Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold354
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: 1097647
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.30
Warning! 124483 characters in sequence are not A, C, G, or T
File 3 of 3
Found at i:469993 original size:21 final size:22
Alignment explanation
Indices: 469916--469993 Score: 74
Period size: 21 Copynumber: 3.7 Consensus size: 22
469906 AATAATATTT
* **
469916 TCTGACAA-GTCGACATAAGGA
1 TCTGACAAGGACGACATAATTA
*
469937 TCTGACAA-GTCGACATAATTA
1 TCTGACAAGGACGACATAATTA
*
469958 TCTGACAAGTA-GACATAATTA
1 TCTGACAAGGACGACATAATTA
*
469979 TTTGAC-AGGACGACA
1 TCTGACAAGGACGACA
469994 AAACATCTGA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
20 3 0.06
21 46 0.94
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.24
Consensus pattern (22 bp):
TCTGACAAGGACGACATAATTA
Found at i:470150 original size:42 final size:42
Alignment explanation
Indices: 470087--470171 Score: 143
Period size: 42 Copynumber: 2.0 Consensus size: 42
470077 ATTTTCTTTC
* *
470087 TGTCAGATGATTATGTTAACTTGTCAGATCTGTATGTCGACT
1 TGTCAGATGATTATGTAAACTTGTCAGATATGTATGTCGACT
*
470129 TGTCAGATGATTATGTAAACTTGTCAGATATTTATGTCGACT
1 TGTCAGATGATTATGTAAACTTGTCAGATATGTATGTCGACT
470171 T
1 T
470172 ATATGATATT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.26, C:0.13, G:0.20, T:0.41
Consensus pattern (42 bp):
TGTCAGATGATTATGTAAACTTGTCAGATATGTATGTCGACT
Found at i:470171 original size:21 final size:21
Alignment explanation
Indices: 470087--470171 Score: 93
Period size: 21 Copynumber: 4.0 Consensus size: 21
470077 ATTTTCTTTC
*
470087 TGTCAGATGATTATGTTAACT
1 TGTCAGATGATTATGTCAACT
* *
470108 TGTCAGAT-CTGTATGTCGACT
1 TGTCAGATGAT-TATGTCAACT
*
470129 TGTCAGATGATTATGTAAACT
1 TGTCAGATGATTATGTCAACT
*
470150 TGTCAGAT-ATTTATGTCGACT
1 TGTCAGATGA-TTATGTCAACT
470171 T
1 T
470172 ATATGATATT
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
20 2 0.04
21 50 0.94
22 1 0.02
ACGTcount: A:0.26, C:0.13, G:0.20, T:0.41
Consensus pattern (21 bp):
TGTCAGATGATTATGTCAACT
Found at i:470305 original size:21 final size:21
Alignment explanation
Indices: 470266--470323 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
470256 ATGGTTATTT
* *
470266 TCTGACAAGTCAACTTAAAGA
1 TCTGACAAGTCGACATAAAGA
* *
470287 TCTGACAAGTTGACATAAATA
1 TCTGACAAGTCGACATAAAGA
*
470308 TTTGACAAGTCGACAT
1 TCTGACAAGTCGACAT
470324 TATCATATGA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.28
Consensus pattern (21 bp):
TCTGACAAGTCGACATAAAGA
Found at i:470448 original size:21 final size:21
Alignment explanation
Indices: 470424--470515 Score: 112
Period size: 21 Copynumber: 4.4 Consensus size: 21
470414 CGTGAATAAG
*
470424 TGACAAGTCCACATAAAGATC
1 TGACAAGTCGACATAAAGATC
* **
470445 TGACAAGTCAACATAATTATC
1 TGACAAGTCGACATAAAGATC
*
470466 TGACAAGTCGACATCAAGATC
1 TGACAAGTCGACATAAAGATC
** *
470487 TGACAAGTCGACATGGATATC
1 TGACAAGTCGACATAAAGATC
470508 TGACAAGT
1 TGACAAGT
470516 GGTGGCAGAA
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 61 1.00
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (21 bp):
TGACAAGTCGACATAAAGATC
Found at i:470471 original size:42 final size:42
Alignment explanation
Indices: 470424--470515 Score: 132
Period size: 42 Copynumber: 2.2 Consensus size: 42
470414 CGTGAATAAG
470424 TGACAAGTCCACATAAAGATCTGACAAGTCAACAT-AATTATC
1 TGACAAGTCCACATAAAGATCTGACAAGTCAACATGAA-TATC
* * * *
470466 TGACAAGTCGACATCAAGATCTGACAAGTCGACATGGATATC
1 TGACAAGTCCACATAAAGATCTGACAAGTCAACATGAATATC
470508 TGACAAGT
1 TGACAAGT
470516 GGTGGCAGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 44 0.98
43 1 0.02
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (42 bp):
TGACAAGTCCACATAAAGATCTGACAAGTCAACATGAATATC
Found at i:471498 original size:2 final size:2
Alignment explanation
Indices: 471491--471543 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
471481 ACAGTGTATC
471491 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
471533 CT CT CT CT CT C
1 CT CT CT CT CT C
471544 ATGTCTCATT
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:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:473212 original size:2 final size:2
Alignment explanation
Indices: 473205--473246 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
473195 ACAACAACTA
* *
473205 TC TC TC TC TC TT TC TC TC TC TC TC T- TT 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
473246 T
1 T
473247 TAATGAATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (2 bp):
TC
Found at i:475303 original size:2 final size:2
Alignment explanation
Indices: 475296--475341 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
475286 GTATATGGTT
475296 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
475338 TC TC
1 TC TC
475342 GCTTACGCAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:480789 original size:14 final size:16
Alignment explanation
Indices: 480761--480797 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
480751 TGCTTACCTT
480761 TTAATATTTTATTTTG
1 TTAATATTTTATTTTG
480777 TTAAT-TTTT-TTTTG
1 TTAATATTTTATTTTG
*
480791 TTCATAT
1 TTAATAT
480798 AACAGCATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 9 0.47
15 5 0.26
16 5 0.26
ACGTcount: A:0.22, C:0.03, G:0.05, T:0.70
Consensus pattern (16 bp):
TTAATATTTTATTTTG
Found at i:494009 original size:79 final size:79
Alignment explanation
Indices: 493878--494035 Score: 316
Period size: 79 Copynumber: 2.0 Consensus size: 79
493868 AATAGAAGCA
493878 GATGATCTTGACACCGAGTGGATTTCGTAATTCGACATTTTAAAATCTAAAAAGTAAAAAGTAAT
1 GATGATCTTGACACCGAGTGGATTTCGTAATTCGACATTTTAAAATCTAAAAAGTAAAAAGTAAT
493943 GCAACTGTCAAAAT
66 GCAACTGTCAAAAT
493957 GATGATCTTGACACCGAGTGGATTTCGTAATTCGACATTTTAAAATCTAAAAAGTAAAAAGTAAT
1 GATGATCTTGACACCGAGTGGATTTCGTAATTCGACATTTTAAAATCTAAAAAGTAAAAAGTAAT
494022 GCAACTGTCAAAAT
66 GCAACTGTCAAAAT
494036 ATAGAATGCT
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 79 1.00
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (79 bp):
GATGATCTTGACACCGAGTGGATTTCGTAATTCGACATTTTAAAATCTAAAAAGTAAAAAGTAAT
GCAACTGTCAAAAT
Found at i:499521 original size:20 final size:20
Alignment explanation
Indices: 499492--499529 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
499482 AGGCTTATTA
*
499492 TGAAATTCTGTTTTGAATTT
1 TGAAAATCTGTTTTGAATTT
499512 TGAAAATCTGTTTTGAAT
1 TGAAAATCTGTTTTGAAT
499530 CCAAGTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.05, G:0.16, T:0.50
Consensus pattern (20 bp):
TGAAAATCTGTTTTGAATTT
Found at i:517552 original size:13 final size:12
Alignment explanation
Indices: 517534--517559 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
517524 TAGGGAAAAT
517534 TGTTTTTACAAA
1 TGTTTTTACAAA
517546 TGTTTTTACAAA
1 TGTTTTTACAAA
517558 TG
1 TG
517560 CACAAGTGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.08, G:0.12, T:0.50
Consensus pattern (12 bp):
TGTTTTTACAAA
Found at i:518010 original size:23 final size:23
Alignment explanation
Indices: 517965--518010 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
517955 TCATATACAG
* *
517965 TATGCATGTATTTAATGTATGAT
1 TATGCATGTATCTAATGAATGAT
517988 TATGCATGTA-CTAATGAACTGAT
1 TATGCATGTATCTAATGAA-TGAT
518011 GACTGTTGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.41
Consensus pattern (23 bp):
TATGCATGTATCTAATGAATGAT
Found at i:529983 original size:14 final size:15
Alignment explanation
Indices: 529964--529994 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
529954 CCGCGTTTTT
529964 AATAAAAAAAAA-AA
1 AATAAAAAAAAATAA
529978 AATAAAAAAAAATAA
1 AATAAAAAAAAATAA
529993 AA
1 AA
529995 CTGGACTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (15 bp):
AATAAAAAAAAATAA
Found at i:537240 original size:4 final size:4
Alignment explanation
Indices: 537231--537313 Score: 71
Period size: 4 Copynumber: 20.0 Consensus size: 4
537221 TGAGTTGCAT
* *
537231 ATTG ATTG ATTG ATTG ATTG AAAT- ATTG TTTG AATT- ATTG ATTG ATTG
1 ATTG ATTG ATTG ATTG ATTG -ATTG ATTG ATTG -ATTG ATTG ATTG ATTG
* *
537279 ATTTC ATTG ATTG ATTC ATCTTG ATTG ATTG ATTG
1 A-TTG ATTG ATTG ATTG A--TTG ATTG ATTG ATTG
537314 TTTGGTTCAT
Statistics
Matches: 64, Mismatches: 8, Indels: 14
0.74 0.09 0.16
Matches are distributed among these distances:
3 5 0.08
4 49 0.77
5 7 0.11
6 3 0.05
ACGTcount: A:0.27, C:0.04, G:0.19, T:0.51
Consensus pattern (4 bp):
ATTG
Found at i:537304 original size:14 final size:13
Alignment explanation
Indices: 537271--537308 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
537261 TGAATTATTG
537271 ATTGATTGATTTC
1 ATTGATTGATTTC
537284 ATTGATTGA-TTC
1 ATTGATTGATTTC
537296 ATCTTGATTGATT
1 A--TTGATTGATT
537309 GATTGTTTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 4 0.18
13 9 0.41
14 8 0.36
15 1 0.05
ACGTcount: A:0.24, C:0.08, G:0.16, T:0.53
Consensus pattern (13 bp):
ATTGATTGATTTC
Found at i:558735 original size:16 final size:16
Alignment explanation
Indices: 558698--558751 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
558688 GACCCGTCTT
*
558698 GGCCGAGGTGTC-CTG
1 GGCCGAGGTGTCGTTG
*
558713 GGACCGAAGTGTCGTTG
1 GG-CCGAGGTGTCGTTG
558730 GGCCGAGGTGTCGTTG
1 GGCCGAGGTGTCGTTG
558746 GGCCGA
1 GGCCGA
558752 CATGTCTGAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
15 2 0.06
16 28 0.82
17 4 0.12
ACGTcount: A:0.11, C:0.22, G:0.46, T:0.20
Consensus pattern (16 bp):
GGCCGAGGTGTCGTTG
Found at i:558757 original size:16 final size:16
Alignment explanation
Indices: 558722--558757 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
558712 GGGACCGAAG
**
558722 TGTCGTTGGGCCGAGG
1 TGTCGTTGGGCCGACA
558738 TGTCGTTGGGCCGACA
1 TGTCGTTGGGCCGACA
558754 TGTC
1 TGTC
558758 TGACATTCAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.08, C:0.22, G:0.42, T:0.28
Consensus pattern (16 bp):
TGTCGTTGGGCCGACA
Found at i:573486 original size:123 final size:119
Alignment explanation
Indices: 573289--573509 Score: 338
Period size: 123 Copynumber: 1.8 Consensus size: 119
573279 ATTCCTATGT
573289 AAAAATTCATCCCCCCATTGTGGCCCCACCCCCTGGGGACCATGATTCAAACAAACTTGAATCTT
1 AAAAATTCATCCCCCCATTGTGGCCCCACCCCCTGGGGACCATGATTCAAACAAACTTGAATCTT
573354 CACTATCTGAGGATGCCTT-CACAGAAAATTGAGCTTCTCTATATATTTCTAAGC
66 CACTATCTGAGGATG-CTTCCACAGAAAATTGAGCTTCTCTATATATTTCTAAGC
* * *
573408 AAAAATTCATCCCCCCCAATTGTGGCCCACCCTACCCCTGGGGACCATGATTTATA-AAACTTGA
1 AAAAATTCAT-CCCCCC-ATTGTGGCCC-CAC--CCCCTGGGGACCATGATTCAAACAAACTTGA
*
573472 ATCTTCACTATCTGAGGATGCTTCCCCAGAAAATTGAG
61 ATCTTCACTATCTGAGGATGCTTCCACAGAAAATTGAG
573510 TTTTTCTGGT
Statistics
Matches: 92, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
119 10 0.11
120 6 0.07
121 10 0.11
122 5 0.05
123 41 0.45
124 20 0.22
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (119 bp):
AAAAATTCATCCCCCCATTGTGGCCCCACCCCCTGGGGACCATGATTCAAACAAACTTGAATCTT
CACTATCTGAGGATGCTTCCACAGAAAATTGAGCTTCTCTATATATTTCTAAGC
Found at i:574028 original size:163 final size:161
Alignment explanation
Indices: 573421--574035 Score: 660
Period size: 162 Copynumber: 3.8 Consensus size: 161
573411 AATTCATCCC
** * * *
573421 CCCCAATTGTGG-CCCACCCTACCCCTGGGGACCATGATTT-ATAAAACTTGAATCTTCACTATC
1 CCCC-ATTGTGGCCCCACCCTACCCCCAGGGACCATGATTTGA-AAAACTTAAATCTACACTACC
* * * * *
573484 TGAGGATGCTTCCCCAGA-AAATTGAGTTTTTCTGGTCTAATAGTTTTTGAGAAGAAGATTTATA
64 TGAGGATGCTT--CCA-ACAATTTGAGCTTTTCTGGCCAAATAGTTTTTGAGAAGAAGATTTTTA
* * *
573548 AAGATTTTCTCTTTATAATCTTATGCAAAAATCCAT
126 AAGATTTTCTCTATATATTCTTATGTAAAAATCCAT
* * * * *
573584 CCCCCATTGTGGCCCCACCCTACCTCCAAGGACCATGATTTAAACAAACTTAAATCTACATTATC
1 -CCCCATTGTGGCCCCACCCTACCCCCAGGGACCATGATTTGAA-AAACTTAAATCTACACTACC
** * * *
573649 TGAGGATGCTTCAGCTCCAA---GAGCTTTTCTGACCTAATAGTTTTTGA-ATAGAAGATTTTAA
64 TGAGGATGCTTC--CAACAATTTGAGCTTTTCTGGCCAAATAGTTTTTGAGA-AGAAGATTTTTA
**
573710 AAGATTTTCTCTATATATT-TCTATGTAAAAATTTAT
126 AAGATTTTCTCTATATATTCT-TATGTAAAAATCCAT
573746 CCCCATTTGTGGCCCCACCCTACCCCCAGGGACCATGATTTGGAAAAACTTAAATCTACGAC-AC
1 CCCCA-TTGTGGCCCCACCCTACCCCCAGGGACCATGATTT-GAAAAACTTAAATCTAC-ACTAC
* * *
573810 CTAAGGATGCTTCTGC-TCTAATTTGAGCTATTCTGGCCAAATAGTTTTT-AGAAGAAGATTTTT
63 CTGAGGATGCTTC--CAAC-AATTTGAGCTTTTCTGGCCAAATAGTTTTTGAGAAGAAGATTTTT
*
573873 AAAGATTTTCT-TGATATATTCTTATGTAAACATCCAT
125 AAAGATTTTCTCT-ATATATTCTTATGTAAAAATCCAT
* * * *
573910 CCCCATTGTGTCCCCACCCTACCCCCAGGGACCATGATTTGAACAAATTTGAATTTACACTACCT
1 CCCCATTGTGGCCCCACCCTACCCCCAGGGACCATGATTTGAA-AAACTTAAATCTACACTACCT
*
573975 GAGGATGCTTCCAACAATTTACAGCTTTTCTGGCCAAATAGTTTTTGAGAAGAAGATTTTT
65 GAGGATGCTTCCAACAATTT-GAGCTTTTCTGGCCAAATAGTTTTTGAGAAGAAGATTTTT
574036 GAAAAATACC
Statistics
Matches: 386, Mismatches: 42, Indels: 47
0.81 0.09 0.10
Matches are distributed among these distances:
161 14 0.04
162 156 0.40
163 85 0.22
164 75 0.19
165 56 0.15
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (161 bp):
CCCCATTGTGGCCCCACCCTACCCCCAGGGACCATGATTTGAAAAACTTAAATCTACACTACCTG
AGGATGCTTCCAACAATTTGAGCTTTTCTGGCCAAATAGTTTTTGAGAAGAAGATTTTTAAAGAT
TTTCTCTATATATTCTTATGTAAAAATCCAT
Found at i:575022 original size:32 final size:33
Alignment explanation
Indices: 574977--575057 Score: 110
Period size: 36 Copynumber: 2.4 Consensus size: 33
574967 TTTTTCCCCC
574977 ATAGTAGCTTTTCCCCCC-GGAAAACCTACTAT
1 ATAGTAGCTTTTCCCCCCGGGAAAACCTACTAT
* *
575009 ATAGTAGCCTTTCCCCCCGGGGGGAAAAGCTACTAT
1 ATAGTAGCTTTTCCCCCC---GGGAAAACCTACTAT
575045 ATAGTAGCTTTTC
1 ATAGTAGCTTTTC
575058 TCCCATAGTA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
32 17 0.40
36 25 0.60
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (33 bp):
ATAGTAGCTTTTCCCCCCGGGAAAACCTACTAT
Found at i:575067 original size:17 final size:17
Alignment explanation
Indices: 575045--575078 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
575035 AAGCTACTAT
*
575045 ATAGTAGCTTTTCTCCC
1 ATAGTAGCATTTCTCCC
*
575062 ATAGTAGGATTTCTCCC
1 ATAGTAGCATTTCTCCC
575079 TAACGTTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.38
Consensus pattern (17 bp):
ATAGTAGCATTTCTCCC
Found at i:576505 original size:166 final size:166
Alignment explanation
Indices: 576184--577255 Score: 1454
Period size: 166 Copynumber: 6.5 Consensus size: 166
576174 AAAGAATCAT
* * *
576184 CTGGCCGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTAAAACT
1 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCATATGTTAAAC-
* ** *
576249 TTTAAC-ACCCCCCAATGTGGCCCCACCCTA--CCC---NATCATTATTTTCACAACTTTGAATC
65 -TT--CGACCCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATTTTCACAACTTTGAATC
*
576308 TACACTACCTGAGGATGCTTTCACACAAGTTTCAGCTTTC
127 TACACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTC
* * * * * *
576348 CTGGCTGATTAGTTTCTGAAAAGAAGATTTTTAAAGATTTAATATGTTTATTCCTATG-TAAACC
1 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCATATGTTAAA-C
* * * * * *
576412 ATCGACCTCCCATTGTGGCCCAAACCTACCCCCAGGGGTCATGATTTTCACAAATTTGAATCTAC
65 TTCGACCCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATTTTCACAACTTTGAATCTAC
* *
576477 ACTACCCGAGGATGCTTCCACACAAGTTTCAGTTTTC
130 ACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTC
* *
576514 CTGGCTG----GTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATAATAATATGTTAAACT
1 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCATATGTTAAACT
*
576575 TCGACCCCCCATTGTGGCCCCACCCTACCCCTGGGGGTCATGATTTTCACAACTTTGAATCTACA
66 TCGACCCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATTTTCACAACTTTGAATCTACA
* * *
576640 CTACCTGAGGATGCTTCCACACAAGTTCCAGGATTGC
131 CTACCTGAGGATGCTTCCACACAAGTTTCA-GCTTTC
* * * *
576677 C-GGCGGATTAGTTTCAGAGAAGAAGATTTTTAAAGATTTACTGTATATATTCCTATGTTAAACT
1 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCATATGTTAAACT
* *
576741 TCGACCCCCCATTGTGGCCCCACCCTACCCCTGGGGGGTCATGATTTTCACAACTTTGAAT-T-T
66 TCGACCCCCCATTGTGGCCCCACCCTACCCC-CGGGGGTCATGATTTTCACAACTTTGAATCTAC
* *
576804 AC-A-CT----ATGCATCCACACAAGTCTCAGCTTTC
130 ACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTC
* * * * *
576835 CTGGCAGATTAGTTTCTGAGAAGAATATTTTTAAAGATTTACTTTTTATATTCATATGTTTAACT
1 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCATATGTTAAACT
*
576900 TCGA-CCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATTTTCGCAACTTTGAATCTACA
66 TCGACCCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATTTTCACAACTTTGAATCTACA
576964 CTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTC
131 CTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTC
* * *
577000 CTGGCTGTTTGGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCATTTGTTAAACT
1 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCATATGTTAAACT
577065 TCGA-CCCCCATTGTGGCCCCACCCTACCCCCGGGGGGTCATGATTTTCACAACTTTGAATCTAC
66 TCGACCCCCCATTGTGGCCCCACCCTACCCCC-GGGGGTCATGATTTTCACAACTTTGAATCTAC
577129 ACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTC
130 ACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTC
* * * *
577166 CTGGCCGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACT-TTTCATATTCGTTTGTTAAAC
1 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTAT-ATATTCATATGTTAAAC
577230 TTCGA-CCCCCATTGTGGCCCCACCCT
65 TTCGACCCCCCATTGTGGCCCCACCCT
577256 CAGGTGAGCT
Statistics
Matches: 806, Mismatches: 77, Indels: 48
0.87 0.08 0.05
Matches are distributed among these distances:
157 27 0.03
158 32 0.04
159 79 0.10
160 2 0.00
161 22 0.03
162 132 0.16
163 17 0.02
164 54 0.07
165 116 0.14
166 297 0.37
167 28 0.03
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (166 bp):
CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCATATGTTAAACT
TCGACCCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATTTTCACAACTTTGAATCTACA
CTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTC
Found at i:576983 original size:324 final size:325
Alignment explanation
Indices: 576184--577255 Score: 1395
Period size: 324 Copynumber: 3.3 Consensus size: 325
576174 AAAGAATCAT
* *
576184 CTGGCCGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTAAAACT
1 CTGGCCGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCATATGTTAAAC-
* ** *
576249 TTTAAC-ACCCCCCAATGTGGCCCCACCCTA--CCC---NATCATTATTTTCACAACTTTGAATC
65 -TT--CGACCCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATTTTCACAACTTTGAATC
* *
576308 TACACTACCTGAGGATGCTTTCACACAAGTTTCAGCTTTCCTGGCTGATTAGTTTCTGAAAAGAA
127 TACACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTCCTGGCTGATTAGTTTCTGAGAAGAA
* * * * * * *
576373 GATTTTTAAAGATTTAATATGTTTATTCCTATG-TAAACCATCGACCTCCCATTGTGGCCCAAAC
192 GATTTTTAAAGATTTACTATATATATTCCTATGTTAAA-CTTCGACCCCCCATTGTGGCCCCACC
** * *
576437 CTACCCCCAGGGGTCATGATTTTCACAAATTTGAATCTACACTACCCGAGGATGCTTCCACACAA
256 CTACCCCGGGGGGTCATGATTTTCACAACTTTGAATTTACACT-------GATGCTTCCACACAA
*
576502 GTTTCAGTTTTC
314 GTTTCAGCTTTC
* * *
576514 CTGG-C---TGGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATAATAATATGTTAAACT
1 CTGGCCGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCATATGTTAAACT
*
576575 TCGACCCCCCATTGTGGCCCCACCCTACCCCTGGGGGTCATGATTTTCACAACTTTGAATCTACA
66 TCGACCCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATTTTCACAACTTTGAATCTACA
* * * * *
576640 CTACCTGAGGATGCTTCCACACAAGTTCCAGGATTGCC-GGCGGATTAGTTTCAGAGAAGAAGAT
131 CTACCTGAGGATGCTTCCACACAAGTTTCA-GCTTTCCTGGCTGATTAGTTTCTGAGAAGAAGAT
*
576704 TTTTAAAGATTTACTGTATATATTCCTATGTTAAACTTCGACCCCCCATTGTGGCCCCACCCTAC
195 TTTTAAAGATTTACTATATATATTCCTATGTTAAACTTCGACCCCCCATTGTGGCCCCACCCTAC
* *
576769 CCCTGGGGGGTCATGATTTTCACAACTTTGAATTTACACT-ATGCATCCACACAAGTCTCAGCTT
260 CCC-GGGGGGTCATGATTTTCACAACTTTGAATTTACACTGATGCTTCCACACAAGTTTCAGCTT
576833 TC
324 TC
* * * * *
576835 CTGGCAGATTAGTTTCTGAGAAGAATATTTTTAAAGATTTACTTTTTATATTCATATGTTTAACT
1 CTGGCCGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCATATGTTAAACT
*
576900 TCGA-CCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATTTTCGCAACTTTGAATCTACA
66 TCGACCCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATTTTCACAACTTTGAATCTACA
* *
576964 CTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTCCTGGCTGTTTGGTTTCTGAGAAGAAGATT
131 CTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTCCTGGCTGATTAGTTTCTGAGAAGAAGATT
* * *
577029 TTTAAAGATTTACTCTATATATTCATTTGTTAAACTTCGA-CCCCCATTGTGGCCCCACCCTACC
196 TTTAAAGATTTACTATATATATTCCTATGTTAAACTTCGACCCCCCATTGTGGCCCCACCCTA-C
*
577093 CCCGGGGGGTCATGATTTTCACAACTTTGAATCTACACTACCTGAGGATGCTTCCACACAAGTTT
260 CCCGGGGGGTCATGATTTTCACAACTTTGAAT-T-TAC-A-CT---GATGCTTCCACACAAGTTT
577158 CAGCTTTC
318 CAGCTTTC
* * *
577166 CTGGCCGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACT-TTTCATATTCGTTTGTTAAAC
1 CTGGCCGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTAT-ATATTCATATGTTAAAC
577230 TTCGA-CCCCCATTGTGGCCCCACCCT
65 TTCGACCCCCCATTGTGGCCCCACCCT
577256 CAGGTGAGCT
Statistics
Matches: 658, Mismatches: 60, Indels: 47
0.86 0.08 0.06
Matches are distributed among these distances:
321 27 0.04
322 1 0.00
323 79 0.12
324 154 0.23
325 57 0.09
326 51 0.08
327 2 0.00
328 133 0.20
329 42 0.06
330 7 0.01
331 105 0.16
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (325 bp):
CTGGCCGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCATATGTTAAACT
TCGACCCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATTTTCACAACTTTGAATCTACA
CTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTCCTGGCTGATTAGTTTCTGAGAAGAAGATT
TTTAAAGATTTACTATATATATTCCTATGTTAAACTTCGACCCCCCATTGTGGCCCCACCCTACC
CCGGGGGGTCATGATTTTCACAACTTTGAATTTACACTGATGCTTCCACACAAGTTTCAGCTTTC
Found at i:577127 original size:490 final size:484
Alignment explanation
Indices: 576184--577255 Score: 1527
Period size: 490 Copynumber: 2.2 Consensus size: 484
576174 AAAGAATCAT
*
576184 CTGGCCGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTAAAACT
1 CTGGCCGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACT-TATATATTCCTATGTTAAAC-
* * *
576249 TTTAAC-ACCCCCCAATGTGGCCCCACCCTACCCNATCATTATTTTCACAACTTTGAATCTACAC
64 -TT--CGACCCCCCATTGTGGCCCCACCCTACCCGATCATGATTTTCACAACTTTGAATCTACAC
* * *
576313 TACCTGAGGATGCTTTCACACAAGTTTCAGCTTTCCTGGCTGATTAGTTTCTGAAAAGAAGATTT
126 TA-CT-AGCATGC--TCACACAAGTCTCAGCTTTCCTGGCAGATTAGTTTCTGAAAAGAAGATTT
*
576378 TTAAAGATTTAATATGTTTATTCCTATGTAAACCATCGACCTCCCATTGTGGCCCAAACCTACCC
187 TTAAAGATTTAATATGTTTATTCATATGTAAACCATCGACCTCCCATTGTGGCCCAAACCTACCC
576443 CCAGGGGTCATGATTTTCACAAATTTGAATCTACACTACCCGAGGATGCTTCCACACAAGTTTCA
252 CCAGGGGTCATGATTTTCACAAATTTGAATCTACACTACCCGAGGATGCTTCCACACAAGTTTCA
*
576508 GTTTTCCTGGCTGGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATAATAATATGTTAAA
317 GCTTTCCTGGCTGGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATAATAATATGTTAAA
*
576573 CTTCGACCCCCCATTGTGGCCCCACCCTACCCCTGGGGGTCATGATTTTCACAACTTTGAATCTA
382 CTTCGACCCCCCATTGTGGCCCCACCCTACCCCGGGGGGTCATGATTTTCACAACTTTGAATCTA
576638 CACTACCTGAGGATGCTTCCACACAAGTTCCAGGATTGC
447 CACTACCTGAGGATGCTTCCACACAAGTTCCA-GATTGC
* *
576677 C-GGCGGATTAGTTTCAGAGAAGAAGATTTTTAAAGATTTACTGTATATATTCCTATGTTAAACT
1 CTGGCCGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACT-TATATATTCCTATGTTAAACT
* *
576741 TCGACCCCCCATTGTGGCCCCACCCTACCCCTGGGGGGTCATGATTTTCACAACTTTGAATTTAC
65 TCGACCCCCCATTGTGGCCCCACCCTA-CCC-----GATCATGATTTTCACAACTTTGAATCTAC
* *
576806 ACTA-T-GCAT-C-CACACAAGTCTCAGCTTTCCTGGCAGATTAGTTTCTGAGAAGAATATTTTT
124 ACTACTAGCATGCTCACACAAGTCTCAGCTTTCCTGGCAGATTAGTTTCTGAAAAGAAGATTTTT
* * * * * *
576867 AAAGATTTACT-TTTTATATTCATATGTTTAA-CTTCGACC-CCCATTGTGGCCCCACCCTACCC
189 AAAGATTTAATATGTT-TATTCATATG-TAAACCATCGACCTCCCATTGTGGCCCAAACCTACCC
* * * *
576929 CCGGGGGTCATGATTTTCGCAACTTTGAATCTACACTACCTGAGGATGCTTCCACACAAGTTTCA
252 CCAGGGGTCATGATTTTCACAAATTTGAATCTACACTACCCGAGGATGCTTCCACACAAGTTTCA
* * *
576994 GCTTTCCTGGCTGTTTGGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCATTTGT
317 GCTTTCCTGGC----TGGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATAATAATATGT
577059 TAAACTTCGA-CCCCCATTGTGGCCCCACCCTACCCCCGGGGGGTCATGATTTTCACAACTTTGA
378 TAAACTTCGACCCCCCATTGTGGCCCCACCCTA-CCCCGGGGGGTCATGATTTTCACAACTTTGA
* * *
577123 ATCTACACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTC
442 ATCTACACTACCTGAGGATGCTTCCACACAAGTTCCAGATTGC
* * *
577166 CTGGCCGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTTTTCATATTCGTTTGTTAAACT
1 CTGGCCGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTTAT-ATATTCCTATGTTAAACT
577231 TCGA-CCCCCATTGTGGCCCCACCCT
65 TCGACCCCCCATTGTGGCCCCACCCT
577256 CAGGTGAGCT
Statistics
Matches: 525, Mismatches: 38, Indels: 36
0.88 0.06 0.06
Matches are distributed among these distances:
486 95 0.18
487 73 0.14
488 4 0.01
489 73 0.14
490 188 0.36
491 3 0.01
492 58 0.11
493 2 0.00
495 29 0.06
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (484 bp):
CTGGCCGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTTATATATTCCTATGTTAAACTT
CGACCCCCCATTGTGGCCCCACCCTACCCGATCATGATTTTCACAACTTTGAATCTACACTACTA
GCATGCTCACACAAGTCTCAGCTTTCCTGGCAGATTAGTTTCTGAAAAGAAGATTTTTAAAGATT
TAATATGTTTATTCATATGTAAACCATCGACCTCCCATTGTGGCCCAAACCTACCCCCAGGGGTC
ATGATTTTCACAAATTTGAATCTACACTACCCGAGGATGCTTCCACACAAGTTTCAGCTTTCCTG
GCTGGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATAATAATATGTTAAACTTCGACCC
CCCATTGTGGCCCCACCCTACCCCGGGGGGTCATGATTTTCACAACTTTGAATCTACACTACCTG
AGGATGCTTCCACACAAGTTCCAGATTGC
Found at i:578897 original size:8 final size:8
Alignment explanation
Indices: 578886--578943 Score: 91
Period size: 8 Copynumber: 7.4 Consensus size: 8
578876 TAAAAAGTTT
578886 ACAGACGG
1 ACAGACGG
578894 ACAGACGG
1 ACAGACGG
578902 ACAGACGG
1 ACAGACGG
*
578910 ACAGACAG
1 ACAGACGG
*
578918 ACGGACGG
1 ACAGACGG
578926 ACAGACGG
1 ACAGACGG
578934 AC-GACGG
1 ACAGACGG
578941 ACA
1 ACA
578944 AAATGTGATC
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
7 7 0.16
8 38 0.84
ACGTcount: A:0.38, C:0.26, G:0.36, T:0.00
Consensus pattern (8 bp):
ACAGACGG
Found at i:578918 original size:12 final size:12
Alignment explanation
Indices: 578886--578935 Score: 64
Period size: 12 Copynumber: 4.2 Consensus size: 12
578876 TAAAAAGTTT
* *
578886 ACAGACGGACAG
1 ACAGACAGACGG
*
578898 ACGGACAGACGG
1 ACAGACAGACGG
578910 ACAGACAGACGG
1 ACAGACAGACGG
*
578922 ACGGACAGACGG
1 ACAGACAGACGG
578934 AC
1 AC
578936 GACGGACAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.38, C:0.26, G:0.36, T:0.00
Consensus pattern (12 bp):
ACAGACAGACGG
Found at i:578936 original size:4 final size:4
Alignment explanation
Indices: 578889--578942 Score: 56
Period size: 4 Copynumber: 13.8 Consensus size: 4
578879 AAAGTTTACA
* * * * *
578889 GACG GACA GACG GACA GACG GACA GACA GACG GACG GACA GACG GAC-
1 GACG GACG GACG GACG GACG GACG GACG GACG GACG GACG GACG GACG
578936 GACG GAC
1 GACG GAC
578943 AAAATGTGAT
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
3 3 0.07
4 38 0.93
ACGTcount: A:0.35, C:0.26, G:0.39, T:0.00
Consensus pattern (4 bp):
GACG
Found at i:578936 original size:12 final size:12
Alignment explanation
Indices: 578897--578936 Score: 71
Period size: 12 Copynumber: 3.3 Consensus size: 12
578887 CAGACGGACA
578897 GACGGACAGACG
1 GACGGACAGACG
*
578909 GACAGACAGACG
1 GACGGACAGACG
578921 GACGGACAGACG
1 GACGGACAGACG
578933 GACG
1 GACG
578937 ACGGACAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.35, C:0.25, G:0.40, T:0.00
Consensus pattern (12 bp):
GACGGACAGACG
Found at i:580349 original size:1 final size:1
Alignment explanation
Indices: 580343--580409 Score: 53
Period size: 1 Copynumber: 67.0 Consensus size: 1
580333 ATGAACTAAC
* * * * * * * * *
580343 AAAAAAAAAAACAAAAAACAAAAAACATAAAAAAAAAAACAAAAACAAAAACAAAACAAAACAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
580408 AA
1 AA
580410 CAGATAATCA
Statistics
Matches: 48, Mismatches: 18, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.87, C:0.12, G:0.00, T:0.01
Consensus pattern (1 bp):
A
Found at i:580358 original size:6 final size:6
Alignment explanation
Indices: 580340--580411 Score: 76
Period size: 6 Copynumber: 11.7 Consensus size: 6
580330 TTAATGAACT
* *
580340 AACAAA AAAAAA AACAAAA AACAAAA AACATAAA AAAAAA AACAAA AACAAA
1 AACAAA AACAAA AAC-AAA AAC-AAA AAC--AAA AACAAA AACAAA AACAAA
580392 AAC-AA AAC-AA AACAAA AACA
1 AACAAA AACAAA AACAAA AACA
580412 GATAATCAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
5 10 0.17
6 30 0.52
7 13 0.22
8 5 0.09
ACGTcount: A:0.85, C:0.14, G:0.00, T:0.01
Consensus pattern (6 bp):
AACAAA
Found at i:580383 original size:28 final size:27
Alignment explanation
Indices: 580343--580411 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 27
580333 ATGAACTAAC
*
580343 AAAAAAAAAAACAAAAAACAAAAAACAT
1 AAAAAAAAAAACAAAAAAC-AAAAACAA
580371 AAAAAAAAAAAC-AAAAACAAAAACAA
1 AAAAAAAAAAACAAAAAACAAAAACAA
580397 AACAAAACAAAAACA
1 AA-AAAA-AAAAACA
580412 GATAATCAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
26 9 0.24
27 10 0.27
28 18 0.49
ACGTcount: A:0.86, C:0.13, G:0.00, T:0.01
Consensus pattern (27 bp):
AAAAAAAAAAACAAAAAACAAAAACAA
Found at i:585795 original size:2 final size:2
Alignment explanation
Indices: 585788--585829 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
585778 ACATGTCAAT
585788 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
585830 ACAAAAAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:586979 original size:17 final size:18
Alignment explanation
Indices: 586948--586981 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
586938 AATAAGGTCA
*
586948 AATTTAAATATATCAATT
1 AATTTAAATAAATCAATT
586966 AATTT-AATAAATCAAT
1 AATTTAAATAAATCAAT
586982 AAAACTATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (18 bp):
AATTTAAATAAATCAATT
Found at i:589806 original size:20 final size:20
Alignment explanation
Indices: 589783--589969 Score: 92
Period size: 20 Copynumber: 9.2 Consensus size: 20
589773 TCGTCCATAA
589783 AAATCCTAATTTGTCCGAAC
1 AAATCCTAATTTGTCCGAAC
* * *
589803 AAATAACTTATTTGTCCAAAC
1 AAAT-CCTAATTTGTCCGAAC
* *
589824 AAATCCTAATTCGTCGGAAC
1 AAATCCTAATTTGTCCGAAC
* * ** *
589844 AAAAACCTTATCCGTCC-AAA
1 -AAATCCTAATTTGTCCGAAC
* * *
589864 AATATAGCT-ATTTCATCCAAAC
1 AA-AT-CCTAATTT-GTCCGAAC
* *
589886 AAATCCAAATTTGTCCAAAC
1 AAATCCTAATTTGTCCGAAC
* * *
589906 AAATCCTTATTTATCCGAAG
1 AAATCCTAATTTGTCCGAAC
* *
589926 AAATAACTTATTCT-TCCGAAC
1 AAAT-CCTAATT-TGTCCGAAC
* *
589947 AAATCATAATTCGTCCGAAC
1 AAATCCTAATTTGTCCGAAC
589967 AAA
1 AAA
589970 AAAGATTTAT
Statistics
Matches: 124, Mismatches: 33, Indels: 20
0.70 0.19 0.11
Matches are distributed among these distances:
19 2 0.02
20 61 0.49
21 56 0.45
22 5 0.04
ACGTcount: A:0.41, C:0.24, G:0.07, T:0.28
Consensus pattern (20 bp):
AAATCCTAATTTGTCCGAAC
Found at i:589820 original size:41 final size:40
Alignment explanation
Indices: 589762--589969 Score: 154
Period size: 41 Copynumber: 5.1 Consensus size: 40
589752 AAAGTAAAAG
*
589762 AAATAACTTATTCGTCCATAAAAATCCTAATTTGTCCGAAC
1 AAATAACTTATTTGTCCA-AAAAATCCTAATTTGTCCGAAC
* *
589803 AAATAACTTATTTGTCCAAACAAATCCTAATTCGTCGGAAC
1 AAATAACTTATTTGTCCAAA-AAATCCTAATTTGTCCGAAC
** * * *
589844 AAA-AACCTTATCCGTCCAAAAATATAGCT-ATTTCATCCAAAC
1 AAATAA-CTTATTTGTCCAAAAA-AT-CCTAATTT-GTCCGAAC
* ** * * *
589886 AAAT-CCAAATTTGTCCAAACAAATCCTTATTTATCCGAAG
1 AAATAACTTATTTGTCCAAA-AAATCCTAATTTGTCCGAAC
* * *
589926 AAATAACTTATTCT-TCCGAACAAATCATAATTCGTCCGAAC
1 AAATAACTTATT-TGTCC-AAAAAATCCTAATTTGTCCGAAC
589967 AAA
1 AAA
589970 AAAGATTTAT
Statistics
Matches: 129, Mismatches: 27, Indels: 22
0.72 0.15 0.12
Matches are distributed among these distances:
40 18 0.14
41 96 0.74
42 15 0.12
ACGTcount: A:0.41, C:0.23, G:0.07, T:0.29
Consensus pattern (40 bp):
AAATAACTTATTTGTCCAAAAAATCCTAATTTGTCCGAAC
Found at i:591074 original size:20 final size:18
Alignment explanation
Indices: 591021--591075 Score: 58
Period size: 20 Copynumber: 2.9 Consensus size: 18
591011 ACTTTTTTTC
591021 TTTGG-TTTTTTTTTTAT
1 TTTGGTTTTTTTTTTTAT
*
591038 TTTGTTTTGTTTGTTTTTAT
1 TTTGGTTT-TTT-TTTTTAT
591058 TTTGGGTTTTTTCTTTTT
1 TTT-GGTTTTTT-TTTTT
591076 CATAAACACG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
17 4 0.13
18 2 0.06
19 3 0.10
20 18 0.58
21 4 0.13
ACGTcount: A:0.04, C:0.02, G:0.15, T:0.80
Consensus pattern (18 bp):
TTTGGTTTTTTTTTTTAT
Found at i:598764 original size:2 final size:2
Alignment explanation
Indices: 598757--598805 Score: 71
Period size: 2 Copynumber: 24.5 Consensus size: 2
598747 CGAGCACTCA
* * *
598757 CT CT CT CT TT CT CT TT CT CT CT CT CT CT CT CT CT CT CT TT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
598799 CT CT CT C
1 CT CT CT C
598806 GGGGTAGGGG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (2 bp):
CT
Found at i:605789 original size:21 final size:21
Alignment explanation
Indices: 605782--605833 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
605772 CAATAGTAAT
605782 ATCATTATATGCAGTGCTAAC
1 ATCATTATATGCAGTGCTAAC
605803 ATCATTATATGCAGTGCTAAC
1 ATCATTATATGCAGTGCTAAC
605824 ATCATTATAT
1 ATCATTATAT
605834 ACTATTATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.37
Consensus pattern (21 bp):
ATCATTATATGCAGTGCTAAC
Found at i:613299 original size:2 final size:2
Alignment explanation
Indices: 613292--613344 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
613282 TGAAAAATAT
613292 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
613334 TC TC TC TC TC T
1 TC TC TC TC TC T
613345 TTGTGTACGC
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:617801 original size:3 final size:3
Alignment explanation
Indices: 617793--617825 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
617783 GCTATCGTTT
*
617793 TCA TCA TCA TCA TCG TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
617826 CTTTTAGTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.30, C:0.33, G:0.03, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:618108 original size:39 final size:39
Alignment explanation
Indices: 618063--618155 Score: 100
Period size: 39 Copynumber: 2.4 Consensus size: 39
618053 GTCATCTGGT
* *
618063 ATGCCATCACCATCATCGTCATCGTCTTC-A-TCATCCGGG
1 ATGCCATCACCATCATCATCATCGTC--CAAGTAATCCGGG
** *
618102 ATGCCATCATTATCGTCATCATCGTCCAAGTAATCCGGG
1 ATGCCATCACCATCATCATCATCGTCCAAGTAATCCGGG
*
618141 ATACCATCACCATCA
1 ATGCCATCACCATCA
618156 GTATCCTTCT
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
37 1 0.02
38 1 0.02
39 41 0.95
ACGTcount: A:0.26, C:0.33, G:0.14, T:0.27
Consensus pattern (39 bp):
ATGCCATCACCATCATCATCATCGTCCAAGTAATCCGGG
Found at i:618430 original size:39 final size:39
Alignment explanation
Indices: 618324--619087 Score: 392
Period size: 39 Copynumber: 19.6 Consensus size: 39
618314 TTTATCAGGT
* **
618324 ATTCCATCGCCATCATCATCATCGTCTAAGTAATCTGGA
1 ATTCCATCGCCATCATCATCATTGTCTTTGTAATCTGGA
* ** * * * * *
618363 ATTCCATCTCCATC-TGTGTCTTTCTCTTTGTCATCAGGG
1 ATTCCATCGCCATCAT-CATCATTGTCTTTGTAATCTGGA
*
618402 ATTCCATCGCCATCATCATCATTATCTTTAG-AATCTGGA
1 ATTCCATCGCCATCATCATCATTGTCTTT-GTAATCTGGA
* * * ***
618441 ATACCATCACCATCATCATCATCGTCCAAGTAATCTGGA
1 ATTCCATCGCCATCATCATCATTGTCTTTGTAATCTGGA
* * * * * *
618480 ATTCCATCACCATCAAT-GTCTTTTTCTTTATCATCTGGA
1 ATTCCATCGCCATC-ATCATCATTGTCTTTGTAATCTGGA
* *** *
618519 ATTCCATCGCCATCATCATCAGTGTCTAAATAATCCGGA
1 ATTCCATCGCCATCATCATCATTGTCTTTGTAATCTGGA
* * ** * * * * *
618558 ATTCCGTCTCCATC-TGTGTCTTTTTCTTTGTCATCAGGG
1 ATTCCATCGCCATCAT-CATCATTGTCTTTGTAATCTGGA
618597 ATTCCATCGCCATCATCATCATTGTC-TTG-AGCATCTGGA
1 ATTCCATCGCCATCATCATCATTGTCTTTGTA--ATCTGGA
* * * ***
618636 ATACCATCACCATCATCATCATCGTCCAAGTAATCTGGA
1 ATTCCATCGCCATCATCATCATTGTCTTTGTAATCTGGA
* ** * * *
618675 ATTCCATCTCCATC-TGTGTCCTTCTCTTTGTCATCTGGA
1 ATTCCATCGCCATCAT-CATCATTGTCTTTGTAATCTGGA
* * *
618714 ATACCATCACCATCATCATCATTGTC-TTGAGAATCTGGA
1 ATTCCATCGCCATCATCATCATTGTCTTTG-TAATCTGGA
* * * **
618753 ATACCATCACCATCATCATCATCGTC-AAGATAATCTGGA
1 ATTCCATCGCCATCATCATCATTGTCTTTG-TAATCTGGA
* * ** * * * *
618792 ATACCATCACCATC-TGTGTCTTTTTCTTTATCATCTGGA
1 ATTCCATCGCCATCAT-CATCATTGTCTTTGTAATCTGGA
*
618831 ATTCCATCGCCATCATCATCATTGTC-TTG-AGCATCTGGT
1 ATTCCATCGCCATCATCATCATTGTCTTTGTA--ATCTGGA
* * * ***
618870 ATACCATCACCATCATCATCATCGTCCAAGTAATCTGGA
1 ATTCCATCGCCATCATCATCATTGTCTTTGTAATCTGGA
* ** * * *
618909 ATTCCATCTCCATC-TGTGTCTTTCTCTTTGTCATCTGGA
1 ATTCCATCGCCATCAT-CATCATTGTCTTTGTAATCTGGA
* *
618948 ATACCATCACCATCATCATCATTGTC-TTG-AGCATCTGGA
1 ATTCCATCGCCATCATCATCATTGTCTTTGTA--ATCTGGA
* * * **
618987 ATACCATCACCATCATCATCATCGTC-AAGATAATCTGGA
1 ATTCCATCGCCATCATCATCATTGTCTTTG-TAATCTGGA
* * ** * * * * *
619026 ATGCCATCACCATC-TGTGTCTTTCTCTTTATCATCTGGG
1 ATTCCATCGCCATCAT-CATCATTGTCTTTGTAATCTGGA
*
619065 ATTCCATCGCCATCATCGTCATT
1 ATTCCATCGCCATCATCATCATT
619088 ATCAAATTTA
Statistics
Matches: 539, Mismatches: 155, Indels: 62
0.71 0.21 0.08
Matches are distributed among these distances:
38 20 0.04
39 505 0.94
40 11 0.02
41 3 0.01
ACGTcount: A:0.25, C:0.28, G:0.12, T:0.35
Consensus pattern (39 bp):
ATTCCATCGCCATCATCATCATTGTCTTTGTAATCTGGA
Found at i:618484 original size:78 final size:78
Alignment explanation
Indices: 618405--619039 Score: 454
Period size: 78 Copynumber: 8.1 Consensus size: 78
618395 ATCAGGGATT
* * * *
618405 CCATCGCCATCATCATCATTATCTTTAGAATCTGGAATACCATCACCATCATCATCATCGTCCAA
1 CCATCACCATCATCATCATTGTCTTTAGAATCTGGAATTCCATCACCATCATCATCATCGTCTAA
*
618470 GTAATCTGGAATT
66 GTAATCTGGAATA
* * * ** *
618483 CCATCACCATCAAT-GTCTTTTTCTTTATCATCTGGAATTCCATCGCCATCATCATCAGT-GTCT
1 CCATCACCATC-ATCATCATTGTCTTTAGAATCTGGAATTCCATCACCATCATCATCA-TCGTCT
* * *
618546 AAATAATCCGGAATT
64 AAGTAATCTGGAATA
* * ** * * * * * * *
618561 CCGTCTCCATC-TGTGTCTTTTTCTTT-GTCATCAGGGATTCCATCGCCATCATCATCATTGTCT
1 CCATCACCATCAT-CATCATTGTCTTTAG-AATCTGGAATTCCATCACCATCATCATCATCGTC-
* *
618624 TGAG-CATCTGGAATA
63 TAAGTAATCTGGAATA
* ** * ** *
618639 CCATCACCATCATCATCATCGTC-CAAGTAATCTGGAATTCCATCTCCATC-TGTGTCCTTC-TC
1 CCATCACCATCATCATCATTGTCTTTAG-AATCTGGAATTCCATCACCATCAT-CAT-CATCGTC
** *
618701 TTTGTCATCTGGAATA
63 TAAGTAATCTGGAATA
* *
618717 CCATCACCATCATCATCATTGTCTTGAGAATCTGGAATACCATCACCATCATCATCATCGTC-AA
1 CCATCACCATCATCATCATTGTCTTTAGAATCTGGAATTCCATCACCATCATCATCATCGTCTAA
618781 GATAATCTGGAATA
66 G-TAATCTGGAATA
** * * ** * *
618795 CCATCACCATC-TGTGTCTTTTTCTTTATCATCTGGAATTCCATCGCCATCATCATCATTGTCTT
1 CCATCACCATCAT-CATCATTGTCTTTAGAATCTGGAATTCCATCACCATCATCATCATCGTC-T
* * *
618859 GAG-CATCTGGTATA
64 AAGTAATCTGGAATA
* ** * ** *
618873 CCATCACCATCATCATCATCGTC-CAAGTAATCTGGAATTCCATCTCCATC-TGTGTCTTTC-TC
1 CCATCACCATCATCATCATTGTCTTTAG-AATCTGGAATTCCATCACCATCAT-CATC-ATCGTC
** *
618935 TTTGTCATCTGGAATA
63 TAAGTAATCTGGAATA
* * *
618951 CCATCACCATCATCATCATTGTCTTGAGCATCTGGAATACCATCACCATCATCATCATCGTC-AA
1 CCATCACCATCATCATCATTGTCTTTAGAATCTGGAATTCCATCACCATCATCATCATCGTCTAA
*
619015 GATAATCTGGAATG
66 G-TAATCTGGAATA
619029 CCATCACCATC
1 CCATCACCATC
619040 TGTGTCTTTC
Statistics
Matches: 435, Mismatches: 94, Indels: 56
0.74 0.16 0.10
Matches are distributed among these distances:
76 1 0.00
77 16 0.04
78 400 0.92
79 16 0.04
80 2 0.00
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.34
Consensus pattern (78 bp):
CCATCACCATCATCATCATTGTCTTTAGAATCTGGAATTCCATCACCATCATCATCATCGTCTAA
GTAATCTGGAATA
Found at i:618561 original size:195 final size:194
Alignment explanation
Indices: 618324--618740 Score: 672
Period size: 195 Copynumber: 2.1 Consensus size: 194
618314 TTTATCAGGT
* *
618324 ATTCCATCGCCATCATCATCATCGTCTAAGTAATCTGGAATTCCATCTCCATCTGTGTCTTTCTC
1 ATTCCATCGCCATCATCATCAT-GTCTAAATAATCCGGAATTCCATCTCCATCTGTGTCTTTCTC
*
618389 TTTGTCATCAGGGATTCCATCGCCATCATCATCATTATCTTTAGAATCTGGAATACCATCACCAT
65 TTTGTCATCAGGGATTCCATCGCCATCATCATCATTATCTTGAGAATCTGGAATACCATCACCAT
* *
618454 CATCATCATCGTCCAAGTAATCTGGAATTCCATCACCATCAATGTCTTTTTCTTTATCATCTGGA
130 CATCATCATCGTCCAAGTAATCTGGAATTCCATCACCATCAATGTCCTTCTCTTTATCATCTGGA
* *
618519 ATTCCATCGCCATCATCATCAGTGTCTAAATAATCCGGAATTCCGTCTCCATCTGTGTCTTTTTC
1 ATTCCATCGCCATCATCATCA-TGTCTAAATAATCCGGAATTCCATCTCCATCTGTGTCTTTCTC
* *
618584 TTTGTCATCAGGGATTCCATCGCCATCATCATCATTGTCTTGAGCATCTGGAATACCATCACCAT
65 TTTGTCATCAGGGATTCCATCGCCATCATCATCATTATCTTGAGAATCTGGAATACCATCACCAT
* ** *
618649 CATCATCATCGTCCAAGTAATCTGGAATTCCATCTCCATCTGTGTCCTTCTCTTTGTCATCTGGA
130 CATCATCATCGTCCAAGTAATCTGGAATTCCATCACCATCAATGTCCTTCTCTTTATCATCTGGA
* *
618714 ATACCATCACCATCATCATCATTGTCT
1 ATTCCATCGCCATCATCATCA-TGTCT
618741 TGAGAATCTG
Statistics
Matches: 205, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
195 204 1.00
196 1 0.00
ACGTcount: A:0.24, C:0.29, G:0.12, T:0.35
Consensus pattern (194 bp):
ATTCCATCGCCATCATCATCATGTCTAAATAATCCGGAATTCCATCTCCATCTGTGTCTTTCTCT
TTGTCATCAGGGATTCCATCGCCATCATCATCATTATCTTGAGAATCTGGAATACCATCACCATC
ATCATCATCGTCCAAGTAATCTGGAATTCCATCACCATCAATGTCCTTCTCTTTATCATCTGGA
Found at i:618772 original size:234 final size:234
Alignment explanation
Indices: 618512--621265 Score: 1026
Period size: 234 Copynumber: 11.8 Consensus size: 234
618502 TTTCTTTATC
* * * * * *
618512 ATCTGGAATTCCATCGCCATCATCATCAGT-GTCTAA-ATAATCCGGAATTCCGTCTCCATCTGT
1 ATCTGGAATACCATCACCATCATCATCA-TCGTC-AAGATAATCTGGAATACCATCACCATCTGT
* *
618575 GTCTTTTTCTTTGTCATCAGGGATTCCATCGCCATCATCATCATTGTCTTGAGCATCTGGAATAC
64 GTCTTTTTCTTTATCATCTGGGATTCCATCGCCATCATCATCATTGTCTTGAGCATCTGGAATAC
618640 CATCACCATCATCATCATCGTCCAAGTAATCTGGAATTCCATCTCCATCTGTGTCCTTCTCTTTG
129 CATCACCATCATCATCATCGTCCAAGTAATCTGGAATTCCATCTCCATCTGTGTCCTTCTCTTTG
618705 TCATCTGGAATACCATCACCATCATCATCATTGTCTTGAGA
194 TCATCTGGAATACCATCACCATCATCATCATTGTCTTGAGA
618746 ATCTGGAATACCATCACCATCATCATCATCGTCAAGATAATCTGGAATACCATCACCATCTGTGT
1 ATCTGGAATACCATCACCATCATCATCATCGTCAAGATAATCTGGAATACCATCACCATCTGTGT
* *
618811 CTTTTTCTTTATCATCTGGAATTCCATCGCCATCATCATCATTGTCTTGAGCATCTGGTATACCA
66 CTTTTTCTTTATCATCTGGGATTCCATCGCCATCATCATCATTGTCTTGAGCATCTGGAATACCA
*
618876 TCACCATCATCATCATCGTCCAAGTAATCTGGAATTCCATCTCCATCTGTGTCTTTCTCTTTGTC
131 TCACCATCATCATCATCGTCCAAGTAATCTGGAATTCCATCTCCATCTGTGTCCTTCTCTTTGTC
*
618941 ATCTGGAATACCATCACCATCATCATCATTGTCTTGAGC
196 ATCTGGAATACCATCACCATCATCATCATTGTCTTGAGA
*
618980 ATCTGGAATACCATCACCATCATCATCATCGTCAAGATAATCTGGAATGCCATCACCATCTGTGT
1 ATCTGGAATACCATCACCATCATCATCATCGTCAAGATAATCTGGAATACCATCACCATCTGTGT
* * * ** ** * **
619045 CTTTCTCTTTATCATCTGGGATTCCATCGCCATCATCGTCATTATC-AAATTTATCAGGAACGCC
66 CTTTTTCTTTATCATCTGGGATTCCATCGCCATCATCATCATTGTCTTGA-GCATCTGGAATACC
* * * * ** * * * * * * * ** * * *
619109 GTCTCCATCA-GA--GTCGGGC-AGTTTATCGGGGATACCGTCCCCGTCACTGTCATTGTC-TAG
130 ATCACCATCATCATCATCGTCCAAG-TAATCTGGAATTCCATCTCCATCTGTGTCCTTCTCTTTG
* * * * * * **
619169 ATAATCAGGAATACCATCGCCATCAGCGTC-TTCT-TTG-TT
194 -TCATCTGGAATACCATCACCATCATCATCATTGTCTTGAGA
* * * * * ** * * ** **
619208 ATCCGGAATACCGTCACCATCGTCGTCATCATCTTGATCATCTGGAATACCGTCATTATCAT-CA
1 ATCTGGAATACCATCACCATCATCATCATCGTCAAGATAATCTGGAATACCATCACCATC-TGTG
** ** * * * * * * * **
619272 TCTTCATCTAGATAATC-GGGAATTCCATCTCCGTCGGT-ATCTTTTTCCAT-ATAATCTGGAAT
65 TCTTTTTCTTTATCATCTGGG-ATTCCATCGCCATC-ATCATCATTGT-CTTGAGCATCTGGAAT
* ** * * *** * * * * * *
619334 GCCATTTCCATTAGCATCCGAGTCCTGACT-ATCTGGAATACCATCAT-TATC-GTCAT-CGTCA
127 ACCATCACCATCATCATCATCGTCC-AAGTAATCTGGAATTCCATC-TCCATCTGT-GTCCTTC-
** * * * *
619395 TC-CAGATAATCTGGAATACCATCACCATCAGT-ATC-TATCTCTTTATA
188 TCTTTG-TCATCTGGAATACCATCACCATCA-TCATCAT-TGTCTTGAGA
* * * * * * * ***
619442 GTCTGGAATACCATCGCCGTCATCATCATCATCTAGATGATCTGGAATCCCATCATTGTC-GTCG
1 ATCTGGAATACCATCACCATCATCATCATCGTCAAGATAATCTGGAATACCATCACCATCTGT-G
* ** ** * * * * * * * * * * * * *
619506 TCATCATCTAAATAATCCGGTATTCCGTCACCATCCGT-GTCAATCTCCTG-GTCATCGGGTATT
65 TCTTTTTCTTTATCATCTGGGATTCCATCGCCAT-CATCATCATTGTCTTGAG-CATCTGGAATA
* * * * ** * * * * *
619569 CCGTCGCCGTCATCATCTTTATCTAGGCT-ATCTGGAATTCCATCACCGTCTGAGT-CTTC-C-T
128 CCATCACCATCATCATCATCGTCCAAG-TAATCTGGAATTCCATCTCCATCTGTGTCCTTCTCTT
* * * * * * * * **
619630 GGTTATCCGGGATTCCATCTCCATCATCATCGTTGTCTTTATC
192 TGTCATCTGGAATACCATCACCATCATCATCATTGTCTTGAGA
* * *
619673 ATCGGGAATTCCATCACCATCATCATCATCGTCTAAG-TAATCTGGAATTCCATCACCATCTGTG
1 ATCTGGAATACCATCACCATCATCATCATCGTC-AAGATAATCTGGAATACCATCACCATCTGTG
* * * * * * ** * * *
619737 TCTTTCTCCTTGTCATCCGGGATTCCATCGCCATCATCGTCATTATCAAGATG-ATCAGGTATTC
65 TCTTTTTCTTTATCATCTGGGATTCCATCGCCATCATCATCATTGTCTTGA-GCATCTGGAATAC
* ** * * * * * * * * * *
619801 CGTCATTATCATCATCGTCATCTAAGTAGTCTGGAATACCATCACCATCCGTGTCTTTTTCCTTG
129 CATCACCATCATCATCATCGTCCAAGTAATCTGGAATTCCATCTCCATCTGTGTCCTTCTCTTTG
* * * ** **
619866 TAATCAGGAATGCCATTTCCATCGGCATCATCATCCTC-TGAG-
194 TCATCTGGAATACCATCACCAT---CATCATCATTGTCTTGAGA
* ** * * * *
619908 -TCTGGAATTCCATCATTATCGTCATCATCATCTAAG-TAATCTGGAATACCATCTCCATCAGTG
1 ATCTGGAATACCATCACCATCATCATCATCGTC-AAGATAATCTGGAATACCATCACCATCTGTG
* * ** * * * * *
619971 TCTTTTTCCTTATCATCAGTTATTCCGTCACCATCATCATCATTGTC-TAAACTATCTGGAATTC
65 TCTTTTTCTTTATCATCTGGGATTCCATCGCCATCATCATCATTGTCTTGAGC-ATCTGGAATAC
* ** * * * * *
620035 CATCACCATCGTCATCATTAT-CGAGATAATCTGGAATGCCATCTCCATCTGTATCTTTTTCTTT
129 CATCACCATCATCATCATCGTCCAAG-TAATCTGGAATTCCATCTCCATCTGTGTCCTTCTCTTT
* * * * **
620099 GTCATCAGAAATACCATC-CCTATCATCATCTTTGTCTTCACT
193 GTCATCTGGAATACCATCACC-ATCATCATCATTGTCTTGAGA
* * * * * * * * *
620141 ATCTGGAATACCATCTCCATCGTCATCATCATCCAGATAATCCGGGATACCGTCACCGTCTGTAT
1 ATCTGGAATACCATCACCATCATCATCATCGTCAAGATAATCTGGAATACCATCACCATCTGTGT
* * * * * * * * * *
620206 CTTTTTCCTTGTCATCTGGAATTCCGTCGCCATCATCGTCTTTATCTTCAG-AGTCAGGAATTCC
66 CTTTTTCTTTATCATCTGGGATTCCATCGCCATCATCATCATTGTCTTGAGCA-TCTGGAATACC
* ** * * * * * *
620270 ATCCCCATCATCATCATTATCCAAGTAATCTGGTATCCCATCACCATCTGTATCAATT-TCAAGT
130 ATCACCATCATCATCATCGTCCAAGTAATCTGGAATTCCATCTCCATCTGTGTC-CTTCTC--TT
* * ** * ** * *
620334 T-T-ATCAGGAATACCATCGCCATCGGCATCGTCATCATCA-A
192 TGTCATCTGGAATACCATCACCATCATCATCATTGTCTTGAGA
* * * ** * * * * * *
620374 CGTCAGGAATTCCATCATTATCATCGTCGTCGTCCAGATAATCTGGAATTCCGTCACCATCAGTG
1 -ATCTGGAATACCATCACCATCATCATCATCGTCAAGATAATCTGGAATACCATCACCATCTGTG
* * * ** * * * ** *
620439 TCTTTCTCTTTGTCGTCCTTGTCCAAATGGTCAGGGATCCCGTCATTATCATCATCATCATCGAG
65 TCTTTTTCTTTATCAT-C-TG---GGAT--TC---CAT--CGCCATCATCATCATTGTC-TTGA-
* * * * * * * * *
620504 GTAATCTGGAATACCATCTCCATCA-CTGTCGA-CTTCTAAATGATCTGGAATACCATTTCCAT-
116 G-CATCTGGAATACCATCACCATCATC-ATC-ATCGTCCAAGTAATCTGGAATTCCATCTCCATC
* * * * ** * * * ** * ** ** *
620566 TATCGTCTTTGTC-CTGGGAGTCAGGGATCCCATCATTATCATCATCGTCATCCAGATA
178 TGT-GTCCTTCTCTTTGTCA-TCTGGAATACCATCACCATCATCATCATTGTCTTGAGA
* * * * * * *
620624 GTCTGGAATTCCGTCACCATC--CGT-ATCCTTC----TNATCTGGAATTCCATCACCATCTGTG
1 ATCTGGAATACCATCACCATCATCATCAT-CGTCAAGATAATCTGGAATACCATCACCATCTGTG
* * * * * * ** * * *
620682 TCTTTCTCCTTGTCATCCGGGATTCCATCGCCATCATCGTCATTATCAAGATG-ATCAGGTATTC
65 TCTTTTTCTTTATCATCTGGGATTCCATCGCCATCATCATCATTGTCTTGA-GCATCTGGAATAC
* ** * * * * * * * * * *
620746 CGTCATTATCATCATCGTCATCTAAGTAGTCTGGAATACCATCACCATCCGTGTCTTTTTCCTTG
129 CATCACCATCATCATCATCGTCCAAGTAATCTGGAATTCCATCTCCATCTGTGTCCTTCTCTTTG
* * * ** **
620811 TAATCAGGAATGCCATTTCCATCGGCATCATCATCCTC-TGAG-
194 TCATCTGGAATACCATCACCAT---CATCATCATTGTCTTGAGA
* ** * * * *
620853 -TCTGGAATTCCATCATTATCGTCATCATCATCTAAG-TAATCTGGAATACCATCTCCATCAGTG
1 ATCTGGAATACCATCACCATCATCATCATCGTC-AAGATAATCTGGAATACCATCACCATCTGTG
* * ** * * * * *
620916 TCTTTTTCCTTATCATCAGTTATTCCGTCACCATCATCATCATTGTC-TAAACTATCTGGAATTC
65 TCTTTTTCTTTATCATCTGGGATTCCATCGCCATCATCATCATTGTCTTGAGC-ATCTGGAATAC
* ** * * * * *
620980 CATCACCATCGTCATCATTAT-CGAGATAATCTGGAATGCCATCTCCATCTGTATCTTTTTCTTT
129 CATCACCATCATCATCATCGTCCAAG-TAATCTGGAATTCCATCTCCATCTGTGTCCTTCTCTTT
* * * * **
621044 GTCATCAGAAATACCATC-CCTATCATCATCTTTGTCTTCACT
193 GTCATCTGGAATACCATCACC-ATCATCATCATTGTCTTGAGA
* * * * * * * * *
621086 ATCTGGAATACCATCTCCATCGTCATCATCATCCAGATAATCCGGGATACCGTCACCGTCTGTAT
1 ATCTGGAATACCATCACCATCATCATCATCGTCAAGATAATCTGGAATACCATCACCATCTGTGT
* * * * * * * * * *
621151 CTTTTTCCTTGTCATCTGGAATTCCGTCGCCATCATCGTCTTTATCTTCAG-AGTCAGGAATTCC
66 CTTTTTCTTTATCATCTGGGATTCCATCGCCATCATCATCATTGTCTTGAGCA-TCTGGAATACC
* ** * * *
621215 ATCCCCATCATCATCATTATCCAAGTAATCTGGTATCCCATCACCATCTGT
130 ATCACCATCATCATCATCGTCCAAGTAATCTGGAATTCCATCTCCATCTGT
621266 ATCAATTTCA
Statistics
Matches: 1918, Mismatches: 491, Indels: 222
0.73 0.19 0.08
Matches are distributed among these distances:
227 3 0.00
228 174 0.09
229 13 0.01
230 23 0.01
231 304 0.16
232 17 0.01
233 30 0.02
234 1146 0.60
235 20 0.01
236 8 0.00
237 10 0.01
238 2 0.00
239 3 0.00
241 3 0.00
242 1 0.00
243 38 0.02
244 1 0.00
246 16 0.01
247 8 0.00
248 7 0.00
249 88 0.05
250 3 0.00
ACGTcount: A:0.24, C:0.28, G:0.14, T:0.34
Consensus pattern (234 bp):
ATCTGGAATACCATCACCATCATCATCATCGTCAAGATAATCTGGAATACCATCACCATCTGTGT
CTTTTTCTTTATCATCTGGGATTCCATCGCCATCATCATCATTGTCTTGAGCATCTGGAATACCA
TCACCATCATCATCATCGTCCAAGTAATCTGGAATTCCATCTCCATCTGTGTCCTTCTCTTTGTC
ATCTGGAATACCATCACCATCATCATCATTGTCTTGAGA
Found at i:619117 original size:117 final size:117
Alignment explanation
Indices: 618473--621397 Score: 916
Period size: 117 Copynumber: 25.0 Consensus size: 117
618463 CGTCCAAGTA
* * * * * * * *
618473 ATCTGGAATTCCATCACCATCAAT-GTCTTTTTCTTTATCATCTGGAATTCCATCGCCATCATCA
1 ATCTGGAATTCCATCGCCATC-ATCATCATTGTCTTGAGCATCTGGAATACCATCACCATCATCA
* * *
618537 TCAGT-GTCTAA-ATAATCCGGAATTCCGTCTCCATCTGTGTCTTTTTCTTTGTC
65 TCA-TCGTC-AAGATAATCTGGAATTCCATCTCCATCTGTGTCTTTCTCTTTGTC
* *
618590 ATCAGGGATTCCATCGCCATCATCATCATTGTCTTGAGCATCTGGAATACCATCACCATCATCAT
1 ATCTGGAATTCCATCGCCATCATCATCATTGTCTTGAGCATCTGGAATACCATCACCATCATCAT
*
618655 CATCGTCCAAG-TAATCTGGAATTCCATCTCCATCTGTGTCCTTCTCTTTGTC
66 CATCGT-CAAGATAATCTGGAATTCCATCTCCATCTGTGTCTTTCTCTTTGTC
* * *
618707 ATCTGGAATACCATCACCATCATCATCATTGTCTTGAGAATCTGGAATACCATCACCATCATCAT
1 ATCTGGAATTCCATCGCCATCATCATCATTGTCTTGAGCATCTGGAATACCATCACCATCATCAT
* * * *
618772 CATCGTCAAGATAATCTGGAATACCATCACCATCTGTGTCTTTTTCTTTATC
66 CATCGTCAAGATAATCTGGAATTCCATCTCCATCTGTGTCTTTCTCTTTGTC
*
618824 ATCTGGAATTCCATCGCCATCATCATCATTGTCTTGAGCATCTGGTATACCATCACCATCATCAT
1 ATCTGGAATTCCATCGCCATCATCATCATTGTCTTGAGCATCTGGAATACCATCACCATCATCAT
618889 CATCGTCCAAG-TAATCTGGAATTCCATCTCCATCTGTGTCTTTCTCTTTGTC
66 CATCGT-CAAGATAATCTGGAATTCCATCTCCATCTGTGTCTTTCTCTTTGTC
* *
618941 ATCTGGAATACCATCACCATCATCATCATTGTCTTGAGCATCTGGAATACCATCACCATCATCAT
1 ATCTGGAATTCCATCGCCATCATCATCATTGTCTTGAGCATCTGGAATACCATCACCATCATCAT
* * *
619006 CATCGTCAAGATAATCTGGAATGCCATCACCATCTGTGTCTTTCTCTTTATC
66 CATCGTCAAGATAATCTGGAATTCCATCTCCATCTGTGTCTTTCTCTTTGTC
* * * ** ** * ** * * *
619058 ATCTGGGATTCCATCGCCATCATCGTCATTATC-AAATTTATCAGGAACGCCGTCTCCATCA-GA
1 ATCTGGAATTCCATCGCCATCATCATCATTGTCTTGA-GCATCTGGAATACCATCACCATCATCA
* * * * * * * * * * ** * * * *
619121 GTC--GGGC-AGTTTATCGGGGATACCGTCCCCGTCACTGTCATTGTC-TAGATA
65 -TCATCGTCAAGATAATCTGGAATTCCATCTCCATCTGTGTCTTTCTCTTTG-TC
* * * * * ** * * * *
619172 ATCAGGAATACCATCGCCATCAGCGTC-TTCT-TTG-TTATCCGGAATACCGTCACCATCGTCGT
1 ATCTGGAATTCCATCGCCATCATCATCATTGTCTTGAGCATCTGGAATACCATCACCATCATCAT
* ** * * * * ** * *
619234 CATCATCTTGATCATCTGGAATACCGTCAT-TATCAT-CATC-TTCATC-TAGATA
66 CATCGTCAAGATAATCTGGAATTCCATC-TCCATC-TGTGTCTTTC-TCTTTG-TC
* * * * * * * ** * ** * *
619286 ATCGGGAATTCCATCTCCGTCGGT-ATCTTTTTCCAT-ATAATCTGGAATGCCATTTCCATTAGC
1 ATCTGGAATTCCATCGCCATC-ATCATCATTGT-CTTGAGCATCTGGAATACCATCACCATCATC
*** ** * * * * ** *
619349 ATCCGAGTCCTGACT-ATCTGGAATACCATCAT-TATC-GTCATC-GTCATC-CAGATA
64 ATCATCGTCAAGA-TAATCTGGAATTCCATC-TCCATCTGT-GTCTTTC-TCTTTG-TC
* * * * * * *
619403 ATCTGGAATACCATCACCATCAGT-ATC-TATCTCTTTA-TAGTCTGGAATACCATCGCCGTCAT
1 ATCTGGAATTCCATCGCCATCA-TCATCAT-TGTCTTGAGCA-TCTGGAATACCATCACCATCAT
* * * * * *** *
619465 CATCATCATCTAGATGATCTGGAATCCCA--T-CAT-TGTCGTCGTCATCATCTAAATA
63 CATCATCGTCAAGATAATCTGGAATTCCATCTCCATCTGT-GTC-T-TTC-TCTTTGTC
* * * * * * * * * * * * * * *
619520 ATCCGGTATTCCGTCACCATCCGT-GTCAATCTCCTG-GTCATCGGGTATTCCGTCGCCGTCATC
1 ATCTGGAATTCCATCGCCAT-CATCATCATTGTCTTGAG-CATCTGGAATACCATCACCATCATC
* ** * * * * * * *
619583 ATCTTTATCTAGGCT-ATCTGGAATTCCATCACCGTCTGAGTC-TTC-C-TGGTT
64 ATCATCGTC-AAGATAATCTGGAATTCCATCTCCATCTGTGTCTTTCTCTTTGTC
* * * * * * * *
619634 ATCCGGGATTCCATCTCCATCATCATCGTTGTCTTTATCATCGGGAATTCCATCACCATCATCAT
1 ATCTGGAATTCCATCGCCATCATCATCATTGTCTTGAGCATCTGGAATACCATCACCATCATCAT
* *
619699 CATCGTCTAAG-TAATCTGGAATTCCATCACCATCTGTGTCTTTCTCCTTGTC
66 CATCGTC-AAGATAATCTGGAATTCCATCTCCATCTGTGTCTTTCTCTTTGTC
* * * * ** * * * * **
619751 ATCCGGGATTCCATCGCCATCATCGTCATTATCAAGATG-ATCAGGTATTCCGTCATTATCATCA
1 ATCTGGAATTCCATCGCCATCATCATCATTGTCTTGA-GCATCTGGAATACCATCACCATCATCA
* * * * * * * * *
619815 TCGTCATCTAAG-TAGTCTGGAATACCATCACCATCCGTGTCTTTTTCCTTGTA
65 TCATCGTC-AAGATAATCTGGAATTCCATCTCCATCTGTGTCTTTCTCTTTGTC
* * ** ** * ** *
619868 ATCAGGAATGCCATTTCCATCGGCATCATCATCCTC-TGAG--TCTGGAATTCCATCATTATCGT
1 ATCTGGAATTCCATCGCCAT---CATCATCATTGTCTTGAGCATCTGGAATACCATCACCATCAT
* * * * * *
619930 CATCATCATCTAAG-TAATCTGGAATACCATCTCCATCAGTGTCTTTTTCCTTATC
63 CATCATCGTC-AAGATAATCTGGAATTCCATCTCCATCTGTGTCTTTCTCTTTGTC
* ** * * * * * *
619985 ATCAGTTATTCCGTCACCATCATCATCATTGTC-TAAACTATCTGGAATTCCATCACCATCGTCA
1 ATCTGGAATTCCATCGCCATCATCATCATTGTCTTGAGC-ATCTGGAATACCATCACCATCATCA
** * * * *
620049 TCATTATCGAGATAATCTGGAATGCCATCTCCATCTGTATCTTTTTCTTTGTC
65 TCATCGTCAAGATAATCTGGAATTCCATCTCCATCTGTGTCTTTCTCTTTGTC
* * * * * * *
620102 ATCAGAAATACCATC-CCTATCATCATCTTTGTCTTCA-CTATCTGGAATACCATCTCCATCGTC
1 ATCTGGAATTCCATCGCC-ATCATCATCATTGTCTTGAGC-ATCTGGAATACCATCACCATCATC
* * * * * * * * * * *
620165 ATCATCATCCAGATAATCCGGGATACCGTCACCGTCTGTATCTTTTTCCTTGTC
64 ATCATCGTCAAGATAATCTGGAATTCCATCTCCATCTGTGTCTTTCTCTTTGTC
* * * * * * * *
620219 ATCTGGAATTCCGTCGCCATCATCGTCTTTATCTTCAG-AGTCAGGAATTCCATCCCCATCATCA
1 ATCTGGAATTCCATCGCCATCATCATCATTGTCTTGAGCA-TCTGGAATACCATCACCATCATCA
** * * * * ***
620283 TCATTATCCAAG-TAATCTGGTATCCCATCACCATCTGTATCAATTTCAAGTT-T-
65 TCATCGT-CAAGATAATCTGGAATTCCATCTCCATCTGTGTC--TTTCTCTTTGTC
* * ** * ** * * * * * * ** *
620336 ATCAGGAATACCATCGCCATCGGCATCGTCATCATCAACGTCAGGAATTCCATCATTATCATCGT
1 ATCTGGAATTCCATCGCCATCATCATCATTGTCTTGAGCATCTGGAATACCATCACCATCATCAT
* * * * *
620401 CGTCGTCCAGATAATCTGGAATTCCGTCACCATCAGTGTCTTTCTCTTTGTC
66 CATCGTCAAGATAATCTGGAATTCCATCTCCATCTGTGTCTTTCTCTTTGTC
* * * * * ** * *
620453 GTCCTTGTCCAAATGGTCAGGGATCCCGTCATTATCATCATCATCATCGAGGTAATCTGGAATAC
1 AT-C-TG---GAAT--TC---CAT--CGCCATCATCATCATTGTC-TTGA-G-CATCTGGAATAC
* * * * * * * *
620518 CATCTCCATCA-CTGTCGA-CTTCTAA-ATGATCTGGAATACCATTTCCAT-TATCGTCTTTGTC
51 CATCACCATCATC-ATC-ATCGTC-AAGATAATCTGGAATTCCATCTCCATCTGT-GTCTTTCTC
* **
620579 -CTGGG
112 TTTGTC
* * * * * ** * * *
620584 AGTCAGGGATCCCAT---CATTATCATCATCGTCATCCAGATAGTCTGGAATTCCGTCACCATC-
1 A-TCTGGAATTCCATCGCCATCATCATCATTGTC-TTGAG-CA-TCTGGAATACCATCACCATCA
* * * * *
620645 -CGT-ATCCTTC----TNATCTGGAATTCCATCACCATCTGTGTCTTTCTCCTTGTC
62 TCATCAT-CGTCAAGATAATCTGGAATTCCATCTCCATCTGTGTCTTTCTCTTTGTC
* * * * ** * * * * **
620696 ATCCGGGATTCCATCGCCATCATCGTCATTATCAAGATG-ATCAGGTATTCCGTCATTATCATCA
1 ATCTGGAATTCCATCGCCATCATCATCATTGTCTTGA-GCATCTGGAATACCATCACCATCATCA
* * * * * * * * *
620760 TCGTCATCTAAG-TAGTCTGGAATACCATCACCATCCGTGTCTTTTTCCTTGTA
65 TCATCGTC-AAGATAATCTGGAATTCCATCTCCATCTGTGTCTTTCTCTTTGTC
* * ** ** * ** *
620813 ATCAGGAATGCCATTTCCATCGGCATCATCATCCTC-TGAG--TCTGGAATTCCATCATTATCGT
1 ATCTGGAATTCCATCGCCAT---CATCATCATTGTCTTGAGCATCTGGAATACCATCACCATCAT
* * * * * *
620875 CATCATCATCTAAG-TAATCTGGAATACCATCTCCATCAGTGTCTTTTTCCTTATC
63 CATCATCGTC-AAGATAATCTGGAATTCCATCTCCATCTGTGTCTTTCTCTTTGTC
* ** * * * * * *
620930 ATCAGTTATTCCGTCACCATCATCATCATTGTC-TAAACTATCTGGAATTCCATCACCATCGTCA
1 ATCTGGAATTCCATCGCCATCATCATCATTGTCTTGAGC-ATCTGGAATACCATCACCATCATCA
** * * * *
620994 TCATTATCGAGATAATCTGGAATGCCATCTCCATCTGTATCTTTTTCTTTGTC
65 TCATCGTCAAGATAATCTGGAATTCCATCTCCATCTGTGTCTTTCTCTTTGTC
* * * * * * *
621047 ATCAGAAATACCATC-CCTATCATCATCTTTGTCTTCA-CTATCTGGAATACCATCTCCATCGTC
1 ATCTGGAATTCCATCGCC-ATCATCATCATTGTCTTGAGC-ATCTGGAATACCATCACCATCATC
* * * * * * * * * * *
621110 ATCATCATCCAGATAATCCGGGATACCGTCACCGTCTGTATCTTTTTCCTTGTC
64 ATCATCGTCAAGATAATCTGGAATTCCATCTCCATCTGTGTCTTTCTCTTTGTC
* * * * * * * *
621164 ATCTGGAATTCCGTCGCCATCATCGTCTTTATCTTCAG-AGTCAGGAATTCCATCCCCATCATCA
1 ATCTGGAATTCCATCGCCATCATCATCATTGTCTTGAGCA-TCTGGAATACCATCACCATCATCA
** * * * * ***
621228 TCATTATCCAAG-TAATCTGGTATCCCATCACCATCTGTATCAATTTCAAGTT-T-
65 TCATCGT-CAAGATAATCTGGAATTCCATCTCCATCTGTGTC--TTTCTCTTTGTC
* * ** * ** * * * * * * ** *
621281 ATCAGGAATACCATCGCCATCGGCATCGTCATCATCAACGTCAGGAATTCCATCATTATCATCGT
1 ATCTGGAATTCCATCGCCATCATCATCATTGTCTTGAGCATCTGGAATACCATCACCATCATCAT
* * * * *
621346 CGTCGTCCAGATAATCTGGAATTCCGTCACCATCAGTGTCTTTCTCTTTGTC
66 CATCGTCAAGATAATCTGGAATTCCATCTCCATCTGTGTCTTTCTCTTTGTC
621398 GTCCTTGTCC
Statistics
Matches: 2173, Mismatches: 509, Indels: 252
0.74 0.17 0.09
Matches are distributed among these distances:
111 74 0.03
112 6 0.00
113 17 0.01
114 223 0.10
115 27 0.01
116 40 0.02
117 1632 0.75
118 30 0.01
119 15 0.01
120 25 0.01
121 2 0.00
122 5 0.00
124 1 0.00
125 1 0.00
127 4 0.00
129 14 0.01
130 2 0.00
131 5 0.00
132 49 0.02
133 1 0.00
ACGTcount: A:0.24, C:0.28, G:0.14, T:0.34
Consensus pattern (117 bp):
ATCTGGAATTCCATCGCCATCATCATCATTGTCTTGAGCATCTGGAATACCATCACCATCATCAT
CATCGTCAAGATAATCTGGAATTCCATCTCCATCTGTGTCTTTCTCTTTGTC
Found at i:619486 original size:39 final size:39
Alignment explanation
Indices: 619164--619496 Score: 127
Period size: 39 Copynumber: 8.6 Consensus size: 39
619154 ACTGTCATTG
* * * *
619164 TCTAGATAATCAGGAATACCATCGCCATCAG-CGTCTTC-
1 TCTAGAT-ATCTGGAATACCATCACCATCAGTCATCATCA
* * * * *
619202 T-TTGTTATCCGGAATACCGTCACCATC-GTCGTCATCA
1 TCTAGATATCTGGAATACCATCACCATCAGTCATCATCA
* * ** *
619239 TCTTGATCATCTGGAATACCGTCATTATCA-TCATCTTCA
1 TCTAGAT-ATCTGGAATACCATCACCATCAGTCATCATCA
* * * * * * **
619278 TCTAGATAATCGGGAATTCCATCTCCGTCGGT-ATCTTTT
1 TCTAGAT-ATCTGGAATACCATCACCATCAGTCATCATCA
* * * ** *
619317 TCCATATAATCTGGAATGCCATTTCCATTAG-CATC--CGA
1 TCTAGAT-ATCTGGAATACCATCACCATCAGTCATCATC-A
** *
619355 GTCCT-GACTATCTGGAATACCATCATTATC-GTCATCGTCA
1 -T-CTAGA-TATCTGGAATACCATCACCATCAGTCATCATCA
*
619395 TCCAGATAATCTGGAATACCATCACCATCAGT-ATCTATC-
1 TCTAGAT-ATCTGGAATACCATCACCATCAGTCATC-ATCA
** * *
619434 TCTTTATAGTCTGGAATACCATCGCCGTCA-TCATCATCA
1 TCTAGATA-TCTGGAATACCATCACCATCAGTCATCATCA
*
619473 TCTAGATGATCTGGAATCCCATCA
1 TCTAGAT-ATCTGGAATACCATCA
619497 TTGTCGTCGT
Statistics
Matches: 218, Mismatches: 55, Indels: 43
0.69 0.17 0.14
Matches are distributed among these distances:
35 1 0.00
36 24 0.11
37 4 0.02
38 13 0.06
39 166 0.76
40 9 0.04
41 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.14, T:0.32
Consensus pattern (39 bp):
TCTAGATATCTGGAATACCATCACCATCAGTCATCATCA
Found at i:619693 original size:39 final size:39
Alignment explanation
Indices: 619637--619732 Score: 115
Period size: 39 Copynumber: 2.5 Consensus size: 39
619627 CCTGGTTATC
* * * * *
619637 CGGG-ATTCCATCTCCATCATCATCGTTGTCTTTA-TCAT
1 CGGGAATTCCATCACCATCATCATCATCGTC-TAAGTAAT
619675 CGGGAATTCCATCACCATCATCATCATCGTCTAAGTAAT
1 CGGGAATTCCATCACCATCATCATCATCGTCTAAGTAAT
*
619714 CTGGAATTCCATCACCATC
1 CGGGAATTCCATCACCATC
619733 TGTGTCTTTC
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
38 6 0.12
39 44 0.88
ACGTcount: A:0.25, C:0.30, G:0.12, T:0.32
Consensus pattern (39 bp):
CGGGAATTCCATCACCATCATCATCATCGTCTAAGTAAT
Found at i:620167 original size:39 final size:39
Alignment explanation
Indices: 620001--620169 Score: 105
Period size: 39 Copynumber: 4.3 Consensus size: 39
619991 TATTCCGTCA
* * *
620001 CCATCATCATCATTGTCTAAACT-ATCTGGAATTCCATCA
1 CCATCGTCATCATTGTCT-AACTAATCTGGAATACCATCT
* * *
620040 CCATCGTCATCATTATCGAGA-TAATCTGGAATGCCATCT
1 CCATCGTCATCATTGTCTA-ACTAATCTGGAATACCATCT
* * *** * * *
620079 CCATCTGT-ATCTTTTTCTTTGTCATCAGAAATACCATC-
1 CCATC-GTCATCATTGTCTAACTAATCTGGAATACCATCT
* * *
620117 CCTATCATCATCTTTGTCTTCACT-ATCTGGAATACCATCT
1 CC-ATCGTCATCATTGTC-TAACTAATCTGGAATACCATCT
620157 CCATCGTCATCAT
1 CCATCGTCATCAT
620170 CATCCAGATA
Statistics
Matches: 99, Mismatches: 23, Indels: 16
0.72 0.17 0.12
Matches are distributed among these distances:
38 5 0.05
39 88 0.89
40 6 0.06
ACGTcount: A:0.26, C:0.28, G:0.09, T:0.36
Consensus pattern (39 bp):
CCATCGTCATCATTGTCTAACTAATCTGGAATACCATCT
Found at i:621112 original size:39 final size:39
Alignment explanation
Indices: 620946--621114 Score: 105
Period size: 39 Copynumber: 4.3 Consensus size: 39
620936 TATTCCGTCA
* * *
620946 CCATCATCATCATTGTCTAAACT-ATCTGGAATTCCATCA
1 CCATCGTCATCATTGTCT-AACTAATCTGGAATACCATCT
* * *
620985 CCATCGTCATCATTATCGAGA-TAATCTGGAATGCCATCT
1 CCATCGTCATCATTGTCTA-ACTAATCTGGAATACCATCT
* * *** * * *
621024 CCATCTGT-ATCTTTTTCTTTGTCATCAGAAATACCATC-
1 CCATC-GTCATCATTGTCTAACTAATCTGGAATACCATCT
* * *
621062 CCTATCATCATCTTTGTCTTCACT-ATCTGGAATACCATCT
1 CC-ATCGTCATCATTGTC-TAACTAATCTGGAATACCATCT
621102 CCATCGTCATCAT
1 CCATCGTCATCAT
621115 CATCCAGATA
Statistics
Matches: 99, Mismatches: 23, Indels: 16
0.72 0.17 0.12
Matches are distributed among these distances:
38 5 0.05
39 88 0.89
40 6 0.06
ACGTcount: A:0.26, C:0.28, G:0.09, T:0.36
Consensus pattern (39 bp):
CCATCGTCATCATTGTCTAACTAATCTGGAATACCATCT
Found at i:621868 original size:78 final size:78
Alignment explanation
Indices: 621717--621868 Score: 187
Period size: 78 Copynumber: 1.9 Consensus size: 78
621707 ATCATTGTCT
* * *
621717 TTATCGTCTGGAATCCCATCCCCATCGTCATCATCATCCAAATAATCAGGAATCCCATCGCCATC
1 TTATCGTCGGGAATCCCATCCCCATCATCATCATCATCCAAATAATCAGGAATCCCATCCCCATC
* **
621782 TGTGTCTTTTTCC
66 GGAATCTTTTTCC
* * ** * * *
621795 TTATCGTCGGGAATCCCATCGCCATCATCATCATCGTCCAGGTGATCGGGAATTCCATCCCCATC
1 TTATCGTCGGGAATCCCATCCCCATCATCATCATCATCCAAATAATCAGGAATCCCATCCCCATC
621860 GGAATCTTT
66 GGAATCTTT
621869 CAAGGTTGTG
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
78 61 1.00
ACGTcount: A:0.22, C:0.32, G:0.15, T:0.30
Consensus pattern (78 bp):
TTATCGTCGGGAATCCCATCCCCATCATCATCATCATCCAAATAATCAGGAATCCCATCCCCATC
GGAATCTTTTTCC
Found at i:624209 original size:8 final size:8
Alignment explanation
Indices: 624187--624235 Score: 66
Period size: 8 Copynumber: 6.1 Consensus size: 8
624177 TATCGCCAAG
624187 TATTTATA
1 TATTTATA
624195 T-TTTATA
1 TATTTATA
624202 TATTTATA
1 TATTTATA
624210 TATTATTATA
1 TA-T-TTATA
624220 TATTTATA
1 TATTTATA
624228 TA-TTATA
1 TATTTATA
624235 T
1 T
624236 TTTCATAACA
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
7 13 0.34
8 16 0.42
9 2 0.05
10 7 0.18
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (8 bp):
TATTTATA
Found at i:624220 original size:18 final size:18
Alignment explanation
Indices: 624191--624233 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
624181 GCCAAGTATT
624191 TATATT-TTATATATTTA
1 TATATTATTATATATTTA
624208 TATATTATTATATATTTA
1 TATATTATTATATATTTA
624226 TATATTAT
1 TATATTAT
624234 ATTTTCATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 6 0.24
18 19 0.76
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TATATTATTATATATTTA
Found at i:625003 original size:2 final size:2
Alignment explanation
Indices: 624998--625042 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
624988 ATATATATAT
624998 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
625040 AG A
1 AG A
625043 CTAAAGCTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:630998 original size:29 final size:29
Alignment explanation
Indices: 630956--631044 Score: 178
Period size: 29 Copynumber: 3.1 Consensus size: 29
630946 ACTGTTTATG
630956 TAAGGTTGCAAGAGTTACTATTCTTGAAC
1 TAAGGTTGCAAGAGTTACTATTCTTGAAC
630985 TAAGGTTGCAAGAGTTACTATTCTTGAAC
1 TAAGGTTGCAAGAGTTACTATTCTTGAAC
631014 TAAGGTTGCAAGAGTTACTATTCTTGAAC
1 TAAGGTTGCAAGAGTTACTATTCTTGAAC
631043 TA
1 TA
631045 TGTCCCTGTA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 60 1.00
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.35
Consensus pattern (29 bp):
TAAGGTTGCAAGAGTTACTATTCTTGAAC
Found at i:634038 original size:15 final size:15
Alignment explanation
Indices: 634018--634055 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
634008 CTTAGGTTTG
634018 TCCTCATCCTTCTCC-
1 TCCTCATCCTT-TCCT
*
634033 TCCTCAACCTTTCCT
1 TCCTCATCCTTTCCT
634048 TCCTCATC
1 TCCTCATC
634056 TTCCTCCTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 3 0.15
15 17 0.85
ACGTcount: A:0.11, C:0.50, G:0.00, T:0.39
Consensus pattern (15 bp):
TCCTCATCCTTTCCT
Found at i:641965 original size:15 final size:15
Alignment explanation
Indices: 641945--641982 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
641935 CTTAGGTTTG
641945 TCCTCATCCTTCTCC-
1 TCCTCATCCTT-TCCT
*
641960 TCCTCAACCTTTCCT
1 TCCTCATCCTTTCCT
641975 TCCTCATC
1 TCCTCATC
641983 TTCCTCCTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 3 0.15
15 17 0.85
ACGTcount: A:0.11, C:0.50, G:0.00, T:0.39
Consensus pattern (15 bp):
TCCTCATCCTTTCCT
Found at i:644302 original size:2 final size:2
Alignment explanation
Indices: 644295--644353 Score: 100
Period size: 2 Copynumber: 29.5 Consensus size: 2
644285 CAAAACCTGA
* *
644295 AG AG AG AG AG AT TG 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
644337 AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG A
644354 TACAGATTGC
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.47, T:0.03
Consensus pattern (2 bp):
AG
Found at i:649773 original size:83 final size:83
Alignment explanation
Indices: 649665--649906 Score: 385
Period size: 83 Copynumber: 2.9 Consensus size: 83
649655 TTCAAATATC
* *
649665 TACTGCACAGCAGTACTGTACACCCAAATATGGAGGCTTTGGTTGGCAGTAGAGTTGCAGCATGT
1 TACTGCACAGCAGTACTGTATACCCAAATATGGAAGCTTTGGTTGGCAGTAGAGTTGCAGCATGT
649730 TTCAAATATTTAAATTAG
66 TTCAAATATTTAAATTAG
*
649748 TACTGCACTGCAGTACTGTATACCCAAATATGGAAGCTTTGGTTGGCAGTAGAGTTGCAGCATGT
1 TACTGCACAGCAGTACTGTATACCCAAATATGGAAGCTTTGGTTGGCAGTAGAGTTGCAGCATGT
649813 TTCAAATATTTAAATTAG
66 TTCAAATATTTAAATTAG
* * * * * * *
649831 TACTGCACAGCAGCATTGTGTATCCAAATATGGAAGCTTTGGTTGGCAGTAGAGATGCAGCTTGC
1 TACTGCACAGCAGTACTGTATACCCAAATATGGAAGCTTTGGTTGGCAGTAGAGTTGCAGCATGT
*
649896 TTCAGATATTT
66 TTCAAATATTT
649907 CATGTACCCT
Statistics
Matches: 147, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
83 147 1.00
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (83 bp):
TACTGCACAGCAGTACTGTATACCCAAATATGGAAGCTTTGGTTGGCAGTAGAGTTGCAGCATGT
TTCAAATATTTAAATTAG
Found at i:652634 original size:51 final size:51
Alignment explanation
Indices: 652558--652687 Score: 233
Period size: 51 Copynumber: 2.5 Consensus size: 51
652548 TACCTTCAGG
* * *
652558 ATCTAAGTGATAAAGTTAATGCAGTACAAATGCAGTACCTTTGATGCCTGT
1 ATCTAAATGATAAAGATAATGCAGTACAAATGCAGCACCTTTGATGCCTGT
652609 ATCTAAATGATAAAGATAATGCAGTACAAATGCAGCACCTTTGATGCCTGT
1 ATCTAAATGATAAAGATAATGCAGTACAAATGCAGCACCTTTGATGCCTGT
652660 ATCTAAATGATAAAGATAATGCAGTACA
1 ATCTAAATGATAAAGATAATGCAGTACA
652688 CCTATGACAG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 76 1.00
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.28
Consensus pattern (51 bp):
ATCTAAATGATAAAGATAATGCAGTACAAATGCAGCACCTTTGATGCCTGT
Found at i:676710 original size:4 final size:4
Alignment explanation
Indices: 676701--676767 Score: 134
Period size: 4 Copynumber: 16.8 Consensus size: 4
676691 TTATAGTTTT
676701 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
676749 TATC TATC TATC TATC TAT
1 TATC TATC TATC TATC TAT
676768 ATATGATTTT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 63 1.00
ACGTcount: A:0.25, C:0.24, G:0.00, T:0.51
Consensus pattern (4 bp):
TATC
Found at i:676843 original size:2 final size:2
Alignment explanation
Indices: 676832--676897 Score: 125
Period size: 2 Copynumber: 33.5 Consensus size: 2
676822 CATTGCAATT
676832 GA GA GA -A 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
676873 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
676898 NNNNNNNNNN
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 62 0.98
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:680987 original size:13 final size:13
Alignment explanation
Indices: 680969--680998 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
680959 AATGAAATAC
680969 AGTATCAATGCAT
1 AGTATCAATGCAT
680982 AGTATCAATGCAT
1 AGTATCAATGCAT
680995 AGTA
1 AGTA
680999 ACATTTCTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (13 bp):
AGTATCAATGCAT
Found at i:691907 original size:10 final size:10
Alignment explanation
Indices: 691880--692057 Score: 71
Period size: 10 Copynumber: 17.7 Consensus size: 10
691870 AGTGCCATTT
691880 TTTACTGATCA
1 TTTACTGAT-A
691891 TTT-CTGATA
1 TTTACTGATA
691900 TTTACTGATA
1 TTTACTGATA
*
691910 TTGTACTGTTA
1 TT-TACTGATA
* * *
691921 -GTGCTGAGA
1 TTTACTGATA
** *
691930 AGTGCTGATA
1 TTTACTGATA
691940 TTTACTGATAA
1 TTTACTGAT-A
*
691951 TTTTACTGCT-
1 -TTTACTGATA
*
691961 GTTACTGATA
1 TTTACTGATA
* * * *
691971 ATTGCTGTTG
1 TTTACTGATA
*
691981 GTT-CTGATA
1 TTTACTGATA
691990 TTTACTGATA
1 TTTACTGATA
*
692000 TTTACTGATGCT
1 TTTACTGAT--A
*
692012 TTTGCTG-TGA
1 TTTACTGAT-A
**
692022 GCT-CTGATA
1 TTTACTGATA
*
692031 ATTACTGATA
1 TTTACTGATA
*
692041 TTTACTGAGA
1 TTTACTGATA
692051 TTTACTG
1 TTTACTG
692058 TTGGTACTGA
Statistics
Matches: 126, Mismatches: 30, Indels: 23
0.70 0.17 0.13
Matches are distributed among these distances:
9 27 0.21
10 73 0.58
11 12 0.10
12 14 0.11
ACGTcount: A:0.24, C:0.12, G:0.19, T:0.46
Consensus pattern (10 bp):
TTTACTGATA
Found at i:692719 original size:2 final size:2
Alignment explanation
Indices: 692714--692749 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
692704 GGATAAATTA
692714 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
692750 CTACCATTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:692920 original size:2 final size:2
Alignment explanation
Indices: 692913--692949 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
692903 TGCCCAACCT
692913 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
692950 TGCTCGCATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:693154 original size:2 final size:2
Alignment explanation
Indices: 693147--693194 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
693137 GCTTTAATTT
693147 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
693189 TC TC TC
1 TC TC TC
693195 AGATAATCTA
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:693313 original size:2 final size:2
Alignment explanation
Indices: 693306--693358 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
693296 GATTGAAAAC
*
693306 CT CT CT CT CT CT CT CT AT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
693348 CT CT CT CT CT C
1 CT CT CT CT CT C
693359 ATTAATACTT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.02, C:0.49, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:693738 original size:134 final size:134
Alignment explanation
Indices: 693508--693760 Score: 416
Period size: 134 Copynumber: 1.9 Consensus size: 134
693498 GAAAAAAATA
* * *
693508 TTTTGTATGTCTGGGATTAAGAAAAACCTCAGAACTAACAGAGAGCACTCAGACTATACACACGA
1 TTTTGTATGTCTGGGATCAAGAAAAACCTCAGAACTAACAGACAGCACTCAGAATATACACACGA
*
693573 CAGGGTGACCACGGCAAGGTGTGAAAATTGACCACCTGTGTATATGTCTGGCAGTCGCTGAAAAG
66 CAGAGTGACCACGGCAAGGTGTGAAAATTGACCACCTGTGTATATGTCTGGCAGTCGCTGAAAAG
693638 ATTC
131 ATTC
* * *
693642 TTTTGTATGTCTGGGATCAAGAAAACCCTCAGAACTAACAGACAGCGCTCAGAATATATACACGA
1 TTTTGTATGTCTGGGATCAAGAAAAACCTCAGAACTAACAGACAGCACTCAGAATATACACACGA
** *
693707 CAGAGTGACCGTGGCAAGGTGTGAAAATTGACCACCTGTGTATATGTCTTGCAG
66 CAGAGTGACCACGGCAAGGTGTGAAAATTGACCACCTGTGTATATGTCTGGCAG
693761 CCTCAGAATA
Statistics
Matches: 109, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
134 109 1.00
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (134 bp):
TTTTGTATGTCTGGGATCAAGAAAAACCTCAGAACTAACAGACAGCACTCAGAATATACACACGA
CAGAGTGACCACGGCAAGGTGTGAAAATTGACCACCTGTGTATATGTCTGGCAGTCGCTGAAAAG
ATTC
Found at i:694420 original size:10 final size:10
Alignment explanation
Indices: 694405--694582 Score: 89
Period size: 10 Copynumber: 17.7 Consensus size: 10
694395 TCAGTACCAA
*
694405 CAGTAAATCT
1 CAGTAAATAT
694415 CAGTAAATAT
1 CAGTAAATAT
*
694425 CAGTAATTAT
1 CAGTAAATAT
**
694435 CAG-AGCTCA-
1 CAGTAAAT-AT
* *
694444 CAGCAAAAGCAT
1 CAG-TAAA-TAT
694456 CAGTAAATAT
1 CAGTAAATAT
694466 CAGTAAATAT
1 CAGTAAATAT
** *
694476 CAG-AACCAA
1 CAGTAAATAT
* *
694485 CAGCAATTAT
1 CAGTAAATAT
* *
694495 CAGT-AACAG
1 CAGTAAATAT
694504 CAGTAAAATTAT
1 CAGT-AAA-TAT
694516 CAGTAAATAT
1 CAGTAAATAT
* * *
694526 CAGCAATTCT
1 CAGTAAATAT
* *
694536 CAGT-ACTAA
1 CAGTAAATAT
694545 CAGTACAATAT
1 CAGTA-AATAT
694556 CAGTAAATAT
1 CAGTAAATAT
694566 CAG-AAATTAT
1 CAGTAAA-TAT
694576 CAGTAAA
1 CAGTAAA
694583 AAATGGCACT
Statistics
Matches: 125, Mismatches: 30, Indels: 25
0.69 0.17 0.14
Matches are distributed among these distances:
9 26 0.21
10 70 0.56
11 21 0.17
12 8 0.06
ACGTcount: A:0.46, C:0.17, G:0.12, T:0.25
Consensus pattern (10 bp):
CAGTAAATAT
Found at i:694488 original size:41 final size:40
Alignment explanation
Indices: 694374--694490 Score: 130
Period size: 41 Copynumber: 2.9 Consensus size: 40
694364 GTCTGTAATT
* * * * * *
694374 CTCAGTAATTATCAGCAATTCTCAGTACCAACAG-TAAAT
1 CTCAGTAAATATCAGTAATTATCAGAACCAACAGCAAAAG
*
694413 CTCAGTAAATATCAGTAATTATCAGAGCTC-ACAGCAAAAG
1 CTCAGTAAATATCAGTAATTATCAGAAC-CAACAGCAAAAG
*
694453 CATCAGTAAATATCAGTAAATATCAGAACCAACAGCAA
1 C-TCAGTAAATATCAGTAATTATCAGAACCAACAGCAA
694491 TTATCAGTAA
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
39 27 0.42
40 6 0.09
41 32 0.49
ACGTcount: A:0.44, C:0.21, G:0.12, T:0.23
Consensus pattern (40 bp):
CTCAGTAAATATCAGTAATTATCAGAACCAACAGCAAAAG
Found at i:694547 original size:60 final size:59
Alignment explanation
Indices: 694454--694582 Score: 145
Period size: 60 Copynumber: 2.2 Consensus size: 59
694444 CAGCAAAAGC
*
694454 ATCAGTAAATATCAGTAAATATCAGAACCAACAG-CAATTATCAGT-AACAGCAGTAAAATT
1 ATCAGTAAATATCAGCAAATATCAGAACCAACAGACAA-TATCAGTAAACAGCAG--AAATT
* * * * * *
694514 ATCAGTAAATATCAGCAATTCTCAGTACTAACAGTACAATATCAGTAAATATCAGAAATT
1 ATCAGTAAATATCAGCAAATATCAGAACCAACAG-ACAATATCAGTAAACAGCAGAAATT
694574 ATCAGTAAA
1 ATCAGTAAA
694583 AAATGGCACT
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
60 43 0.73
61 7 0.12
62 9 0.15
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.26
Consensus pattern (59 bp):
ATCAGTAAATATCAGCAAATATCAGAACCAACAGACAATATCAGTAAACAGCAGAAATT
Found at i:694557 original size:40 final size:40
Alignment explanation
Indices: 694485--694580 Score: 131
Period size: 40 Copynumber: 2.4 Consensus size: 40
694475 TCAGAACCAA
*
694485 CAGCAATTATCAGTAACAGCAGTAAAATTATCAGTAAATAT
1 CAGCAATTATCAGT-ACAACAGTAAAATTATCAGTAAATAT
* *
694526 CAGCAATTCTCAGTACTAACAGTACAA-TATCAGTAAATAT
1 CAGCAATTATCAGTAC-AACAGTAAAATTATCAGTAAATAT
*
694566 CAGAAATTATCAGTA
1 CAGCAATTATCAGTA
694581 AAAAATGGCA
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
40 28 0.57
41 21 0.43
ACGTcount: A:0.45, C:0.17, G:0.11, T:0.27
Consensus pattern (40 bp):
CAGCAATTATCAGTACAACAGTAAAATTATCAGTAAATAT
Found at i:698701 original size:1 final size:1
Alignment explanation
Indices: 698695--698724 Score: 51
Period size: 1 Copynumber: 30.0 Consensus size: 1
698685 AATATTTTGT
*
698695 AAAAAAAAAAAAAAAAAAAAGAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
698725 GCGAACTACG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.97, C:0.00, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:700224 original size:2 final size:2
Alignment explanation
Indices: 700217--700253 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
700207 TAAGTTTTTG
700217 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
700254 GCAAGATACA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:701751 original size:13 final size:13
Alignment explanation
Indices: 701723--701764 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
701713 ATTAACTTAG
701723 TTTGTTGTTTTGT
1 TTTGTTGTTTTGT
701736 TTTGCTTGTTTT-T
1 TTTG-TTGTTTTGT
701749 TTTGTT-TCTTTGT
1 TTTGTTGT-TTTGT
701762 TTT
1 TTT
701765 TCGTTTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 1 0.04
12 5 0.19
13 13 0.50
14 7 0.27
ACGTcount: A:0.00, C:0.05, G:0.17, T:0.79
Consensus pattern (13 bp):
TTTGTTGTTTTGT
Found at i:706278 original size:23 final size:23
Alignment explanation
Indices: 706248--706293 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
706238 GTTACAACAT
* *
706248 ACTTTAAGTTTTGATTTTTAGTG
1 ACTTTAAGTTTTGAATTTGAGTG
706271 ACTTTAAGTTTTGAATTTGAGTG
1 ACTTTAAGTTTTGAATTTGAGTG
706294 TTTAGGACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.24, C:0.04, G:0.20, T:0.52
Consensus pattern (23 bp):
ACTTTAAGTTTTGAATTTGAGTG
Found at i:707486 original size:16 final size:17
Alignment explanation
Indices: 707454--707486 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
707444 TGATTGTTGA
*
707454 GTCACGTTATGTCCGCC
1 GTCACGATATGTCCGCC
707471 GTCACGATAT-TCCGCC
1 GTCACGATATGTCCGCC
707487 ACCTTTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.15, C:0.36, G:0.21, T:0.27
Consensus pattern (17 bp):
GTCACGATATGTCCGCC
Found at i:707544 original size:51 final size:51
Alignment explanation
Indices: 707454--707572 Score: 141
Period size: 51 Copynumber: 2.3 Consensus size: 51
707444 TGATTGTTGA
* * *****
707454 GTCACGTTATGTCCGCCGTCACGATATTCCGCCACCTTTTTTTTTTAAATC
1 GTCACGTTATGTCCGCCATCACGAAATTCCGCCACCTTTTTCGAAAAAATC
*
707505 GTCACGTTATGTCCGCCATCAGGAAATGTCCGCCA-CTTTTTCGAAAAAATC
1 GTCACGTTATGTCCGCCATCACGAAAT-TCCGCCACCTTTTTCGAAAAAATC
*
707556 ATCACGTTATGTCCGCC
1 GTCACGTTATGTCCGCC
707573 TTAACAAATA
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
51 51 0.88
52 7 0.12
ACGTcount: A:0.22, C:0.29, G:0.16, T:0.33
Consensus pattern (51 bp):
GTCACGTTATGTCCGCCATCACGAAATTCCGCCACCTTTTTCGAAAAAATC
Found at i:707790 original size:17 final size:17
Alignment explanation
Indices: 707768--707802 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
707758 ATTGAAATAA
707768 TTTATTTCAATAGTGGT
1 TTTATTTCAATAGTGGT
707785 TTTATTTCAATAGTGGT
1 TTTATTTCAATAGTGGT
707802 T
1 T
707803 GCAAAGTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.06, G:0.17, T:0.54
Consensus pattern (17 bp):
TTTATTTCAATAGTGGT
Found at i:709549 original size:157 final size:155
Alignment explanation
Indices: 709265--709551 Score: 407
Period size: 157 Copynumber: 1.8 Consensus size: 155
709255 AGACTGTATC
* * *
709265 TTTAGTTGTCTACTCCTTTTCTCAGTGATGCTAGACCAAATTTAACAGTTGTTTTATTAAATAGA
1 TTTAGTTATCTACTCCTTTACTCAGTGATGCTAGACCAAATTAAACAGTTGTTTTATTAAATAGA
* *
709330 AATTATCAAATAACTAGATAAGAAATCAGAACGAGGGATGAAGTCCGTATTTTAAGATTTATACA
66 AATTATCAAATAACTAGATAAGAAATCAGAACGAGGAACGAAGTCCGTATTTTAAGATTTATACA
709395 ATTGTTACACAGTGTGTTATTTATA
131 ATTGTTACACAGTGTGTTATTTATA
** *
709420 TTTAGTTATCTACTCTCTTTAC-CAGTGATGCTAGACCCTATTAAACAGTTTTTTTGCATTAAAT
1 TTTAGTTATCTACTC-CTTTACTCAGTGATGCTAGACCAAATTAAACAGTTGTTTT--ATTAAAT
* * * * *
709484 AGAAATTTTCAAATGACTAGATAAGAAATCAGAACG-GATAACGAAGTCTGTATTTTGAGATTTA
63 AGAAATTATCAAATAACTAGATAAGAAATCAGAACGAG-GAACGAAGTCCGTATTTTAAGATTTA
709548 TACA
127 TACA
709552 TTTTTTTTAA
Statistics
Matches: 115, Mismatches: 13, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
155 43 0.37
156 6 0.05
157 66 0.57
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (155 bp):
TTTAGTTATCTACTCCTTTACTCAGTGATGCTAGACCAAATTAAACAGTTGTTTTATTAAATAGA
AATTATCAAATAACTAGATAAGAAATCAGAACGAGGAACGAAGTCCGTATTTTAAGATTTATACA
ATTGTTACACAGTGTGTTATTTATA
Found at i:711579 original size:2 final size:2
Alignment explanation
Indices: 711572--711618 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
711562 TAAGTTTTTG
711572 GA GA GA GA G- 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
711613 GA GA GA
1 GA GA GA
711619 ATTAGAATGA
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:712682 original size:13 final size:13
Alignment explanation
Indices: 712664--712698 Score: 56
Period size: 11 Copynumber: 2.8 Consensus size: 13
712654 AACTAAACCA
712664 TGGGTTTACTTTC
1 TGGGTTTACTTTC
712677 TGGGTTTAC--TC
1 TGGGTTTACTTTC
712688 TGGGTTTACTT
1 TGGGTTTACTT
712699 CAGGATTACT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 11 0.55
13 9 0.45
ACGTcount: A:0.09, C:0.14, G:0.26, T:0.51
Consensus pattern (13 bp):
TGGGTTTACTTTC
Found at i:712947 original size:22 final size:22
Alignment explanation
Indices: 712916--712957 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
712906 ATTTCAAAAT
*
712916 ACCCAGAGTAAACCCCGAGTTA
1 ACCCAAAGTAAACCCCGAGTTA
712938 ACCCAAAGTAAACCCCGAGT
1 ACCCAAAGTAAACCCCGAGT
712958 GGACCCACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.38, C:0.33, G:0.17, T:0.12
Consensus pattern (22 bp):
ACCCAAAGTAAACCCCGAGTTA
Found at i:712963 original size:22 final size:22
Alignment explanation
Indices: 712916--712964 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
712906 ATTTCAAAAT
* *
712916 ACCCAGAGTAAACCCCGAGTTA
1 ACCCAAAGTAAACCCCGAGTGA
*
712938 ACCCAAAGTAAACCCCGAGTGG
1 ACCCAAAGTAAACCCCGAGTGA
712960 ACCCA
1 ACCCA
712965 CATTTTAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.37, C:0.35, G:0.18, T:0.10
Consensus pattern (22 bp):
ACCCAAAGTAAACCCCGAGTGA
Found at i:714723 original size:44 final size:44
Alignment explanation
Indices: 714660--714743 Score: 159
Period size: 44 Copynumber: 1.9 Consensus size: 44
714650 TTTAAAAACT
714660 GCTAATTTCGAATGAAATAAATAACCATGTCAAAAACTAGGCAC
1 GCTAATTTCGAATGAAATAAATAACCATGTCAAAAACTAGGCAC
*
714704 GCTAATTTCGAATGAAATAAATAACCATGTCAAGAACTAG
1 GCTAATTTCGAATGAAATAAATAACCATGTCAAAAACTAG
714744 ACACTTGGTG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.45, C:0.17, G:0.14, T:0.24
Consensus pattern (44 bp):
GCTAATTTCGAATGAAATAAATAACCATGTCAAAAACTAGGCAC
Found at i:723648 original size:2 final size:2
Alignment explanation
Indices: 723641--723719 Score: 158
Period size: 2 Copynumber: 39.5 Consensus size: 2
723631 AGGAATGCAA
723641 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
723683 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
723720 AGAAAACACT
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 77 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:723867 original size:2 final size:2
Alignment explanation
Indices: 723860--723910 Score: 70
Period size: 2 Copynumber: 25.5 Consensus size: 2
723850 TCAATGCAAA
723860 CT CT CT CT CT CT C- CGT CT CT C- CGT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT C-T CT CT CT C-T CT CT CT CT CT CT CT CT CT
723902 CT CT CT CT C
1 CT CT CT CT C
723911 ATGATTAATC
Statistics
Matches: 45, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
1 2 0.04
2 41 0.91
3 2 0.04
ACGTcount: A:0.00, C:0.51, G:0.04, T:0.45
Consensus pattern (2 bp):
CT
Found at i:730646 original size:15 final size:15
Alignment explanation
Indices: 730626--730656 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
730616 CATTATGTGT
*
730626 TATTATTTGTTATTA
1 TATTATATGTTATTA
730641 TATTATATGTTATTA
1 TATTATATGTTATTA
730656 T
1 T
730657 TGATTCGACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (15 bp):
TATTATATGTTATTA
Found at i:732777 original size:2 final size:2
Alignment explanation
Indices: 732740--732767 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
732730 CATTTTGGAT
732740 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
732768 AGAGATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:735590 original size:14 final size:14
Alignment explanation
Indices: 735571--735601 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
735561 TGTCTGTTAT
*
735571 TTTTCATTCACGCG
1 TTTTCATTCAAGCG
735585 TTTTCATTCAAGCG
1 TTTTCATTCAAGCG
735599 TTT
1 TTT
735602 ACACAATACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.16, C:0.23, G:0.13, T:0.48
Consensus pattern (14 bp):
TTTTCATTCAAGCG
Found at i:739885 original size:74 final size:74
Alignment explanation
Indices: 739805--740134 Score: 263
Period size: 74 Copynumber: 4.3 Consensus size: 74
739795 GTGTCTTGTT
* * * *
739805 TCCTGTTTACATTGTCGACATCGCAATGTTGATCGACATCGGGTCGATATCGTGCCTACATCGTA
1 TCCTGTTTACATCGTCGACATCGCAATGTTGATCGACATCGTGTAGATATCGTGTCTACATCGTA
739870 CCTCTTATA
66 CCTCTTATA
* * * * * *
739879 TTCTGTTTACATCGTTGACATCGTCGATAGCGCAATGTTGATCGACATCGAGTCGATATAGTGTA
1 TCCTGTTTACATC---G---TCGAC-AT--CGCAATGTTGATCGACATCGTGTAGATATCGTGTC
*
739944 TACATCGTGTGCCTTCTT-T-
57 TACATC--GTACC-TCTTATA
* * * * * *
739963 T-CTGTTTACACCGTCGACATTGCAGTGTTGATCAACTTCGTGTAGACT-TCGTGTCTGCATCGT
1 TCCTGTTTACATCGTCGACATCGCAATGTTGATCGACATCGTGTAGA-TATCGTGTCTACATCGT
740026 ACCTACCTCCTATA
65 ACCT--CT--TATA
* * * ** * *
740040 ACCTGTTTACACCATCGACATCGCAATGTTGATCGACATCGTGTAGGCATTGTGTCTCCATCGTA
1 TCCTGTTTACATCGTCGACATCGCAATGTTGATCGACATCGTGTAGATATCGTGTCTACATCGTA
740105 CCTCTTATA
66 CCTCTTATA
740114 TCCTGTTTACATCGTCGACAT
1 TCCTGTTTACATCGTCGACAT
740135 TGTCGACATC
Statistics
Matches: 202, Mismatches: 33, Indels: 42
0.73 0.12 0.15
Matches are distributed among these distances:
71 1 0.00
72 4 0.02
73 2 0.01
74 63 0.31
75 2 0.01
76 5 0.02
77 5 0.02
78 56 0.28
80 5 0.02
81 2 0.01
83 47 0.23
84 1 0.00
85 5 0.02
86 4 0.02
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (74 bp):
TCCTGTTTACATCGTCGACATCGCAATGTTGATCGACATCGTGTAGATATCGTGTCTACATCGTA
CCTCTTATA
Found at i:739966 original size:83 final size:83
Alignment explanation
Indices: 739826--739982 Score: 208
Period size: 83 Copynumber: 1.9 Consensus size: 83
739816 TTGTCGACAT
* * * *
739826 CGCAATGTTGATCGACATCGGGTCGATATCGTGCCTACATCGTACCTCTTATATTCTGTTTACAT
1 CGCAATGTTGATCGACATCGAGTCGATATAGTGCATACATCGTACCTCTTATATTCTGTTTACAC
*
739891 CGTTGACATCGTCGATAG
66 CGTCGACATCGTCGATAG
* ** * *
739909 CGCAATGTTGATCGACATCGAGTCGATATAGTGTATACATCGTGTGC-CTTCTTTTCTGTTTACA
1 CGCAATGTTGATCGACATCGAGTCGATATAGTGCATACATCGT-ACCTCTTATATTCTGTTTACA
739973 CCGTCGACAT
65 CCGTCGACAT
739983 TGCAGTGTTG
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
83 62 0.98
84 1 0.02
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (83 bp):
CGCAATGTTGATCGACATCGAGTCGATATAGTGCATACATCGTACCTCTTATATTCTGTTTACAC
CGTCGACATCGTCGATAG
Found at i:740058 original size:78 final size:74
Alignment explanation
Indices: 739964--740136 Score: 213
Period size: 78 Copynumber: 2.3 Consensus size: 74
739954 GCCTTCTTTT
* * *
739964 CTGTTTACACCGTCGACATTGCAGTGTTGATCAACTTCGTGTAGAC-TTCGTGTCTGCATCGTAC
1 CTGTTTACACCGTCGACATTGCAATGTTGATCAACATCGTGTAGACATT-GTGTCTCCATCGTAC
740028 CTACCTCCTATAAC
65 CT--CT--TATAAC
* * * *
740042 CTGTTTACACCATCGACATCGCAATGTTGATCGACATCGTGTAGGCATTGTGTCTCCATCGTACC
1 CTGTTTACACCGTCGACATTGCAATGTTGATCAACATCGTGTAGACATTGTGTCTCCATCGTACC
*
740107 TCTTATATC
66 TCTTATAAC
*
740116 CTGTTTACATCGTCGACATTG
1 CTGTTTACACCGTCGACATTG
740137 TCGACATCGT
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
74 23 0.28
76 2 0.02
78 56 0.67
79 2 0.02
ACGTcount: A:0.21, C:0.27, G:0.18, T:0.34
Consensus pattern (74 bp):
CTGTTTACACCGTCGACATTGCAATGTTGATCAACATCGTGTAGACATTGTGTCTCCATCGTACC
TCTTATAAC
Found at i:740409 original size:45 final size:44
Alignment explanation
Indices: 740331--740418 Score: 124
Period size: 45 Copynumber: 2.0 Consensus size: 44
740321 AGTTAATATC
* *
740331 GTGTCTACATCGTACTTTTTGTTCCTGTTTACATCGTCAACATT
1 GTGTCTACATCGTACCTTCTGTTCCTGTTTACATCGTCAACATT
*
740375 GTGTCTACATCGTGTACCTTCT-TTCCTGTTTACATCGTCGACAT
1 GTGTCTACATC--GTACCTTCTGTTCCTGTTTACATCGTCAACAT
740419 CGCAATGTTG
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
44 11 0.28
45 21 0.54
46 7 0.18
ACGTcount: A:0.17, C:0.25, G:0.15, T:0.43
Consensus pattern (44 bp):
GTGTCTACATCGTACCTTCTGTTCCTGTTTACATCGTCAACATT
Found at i:740722 original size:92 final size:92
Alignment explanation
Indices: 740588--740852 Score: 458
Period size: 92 Copynumber: 2.9 Consensus size: 92
740578 CGACATTGGT
*
740588 TCAACATTGCGATGTCGACAATGTCGACGATGTTAACAGCAAAGAAATATTGGCAATGTTAACGA
1 TCAACGTTGCGATGTCGACAATGTCGACGATGTTAACAGCAAAGAAATATTGGCAATGTTAACGA
740653 TGTAAACTCGATATCGGTTCAACATCG
66 TGTAAACTCGATATCGGTTCAACATCG
* * *
740680 TCAACGTTGCGATGTCGACAATGTCGACGATGTAAACGGCAAAGAAATATCGGCAATGTTAACGA
1 TCAACGTTGCGATGTCGACAATGTCGACGATGTTAACAGCAAAGAAATATTGGCAATGTTAACGA
740745 TGTAAACTCGATATCGGTTCAACATCG
66 TGTAAACTCGATATCGGTTCAACATCG
** *
740772 TCAACGTTGCGATGTCGACAATGTCGACGATGTTAACAGCAAAGAAATATTGGCAATGTCGACAA
1 TCAACGTTGCGATGTCGACAATGTCGACGATGTTAACAGCAAAGAAATATTGGCAATGTTAACGA
*
740837 TGTAAAATCGATATCG
66 TGTAAACTCGATATCG
740853 TATCAATATT
Statistics
Matches: 162, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
92 162 1.00
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (92 bp):
TCAACGTTGCGATGTCGACAATGTCGACGATGTTAACAGCAAAGAAATATTGGCAATGTTAACGA
TGTAAACTCGATATCGGTTCAACATCG
Found at i:752315 original size:88 final size:88
Alignment explanation
Indices: 752208--752418 Score: 350
Period size: 88 Copynumber: 2.4 Consensus size: 88
752198 TCCATGAATC
*
752208 CAAATGGTTTCCGCAACGGAAACTTACTGAAACTTGAAGTTTCTGCATAGTTTCAATCTCCATAT
1 CAAATGGTTTCCGCAACGGAAACTTACTGAAACTTGAAGTTTCTGCATAGTTTCAACCTCCATAT
*
752273 ACATTTGGGATACATATTGTTTA
66 ACAATTGGGATACATATTGTTTA
**
752296 CAAATGGTTTCCGTGACGGAAACTTACTGAAACTTGAAGTTTCTGCATAGTTTCAACCTCCATAT
1 CAAATGGTTTCCGCAACGGAAACTTACTGAAACTTGAAGTTTCTGCATAGTTTCAACCTCCATAT
*
752361 ACAATTGTGATACATATTGTTTA
66 ACAATTGGGATACATATTGTTTA
* * *
752384 CAAAGGGTTTCCGCAACTGAAACTTATTGAAACTT
1 CAAATGGTTTCCGCAACGGAAACTTACTGAAACTT
752419 TTTATATTTT
Statistics
Matches: 113, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 113 1.00
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.34
Consensus pattern (88 bp):
CAAATGGTTTCCGCAACGGAAACTTACTGAAACTTGAAGTTTCTGCATAGTTTCAACCTCCATAT
ACAATTGGGATACATATTGTTTA
Found at i:762668 original size:20 final size:20
Alignment explanation
Indices: 762631--762670 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
762621 TTATTGAAAA
* *
762631 AATTGTAAAAATTGTTTGTT
1 AATTGTAAAAACTATTTGTT
*
762651 AATTGTTAAAACTATTTGTT
1 AATTGTAAAAACTATTTGTT
762671 GCTTGGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.12, T:0.50
Consensus pattern (20 bp):
AATTGTAAAAACTATTTGTT
Found at i:765214 original size:1 final size:1
Alignment explanation
Indices: 765198--765237 Score: 62
Period size: 1 Copynumber: 40.0 Consensus size: 1
765188 ATTATTTTGT
* *
765198 AAAATAAAAAATAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
765238 CAACTCCCAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.95, C:0.00, G:0.00, T:0.05
Consensus pattern (1 bp):
A
Found at i:769189 original size:20 final size:20
Alignment explanation
Indices: 769164--769225 Score: 106
Period size: 20 Copynumber: 3.1 Consensus size: 20
769154 TGACATGCGN
769164 ACCAGTGAGACATCTTATTG
1 ACCAGTGAGACATCTTATTG
*
769184 ACCAGTGAGACACCTTATTG
1 ACCAGTGAGACATCTTATTG
*
769204 ACCAGTGAGACATGTTATTG
1 ACCAGTGAGACATCTTATTG
769224 AC
1 AC
769226 TAGTACGTGA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (20 bp):
ACCAGTGAGACATCTTATTG
Found at i:772770 original size:16 final size:16
Alignment explanation
Indices: 772749--772809 Score: 72
Period size: 16 Copynumber: 3.8 Consensus size: 16
772739 GCAAAGGTTT
772749 AGTGTAAAGTGTACAC
1 AGTGTAAAGTGTACAC
*
772765 AGTGTATAGTGTACAC
1 AGTGTAAAGTGTACAC
772781 AGTGTAAAAAGT-TA-AC
1 AGTGT--AAAGTGTACAC
*
772797 AGTGTATAGTGTA
1 AGTGTAAAGTGTA
772810 TACGTACAGG
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
14 4 0.10
15 2 0.05
16 27 0.69
17 2 0.05
18 4 0.10
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.30
Consensus pattern (16 bp):
AGTGTAAAGTGTACAC
Found at i:780108 original size:17 final size:18
Alignment explanation
Indices: 780086--780125 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
780076 GGTAGGTAGG
780086 AAAAAA-ATTTTATTTTT
1 AAAAAATATTTTATTTTT
780103 AAAAAATATTTTATTTTT
1 AAAAAATATTTTATTTTT
780121 AAAAA
1 AAAAA
780126 CTTGGAGCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
AAAAAATATTTTATTTTT
Found at i:781522 original size:2 final size:2
Alignment explanation
Indices: 781515--781547 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
781505 TTTATTTATC
781515 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 A
781548 CTGTTTTAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:797270 original size:168 final size:167
Alignment explanation
Indices: 796992--797326 Score: 661
Period size: 168 Copynumber: 2.0 Consensus size: 167
796982 ATTTTTGTTT
796992 TTTCTGGCTTTGCAGCAGAAACTGATAAAAGTAGGGTAGGTTCGGTAAAATTCCTCCCCTACAGC
1 TTTCTGGCTTTGCAGCAGAAACTGATAAAAGTAGGGTAGGTTCGGTAAAATTCCTCCCCTACAGC
797057 TTTCCAAATTCAAAAAAAAAATTTCACCTTCAGAACTTAAATTTATGGTCTTTGATTCGACGCTG
66 TTTCCAAATTCAAAAAAAAAATTTCACCTTCAGAACTTAAATTTATGGTCTTTGATTCGACGCTG
797122 AGTAGTACCACTATTCGGATACCCCATCATATATATA
131 AGTAGTACCACTATTCGGATACCCCATCATATATATA
797159 NTTTCTGGCTTTGCAGCAGAAACTGATAAAAGTAGGGTAGGTTCGGTAAAATTCCTCCCCTACAG
1 -TTTCTGGCTTTGCAGCAGAAACTGATAAAAGTAGGGTAGGTTCGGTAAAATTCCTCCCCTACAG
797224 CTTTCCAAATTCAAAAAAAAAATTTCACCTTCAGAACTTAAATTTATGGTCTTTGATTCGACGCT
65 CTTTCCAAATTCAAAAAAAAAATTTCACCTTCAGAACTTAAATTTATGGTCTTTGATTCGACGCT
797289 GAGTAGTACCACTATTCGGATACCCCATCATATATATA
130 GAGTAGTACCACTATTCGGATACCCCATCATATATATA
797327 NNNNNNNNNN
Statistics
Matches: 167, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
168 167 1.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (167 bp):
TTTCTGGCTTTGCAGCAGAAACTGATAAAAGTAGGGTAGGTTCGGTAAAATTCCTCCCCTACAGC
TTTCCAAATTCAAAAAAAAAATTTCACCTTCAGAACTTAAATTTATGGTCTTTGATTCGACGCTG
AGTAGTACCACTATTCGGATACCCCATCATATATATA
Found at i:812240 original size:12 final size:12
Alignment explanation
Indices: 812223--812250 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
812213 GTATACAAAG
812223 AAAAGTTGTATT
1 AAAAGTTGTATT
812235 AAAAGTTGTATT
1 AAAAGTTGTATT
812247 AAAA
1 AAAA
812251 TAATTCAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.14, T:0.36
Consensus pattern (12 bp):
AAAAGTTGTATT
Found at i:816442 original size:86 final size:86
Alignment explanation
Indices: 816307--816472 Score: 194
Period size: 86 Copynumber: 1.9 Consensus size: 86
816297 TTAAAATTTT
* * * *
816307 ACTTTTTGTGAACTTATATAGTTATAAAAATATACCAAGTTTAAGGGTTACTGAATCAACCGCAT
1 ACTTTTTGTGAACTTATATAATTATAAAAACATACCAAGCTTAAGGGTTACTAAATCAACCG-AT
*
816372 TTT-TAGTATCTAAAATCTGTC
65 TTTGTAGTATATAAAATCTGTC
* * * * *
816393 ACTTTTTGTGAAAGTTA-ATAATTATAAAAACATACGAA-CTTCAGTGGTTACTAAATCGACCGG
1 ACTTTTTGTG-AACTTATATAATTATAAAAACATACCAAGCTTAAG-GGTTACTAAATCAACCGA
816456 TTTTGTAGTATATAAAA
64 TTTTGTAGTATATAAAA
816473 AAAAAACTTA
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
85 8 0.12
86 54 0.81
87 5 0.07
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.37
Consensus pattern (86 bp):
ACTTTTTGTGAACTTATATAATTATAAAAACATACCAAGCTTAAGGGTTACTAAATCAACCGATT
TTGTAGTATATAAAATCTGTC
Found at i:824728 original size:11 final size:11
Alignment explanation
Indices: 824709--824785 Score: 50
Period size: 12 Copynumber: 6.9 Consensus size: 11
824699 AAACTTATCC
824709 AAACAAAAAAA
1 AAACAAAAAAA
824720 AAACCAAAAAAA
1 AAA-CAAAAAAA
** **
824732 AAAC-CCAACC
1 AAACAAAAAAA
*
824742 AAACAAACAAAC
1 AAACAAA-AAAA
824754 AAACAAACAAAA
1 AAACAAA-AAAA
*
824766 CAA-AAAAAAA
1 AAACAAAAAAA
*
824776 CAACAAAAAA
1 AAACAAAAAA
824786 GACATATAAT
Statistics
Matches: 53, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
10 13 0.25
11 13 0.25
12 27 0.51
ACGTcount: A:0.79, C:0.21, G:0.00, T:0.00
Consensus pattern (11 bp):
AAACAAAAAAA
Found at i:824731 original size:13 final size:12
Alignment explanation
Indices: 824709--824785 Score: 64
Period size: 13 Copynumber: 5.8 Consensus size: 12
824699 AAACTTATCC
824709 AAACAAAAAAAA
1 AAACAAAAAAAA
*
824721 AACCAAAAAAAA
1 AAACAAAAAAAA
*
824733 AACCCAACCAAACAAA
1 AA-ACAA--AAA-AAA
*
824749 CAAACAAACAAACA
1 -AAACAAA-AAAAA
824763 AAACAAAAAAAA
1 AAACAAAAAAAA
824775 ACAACAAAAAA
1 A-AACAAAAAA
824786 GACATATAAT
Statistics
Matches: 54, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
12 18 0.33
13 20 0.37
14 3 0.06
15 5 0.09
16 6 0.11
17 2 0.04
ACGTcount: A:0.79, C:0.21, G:0.00, T:0.00
Consensus pattern (12 bp):
AAACAAAAAAAA
Found at i:824748 original size:4 final size:4
Alignment explanation
Indices: 824741--824782 Score: 54
Period size: 4 Copynumber: 11.0 Consensus size: 4
824731 AAAACCCAAC
824741 CAAA CAAA CAAA CAAA CAAA CAAAA CAAA -AAA -AAA C-AA CAAA
1 CAAA CAAA CAAA CAAA CAAA C-AAA CAAA CAAA CAAA CAAA CAAA
824783 AAAGACATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
3 9 0.26
4 22 0.63
5 4 0.11
ACGTcount: A:0.79, C:0.21, G:0.00, T:0.00
Consensus pattern (4 bp):
CAAA
Found at i:825445 original size:50 final size:50
Alignment explanation
Indices: 825385--825483 Score: 180
Period size: 50 Copynumber: 2.0 Consensus size: 50
825375 AATTGGCCAC
*
825385 GACCCTATAAGTTTTCTGGAGCGTCAGGATAGAAGAAATAAAACATCAAT
1 GACCCAATAAGTTTTCTGGAGCGTCAGGATAGAAGAAATAAAACATCAAT
*
825435 GACCCAATAAGTTTTCTGGAGCGTGAGGATAGAAGAAATAAAACATCAA
1 GACCCAATAAGTTTTCTGGAGCGTCAGGATAGAAGAAATAAAACATCAA
825484 CGTAAAGTTC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.22
Consensus pattern (50 bp):
GACCCAATAAGTTTTCTGGAGCGTCAGGATAGAAGAAATAAAACATCAAT
Found at i:831401 original size:30 final size:30
Alignment explanation
Indices: 831366--831482 Score: 200
Period size: 30 Copynumber: 3.9 Consensus size: 30
831356 TGAACTGCCA
831366 GTCAATAGACTGCGATCTATTAGG-CCGCCG
1 GTCAATAGACTGCGATCTATT-GGACCGCCG
831396 GTCAATAGACTGCGATCTATTGGACCGCCG
1 GTCAATAGACTGCGATCTATTGGACCGCCG
831426 GTCAATAGACTGCGATCTATTGGACCGCCG
1 GTCAATAGACTGCGATCTATTGGACCGCCG
* *
831456 GTCAATAGATTGTGATCTATTGGACCG
1 GTCAATAGACTGCGATCTATTGGACCG
831483 GCAACGTGTA
Statistics
Matches: 84, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
29 2 0.02
30 82 0.98
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (30 bp):
GTCAATAGACTGCGATCTATTGGACCGCCG
Found at i:835960 original size:2 final size:2
Alignment explanation
Indices: 835953--835980 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
835943 GAGCTGTCAC
835953 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
835981 TGTCCTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:837066 original size:76 final size:76
Alignment explanation
Indices: 836936--837093 Score: 262
Period size: 76 Copynumber: 2.1 Consensus size: 76
836926 TTTATCACAT
* *
836936 AATATTCTATTTAGAAATTTTGCAAAACAATTTCCTTGTTAAAGCAAACCTTCATTTTCTTCCCA
1 AATATCCTATTTAGAAATTTTGCAAAACAATTTCCTTGTTAAACCAAACCTTCATTTTCTTCCCA
837001 GACTCCCCCTC
66 GACTCCCCCTC
* * * *
837012 AATATCCTATTTAGAAATTTTGGAAGACAATTTCCTTGTTAAACCCAACGTTCATTTTCTTCCCA
1 AATATCCTATTTAGAAATTTTGCAAAACAATTTCCTTGTTAAACCAAACCTTCATTTTCTTCCCA
837077 GACTCCCCCTC
66 GACTCCCCCTC
837088 AATATC
1 AATATC
837094 GGCAGATAAC
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
76 76 1.00
ACGTcount: A:0.30, C:0.27, G:0.08, T:0.36
Consensus pattern (76 bp):
AATATCCTATTTAGAAATTTTGCAAAACAATTTCCTTGTTAAACCAAACCTTCATTTTCTTCCCA
GACTCCCCCTC
Found at i:838581 original size:17 final size:17
Alignment explanation
Indices: 838559--838591 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
838549 TATGTTGCAC
838559 CCACTATTGAAATAAAA
1 CCACTATTGAAATAAAA
838576 CCACTATTGAAATAAA
1 CCACTATTGAAATAAA
838592 TTATTTCAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.52, C:0.18, G:0.06, T:0.24
Consensus pattern (17 bp):
CCACTATTGAAATAAAA
Found at i:838663 original size:17 final size:17
Alignment explanation
Indices: 838641--838673 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
838631 ATCACTTTGT
838641 AACCACTATTGAAATAC
1 AACCACTATTGAAATAC
838658 AACCACTATTGAAATA
1 AACCACTATTGAAATA
838674 AATTATTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.21, G:0.06, T:0.24
Consensus pattern (17 bp):
AACCACTATTGAAATAC
Found at i:840059 original size:17 final size:17
Alignment explanation
Indices: 840037--840070 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
840027 ATTGAAATAA
840037 TTTATTTCAATAGTGGT
1 TTTATTTCAATAGTGGT
840054 TTTATTTCAATAGTGGT
1 TTTATTTCAATAGTGGT
840071 AGCAAGGTGA
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:0.24, C:0.06, G:0.18, T:0.53
Consensus pattern (17 bp):
TTTATTTCAATAGTGGT
Found at i:840064 original size:84 final size:84
Alignment explanation
Indices: 839958--840139 Score: 274
Period size: 84 Copynumber: 2.2 Consensus size: 84
839948 AAATGATTAC
* * *
839958 TTCAATAGTAGTTGTATTTCAATAGTGGTTGCAAAGTGATTTTTCTAATGAAATACGTCCCCAAC
1 TTCAATAGTGGTTGTATTTCAATAGTGGTAGCAAAGTGATTTTTCTAATGAAATACATCCCCAAC
*
840023 CACTATTGAAATAATTTAT
66 CACTATAGAAATAATTTAT
* * * * * *
840042 TTCAATAGTGGTTTTATTTCAATAGTGGTAGCAAGGTGATTTTTTTAATGAAATATATTCCCAAG
1 TTCAATAGTGGTTGTATTTCAATAGTGGTAGCAAAGTGATTTTTCTAATGAAATACATCCCCAAC
840107 CACTATAGAAATAATTTAT
66 CACTATAGAAATAATTTAT
840126 TTCAATAGTGGTTG
1 TTCAATAGTGGTTG
840140 CAACATATTG
Statistics
Matches: 87, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
84 87 1.00
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.40
Consensus pattern (84 bp):
TTCAATAGTGGTTGTATTTCAATAGTGGTAGCAAAGTGATTTTTCTAATGAAATACATCCCCAAC
CACTATAGAAATAATTTAT
Found at i:842027 original size:21 final size:21
Alignment explanation
Indices: 842001--842097 Score: 135
Period size: 21 Copynumber: 4.7 Consensus size: 21
841991 TACACCATAG
842001 CATAGCATAGCATTGAAATCT
1 CATAGCATAGCATTGAAATCT
842022 CATAGCATAGCATTGAAATCT
1 CATAGCATAGCATTGAAATCT
*
842043 CATAGCATAGCATTGGAATCT
1 CATAGCATAGCATTGAAATCT
*
842064 CATACCATAGCA-T-ACAATCT
1 CATAGCATAGCATTGA-AATCT
* *
842084 CATAGAATCGCATT
1 CATAGCATAGCATT
842098 CGTCATATCA
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
20 15 0.22
21 53 0.78
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (21 bp):
CATAGCATAGCATTGAAATCT
Done.