 0.00
317 5 0.01
318 12 0.01
319 237 0.27
320 86 0.10
321 58 0.07
322 13 0.01
323 7 0.01
324 7 0.01
331 6 0.01
332 148 0.17
333 10 0.01
334 258 0.29
335 24 0.03
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (331 bp):
TTTAAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAAATGGAAGCATCCTCA
GATAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAAGTGGGG
GATCAAGTTTTACATAGGAATATATAGAGAAAATCTTAAAAAATCTTCTTCTCAAAAACTATTAG
GCCAGGAAAGCTCAAATTTGAGTGGAAGCATCTTCAGGTAGTGTAGATTCAAGTTTGTTCAAATC
ATGGTCCCCGGGAGTAGGGTGGGGCCACAATTGGGGGATCAAGTTTTACATAGGAATATATAGAG
AAAATC
Found at i:337283 original size:153 final size:153
Alignment explanation
Indices: 337087--337393 Score: 465
Period size: 153 Copynumber: 2.0 Consensus size: 153
337077 TTAAAAATCT
*
337087 TCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTATAATGGAATCA-TCTTCAGGTAGTGTA
1 TCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTATAATGGAAGCATTC-TCAGGTAGTGTA
* *
337151 GATTCAAACTCGTTCAAATCATGGTCCCCGGGGGTTGGGTGGGGCCAAAATGGGGGGATCAAGTT
65 GATTCAAACTCGTTAAAATCATGGTCCCCGGGGGTAGGGTGGGGCCAAAATGGGGGGATCAAGTT
337216 TTACATAGGAATATATAGAGAAAA
130 TTACATAGGAATATATAGAGAAAA
* * *
337240 TCTTCTCAAAAACTATTAGGCCAGGAAAGCTTAAATT-TGAATGGAAGCATTCTCAGGTATTGTA
1 TCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAT-AATGGAAGCATTCTCAGGTAGTGTA
* ** * * * *
337304 GATTTAAGTTTGTTAAAATCATGGTCCCTGGGGGTAGGGTGGGGCCACAATTGGGGGATCAAGTT
65 GATTCAAACTCGTTAAAATCATGGTCCCCGGGGGTAGGGTGGGGCCAAAATGGGGGGATCAAGTT
337369 TTACATAGGAATATATAGAGAAAA
130 TTACATAGGAATATATAGAGAAAA
337393 T
1 T
337394 TATTAAAAAT
Statistics
Matches: 139, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
152 1 0.01
153 136 0.98
154 2 0.01
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (153 bp):
TCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTATAATGGAAGCATTCTCAGGTAGTGTAG
ATTCAAACTCGTTAAAATCATGGTCCCCGGGGGTAGGGTGGGGCCAAAATGGGGGGATCAAGTTT
TACATAGGAATATATAGAGAAAA
Found at i:337438 original size:485 final size:485
Alignment explanation
Indices: 336410--337606 Score: 1656
Period size: 500 Copynumber: 2.5 Consensus size: 485
336400 GTTGGTATTT
* * * * * * * *
336410 TTTAAAAATCTTCTTCTCAAAAACTATTCGGCC-TGAAAAGCTAAAACTTGTGTGGAGGCATCCC
1 TTTAAAAATCTTCTTCTCAAAAACTATTAGACCAAG-AAAGCTCAAATTTGAGTGGAAGCATCCT
*
336474 CAGATAGTGTAGATTTAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAAGAGG
65 CAGATAGTGTAGATTTAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAA-TGG
*
336539 GGGATGAATTTTTACATAGGAATATATAGAGAAAATCTTAAAAAATCTTCTTCTCAAAAACTATT
129 GGGAT-AA-TTTTATATAGGAATATATAGAGAAAATCTTAAAAAATCTTCTTCTCAAAAACTATT
* *
336604 AGGCCAGGAAAGCTCAAATTTGAGTGGAATCATCTTCAGGTAGTGTAGATTCAAGCTCGTCCAAA
192 AGGCCAGGAAAGCTCAAATTTGAATGGAATCATCTTCAGGTAGTGTAGATTCAAACTCGTCCAAA
* *
336669 TCATGGTCCCCGGGAGTAGGGTGGGGCCACATTGGGGGATCAAGTTTTACATAGGAATATATATA
257 TCATGGTCCCCGGGAGTAGGGTGGGGCCAAATGGGGGGATCAAGTTTTACATAGGAATATATATA
336734 GAGAAAAATCTTTAAAAATCTTCTTCTCAAAAACTATTAGGCCAGGAAAGCTCAAATTTAAATGG
322 GAG----------AAAAA--TTCTTCTCAAAAACTATTAGGCCAGGAAAGCTCAAATTTAAATGG
*
336799 AAGCATCCTCAGGTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCTGGGGGTAGAGTGGGGC
375 AAGCATCCTCAGGTAGTGTAGATTCAAGTTTGTTAAAATCATGGTCCCTGGGGGTAGAGTGGGGC
336864 CACAATTGGGGGATCAAGTTTTACATAGGAATATATAGAGAAAATC
440 CACAATTGGGGGATCAAGTTTTACATAGGAATATATAGAGAAAATC
* *
336910 TTTAAAAATCTTTTTCTCAAAAACTATTTGACCAAGAAAGCTCAAATTTGAGTGGAAGCATCCTC
1 TTTAAAAATCTTCTTCTCAAAAACTATTAGACCAAGAAAGCTCAAATTTGAGTGGAAGCATCCTC
* * * * *
336975 TGATAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCAGGAGTAGGTTGGGGCCACAATTGGG
66 AGATAGTGTAGATTTAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAA-TGGG
*
337040 GGATCAAGTTTTATATAGGAATATATAGAGAAAATCTTTAAAAATCTTCTTCTCAAAAACTATTA
130 GGAT-AA-TTTTATATAGGAATATATAGAGAAAATCTTAAAAAATCTTCTTCTCAAAAACTATTA
* *
337105 GGCCAGAAAAGCTCAAATTAT-AATGGAATCATCTTCAGGTAGTGTAGATTCAAACTCGTTCAAA
193 GGCCAGGAAAGCTCAAATT-TGAATGGAATCATCTTCAGGTAGTGTAGATTCAAACTCGTCCAAA
* *
337169 TCATGGTCCCCGGGGGTTGGGTGGGGCCAAAATGGGGGGATCAAGTTTTACATAGG-A-ATATAT
257 TCATGGTCCCCGGGAGTAGGGTGGGGCC-AAATGGGGGGATCAAGTTTTACATAGGAATATATAT
* * *
337232 AGAG-AAAA-TCTTCTCAAAAACTATTAGGCCAGGAAAGCTTAAATTTGAATGGAAGCATTCTCA
321 AGAGAAAAATTCTTCTCAAAAACTATTAGGCCAGGAAAGCTCAAATTTAAATGGAAGCATCCTCA
* * *
337295 GGTATTGTAGATTTAAGTTTGTTAAAATCATGGTCCCTGGGGGTAGGGTGGGGCCACAATTGGGG
386 GGTAGTGTAGATTCAAGTTTGTTAAAATCATGGTCCCTGGGGGTAGAGTGGGGCCACAATTGGGG
337360 GATCAAGTTTTACATAGGAATATATAGAGAAAAT-
451 GATCAAGTTTTACATAGGAATATATAGAGAAAATC
* * *
337394 TATTAAAAATCTTCTTCTCAAAAACTATTAGACCAAGAAAGCTCAAATTGGCG-GGTAACCATCC
1 T-TTAAAAATCTTCTTCTCAAAAACTATTAGACCAAGAAAGCTCAAATTTGAGTGG-AAGCATCC
* * *
337458 TCAGATAATGTAGATTTAAGTTTGTTCAAATCATGGTCCCTGGGGGTAGGGCGGGGCCACAATGG
64 TCAGATAGTGTAGATTTAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATGG
*
337523 GGGATACATTTT-TAT----A-CT-TAGAGAAAATCTCTAAAAAATCTTCTTCTC-AAAACTA--
129 GGGATA-ATTTTATATAGGAATATATAGAGAAAATCT-TAAAAAATCTTCTTCTCAAAAACTATT
* * *
337578 AGGCCAGGAAAGCCCAAATCTGAGTGGAA
192 AGGCCAGGAAAGCTCAAATTTGAATGGAA
337607 GCATTACCAA
Statistics
Matches: 635, Mismatches: 54, Indels: 42
0.87 0.07 0.06
Matches are distributed among these distances:
473 1 0.00
474 23 0.04
476 19 0.03
477 17 0.03
478 1 0.00
482 3 0.00
483 5 0.01
484 12 0.02
485 255 0.40
488 4 0.01
499 10 0.02
500 258 0.41
501 27 0.04
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.28
Consensus pattern (485 bp):
TTTAAAAATCTTCTTCTCAAAAACTATTAGACCAAGAAAGCTCAAATTTGAGTGGAAGCATCCTC
AGATAGTGTAGATTTAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATGGGG
GATAATTTTATATAGGAATATATAGAGAAAATCTTAAAAAATCTTCTTCTCAAAAACTATTAGGC
CAGGAAAGCTCAAATTTGAATGGAATCATCTTCAGGTAGTGTAGATTCAAACTCGTCCAAATCAT
GGTCCCCGGGAGTAGGGTGGGGCCAAATGGGGGGATCAAGTTTTACATAGGAATATATATAGAGA
AAAATTCTTCTCAAAAACTATTAGGCCAGGAAAGCTCAAATTTAAATGGAAGCATCCTCAGGTAG
TGTAGATTCAAGTTTGTTAAAATCATGGTCCCTGGGGGTAGAGTGGGGCCACAATTGGGGGATCA
AGTTTTACATAGGAATATATAGAGAAAATC
Found at i:340489 original size:15 final size:15
Alignment explanation
Indices: 340469--340502 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
340459 ATTTTACAGT
340469 ATATCATATGATACA
1 ATATCATATGATACA
340484 ATATCATATGATACA
1 ATATCATATGATACA
340499 ATAT
1 ATAT
340503 TACATCATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.47, C:0.12, G:0.06, T:0.35
Consensus pattern (15 bp):
ATATCATATGATACA
Found at i:342072 original size:67 final size:67
Alignment explanation
Indices: 341964--342098 Score: 261
Period size: 67 Copynumber: 2.0 Consensus size: 67
341954 GCTTGTCAGT
*
341964 TATCATTGAAATGAGACGTTGTATGGTATTATTTTATATATGAACTATATTGTTTAATCACCCCA
1 TATCATTGAAATGAGACGTTGTATGGTATTATTTTATATATGAACTATATCGTTTAATCACCCCA
342029 AG
66 AG
342031 TATCATTGAAATGAGACGTTGTATGGTATTATTTTATATATGAACTATATCGTTTAATCACCCCA
1 TATCATTGAAATGAGACGTTGTATGGTATTATTTTATATATGAACTATATCGTTTAATCACCCCA
342096 AG
66 AG
342098 T
1 T
342099 GTAGGGGTTT
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.40
Consensus pattern (67 bp):
TATCATTGAAATGAGACGTTGTATGGTATTATTTTATATATGAACTATATCGTTTAATCACCCCA
AG
Found at i:346219 original size:2 final size:2
Alignment explanation
Indices: 346212--346263 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
346202 AATGATTGAA
346212 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
346254 TG TG TG TG TG
1 TG TG TG TG TG
346264 GAGAGAGAGA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:346269 original size:2 final size:2
Alignment explanation
Indices: 346264--346301 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
346254 TGTGTGTGTG
346264 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
346302 TTAACTGTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:351246 original size:2 final size:2
Alignment explanation
Indices: 351239--351277 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
351229 TTATCTATCC
351239 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
351278 TATTTTATTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:358126 original size:37 final size:37
Alignment explanation
Indices: 358012--358326 Score: 247
Period size: 37 Copynumber: 8.2 Consensus size: 37
358002 ACACGCCCAA
* * *
358012 CCTTTATTT-AGAGATATCTAACGCCTTACACGCCCGA
1 CCTTTATTTGA-AGATATCTAACGCCTTAAATGCCCGT
* * * * * * * *
358049 CCTTTATTTTAGGATAACAAACGCCCTACACGCCTGT
1 CCTTTATTTGAAGATATCTAACGCCTTAAATGCCCGT
* * *
358086 CCTTTATTTGGAGATATCTAACGCCTTACAA-ACCCCT
1 CCTTTATTTGAAGATATCTAACGCCTTA-AATGCCCGT
*
358123 CCTTTATTGGAAGATATACATGTATAACGCCTTAAATGCCCGT
1 CCTTTATTTGAAGATAT-C-----TAACGCCTTAAATGCCCGT
* *
358166 CCTTTATTTGAAGATATATAACGCCTTAAATGCCTGT
1 CCTTTATTTGAAGATATCTAACGCCTTAAATGCCCGT
* * **
358203 CCTCTATTTGAAGATATATAACGCCTTAAATGCATGT
1 CCTTTATTTGAAGATATCTAACGCCTTAAATGCCCGT
* ***
358240 CCTTTATTTGAAGATATATAACGCCTTAATTAAATGTATGT
1 CCTTTATTTGAAGATATCTAACGCC----TTAAATGCCCGT
* * *
358281 CCTCTATTTGAAGATATATAACGCCTTAAATGCCTGT
1 CCTTTATTTGAAGATATCTAACGCCTTAAATGCCCGT
*
358318 CCTCTATTT
1 CCTTTATTT
358327 TGAGACACCA
Statistics
Matches: 235, Mismatches: 30, Indels: 26
0.81 0.10 0.09
Matches are distributed among these distances:
37 165 0.70
38 3 0.01
41 35 0.15
42 2 0.01
43 30 0.13
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (37 bp):
CCTTTATTTGAAGATATCTAACGCCTTAAATGCCCGT
Found at i:358243 original size:117 final size:111
Alignment explanation
Indices: 358023--358326 Score: 288
Period size: 117 Copynumber: 2.6 Consensus size: 111
358013 CTTTATTTAG
* * * * * * * * * *
358023 AGATATCTAACGCCTTACACGCCCGACCTTTATTTTAGGATA-ACAAACGCCCTACACGCCTGTC
1 AGATATATAACGCCTTAAATGCCCGTCCTTTATTTGAAGATATA-TAACGCCTTAAATGCCTGTC
* * * *
358087 CTTTATTTGGAGATATCTAACGCCTTACAAACCCCTCCTTTATTGGA
65 CTCTATTTGAAGATATATAACGCCTTACAAACACCTCCTTTATTGGA
358134 AGATATACATGTATAACGCCTTAAATGCCCGTCCTTTATTTGAAGATATATAACGCCTTAAATGC
1 AG--AT--A--TATAACGCCTTAAATGCCCGTCCTTTATTTGAAGATATATAACGCCTTAAATGC
* ** *
358199 CTGTCCTCTATTTGAAGATATATAACGCCTTA-AATGCATGTCCTTTATTTGA
60 CTGTCCTCTATTTGAAGATATATAACGCCTTACAA-ACACCTCCTTTATTGGA
*** *
358251 AGATATATAACGCCTTAATTAAATGTATGTCCTCTATTTGAAGATATATAACGCCTTAAATGCCT
1 AGATATATAACGCC----TTAAATGCCCGTCCTTTATTTGAAGATATATAACGCCTTAAATGCCT
358316 GTCCTCTATTT
62 GTCCTCTATTT
358327 TGAGACACCA
Statistics
Matches: 159, Mismatches: 22, Indels: 20
0.79 0.11 0.10
Matches are distributed among these distances:
111 11 0.07
113 3 0.02
115 57 0.36
116 2 0.01
117 85 0.53
118 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (111 bp):
AGATATATAACGCCTTAAATGCCCGTCCTTTATTTGAAGATATATAACGCCTTAAATGCCTGTCC
TCTATTTGAAGATATATAACGCCTTACAAACACCTCCTTTATTGGA
Found at i:358309 original size:78 final size:74
Alignment explanation
Indices: 358145--358326 Score: 283
Period size: 78 Copynumber: 2.4 Consensus size: 74
358135 GATATACATG
* *
358145 TATAACGCCTTAAATGCCCGTCCTTTATTTGAAGATATATAACGCCTTAAATGCCTGTCCTCTAT
1 TATAACGCCTTAAATGCCTGTCCTTTATTTGAAGATATATAACGCCTTAAATGCATGTCCTCTAT
358210 TTGAAGATA
66 TTGAAGATA
* *
358219 TATAACGCCTTAAATGCATGTCCTTTATTTGAAGATATATAACGCCTTAATTAAATGTATGTCCT
1 TATAACGCCTTAAATGCCTGTCCTTTATTTGAAGATATATAACGCC----TTAAATGCATGTCCT
358284 CTATTTGAAGATA
62 CTATTTGAAGATA
*
358297 TATAACGCCTTAAATGCCTGTCCTCTATTT
1 TATAACGCCTTAAATGCCTGTCCTTTATTT
358327 TGAGACACCA
Statistics
Matches: 98, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
74 44 0.45
78 54 0.55
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (74 bp):
TATAACGCCTTAAATGCCTGTCCTTTATTTGAAGATATATAACGCCTTAAATGCATGTCCTCTAT
TTGAAGATA
Found at i:358342 original size:37 final size:37
Alignment explanation
Indices: 358145--358326 Score: 274
Period size: 37 Copynumber: 4.8 Consensus size: 37
358135 GATATACATG
* *
358145 TATAACGCCTTAAATGCCCGTCCTTTATTTGAAGATA
1 TATAACGCCTTAAATGCCTGTCCTCTATTTGAAGATA
358182 TATAACGCCTTAAATGCCTGTCCTCTATTTGAAGATA
1 TATAACGCCTTAAATGCCTGTCCTCTATTTGAAGATA
* *
358219 TATAACGCCTTAAATGCATGTCCTTTATTTGAAGATA
1 TATAACGCCTTAAATGCCTGTCCTCTATTTGAAGATA
**
358256 TATAACGCCTTAATTAAATGTATGTCCTCTATTTGAAGATA
1 TATAACGCC----TTAAATGCCTGTCCTCTATTTGAAGATA
358297 TATAACGCCTTAAATGCCTGTCCTCTATTT
1 TATAACGCCTTAAATGCCTGTCCTCTATTT
358327 TGAGACACCA
Statistics
Matches: 133, Mismatches: 8, Indels: 8
0.89 0.05 0.05
Matches are distributed among these distances:
37 98 0.74
41 35 0.26
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (37 bp):
TATAACGCCTTAAATGCCTGTCCTCTATTTGAAGATA
Found at i:359977 original size:1 final size:1
Alignment explanation
Indices: 359971--360020 Score: 64
Period size: 1 Copynumber: 50.0 Consensus size: 1
359961 AACCATTAAT
* ** *
359971 GGGGGGGGGGGGTGGGGGGGGGGTTGGGGGGGGGTGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
360021 TTGCTGAATT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 43 1.00
ACGTcount: A:0.00, C:0.00, G:0.92, T:0.08
Consensus pattern (1 bp):
G
Found at i:359989 original size:11 final size:11
Alignment explanation
Indices: 359973--360020 Score: 80
Period size: 11 Copynumber: 4.5 Consensus size: 11
359963 CCATTAATGG
359973 GGGGGGGGGGT
1 GGGGGGGGGGT
359984 GGGGGGGGGGT
1 GGGGGGGGGGT
*
359995 TGGGGGGGGGT
1 GGGGGGGGGGT
360006 GGGGGGGGGG-
1 GGGGGGGGGGT
360016 GGGGG
1 GGGGG
360021 TTGCTGAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
10 5 0.14
11 30 0.86
ACGTcount: A:0.00, C:0.00, G:0.92, T:0.08
Consensus pattern (11 bp):
GGGGGGGGGGT
Found at i:360004 original size:25 final size:26
Alignment explanation
Indices: 359970--360019 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
359960 CAACCATTAA
*
359970 TGGGGGGGGG-GGGTGGGGGGGGGGT
1 TGGGGGGGGGTGGGGGGGGGGGGGGT
359995 TGGGGGGGGGTGGGGGGGGGGGGGG
1 TGGGGGGGGGTGGGGGGGGGGGGGG
360020 GTTGCTGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.00, C:0.00, G:0.90, T:0.10
Consensus pattern (26 bp):
TGGGGGGGGGTGGGGGGGGGGGGGGT
Found at i:360009 original size:27 final size:26
Alignment explanation
Indices: 359971--360023 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 26
359961 AACCATTAAT
*
359971 GGGGGGGGGGGGTGGGGGGGGGGTTG
1 GGGGGGGGGGGGGGGGGGGGGGGTTG
359997 GGGGGGGGTGGGGGGGGGGGGGGGTTG
1 GGGGGGGG-GGGGGGGGGGGGGGGTTG
360024 CTGAATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 8 0.32
27 17 0.68
ACGTcount: A:0.00, C:0.00, G:0.89, T:0.11
Consensus pattern (26 bp):
GGGGGGGGGGGGGGGGGGGGGGGTTG
Found at i:361258 original size:17 final size:17
Alignment explanation
Indices: 361236--361333 Score: 151
Period size: 17 Copynumber: 5.6 Consensus size: 17
361226 ATGACAAACC
361236 CCCTCTTCACTGTAAAT
1 CCCTCTTCACTGTAAAT
*
361253 CCCTCTTTACTGTAAAT
1 CCCTCTTCACTGTAAAT
*
361270 CTCTCTCTTTACTGTAAAT
1 C-C-CTCTTCACTGTAAAT
*
361289 CCCTCTTTACTGTAAAT
1 CCCTCTTCACTGTAAAT
361306 CCCTCTTCACTGTAAAT
1 CCCTCTTCACTGTAAAT
361323 CCCTCTTCACT
1 CCCTCTTCACT
361334 AAATTAAATG
Statistics
Matches: 77, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
17 59 0.77
18 2 0.03
19 16 0.21
ACGTcount: A:0.21, C:0.34, G:0.05, T:0.40
Consensus pattern (17 bp):
CCCTCTTCACTGTAAAT
Found at i:361278 original size:36 final size:34
Alignment explanation
Indices: 361236--361329 Score: 161
Period size: 36 Copynumber: 2.7 Consensus size: 34
361226 ATGACAAACC
361236 CCCTCTTCACTGTAAATCCCTCTTTACTGTAAAT
1 CCCTCTTCACTGTAAATCCCTCTTTACTGTAAAT
*
361270 CTCTCTCTTTACTGTAAATCCCTCTTTACTGTAAAT
1 C-C-CTCTTCACTGTAAATCCCTCTTTACTGTAAAT
361306 CCCTCTTCACTGTAAATCCCTCTT
1 CCCTCTTCACTGTAAATCCCTCTT
361330 CACTAAATTA
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
34 22 0.39
35 2 0.04
36 32 0.57
ACGTcount: A:0.21, C:0.33, G:0.05, T:0.40
Consensus pattern (34 bp):
CCCTCTTCACTGTAAATCCCTCTTTACTGTAAAT
Found at i:363358 original size:26 final size:26
Alignment explanation
Indices: 363320--363390 Score: 106
Period size: 26 Copynumber: 2.7 Consensus size: 26
363310 GGTCAAGTTC
*
363320 CACACCTTAAATCAGAATAACATTTA
1 CACACCTTTAATCAGAATAACATTTA
*
363346 CACACCTTTAATCAGAATAACTTTTA
1 CACACCTTTAATCAGAATAACATTTA
* *
363372 CACACCTTTCACCAGAATA
1 CACACCTTTAATCAGAATA
363391 TTTTTACACT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.41, C:0.27, G:0.04, T:0.28
Consensus pattern (26 bp):
CACACCTTTAATCAGAATAACATTTA
Found at i:372038 original size:55 final size:56
Alignment explanation
Indices: 371931--372043 Score: 192
Period size: 55 Copynumber: 2.0 Consensus size: 56
371921 TGAAGAATTT
* * *
371931 TGGTTGTATTTATTGCTTATGTATTTCAGGGGCTACAATTGGTGCCATGACAGAAA
1 TGGTTGTATTTATTACTGATATATTTCAGGGGCTACAATTGGTGCCATGACAGAAA
371987 TGGTTGTATTTATTACTGATATATTTCA-GGGCTACAATTGGTGCCATGACAGAAA
1 TGGTTGTATTTATTACTGATATATTTCAGGGGCTACAATTGGTGCCATGACAGAAA
372042 TG
1 TG
372044 TAGTGACCAT
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
55 29 0.54
56 25 0.46
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.37
Consensus pattern (56 bp):
TGGTTGTATTTATTACTGATATATTTCAGGGGCTACAATTGGTGCCATGACAGAAA
Found at i:375766 original size:37 final size:37
Alignment explanation
Indices: 375713--375985 Score: 372
Period size: 37 Copynumber: 7.4 Consensus size: 37
375703 AACTGCTCGG
** *
375713 TAAGCTACAGCCAATTGTACGTTTATTATCCGTTATA
1 TAAGCTACAGTTAATTGTACGTTTATTATCCGTTGTA
* *
375750 TAAGCTACAGTTAATTGTACGTTTATTATCCGTTATG
1 TAAGCTACAGTTAATTGTACGTTTATTATCCGTTGTA
* * *
375787 TAAGCTTCAGTTAATTG-ATCGTTCATTATCCGCTGT-
1 TAAGCTACAGTTAATTGTA-CGTTTATTATCCGTTGTA
375823 TAAAGCTACAGTTAATTGTACGTTTATTATCCGTTGTA
1 T-AAGCTACAGTTAATTGTACGTTTATTATCCGTTGTA
* *
375861 TAAGCTTCAGTTAATTGCT-CGTTCATTATCCGTTGTA
1 TAAGCTACAGTTAATTG-TACGTTTATTATCCGTTGTA
* *
375898 TAAGCTTCAGTTAATTGTACGTTCATTATCCGTTGTA
1 TAAGCTACAGTTAATTGTACGTTTATTATCCGTTGTA
*
375935 TAAGCTACAGTTAATTTTACGTTTATTATCCGTTGTA
1 TAAGCTACAGTTAATTGTACGTTTATTATCCGTTGTA
*
375972 TAAGCTCCAGTTAA
1 TAAGCTACAGTTAA
375986 CCCGGTTAAC
Statistics
Matches: 214, Mismatches: 16, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
36 3 0.01
37 208 0.97
38 3 0.01
ACGTcount: A:0.26, C:0.16, G:0.15, T:0.42
Consensus pattern (37 bp):
TAAGCTACAGTTAATTGTACGTTTATTATCCGTTGTA
Found at i:376997 original size:113 final size:113
Alignment explanation
Indices: 376813--377063 Score: 353
Period size: 113 Copynumber: 2.2 Consensus size: 113
376803 GTGTACAGAT
* *
376813 TGTGTAACTAAGGTCTTCTATATAGATATATTGAAAAAGAAAGGATAAGTGTACACACTGTGTAA
1 TGTGTAACTAAGGTCTTATATATAGAGATATTGAAAAAGAAAGGATAAGTGTACACACTGTGTAA
*
376878 CTATGTCTGATATATAAATGACCCTGACAAAT-AG-AAGAGTTAAGAC
66 CTATGTCTGATAAATAAATGACCCTGACAAATAAGAAAGAGTTAAGAC
* * * * * *
376924 TGTGTAACTAAGGACATATATATAGAGATTTTGAAAGAGAGAGAGGATAAGTGTACCCGCTGTGT
1 TGTGTAACTAAGGTCTTATATATAGAGATATTGAAA-A-AGAAAGGATAAGTGTACACACTGTGT
*
376989 AAGTATGTCTGATAAATAAATGACCCTGACAAATAGAAGATAAGAGTTAAGAC
64 AACTATGTCTGATAAATAAATGACCCTGACAAAT--AAGA-AAGAGTTAAGAC
377042 TGTGTAACTAAGGTCTTATATA
1 TGTGTAACTAAGGTCTTATATA
377064 CAGTGGCCTT
Statistics
Matches: 121, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
111 31 0.26
112 1 0.01
113 55 0.45
116 2 0.02
118 32 0.26
ACGTcount: A:0.40, C:0.11, G:0.21, T:0.28
Consensus pattern (113 bp):
TGTGTAACTAAGGTCTTATATATAGAGATATTGAAAAAGAAAGGATAAGTGTACACACTGTGTAA
CTATGTCTGATAAATAAATGACCCTGACAAATAAGAAAGAGTTAAGAC
Found at i:379920 original size:39 final size:39
Alignment explanation
Indices: 379866--379975 Score: 193
Period size: 39 Copynumber: 2.8 Consensus size: 39
379856 CACTAAAAAC
*
379866 CAATAACAGGAGGTACGTATATTGTAAAATCATATCACA
1 CAATAACAGGAGGTACGTATATCGTAAAATCATATCACA
379905 CAATAACAGGAGGTACGTATATCGTAAAATCATATCACA
1 CAATAACAGGAGGTACGTATATCGTAAAATCATATCACA
* *
379944 CAATAACAGGAGGAATGTATATCGTAAAATCA
1 CAATAACAGGAGGTACGTATATCGTAAAATCA
379976 CAGCAATGGA
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 68 1.00
ACGTcount: A:0.45, C:0.15, G:0.16, T:0.24
Consensus pattern (39 bp):
CAATAACAGGAGGTACGTATATCGTAAAATCATATCACA
Found at i:380029 original size:57 final size:57
Alignment explanation
Indices: 379941--380283 Score: 476
Period size: 57 Copynumber: 6.1 Consensus size: 57
379931 AAATCATATC
* * *
379941 ACACAATAACAGGAGGAATGTATATCGTAAAATCACAGCAATGGACATCATCCTCTA
1 ACACAATAACAGGAGGAACGTATATCGTAAAACCACAGCAATGGACATCATCCACTA
* *
379998 ACACAATAACAGGAGGAACGTATATCGTAAAACCACAGCAATGGACACCATCCTCTA
1 ACACAATAACAGGAGGAACGTATATCGTAAAACCACAGCAATGGACATCATCCACTA
*
380055 ACACAA-AACAGGAGGTAA-GTATATCGTAAAACCACAGCAATGGACATCATCTACTA
1 ACACAATAACAGGAGG-AACGTATATCGTAAAACCACAGCAATGGACATCATCCACTA
* *
380111 ACACAATAACAGGAGGAACGTATATCGTAAAATCACAGCAATGGACGTCATCCACTA
1 ACACAATAACAGGAGGAACGTATATCGTAAAACCACAGCAATGGACATCATCCACTA
* * * * * * **
380168 ACATACTAACAGGAGGAACATTTATTGTAAAATCACAGCAATAAACATCATCCACTA
1 ACACAATAACAGGAGGAACGTATATCGTAAAACCACAGCAATGGACATCATCCACTA
* * * *
380225 ACACAA-AAAAGTAGGAACGTATATCGTAAAACCATAGCAATGAACATCATCCACTA
1 ACACAATAACAGGAGGAACGTATATCGTAAAACCACAGCAATGGACATCATCCACTA
380281 ACA
1 ACA
380284 GAAAAAACCG
Statistics
Matches: 256, Mismatches: 27, Indels: 7
0.88 0.09 0.02
Matches are distributed among these distances:
56 97 0.38
57 159 0.62
ACGTcount: A:0.44, C:0.22, G:0.15, T:0.19
Consensus pattern (57 bp):
ACACAATAACAGGAGGAACGTATATCGTAAAACCACAGCAATGGACATCATCCACTA
Found at i:380148 original size:113 final size:113
Alignment explanation
Indices: 379941--380288 Score: 468
Period size: 113 Copynumber: 3.1 Consensus size: 113
379931 AAATCATATC
*
379941 ACACAATAACAGGAGGAATGTATATCGTAAAATCACAGCAATGGACATCATCCT-CTAACACAAT
1 ACACAA-AACAGGAGGAACGTATATCGTAAAATCACAGCAATGGACATCAT-CTACTAACACAAT
* *
380005 AACAGGAGGAACGTATATCGTAAAACCACAGCAATGGACACCATCCTCTA
64 AACAGGAGGAACGTATATCGTAAAACCACAGCAATGGACATCATCCACTA
*
380055 ACACAAAACAGGAGGTAA-GTATATCGTAAAACCACAGCAATGGACATCATCTACTAACACAATA
1 ACACAAAACAGGAGG-AACGTATATCGTAAAATCACAGCAATGGACATCATCTACTAACACAATA
* *
380119 ACAGGAGGAACGTATATCGTAAAATCACAGCAATGGACGTCATCCACTA
65 ACAGGAGGAACGTATATCGTAAAACCACAGCAATGGACATCATCCACTA
* * * * * ** *
380168 ACATACTAACAGGAGGAACATTTATTGTAAAATCACAGCAATAAACATCATCCACTAACACAA-A
1 ACACA-AAACAGGAGGAACGTATATCGTAAAATCACAGCAATGGACATCATCTACTAACACAATA
* * * *
380232 AAAGTAGGAACGTATATCGTAAAACCATAGCAATGAACATCATCCACTA
65 ACAGGAGGAACGTATATCGTAAAACCACAGCAATGGACATCATCCACTA
*
380281 ACAGAAAA
1 ACACAAAA
380289 AACCGGGACA
Statistics
Matches: 208, Mismatches: 22, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
112 4 0.02
113 150 0.72
114 54 0.26
ACGTcount: A:0.45, C:0.22, G:0.15, T:0.18
Consensus pattern (113 bp):
ACACAAAACAGGAGGAACGTATATCGTAAAATCACAGCAATGGACATCATCTACTAACACAATAA
CAGGAGGAACGTATATCGTAAAACCACAGCAATGGACATCATCCACTA
Found at i:380228 original size:170 final size:170
Alignment explanation
Indices: 379941--380283 Score: 508
Period size: 170 Copynumber: 2.0 Consensus size: 170
379931 AAATCATATC
* *
379941 ACACAATAACAGGAGGAATGTATATCGTAAAATCACAGCAATGGACATCATCCTCTAACACAATA
1 ACACAATAACAGGAGGAACGTATATCGTAAAATCACAGCAATGGACATCATCCACTAACACAATA
* ** * *
380006 ACAGGAGGAACGTATATCGTAAAACCACAGCAATGGACACCATCCTCTAACACAAAACAGGAGGT
66 ACAGGAGGAACATATATCGTAAAACCACAGCAATAAACACCATCCACTAACACAAAAAAGGAGG-
* *
380071 AA-GTATATCGTAAAACCACAGCAATGGACATCATCTACTA
130 AACGTATATCGTAAAACCACAGCAATGAACATCATCCACTA
* * *
380111 ACACAATAACAGGAGGAACGTATATCGTAAAATCACAGCAATGGACGTCATCCACTAACATACTA
1 ACACAATAACAGGAGGAACGTATATCGTAAAATCACAGCAATGGACATCATCCACTAACACAATA
* * * * *
380176 ACAGGAGGAACATTTATTGTAAAATCACAGCAATAAACATCATCCACTAACACAAAAAAGTAGGA
66 ACAGGAGGAACATATATCGTAAAACCACAGCAATAAACACCATCCACTAACACAAAAAAGGAGGA
*
380241 ACGTATATCGTAAAACCATAGCAATGAACATCATCCACTA
131 ACGTATATCGTAAAACCACAGCAATGAACATCATCCACTA
380281 ACA
1 ACA
380284 GAAAAAACCG
Statistics
Matches: 154, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
169 2 0.01
170 152 0.99
ACGTcount: A:0.44, C:0.22, G:0.15, T:0.19
Consensus pattern (170 bp):
ACACAATAACAGGAGGAACGTATATCGTAAAATCACAGCAATGGACATCATCCACTAACACAATA
ACAGGAGGAACATATATCGTAAAACCACAGCAATAAACACCATCCACTAACACAAAAAAGGAGGA
ACGTATATCGTAAAACCACAGCAATGAACATCATCCACTA
Found at i:380432 original size:16 final size:16
Alignment explanation
Indices: 380411--380441 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
380401 TTAACCTACA
380411 ATTTAAATGTATATAC
1 ATTTAAATGTATATAC
380427 ATTTAAATGTATATA
1 ATTTAAATGTATATA
380442 GACTAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (16 bp):
ATTTAAATGTATATAC
Found at i:409269 original size:21 final size:20
Alignment explanation
Indices: 409240--409912 Score: 612
Period size: 21 Copynumber: 32.1 Consensus size: 20
409230 ATATTCGATC
*
409240 ATTTCCATTTGTATTGTATA
1 ATTTTCATTTGTATTGTATA
* * **
409260 CATATTCATTTGAATAATATA
1 -ATTTTCATTTGTATTGTATA
*
409281 GTTTTCAATTTGTATTGTATA
1 ATTTTC-ATTTGTATTGTATA
* *
409302 ATTTTCCATTTGTATTCTATT
1 ATTTT-CATTTGTATTGTATA
*
409323 ATTTCCATTTGTATTGTATA
1 ATTTTCATTTGTATTGTATA
*
409343 ATTTTCAGTTTGTATTCTATA
1 ATTTTCA-TTTGTATTGTATA
409364 ATTTTCCATTTGTATTGTATA
1 ATTTT-CATTTGTATTGTATA
*
409385 ATTTTCCATTTGTATAATTGTATT
1 ATTTT-CATTTG--T-ATTGTATA
*
409409 ATTTTCAATTTGTATTCTATA
1 ATTTTC-ATTTGTATTGTATA
* *
409430 ATTTTCATTTGCATTCTATA
1 ATTTTCATTTGTATTGTATA
*
409450 ATTTTCAATTTGT-TTTTATA
1 ATTTTC-ATTTGTATTGTATA
409470 ATTTTCCATTTGTATTGTATA
1 ATTTT-CATTTGTATTGTATA
*
409491 ATTTTCAATTTGTATTCTATA
1 ATTTTC-ATTTGTATTGTATA
409512 ATTTTCCATTTGTATTGTATA
1 ATTTT-CATTTGTATTGTATA
409533 ATTTTCATTTGTATTGTATA
1 ATTTTCATTTGTATTGTATA
* *
409553 ATTTTCCATTTGTAGTGTATG
1 ATTTT-CATTTGTATTGTATA
** *
409574 ATTTTCTATTTGTATTCCATT
1 ATTTTC-ATTTGTATTGTATA
* ** *
409595 ATTTTCCATTTGCATTCCATT
1 ATTTT-CATTTGTATTGTATA
* *
409616 ATTTTCCATTTGCATTCTATA
1 ATTTT-CATTTGTATTGTATA
409637 ATATTTCATTTGTATTGTATA
1 AT-TTTCATTTGTATTGTATA
409658 ATTTTCTATTTGTATTGTATAA
1 ATTTTC-ATTTGTATTGTAT-A
* * *
409680 ATATTCATTTGTTTTGTATG
1 ATTTTCATTTGTATTGTATA
* *
409700 ACTTTCTATTTGTATTCTATA
1 ATTTTC-ATTTGTATTGTATA
* * *
409721 GTTTTCCATTTGTATTATTTA
1 ATTTT-CATTTGTATTGTATA
* *
409742 ATTTTCGTTTGTATTATATA
1 ATTTTCATTTGTATTGTATA
*
409762 ATTTTTCATTTGCATTGTATA
1 A-TTTTCATTTGTATTGTATA
* *
409783 AATTTCATTTGTATTTGATATTT
1 ATTTTCATTTGTA-TTG-TA-TA
* *
409806 TTTTTCATTTGTATTCTATA
1 ATTTTCATTTGTATTGTATA
* *
409826 GTTTTCCATTTGTATTCTATA
1 ATTTT-CATTTGTATTGTATA
409847 ATTTTCCATTTGTATTGTATA
1 ATTTT-CATTTGTATTGTATA
* * *
409868 ATTTTTCAATGGTATTGCATA
1 A-TTTTCATTTGTATTGTATA
*
409889 AGTTTCTATTTGTA-TGCTATA
1 ATTTTC-ATTTGTATTG-TATA
409910 ATT
1 ATT
409913 ATACATCACA
Statistics
Matches: 548, Mismatches: 75, Indels: 58
0.80 0.11 0.09
Matches are distributed among these distances:
20 124 0.23
21 369 0.67
22 24 0.04
23 14 0.03
24 17 0.03
ACGTcount: A:0.24, C:0.10, G:0.09, T:0.57
Consensus pattern (20 bp):
ATTTTCATTTGTATTGTATA
Found at i:409733 original size:189 final size:185
Alignment explanation
Indices: 409241--409912 Score: 708
Period size: 189 Copynumber: 3.6 Consensus size: 185
409231 TATTCGATCA
* * * * * * *
409241 TTTCCATTTGTATTGTATACATATTCATTTGAATAATATAGTTTTCAATTTGTATTGTATAATTT
1 TTTCCATTTGCATTCTATA-ATTTTCATTTGTATTATATAATTTTCCATTTGTATTGTATAATTT
* * *
409306 TCCATTTGTATTCTATTATTTCCATTTGTATTGTATAATTTTCAGTTTGTATTCTATAATTTTCC
65 T-CATTTGTATTCTATAATTTCCATTTGTATTCTATAATTTTCA-TTTGTATTATATAATTTTCC
* * *
409371 ATTTGTATTGTATAATTTTCCATTTGTATAATTGTATTATTTTCAATTTGTATTCTATAAT
128 ATTTGTATTGTATAATTTTCTATTTG--T-ATTGTATTATTTTCCATTTGTATTCTATTAT
*
409432 TTT-CATTTGCATTCTATAATTTTCAATTTGT-TTTTATAATTTTCCATTTGTATTGTATAATTT
1 TTTCCATTTGCATTCTATAATTTTC-ATTTGTATTATATAATTTTCCATTTGTATTGTATAATTT
* *
409495 TCAATTTGTATTCTATAATTTTCCATTTGTATTGTATAATTTTCATTTGTATTGTATAATTTTCC
65 TC-ATTTGTATTCTATAA-TTTCCATTTGTATTCTATAATTTTCATTTGTATTATATAATTTTCC
* * ** * *
409560 ATTTGTAGTGTATGATTTTCTATTTGTATTCCATTATTTTCCATTTGCATTCCATTAT
128 ATTTGTATTGTATAATTTTCTATTTGTATTGTATTATTTTCCATTTGTATTCTATTAT
* * *
409618 TTTCCATTTGCATTCTATAATATTTCATTTGTATTGTATAATTTTCTATTTGTATTGTATAAATA
1 TTTCCATTTGCATTCTATAAT-TTTCATTTGTATTATATAATTTTCCATTTGTATTGTAT-AATT
* * * * * *
409683 TTCATTTGTTTTGTATGACTTTCTATTTGTATTCTATAGTTTTCCATTTGTATTATTTAATTTT-
64 TTCATTTGTATTCTAT-AATTTCCATTTGTATTCTATAATTTT-CATTTGTATTATATAATTTTC
* * * * * * *
409747 CGTTTGTATTATATAATTTT-TCATTTGCATTGTATAAATTT-CATTTGTATTTGATATTTT
127 CATTTGTATTGTATAATTTTCT-ATTTGTATTGTATTATTTTCCATTTGTA-TT-CTATTAT
* * * *
409807 TTTTCATTTGTATTCTATAGTTTTCCATTTGTATTCTATAATTTTCCATTTGTATTGTATAATTT
1 TTTCCATTTGCATTCTATAATTTT-CATTTGTATTATATAATTTTCCATTTGTATTGTATAA-TT
* * * *
409872 TTCAATGGTATTGC-ATAAGTTTCTATTTGTATGCTATAATT
64 TTCATTTGTATT-CTATAA-TTTCCATTTGTATTCTATAATT
409913 ATACATCACA
Statistics
Matches: 409, Mismatches: 56, Indels: 34
0.82 0.11 0.07
Matches are distributed among these distances:
186 28 0.07
187 32 0.08
188 100 0.24
189 202 0.49
190 44 0.11
191 3 0.01
ACGTcount: A:0.24, C:0.10, G:0.09, T:0.57
Consensus pattern (185 bp):
TTTCCATTTGCATTCTATAATTTTCATTTGTATTATATAATTTTCCATTTGTATTGTATAATTTT
CATTTGTATTCTATAATTTCCATTTGTATTCTATAATTTTCATTTGTATTATATAATTTTCCATT
TGTATTGTATAATTTTCTATTTGTATTGTATTATTTTCCATTTGTATTCTATTAT
Found at i:409972 original size:20 final size:20
Alignment explanation
Indices: 409947--410097 Score: 135
Period size: 20 Copynumber: 7.5 Consensus size: 20
409937 CGATGCAATT
*
409947 TGAAAATCACAGAATACAAA
1 TGAAAATTACAGAATACAAA
* *
409967 TGAAAATTATAGAATATAAA
1 TGAAAATTACAGAATACAAA
*
409987 TGGAAAA-TATAGAATACAAA
1 T-GAAAATTACAGAATACAAA
410007 TG-AAATTACAGAATACAAA
1 TGAAAATTACAGAATACAAA
* *
410026 TGGAAAATTAAACAATACAAA
1 T-GAAAATTACAGAATACAAA
* * * **
410047 TGAAATTTATACAACGCAAA
1 TGAAAATTACAGAATACAAA
* *
410067 TGGAAAATTATAGAATACAAT
1 T-GAAAATTACAGAATACAAA
410088 TGGAAAATTA
1 T-GAAAATTA
410098 TACAACACAA
Statistics
Matches: 110, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
18 3 0.03
19 14 0.13
20 48 0.44
21 45 0.41
ACGTcount: A:0.57, C:0.08, G:0.12, T:0.23
Consensus pattern (20 bp):
TGAAAATTACAGAATACAAA
Found at i:409994 original size:21 final size:21
Alignment explanation
Indices: 409957--410109 Score: 172
Period size: 21 Copynumber: 7.5 Consensus size: 21
409947 TGAAAATCAC
409957 AGAATACAAAT-GAAAATTAT
1 AGAATACAAATGGAAAATTAT
*
409977 AGAATATAAATGGAAAA-TAT
1 AGAATACAAATGGAAAATTAT
*
409997 AGAATACAAAT-G-AAATTAC
1 AGAATACAAATGGAAAATTAT
*
410016 AGAATACAAATGGAAAATTAA
1 AGAATACAAATGGAAAATTAT
* *
410037 ACAATACAAAT-GAAATTTAT
1 AGAATACAAATGGAAAATTAT
* **
410057 ACAACGCAAATGGAAAATTAT
1 AGAATACAAATGGAAAATTAT
*
410078 AGAATACAATTGGAAAATTAT
1 AGAATACAAATGGAAAATTAT
* *
410099 ACAACACAAAT
1 AGAATACAAAT
410110 AAATATTTAT
Statistics
Matches: 111, Mismatches: 17, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
18 3 0.03
19 14 0.13
20 40 0.36
21 54 0.49
ACGTcount: A:0.58, C:0.08, G:0.11, T:0.23
Consensus pattern (21 bp):
AGAATACAAATGGAAAATTAT
Found at i:410008 original size:40 final size:41
Alignment explanation
Indices: 409957--410135 Score: 186
Period size: 41 Copynumber: 4.4 Consensus size: 41
409947 TGAAAATCAC
*
409957 AGAATACAAATGAAAATTATAGAATATAAATGGAAAA-TAT
1 AGAATACAAATGAAAATTATAGAATACAAATGGAAAATTAT
* *
409997 AGAATACAAATG-AAATTACAGAATACAAATGGAAAATTAA
1 AGAATACAAATGAAAATTATAGAATACAAATGGAAAATTAT
* * * **
410037 ACAATACAAATGAAATTTATACAACGCAAATGGAAAATTAT
1 AGAATACAAATGAAAATTATAGAATACAAATGGAAAATTAT
* * *
410078 AGAATACAATTGGAAAATTATACAACACAAAT--AAATATTTAT
1 AGAATACAAAT-GAAAATTATAGAATACAAATGGAAA-A-TTAT
* *
410120 ACAGTACAAATGAAAA
1 AGAATACAAATGAAAA
410136 AGATCGAATA
Statistics
Matches: 117, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
39 22 0.19
40 28 0.24
41 37 0.32
42 30 0.26
ACGTcount: A:0.58, C:0.08, G:0.11, T:0.23
Consensus pattern (41 bp):
AGAATACAAATGAAAATTATAGAATACAAATGGAAAATTAT
Found at i:410135 original size:62 final size:61
Alignment explanation
Indices: 409947--410135 Score: 188
Period size: 62 Copynumber: 3.1 Consensus size: 61
409937 CGATGCAATT
* * * * * *
409947 TGAAAATCACAGAATACAAAT-GAAAATTATAGAATATAAATGGAAAA--TATAGAATACAAA
1 TGAAAATTACAGAATACAAATGGAAAATTAAACAACACAAAT--AAAATTTATACAATACAAA
* * **
410007 TG-AAATTACAGAATACAAATGGAAAATTAAACAATACAAATGAAATTTATACAACGCAAA
1 TGAAAATTACAGAATACAAATGGAAAATTAAACAACACAAATAAAATTTATACAATACAAA
* * * *
410067 TGGAAAATTATAGAATACAATTGGAAAATTATACAACACAAATAAATATTTATACAGTACAAA
1 T-GAAAATTACAGAATACAAATGGAAAATTAAACAACACAAATAAA-ATTTATACAATACAAA
410130 TGAAAA
1 TGAAAA
410136 AGATCGAATA
Statistics
Matches: 107, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
58 3 0.03
59 17 0.16
60 30 0.28
61 1 0.01
62 42 0.39
63 14 0.13
ACGTcount: A:0.57, C:0.09, G:0.11, T:0.23
Consensus pattern (61 bp):
TGAAAATTACAGAATACAAATGGAAAATTAAACAACACAAATAAAATTTATACAATACAAA
Found at i:417363 original size:48 final size:48
Alignment explanation
Indices: 417274--417661 Score: 251
Period size: 48 Copynumber: 7.6 Consensus size: 48
417264 CACCCTCTAA
* *
417274 ACAACAAATAAAGCATAACTTGCTGTAGTCTGGTGAGAATACAACATTG
1 ACAACAAATAAA-CACAACTTGCTGTAGTCTGGTGAAAATACAACATTG
* * * * *
417323 AAAACAAATAAACACAACTTGCTGAAGTCAGTTGAAAATACAACCTTG
1 ACAACAAATAAACACAACTTGCTGTAGTCTGGTGAAAATACAACATTG
* *
417371 ACAACAAATAAACACACCTTGTTGTAGTCTGGTGAAAATACAACATTG
1 ACAACAAATAAACACAACTTGCTGTAGTCTGGTGAAAATACAACATTG
* * ** *** *** * *
417419 ACAACAAATAAAATACAACCTTGACACAAATATACACAACTTGCTGTGGTGATGTGAAAAT-
1 ACAACAAAT-AAACACAA-CTTG---C---TGT--A-GTC-TG--GTGAAAATACAACATTG
* * *
417480 ACAACCTTAAAAACAAATAAAGTACAACTTGCTGTCA-TCTGGT-ATAATACAACCTTG
1 ACAA---------CAAATAAA-CACAACTTGCTGT-AGTCTGGTGAAAATACAACATTG
* *
417537 ACAACAAATAAACACAATTTGCTGTAGTCTGGTGAGAATACAACATTG
1 ACAACAAATAAACACAACTTGCTGTAGTCTGGTGAAAATACAACATTG
* *
417585 ACAACAAATAAACACAACTTGCTGAAGTCTGGTGAAAATACAACACTG
1 ACAACAAATAAACACAACTTGCTGTAGTCTGGTGAAAATACAACATTG
* *
417633 ACAACAAATAAACATAACTTGCTGAAGTC
1 ACAACAAATAAACACAACTTGCTGTAGTC
417662 ACCTTGACAA
Statistics
Matches: 265, Mismatches: 47, Indels: 55
0.72 0.13 0.15
Matches are distributed among these distances:
46 1 0.00
47 17 0.06
48 172 0.65
49 17 0.06
50 4 0.02
56 7 0.03
57 6 0.02
58 1 0.00
59 3 0.01
60 3 0.01
61 4 0.02
62 10 0.04
63 2 0.01
66 1 0.00
69 7 0.03
70 10 0.04
ACGTcount: A:0.44, C:0.19, G:0.14, T:0.23
Consensus pattern (48 bp):
ACAACAAATAAACACAACTTGCTGTAGTCTGGTGAAAATACAACATTG
Found at i:417450 original size:22 final size:23
Alignment explanation
Indices: 417405--417450 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
417395 TAGTCTGGTG
417405 AAAATACAACATTGACAACAAAT
1 AAAATACAACATTGACAACAAAT
*
417428 AAAATACAACCTTGAC-ACAAAT
1 AAAATACAACATTGACAACAAAT
417450 A
1 A
417451 TACACAACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.59, C:0.20, G:0.04, T:0.17
Consensus pattern (23 bp):
AAAATACAACATTGACAACAAAT
Found at i:417476 original size:70 final size:71
Alignment explanation
Indices: 417357--417507 Score: 198
Period size: 70 Copynumber: 2.1 Consensus size: 71
417347 AAGTCAGTTG
* * * * *
417357 AAAATACAACCTTGACAACAAATAAACACACCTTGTTGTAGTCTGGTGAAAATACAACATTGACA
1 AAAATACAACCTTGACAACAAATAAACACAACTTGCTGTAGTATGGTGAAAATACAACATTAAAA
417422 ACAAAT
66 ACAAAT
* * *
417428 AAAATACAACCTTGAC-ACAAATATACACAACTTGCTGTGGTGAT-GTGAAAATACAACCTTAAA
1 AAAATACAACCTTGACAACAAATAAACACAACTTGCTGTAGT-ATGGTGAAAATACAACATTAAA
417491 AACAAAT
65 AACAAAT
*
417498 AAAGTACAAC
1 AAAATACAAC
417508 TTGCTGTCAT
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
70 53 0.76
71 17 0.24
ACGTcount: A:0.48, C:0.19, G:0.11, T:0.22
Consensus pattern (71 bp):
AAAATACAACCTTGACAACAAATAAACACAACTTGCTGTAGTATGGTGAAAATACAACATTAAAA
ACAAAT
Found at i:417534 original size:95 final size:94
Alignment explanation
Indices: 417430--417924 Score: 594
Period size: 95 Copynumber: 5.3 Consensus size: 94
417420 CAACAAATAA
* * * * * *
417430 AATACAACCTTGAC-ACAAATATACACAACTTGCTGTGGTGATGTGAAAATACAACCTTAAAAAC
1 AATACAACATTGACAACAAATAAACACAACTTGCTGTAGT-CTGTGAAAATACAACCTTGACAAC
*
417494 AAATAAAGTACAACTTGCTGTCA-TCTGGTAT
65 AAATAAA-CACAACTTGCTGT-AGTCTGGTAT
* * * *
417525 AATACAACCTTGACAACAAATAAACACAATTTGCTGTAGTCTGGTGAGAATACAACATTGACAAC
1 AATACAACATTGACAACAAATAAACACAACTTGCTGTAGTCT-GTGAAAATACAACCTTGACAAC
* *
417590 AAATAAACACAACTTGCTGAAGTCTGGTGAA
65 AAATAAACACAACTTGCTGTAGTCTGGT-AT
* * *
417621 AATACAACACTGACAACAAATAAACATAA----CT-T-G-C--TG-AAGT-C-ACCTTGACAACA
1 AATACAACATTGACAACAAATAAACACAACTTGCTGTAGTCTGTGAAAATACAACCTTGACAACA
417674 AATAAACACAACTTGCTGTCA-TCTGGTAT
66 AATAAACACAACTTGCTGT-AGTCTGGTAT
*
417703 AATACAACATTGACAACAAATAAACACAACTTGCTGTAGTCTG-GTATAATACAACCTTGACAAC
1 AATACAACATTGACAACAAATAAACACAACTTGCTGTAGTCTGTG-AAAATACAACCTTGACAAC
417767 AAATAAACACAA-TTAGCTGTAGTCTGGTAT
65 AAATAAACACAACTT-GCTGTAGTCTGGTAT
*
417797 AATACAACATTGACAACAAATAAAGCACAACTTGCTGTAGTCTG-GTATAATACAACCTTGACAA
1 AATACAACATTGACAACAAATAAA-CACAACTTGCTGTAGTCTGTG-AAAATACAACCTTGACAA
417861 CAAATAAACACAACTTGCTGTAGTCTGGTAT
64 CAAATAAACACAACTTGCTGTAGTCTGGTAT
*
417892 AATACAACATTGACAGCAAATAAAGCACAACTT
1 AATACAACATTGACAACAAATAAA-CACAACTT
417925 ACTGAGGTCA
Statistics
Matches: 354, Mismatches: 24, Indels: 44
0.84 0.06 0.10
Matches are distributed among these distances:
82 28 0.08
83 35 0.10
84 2 0.01
85 2 0.01
86 4 0.01
87 1 0.00
88 1 0.00
89 2 0.01
90 2 0.01
91 1 0.00
92 4 0.01
93 4 0.01
94 61 0.17
95 131 0.37
96 76 0.21
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.24
Consensus pattern (94 bp):
AATACAACATTGACAACAAATAAACACAACTTGCTGTAGTCTGTGAAAATACAACCTTGACAACA
AATAAACACAACTTGCTGTAGTCTGGTAT
Found at i:417538 original size:118 final size:119
Alignment explanation
Indices: 417311--417548 Score: 304
Period size: 118 Copynumber: 2.0 Consensus size: 119
417301 GTCTGGTGAG
* *
417311 AATACAACATTGAAAACAAATAAACACAACTTGCTGAAGTCAGTTGAAAATACAACCTTGACAAC
1 AATACAACATTGAAAACAAATAAACACAACTTGCTGAAGTCAGTTGAAAATACAACCTTAAAAAC
* *
417376 AAATAAACACACCTTGTTGTAGTCTGGTGAAAATACAACATTGACAACAAATAA
66 AAATAAACACAACTTGCTGTAGTCTGGTGAAAATACAACATTGACAACAAATAA
* * * ** *
417430 AATACAACCTTG-ACACAAATATACACAACTTGCTGTGGTGA-TGTGAAAATACAACCTTAAAAA
1 AATACAACATTGAAAACAAATAAACACAACTTGCTGAAGTCAGT-TGAAAATACAACCTTAAAAA
* * *
417493 CAAATAAAGTACAACTTGCTGTCA-TCTGGT-ATAATACAACCTTGACAACAAATAA
65 CAAATAAA-CACAACTTGCTGT-AGTCTGGTGAAAATACAACATTGACAACAAATAA
417548 A
1 A
417549 CACAATTTGC
Statistics
Matches: 103, Mismatches: 13, Indels: 7
0.84 0.11 0.06
Matches are distributed among these distances:
117 1 0.01
118 74 0.72
119 27 0.26
120 1 0.01
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.23
Consensus pattern (119 bp):
AATACAACATTGAAAACAAATAAACACAACTTGCTGAAGTCAGTTGAAAATACAACCTTAAAAAC
AAATAAACACAACTTGCTGTAGTCTGGTGAAAATACAACATTGACAACAAATAA
Found at i:417719 original size:47 final size:47
Alignment explanation
Indices: 417665--417924 Score: 443
Period size: 47 Copynumber: 5.5 Consensus size: 47
417655 TGAAGTCACC
417665 TTGACAACAAATAAACACAACTTGCTGTCA-TCTGGTATAATACAACA
1 TTGACAACAAATAAACACAACTTGCTGT-AGTCTGGTATAATACAACA
*
417712 TTGACAACAAATAAACACAACTTGCTGTAGTCTGGTATAATACAACC
1 TTGACAACAAATAAACACAACTTGCTGTAGTCTGGTATAATACAACA
417759 TTGACAACAAATAAACACAA-TTAGCTGTAGTCTGGTATAATACAACA
1 TTGACAACAAATAAACACAACTT-GCTGTAGTCTGGTATAATACAACA
*
417806 TTGACAACAAATAAAGCACAACTTGCTGTAGTCTGGTATAATACAACC
1 TTGACAACAAATAAA-CACAACTTGCTGTAGTCTGGTATAATACAACA
417854 TTGACAACAAATAAACACAACTTGCTGTAGTCTGGTATAATACAACA
1 TTGACAACAAATAAACACAACTTGCTGTAGTCTGGTATAATACAACA
*
417901 TTGACAGCAAATAAAGCACAACTT
1 TTGACAACAAATAAA-CACAACTT
417925 ACTGAGGTCA
Statistics
Matches: 203, Mismatches: 5, Indels: 9
0.94 0.02 0.04
Matches are distributed among these distances:
46 3 0.01
47 147 0.72
48 51 0.25
49 2 0.01
ACGTcount: A:0.42, C:0.20, G:0.13, T:0.25
Consensus pattern (47 bp):
TTGACAACAAATAAACACAACTTGCTGTAGTCTGGTATAATACAACA
Found at i:418122 original size:31 final size:31
Alignment explanation
Indices: 418082--418141 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
418072 ATAAATATTG
* *
418082 TAAGACACAAATAACTCAAGTCTTAACATCC
1 TAAGACACAAAGAACTCAAATCTTAACATCC
*
418113 TAAGTCACAAAGAACTCAAATCTTAACAT
1 TAAGACACAAAGAACTCAAATCTTAACAT
418142 ATTGGGCGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.47, C:0.23, G:0.07, T:0.23
Consensus pattern (31 bp):
TAAGACACAAAGAACTCAAATCTTAACATCC
Found at i:419297 original size:31 final size:30
Alignment explanation
Indices: 419261--419342 Score: 85
Period size: 31 Copynumber: 2.7 Consensus size: 30
419251 TCAAGTCACA
* *
419261 AAGAACTAAAGTCTGAATATTTTAA-TTATC
1 AAGAACTCAAGTCTGAATATTGTAAGTTA-C
* *
419291 ATAGAACTCAAGCCTTAATATTGTAAGTTAC
1 A-AGAACTCAAGTCTGAATATTGTAAGTTAC
*
419322 AATGAACTCAAGTTTGAATAT
1 AA-GAACTCAAGTCTGAATAT
419343 CTTATAATAA
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
30 2 0.05
31 37 0.88
32 3 0.07
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.34
Consensus pattern (30 bp):
AAGAACTCAAGTCTGAATATTGTAAGTTAC
Found at i:419876 original size:39 final size:39
Alignment explanation
Indices: 419800--419880 Score: 117
Period size: 39 Copynumber: 2.1 Consensus size: 39
419790 GATTAAACAC
* **
419800 AGGGAAATGTAGCATTCCTGTGATAACATGGTGTTACCT
1 AGGGAAATGTAGCATTCCTATGATAACATGGCATTACCT
* *
419839 AGGGAAATGTAGCATTCTTATGATAACATTGCATTACCT
1 AGGGAAATGTAGCATTCCTATGATAACATGGCATTACCT
419878 AGG
1 AGG
419881 AAGAGAATTC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (39 bp):
AGGGAAATGTAGCATTCCTATGATAACATGGCATTACCT
Found at i:424315 original size:103 final size:107
Alignment explanation
Indices: 424173--424396 Score: 294
Period size: 108 Copynumber: 2.1 Consensus size: 107
424163 CATTTAATAA
* **
424173 ACATATATCTAATGTATAATCTAATCTAATGTATACAGTCGGGAAAACCGTGCT-G-G-CT-GTA
1 ACATATATCTAATGTATAATCTAATCTAATGCATACAGTCAAGAAAACCGTGCTGGTGTCTAGTA
* * * *
424234 CATATACATTATATATACATGATTTAGATTTTTTGTACATAT
66 CATATACATAACATACACATGATTTAGATTTTCTGTACATAT
* * * *
424276 ACATATATCTAATGTATAATCTAATCTAATGCATGCAGTCAAGAACACGGTGCTGGTGTGTAAGT
1 ACATATATCTAATGTATAATCTAATCTAATGCATACAGTCAAGAAAACCGTGCTGGTGTCT-AGT
424341 ACATATACATAACATACACATGATTTAGATTTTCTGTACATAT
65 ACATATACATAACATACACATGATTTAGATTTTCTGTACATAT
* *
424384 ACTTATATTTAAT
1 ACATATATCTAAT
424397 ATAAACAGAC
Statistics
Matches: 103, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
103 48 0.47
104 1 0.01
105 1 0.01
106 1 0.01
108 52 0.50
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (107 bp):
ACATATATCTAATGTATAATCTAATCTAATGCATACAGTCAAGAAAACCGTGCTGGTGTCTAGTA
CATATACATAACATACACATGATTTAGATTTTCTGTACATAT
Found at i:425573 original size:35 final size:35
Alignment explanation
Indices: 424974--425561 Score: 745
Period size: 35 Copynumber: 16.6 Consensus size: 35
424964 CACTACATGC
* *
424974 GAGATAAAGGTAAGGCCTGATTCAGGGAGTCAGGT
1 GAGAGAAAGGTAAGACCTGATTCAGGGAGTCAGGT
*
425009 GAGAGAAAGGTAAGACCTGATTCAGTGAGTCAGGT
1 GAGAGAAAGGTAAGACCTGATTCAGGGAGTCAGGT
* * *
425044 AAGAGAAAGGTAAGGCCTGATCCAGGGAGTCAGGT
1 GAGAGAAAGGTAAGACCTGATTCAGGGAGTCAGGT
*
425079 GAGAGAAAGGTAAGACCTGATTCAGGGAGTCAGGA
1 GAGAGAAAGGTAAGACCTGATTCAGGGAGTCAGGT
* * *
425114 GAAAGAAAGATAGGACCTGATTCAGGGAGTCAGGT
1 GAGAGAAAGGTAAGACCTGATTCAGGGAGTCAGGT
*
425149 GAGAGAAAGGTAAGACCTGATTTAGGGAGTCAGGT
1 GAGAGAAAGGTAAGACCTGATTCAGGGAGTCAGGT
*
425184 GAGATAAAGAGGTTAA-ACCTGATTCAGGGAGTCAGGT
1 GAGA-GAA-AGG-TAAGACCTGATTCAGGGAGTCAGGT
* * *
425221 GAGATAAAGAGGTTTA-ACCTGATTCAGTGAGTCAGGT
1 GAGA-GAA-AGG-TAAGACCTGATTCAGGGAGTCAGGT
* * * *
425258 GAGAGAAAGATAAGACATGATTCAGTGAGTCAGGA
1 GAGAGAAAGGTAAGACCTGATTCAGGGAGTCAGGT
*
425293 GAAAGAAAGGTAAGACCTGATTCAGGGAGTCAGGT
1 GAGAGAAAGGTAAGACCTGATTCAGGGAGTCAGGT
425328 GAGAGAAAGGTAAGACCTGATTCAGGGAGTCAGGT
1 GAGAGAAAGGTAAGACCTGATTCAGGGAGTCAGGT
* * *
425363 GAGAGAAAGAGGTTAA-ACCTGATT-ATGTGAATCAGGA
1 GAGAG-AA-AGG-TAAGACCTGATTCA-GGGAGTCAGGT
* * *
425400 GAGAGAAAGGTAAGACATGATTCAGTGAGT-ATGGA
1 GAGAGAAAGGTAAGACCTGATTCAGGGAGTCA-GGT
*
425435 GAAAGAAAGGTAAGACCTGATTCAGGGAGTCAGGT
1 GAGAGAAAGGTAAGACCTGATTCAGGGAGTCAGGT
* * * *
425470 GACAGAAAGGTAAGGCCTGATTCAGTGAGTCAGGA
1 GAGAGAAAGGTAAGACCTGATTCAGGGAGTCAGGT
* *
425505 GAGAGAAAGATGAGACCTGATTCAGGGAGTCAGGT
1 GAGAGAAAGGTAAGACCTGATTCAGGGAGTCAGGT
425540 GAGAGAAAGGTAAGACCTGATT
1 GAGAGAAAGGTAAGACCTGATT
425562 TATTGGGTCA
Statistics
Matches: 486, Mismatches: 55, Indels: 24
0.86 0.10 0.04
Matches are distributed among these distances:
34 6 0.01
35 377 0.78
36 11 0.02
37 86 0.18
38 6 0.01
ACGTcount: A:0.36, C:0.11, G:0.34, T:0.19
Consensus pattern (35 bp):
GAGAGAAAGGTAAGACCTGATTCAGGGAGTCAGGT
Found at i:426318 original size:12 final size:12
Alignment explanation
Indices: 426286--426318 Score: 52
Period size: 10 Copynumber: 2.9 Consensus size: 12
426276 TTCATCTGAC
426286 ATGCAGTAATGT
1 ATGCAGTAATGT
426298 ATG--GTAATGT
1 ATGCAGTAATGT
426308 ATGCAGTAATG
1 ATGCAGTAATG
426319 ATAATTTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 10 0.53
12 9 0.47
ACGTcount: A:0.33, C:0.06, G:0.27, T:0.33
Consensus pattern (12 bp):
ATGCAGTAATGT
Found at i:429794 original size:71 final size:71
Alignment explanation
Indices: 429678--429937 Score: 430
Period size: 71 Copynumber: 3.7 Consensus size: 71
429668 GCTGACCTTC
* *
429678 ATACAGAAACCGCAGTACATCCTGCCTTTCCTACAGCCCGGGCGTCTTGTACAGGTAAGTCTATT
1 ATACAGAAACCACAGTACATCCTGCCCTTCCTACAGCCCGGGCGTCTTGTACAGGTAAGTCTATT
429743 GGTCAA
66 GGTCAA
*
429749 ATACAGAAACCACAGTACATCCTGCCCTTCCTACAGCCCAGGCGTCTTGTACAGGTAAGTCTATT
1 ATACAGAAACCACAGTACATCCTGCCCTTCCTACAGCCCGGGCGTCTTGTACAGGTAAGTCTATT
429814 GGTCAA
66 GGTCAA
* * * * *
429820 GTACAGAAATCACAGTACATCCTGCCCTTCCTACAGCCTGGGCATCTAGTACAGGTAAGTCTATT
1 ATACAGAAACCACAGTACATCCTGCCCTTCCTACAGCCCGGGCGTCTTGTACAGGTAAGTCTATT
429885 GGTCAA
66 GGTCAA
* *
429891 ATACAGAAACCACAGTACATCCTGCCCTTCCTACAGCCTGGGTGTCT
1 ATACAGAAACCACAGTACATCCTGCCCTTCCTACAGCCCGGGCGTCT
429938 ACAAATCTGT
Statistics
Matches: 176, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
71 176 1.00
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (71 bp):
ATACAGAAACCACAGTACATCCTGCCCTTCCTACAGCCCGGGCGTCTTGTACAGGTAAGTCTATT
GGTCAA
Found at i:431869 original size:37 final size:37
Alignment explanation
Indices: 431814--432070 Score: 408
Period size: 37 Copynumber: 6.9 Consensus size: 37
431804 GAATCTGTAT
431814 ACACAGTACCAGAGTAAAGCCCAGGTAAATACAGGTC
1 ACACAGTACCAGAGTAAAGCCCAGGTAAATACAGGTC
*
431851 ACACCGTACCAGAGTAAAGCCCAGGTAAATACAGGTC
1 ACACAGTACCAGAGTAAAGCCCAGGTAAATACAGGTC
*
431888 ACACCGTACCAGAGTAAAGCCCAGGTAAATACAGGTC
1 ACACAGTACCAGAGTAAAGCCCAGGTAAATACAGGTC
* * *
431925 ACATAGTACCAGAGTAAAGCCCAGGTAAACACACGTC
1 ACACAGTACCAGAGTAAAGCCCAGGTAAATACAGGTC
*
431962 ACATAGTACCAGAGTAAAGCCCAGGTAAACT-CAGGTC
1 ACACAGTACCAGAGTAAAGCCCAGGTAAA-TACAGGTC
* *
431999 ACGCAGTACCAGAGTAAAGCCCAGGTAAACACAGGTC
1 ACACAGTACCAGAGTAAAGCCCAGGTAAATACAGGTC
* *
432036 ACACACTACCAGAGTAAAGCCCAGGTAAACACAGG
1 ACACAGTACCAGAGTAAAGCCCAGGTAAATACAGG
432071 ACTGATTAAA
Statistics
Matches: 206, Mismatches: 12, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
37 206 1.00
ACGTcount: A:0.39, C:0.26, G:0.21, T:0.13
Consensus pattern (37 bp):
ACACAGTACCAGAGTAAAGCCCAGGTAAATACAGGTC
Done.