Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold1213
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: 1372454
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.28
Warning! 222767 characters in sequence are not A, C, G, or T
File 4 of 3
Found at i:896797 original size:56 final size:57
Alignment explanation
Indices: 896726--896835 Score: 195
Period size: 58 Copynumber: 1.9 Consensus size: 57
896716 GCAGTTCGCA
896726 ATTGAATAGTGAACTGCATTCTA-TAGAACGCAGTTCGCAATTCAAAATTTAGTGCG
1 ATTGAATAGTGAACTGCATTCTACTAGAACGCAGTTCGCAATTCAAAATTTAGTGCG
*
896782 ATTGAATAGTGAACTGCGTTCTATCTAGAACGCAGTTCGCAATTCAAAATTTAG
1 ATTGAATAGTGAACTGCATTCTA-CTAGAACGCAGTTCGCAATTCAAAATTTAG
896836 AATTCATATT
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
56 22 0.43
58 29 0.57
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (57 bp):
ATTGAATAGTGAACTGCATTCTACTAGAACGCAGTTCGCAATTCAAAATTTAGTGCG
Found at i:896929 original size:86 final size:86
Alignment explanation
Indices: 896782--897093 Score: 579
Period size: 86 Copynumber: 3.6 Consensus size: 86
896772 ATTTAGTGCG
896782 ATTGAATAGTGAACTGCGTTCTATCTAGAACGCAGTTCGCAATTCAAAATTTAGAATTCATATTT
1 ATTGAATAGTGAACTGCGTTCTA--TAGAACGCAGTTCGCAATTCAAAATTTAGAATTCATATTT
896847 GGGGCCCGCTTGCCTTATATGCA
64 GGGGCCCGCTTGCCTTATATGCA
*
896870 ATTGAATAGTGAACTGCGTTCTATGGAACGCAGTTCGCAATTCAAAATTTAGAATTCATATTTGG
1 ATTGAATAGTGAACTGCGTTCTATAGAACGCAGTTCGCAATTCAAAATTTAGAATTCATATTTGG
896935 GGCCCGCTTGCCTTATATGCA
66 GGCCCGCTTGCCTTATATGCA
* *
896956 ATTGAATAGTGAACTGCGTTCTATGGAACGCAGTTCGCAATTCAAAATTTAGAATTCATACTTGG
1 ATTGAATAGTGAACTGCGTTCTATAGAACGCAGTTCGCAATTCAAAATTTAGAATTCATATTTGG
897021 GGCCCGCTTGCCTTATATGCA
66 GGCCCGCTTGCCTTATATGCA
897042 ATTGAATAGTGAACTGCGTTCTATAGAACGCAGTTCGCAATTCAAAATTTAG
1 ATTGAATAGTGAACTGCGTTCTATAGAACGCAGTTCGCAATTCAAAATTTAG
897094 TGCGATTGAA
Statistics
Matches: 221, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
86 198 0.90
88 23 0.10
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (86 bp):
ATTGAATAGTGAACTGCGTTCTATAGAACGCAGTTCGCAATTCAAAATTTAGAATTCATATTTGG
GGCCCGCTTGCCTTATATGCA
Found at i:897109 original size:56 final size:57
Alignment explanation
Indices: 897042--897149 Score: 200
Period size: 58 Copynumber: 1.9 Consensus size: 57
897032 CTTATATGCA
897042 ATTGAATAGTGAACTGCGTTCTA-TAGAACGCAGTTCGCAATTCAAAATTTAGTGCG
1 ATTGAATAGTGAACTGCGTTCTACTAGAACGCAGTTCGCAATTCAAAATTTAGTGCG
897098 ATTGAATAGTGAACTGCGTTCTATCTAGAACGCAGTTCGCAATTCAAAATTT
1 ATTGAATAGTGAACTGCGTTCTA-CTAGAACGCAGTTCGCAATTCAAAATTT
897150 NNNNNNNNNN
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
56 23 0.46
58 27 0.54
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.31
Consensus pattern (57 bp):
ATTGAATAGTGAACTGCGTTCTACTAGAACGCAGTTCGCAATTCAAAATTTAGTGCG
Found at i:917977 original size:2 final size:2
Alignment explanation
Indices: 917970--917998 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
917960 NNNNNNNNNN
917970 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
917999 GCATATGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:926964 original size:2 final size:2
Alignment explanation
Indices: 926957--927012 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
926947 TGTTCAGCAA
926957 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
926999 TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC
927013 CCGAAGGAAT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:933159 original size:21 final size:21
Alignment explanation
Indices: 933095--933218 Score: 119
Period size: 21 Copynumber: 6.0 Consensus size: 21
933085 AAGGAACATG
*
933095 TAGTTATTTGTTCGGTCGAAT
1 TAGTTATTTGTTCGGACGAAT
* * * * *
933116 AAG-GATTTGTTCTGACCAGT
1 TAGTTATTTGTTCGGACGAAT
*
933136 TAGTTATTTGTTCGGTCGAAT
1 TAGTTATTTGTTCGGACGAAT
*
933157 TAG-GATTTGTTCGGACGAA-
1 TAGTTATTTGTTCGGACGAAT
*
933176 TACGTTATTTCTTCGGACGAAT
1 TA-GTTATTTGTTCGGACGAAT
* *
933198 TAGCTATTTGTTTGGACGAAT
1 TAGTTATTTGTTCGGACGAAT
933219 AAATAATATA
Statistics
Matches: 80, Mismatches: 19, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
19 2 0.03
20 29 0.36
21 47 0.59
22 2 0.03
ACGTcount: A:0.23, C:0.12, G:0.24, T:0.41
Consensus pattern (21 bp):
TAGTTATTTGTTCGGACGAAT
Found at i:933183 original size:41 final size:40
Alignment explanation
Indices: 933095--933219 Score: 151
Period size: 41 Copynumber: 3.0 Consensus size: 40
933085 AAGGAACATG
* * * *
933095 TAGTTATTTGTTCGGTCGAATAAGGATTTGTTCTGACCAGT
1 TAGTTATTTGTTCGGTCGAATTAGGATTTGTTCGGACGA-A
933136 TAGTTATTTGTTCGGTCGAATTAGGATTTGTTCGGACGAA
1 TAGTTATTTGTTCGGTCGAATTAGGATTTGTTCGGACGAA
* * * *
933176 TACGTTATTTCTTCGGACGAATTAGCTATTTGTTTGGACGAA
1 TA-GTTATTTGTTCGGTCGAATTAG-GATTTGTTCGGACGAA
933218 TA
1 TA
933220 AATAATATAA
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
40 2 0.03
41 56 0.76
42 16 0.22
ACGTcount: A:0.23, C:0.12, G:0.24, T:0.41
Consensus pattern (40 bp):
TAGTTATTTGTTCGGTCGAATTAGGATTTGTTCGGACGAA
Found at i:933416 original size:25 final size:21
Alignment explanation
Indices: 933362--933449 Score: 122
Period size: 21 Copynumber: 4.2 Consensus size: 21
933352 TAGCTAATTC
* *
933362 GTCCGAACAAATAACTTATCA
1 GTCCCAACAAACAACTTATCA
933383 GTCCCAACAAACAACTTATCA
1 GTCCCAACAAACAACTTATCA
*
933404 GTCCCAACAAACAACTTATCC
1 GTCCCAACAAACAACTTATCA
* * *
933425 GTTCCAACAAATAACTTATTA
1 GTCCCAACAAACAACTTATCA
933446 GTCC
1 GTCC
933450 GAACCACTTA
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 59 1.00
ACGTcount: A:0.40, C:0.30, G:0.07, T:0.24
Consensus pattern (21 bp):
GTCCCAACAAACAACTTATCA
Found at i:943762 original size:2 final size:2
Alignment explanation
Indices: 943755--943786 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
943745 GCGGGAAAAT
943755 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
943787 ATAACTGCTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:945491 original size:200 final size:200
Alignment explanation
Indices: 945148--945548 Score: 802
Period size: 200 Copynumber: 2.0 Consensus size: 200
945138 CAGGGCACAC
945148 ACGTTTCTTGAAAATGCAGCAGTGATTGTACAGTGTACTTAACAAGAAATTTAATCACAAAATTT
1 ACGTTTCTTGAAAATGCAGCAGTGATTGTACAGTGTACTTAACAAGAAATTTAATCACAAAATTT
945213 CTTTCCTTATATCATAACAGAAAAAGCAAAGTCAGCATTTTTTCCCGCATGGACACAACAAATAT
66 CTTTCCTTATATCATAACAGAAAAAGCAAAGTCAGCATTTTTTCCCGCATGGACACAACAAATAT
945278 CAACTAGATCCAAGATACTTCTTTTGTTGTTTCACATGGGTCTGCAACAACAAAAGAAGCAATTT
131 CAACTAGATCCAAGATACTTCTTTTGTTGTTTCACATGGGTCTGCAACAACAAAAGAAGCAATTT
945343 TGTTT
196 TGTTT
945348 ACGTTTCTTGAAAATGCAGCAGTGATTGTACAGTGTACTTAACAAGAAATTTAATCACAAAATTT
1 ACGTTTCTTGAAAATGCAGCAGTGATTGTACAGTGTACTTAACAAGAAATTTAATCACAAAATTT
945413 CTTTCCTTATATCATAACAGAAAAAGCAAAGTCAGCATTTTTTCCCGCATGGACACAACAAATAT
66 CTTTCCTTATATCATAACAGAAAAAGCAAAGTCAGCATTTTTTCCCGCATGGACACAACAAATAT
945478 CAACTAGATCCAAGATACTTCTTTTGTTGTTTCACATGGGTCTGCAACAACAAAAGAAGCAATTT
131 CAACTAGATCCAAGATACTTCTTTTGTTGTTTCACATGGGTCTGCAACAACAAAAGAAGCAATTT
945543 TGTTT
196 TGTTT
945548 A
1 A
945549 TATATAAATA
Statistics
Matches: 201, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
200 201 1.00
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.31
Consensus pattern (200 bp):
ACGTTTCTTGAAAATGCAGCAGTGATTGTACAGTGTACTTAACAAGAAATTTAATCACAAAATTT
CTTTCCTTATATCATAACAGAAAAAGCAAAGTCAGCATTTTTTCCCGCATGGACACAACAAATAT
CAACTAGATCCAAGATACTTCTTTTGTTGTTTCACATGGGTCTGCAACAACAAAAGAAGCAATTT
TGTTT
Found at i:947990 original size:62 final size:62
Alignment explanation
Indices: 947874--948044 Score: 254
Period size: 62 Copynumber: 2.7 Consensus size: 62
947864 AAAATATTGC
* **
947874 GGAATTACAAACCTCTCTCTCTCT-CTGCTTGGGTATTCGTTGTTAAATGAATTAAAATTAAAT
1 GGAATTACAAACCTCTCT-T-TCTAATGCTTGGGTATTCGTTGTTAAACAAATTAAAATTAAAT
**
947937 GGAATTACAAACCTCTCTTTCTAATGCTTAAGTATTCGTTGTTAAACAAATTAAAATTAAAT
1 GGAATTACAAACCTCTCTTTCTAATGCTTGGGTATTCGTTGTTAAACAAATTAAAATTAAAT
* *
947999 GGAATTACAAACCTCTCTCTCTAATGCTTGGGCATTCGTTGTTAAA
1 GGAATTACAAACCTCTCTTTCTAATGCTTGGGTATTCGTTGTTAAA
948045 TGGATACATT
Statistics
Matches: 98, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
61 3 0.03
62 77 0.79
63 18 0.18
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (62 bp):
GGAATTACAAACCTCTCTTTCTAATGCTTGGGTATTCGTTGTTAAACAAATTAAAATTAAAT
Found at i:953558 original size:15 final size:15
Alignment explanation
Indices: 953522--953573 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
953512 TAAATATTTC
953522 CTTTAATATCTTTAAT
1 CTTTAATATCTTT-AT
**
953538 -AATAATATCTTTAT
1 CTTTAATATCTTTAT
*
953552 CTTTAATATCTTGAT
1 CTTTAATATCTTTAT
953567 CCTTTAA
1 -CTTTAA
953574 CTTACATGTG
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
14 2 0.07
15 21 0.72
16 6 0.21
ACGTcount: A:0.33, C:0.13, G:0.02, T:0.52
Consensus pattern (15 bp):
CTTTAATATCTTTAT
Found at i:958462 original size:44 final size:44
Alignment explanation
Indices: 958332--958483 Score: 225
Period size: 44 Copynumber: 3.5 Consensus size: 44
958322 NNNNNNNNNN
*
958332 TTTGTTGTCTTTCCTGTGTACATTTGTTGTCTTTCCTGTGTACA
1 TTTGTTGTCTTTCCTGTGTACATTTGTTGTCTTTCCTGTGTACC
958376 TTTGTTGTCTTTCCTGTGTACATTTGTTGTCTTTCCTGTGTACC
1 TTTGTTGTCTTTCCTGTGTACATTTGTTGTCTTTCCTGTGTACC
* * *
958420 TTTGTTGTCTTTCCTGTGTACCTTTGTTGTCTTAACC-ATGTACC
1 TTTGTTGTCTTTCCTGTGTACATTTGTTGTCTT-TCCTGTGTACC
* * *
958464 TCTCTTGTCTTACCTGTGTA
1 TTTGTTGTCTTTCCTGTGTA
958484 TCTCTCTTGT
Statistics
Matches: 100, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
44 98 0.98
45 2 0.02
ACGTcount: A:0.09, C:0.21, G:0.17, T:0.53
Consensus pattern (44 bp):
TTTGTTGTCTTTCCTGTGTACATTTGTTGTCTTTCCTGTGTACC
Found at i:958462 original size:66 final size:66
Alignment explanation
Indices: 958332--958483 Score: 216
Period size: 66 Copynumber: 2.3 Consensus size: 66
958322 NNNNNNNNNN
* *
958332 TTTGTTGTCTTTCCTGTGTACATTTGTTGTCTTTCCTGTGTACATTTGTTGTCTTTCCTGTGTAC
1 TTTGTTGTCTTTCCTGTGTACATTTGTTGTCTTTCCTGTGTACATTTGTTGTCTTACCTATGTAC
958397 A
66 A
* *
958398 TTTGTTGTCTTTCCTGTGTACCTTTGTTGTCTTTCCTGTGTACCTTTGTTGTCTTAACC-ATGTA
1 TTTGTTGTCTTTCCTGTGTACATTTGTTGTCTTTCCTGTGTACATTTGTTGTCTT-ACCTATGTA
*
958462 CC
65 CA
* * *
958464 TCTCTTGTCTTACCTGTGTA
1 TTTGTTGTCTTTCCTGTGTA
958484 TCTCTCTTGT
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
66 75 0.97
67 2 0.03
ACGTcount: A:0.09, C:0.21, G:0.17, T:0.53
Consensus pattern (66 bp):
TTTGTTGTCTTTCCTGTGTACATTTGTTGTCTTTCCTGTGTACATTTGTTGTCTTACCTATGTAC
A
Found at i:958464 original size:22 final size:22
Alignment explanation
Indices: 958332--958452 Score: 224
Period size: 22 Copynumber: 5.5 Consensus size: 22
958322 NNNNNNNNNN
958332 TTTGTTGTCTTTCCTGTGTACA
1 TTTGTTGTCTTTCCTGTGTACA
958354 TTTGTTGTCTTTCCTGTGTACA
1 TTTGTTGTCTTTCCTGTGTACA
958376 TTTGTTGTCTTTCCTGTGTACA
1 TTTGTTGTCTTTCCTGTGTACA
*
958398 TTTGTTGTCTTTCCTGTGTACC
1 TTTGTTGTCTTTCCTGTGTACA
*
958420 TTTGTTGTCTTTCCTGTGTACC
1 TTTGTTGTCTTTCCTGTGTACA
958442 TTTGTTGTCTT
1 TTTGTTGTCTT
958453 AACCATGTAC
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
22 98 1.00
ACGTcount: A:0.07, C:0.19, G:0.18, T:0.56
Consensus pattern (22 bp):
TTTGTTGTCTTTCCTGTGTACA
Found at i:958471 original size:22 final size:23
Alignment explanation
Indices: 958414--958497 Score: 75
Period size: 22 Copynumber: 3.8 Consensus size: 23
958404 GTCTTTCCTG
* * * *
958414 TGTACCTTTGTTGTCTT-TCCTG
1 TGTACCTCTCTTGTCTTAACCTA
* *
958436 TGTACCTTTGTTGTCTTAACC-A
1 TGTACCTCTCTTGTCTTAACCTA
*
958458 TGTACCTCTCTTGTCTT-ACCTG
1 TGTACCTCTCTTGTCTTAACCTA
*
958480 TGTATCTCTCTTGTCTTA
1 TGTACCTCTCTTGTCTTA
958498 CATATTATGT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
21 3 0.06
22 48 0.91
23 2 0.04
ACGTcount: A:0.11, C:0.25, G:0.14, T:0.50
Consensus pattern (23 bp):
TGTACCTCTCTTGTCTTAACCTA
Found at i:958494 original size:44 final size:44
Alignment explanation
Indices: 958414--958497 Score: 114
Period size: 44 Copynumber: 1.9 Consensus size: 44
958404 GTCTTTCCTG
* * * * *
958414 TGTACCTTTGTTGTCTTTCCTGTGTACCTTTGTTGTCTTAACCA
1 TGTACCTCTCTTGTCTTACCTGTGTACCTCTCTTGTCTTAACCA
*
958458 TGTACCTCTCTTGTCTTACCTGTGTATCTCTCTTGTCTTA
1 TGTACCTCTCTTGTCTTACCTGTGTACCTCTCTTGTCTTA
958498 CATATTATGT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 34 1.00
ACGTcount: A:0.11, C:0.25, G:0.14, T:0.50
Consensus pattern (44 bp):
TGTACCTCTCTTGTCTTACCTGTGTACCTCTCTTGTCTTAACCA
Found at i:958562 original size:14 final size:14
Alignment explanation
Indices: 958543--958581 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
958533 CTTTCCTATG
*
958543 TTACCTCTTTTGTC
1 TTACCTCTGTTGTC
958557 TTACCTCTGTTGTC
1 TTACCTCTGTTGTC
*
958571 TTATCTCTGTT
1 TTACCTCTGTT
958582 ACCTATGTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.08, C:0.26, G:0.10, T:0.56
Consensus pattern (14 bp):
TTACCTCTGTTGTC
Found at i:958570 original size:37 final size:37
Alignment explanation
Indices: 958529--958599 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
958519 TTTTGTTATT
* *
958529 TTGTCTT-TCCTATGTTACCTCTTTTGTCTTACCTCTG
1 TTGTCTTAT-CTATGTTACCTATGTTGTCTTACCTCTG
*
958566 TTGTCTTATCTCTGTTACCTATGTTGTCTTACCT
1 TTGTCTTATCTATGTTACCTATGTTGTCTTACCT
958600 GTGTATCTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
37 29 0.97
38 1 0.03
ACGTcount: A:0.10, C:0.25, G:0.11, T:0.54
Consensus pattern (37 bp):
TTGTCTTATCTATGTTACCTATGTTGTCTTACCTCTG
Found at i:958615 original size:22 final size:22
Alignment explanation
Indices: 958558--958696 Score: 113
Period size: 22 Copynumber: 6.2 Consensus size: 22
958548 TCTTTTGTCT
*
958558 TACCTCTGTTGTCTTATCTCTGT-
1 TACCTTTGTTGTCTTA-C-CTGTG
*
958581 TACCTATGTTGTCTTACCTGTG
1 TACCTTTGTTGTCTTACCTGTG
*
958603 TATCTTTGTTGTCTTACCTGTG
1 TACCTTTGTTGTCTTACCTGTG
* * *
958625 TATCTTTGATG-CTTTCCTTGTG
1 TACCTTTGTTGTCTTACC-TGTG
* *
958647 TTACCTCTT-ATGTCTTACCTTTG
1 -TACCT-TTGTTGTCTTACCTGTG
* * *
958670 TACCTGTATTGTCCTACCTGTG
1 TACCTTTGTTGTCTTACCTGTG
958692 TACCT
1 TACCT
958697 ATGCTGACTT
Statistics
Matches: 98, Mismatches: 12, Indels: 13
0.80 0.10 0.11
Matches are distributed among these distances:
21 10 0.10
22 56 0.57
23 25 0.26
24 7 0.07
ACGTcount: A:0.12, C:0.24, G:0.15, T:0.50
Consensus pattern (22 bp):
TACCTTTGTTGTCTTACCTGTG
Found at i:973197 original size:18 final size:18
Alignment explanation
Indices: 973176--973240 Score: 76
Period size: 18 Copynumber: 3.6 Consensus size: 18
973166 TCTGAGAGGA
* *
973176 AGTGACTATCCTCATACT
1 AGTGACTATCCACAAACT
*
973194 AGTGAATATCCACAAACT
1 AGTGACTATCCACAAACT
* *
973212 AGTGACTATCCACACACA
1 AGTGACTATCCACAAACT
*
973230 AGTGAATATCC
1 AGTGACTATCC
973241 GCCAGTTAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.37, C:0.26, G:0.12, T:0.25
Consensus pattern (18 bp):
AGTGACTATCCACAAACT
Found at i:983528 original size:2 final size:2
Alignment explanation
Indices: 983523--983585 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
983513 TACCGGTATA
983523 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
983565 CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT C
983586 GATTTGGGTT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:986514 original size:2 final size:2
Alignment explanation
Indices: 986507--986568 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
986497 NNNNNNNNNN
986507 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
986549 TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC
986569 GATTTGGGTT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:990659 original size:14 final size:14
Alignment explanation
Indices: 990640--990669 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
990630 TGTTTGTTAT
990640 CACATATATATATA
1 CACATATATATATA
*
990654 CACATATATATTTA
1 CACATATATATATA
990668 CA
1 CA
990670 AACTGTATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.37
Consensus pattern (14 bp):
CACATATATATATA
Found at i:994106 original size:11 final size:11
Alignment explanation
Indices: 994090--994116 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
994080 AGAAATCATT
994090 TTATCGTACTA
1 TTATCGTACTA
994101 TTATCGTACTA
1 TTATCGTACTA
994112 TTATC
1 TTATC
994117 AAATGATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.26, C:0.19, G:0.07, T:0.48
Consensus pattern (11 bp):
TTATCGTACTA
Found at i:995760 original size:23 final size:23
Alignment explanation
Indices: 995734--995788 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
995724 AACATAGCCT
* *
995734 TCAACACAAATCAATAGGTTGCA
1 TCAATACAAATCAAAAGGTTGCA
*
995757 TCAATACAAATCAAAAGGTTTCA
1 TCAATACAAATCAAAAGGTTGCA
995780 TCAATACAA
1 TCAATACAA
995789 GTTTGTTTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.47, C:0.20, G:0.09, T:0.24
Consensus pattern (23 bp):
TCAATACAAATCAAAAGGTTGCA
Found at i:1008250 original size:164 final size:165
Alignment explanation
Indices: 1008074--1008807 Score: 690
Period size: 177 Copynumber: 4.2 Consensus size: 165
1008064 ACTTGAAAGA
* ** * * * * * *
1008074 CTTGGATGCTGAATCTGAGTCCTAAATTTCAGATGCTGGAGAAGGTTAAAGTTGTTGGACCAGGT
1 CTTGAATGCTGAATCTGAG-CCTAGGTTTCAGATGCTGGAGGAGGTTAAGGTTTTTAGAGCTGGT
1008139 TAAAGTTTTTGTTGCAGGTGCCCTTTTATAGCAATATCTA-AGT-TACTTCACCAAACTTGCATG
65 TAAAGTTTTTGTTGCAGGTGCCCTTTTATAGCAATATCTACAGTCTACTTCACCAAACTTGCATG
*
1008202 GATGGTGTGCCTTATGATACTGATGCACCAGACAGG
130 GATGGTGTGTCTTATGATACTGATGCACCAGACAGG
* ** * *
1008238 CTTGAGTGCTGAATCTGAGTTATAGGTTTCGGATGCTGGAGGAGGTTAAGGTTTTTGGAGCTGGT
1 CTTGAATGCTGAATCTGAG-CCTAGGTTTCAGATGCTGGAGGAGGTTAAGGTTTTTAGAGCTGGT
*
1008303 CAAAGTTTTTGTTGCAGGTGCCCTTTGT-TAGCAATATCTAAGTTACTGCAGGTCCGTACTTCAC
65 TAAAGTTTTTGTTGCAGGTGCCCTTT-TATAGCAATATC-----TA---CA-GT-C-TACTTCAC
1008367 CAAACTTGCATGGATGGTGTGTCTTATGATACTGATGCACCAGACAGG
118 CAAACTTGCATGGATGGTGTGTCTTATGATACTGATGCACCAGACAGG
* * *
1008415 CTTGAATGCTGAATCTGAGCTGTAGGTTGCGGATGCTGGAGGAGGTTAAGGTTTTTAGAGCTGGT
1 CTTGAATGCTGAATCTGAGC-CTAGGTTTCAGATGCTGGAGGAGGTTAAGGTTTTTAGAGCTGGT
* * *
1008480 TAAAGTTTTTGTTGCAGGTGCCTTCTGATGATTATATC-TTAGTTACTACTTGTCCTAACTTCAC
65 TAAAGTTTTTGTTGCAGGTGCC--CT--T--TTATAGCAATA--T-CTAC-AGT-CT-ACTTCAC
* * *
1008544 CAGACTTCCATGGATAGTGTGTCTTATGATACTGATGCACCAGACAGG
118 CAAACTTGCATGGATGGTGTGTCTTATGATACTGATGCACCAGACAGG
*
1008592 CTTGAATGCTGAATCTGAGCCATAGGTTT-AGGATGCTGAAGGAGGTTAAGGTTTTTAGAGCTGG
1 CTTGAATGCTGAATCTGAGCC-TAGGTTTCA-GATGCTGGAGGAGGTTAAGGTTTTTAGAGCTGG
*** * * *
1008656 TTAAAGTTTTTGAAACAGGTGCCCTCTGATGATTATATCTTAGTTAT-TACTTGTCCTAGCTTCA
64 TTAAAGTTTTTGTTGCAGGTG-CC-CT--T--TTATAGC--A-ATATCTAC-AGT-CTA-CTTCA
* * * *
1008720 CCAGACTTCCATGGATGTTG-GTCTTATGATACTGATGCACCTGACAGG
117 CCAAACTTGCATGGATGGTGTGTCTTATGATACTGATGCACCAGACAGG
* * *
1008768 TTTGAATGCTGAGTCTGGGCCATAGGTTTCAGATGCTGGA
1 CTTGAATGCTGAATCTGAGCC-TAGGTTTCAGATGCTGGA
1008808 TATGGTTAAG
Statistics
Matches: 494, Mismatches: 40, Indels: 60
0.83 0.07 0.10
Matches are distributed among these distances:
164 88 0.18
165 1 0.00
169 2 0.00
173 1 0.00
174 2 0.00
176 63 0.13
177 317 0.64
178 2 0.00
179 3 0.01
180 2 0.00
181 4 0.01
182 3 0.01
183 4 0.01
184 1 0.00
185 1 0.00
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (165 bp):
CTTGAATGCTGAATCTGAGCCTAGGTTTCAGATGCTGGAGGAGGTTAAGGTTTTTAGAGCTGGTT
AAAGTTTTTGTTGCAGGTGCCCTTTTATAGCAATATCTACAGTCTACTTCACCAAACTTGCATGG
ATGGTGTGTCTTATGATACTGATGCACCAGACAGG
Found at i:1008478 original size:177 final size:175
Alignment explanation
Indices: 1008182--1008807 Score: 871
Period size: 177 Copynumber: 3.5 Consensus size: 175
1008172 ATATCTAAGT
* * *
1008182 TACTTCACCAAACTTGCATGGATGGTGTGCCTTATGATACTGATGCACCAGACAGGCTTGAGTGC
1 TACTTCACCAAACTTCCATGGATGGTGTGTCTTATGATACTGATGCACCAGACAGGCTTGAATGC
** * *
1008247 TGAATCTGAGTTATAGGTTTCGGATGCTGGAGGAGGTTAAGGTTTTTGGAGCTGGTCAAAGTTTT
66 TGAATCTGAGCCATAGGTTTCGGATGCTGGAGGAGGTTAAGGTTTTTAGAGCTGGTTAAAGTTTT
* * * **
1008312 TGTTGCAGGTGCCCTTTGTTAGCA-ATATCTAAGTTACTGCAGGTCC
131 TGTTGCAGGTGCCCTTTGAT-G-ATATATCTTAGTTACTACTTGTCC
*
1008358 GTACTTCACCAAACTTGCATGGATGGTGTGTCTTATGATACTGATGCACCAGACAGGCTTGAATG
1 -TACTTCACCAAACTTCCATGGATGGTGTGTCTTATGATACTGATGCACCAGACAGGCTTGAATG
** *
1008423 CTGAATCTGAGCTGTAGGTTGCGGATGCTGGAGGAGGTTAAGGTTTTTAGAGCTGGTTAAAGTTT
65 CTGAATCTGAGCCATAGGTTTCGGATGCTGGAGGAGGTTAAGGTTTTTAGAGCTGGTTAAAGTTT
1008488 TTGTTGCAGGTG-CCTTCTGATGATTATATCTTAGTTACTACTTGTCC
130 TTGTTGCAGGTGCCCTT-TGATGA-TATATCTTAGTTACTACTTGTCC
* *
1008535 TAACTTCACCAGACTTCCATGGATAGTGTGTCTTATGATACTGATGCACCAGACAGGCTTGAATG
1 T-ACTTCACCAAACTTCCATGGATGGTGTGTCTTATGATACTGATGCACCAGACAGGCTTGAATG
* *
1008600 CTGAATCTGAGCCATAGGTTTAGGATGCTGAAGGAGGTTAAGGTTTTTAGAGCTGGTTAAAGTTT
65 CTGAATCTGAGCCATAGGTTTCGGATGCTGGAGGAGGTTAAGGTTTTTAGAGCTGGTTAAAGTTT
*** * *
1008665 TTGAAACAGGTGCCCTCTGATGATTATATCTTAGTTATTACTTGTCC
130 TTGTTGCAGGTGCCCTTTGATGA-TATATCTTAGTTACTACTTGTCC
* * * *
1008712 TAGCTTCACCAGACTTCCATGGATGTTG-GTCTTATGATACTGATGCACCTGACAGGTTTGAATG
1 TA-CTTCACCAAACTTCCATGGATGGTGTGTCTTATGATACTGATGCACCAGACAGGCTTGAATG
* * *
1008776 CTGAGTCTGGGCCATAGGTTTCAGATGCTGGA
65 CTGAATCTGAGCCATAGGTTTCGGATGCTGGA
1008808 TATGGTTAAG
Statistics
Matches: 409, Mismatches: 34, Indels: 13
0.90 0.07 0.03
Matches are distributed among these distances:
175 1 0.00
176 68 0.17
177 337 0.82
178 3 0.01
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (175 bp):
TACTTCACCAAACTTCCATGGATGGTGTGTCTTATGATACTGATGCACCAGACAGGCTTGAATGC
TGAATCTGAGCCATAGGTTTCGGATGCTGGAGGAGGTTAAGGTTTTTAGAGCTGGTTAAAGTTTT
TGTTGCAGGTGCCCTTTGATGATATATCTTAGTTACTACTTGTCC
Found at i:1009835 original size:15 final size:15
Alignment explanation
Indices: 1009750--1009836 Score: 54
Period size: 15 Copynumber: 5.9 Consensus size: 15
1009740 TTAGCTTCTG
*
1009750 TAATATAGA-ATTATA
1 TAATAT-GATATTGTA
* *
1009765 TAACATGAAATTGTA
1 TAATATGATATTGTA
*
1009780 TAATATGATACTGT-
1 TAATATGATATTGTA
* * *
1009794 TTATATAAT-TTCTTA
1 TAATATGATATT-GTA
* *
1009809 TCATACGATATTGTA
1 TAATATGATATTGTA
1009824 TAATATGATATTG
1 TAATATGATATTG
1009837 GTTTATAATA
Statistics
Matches: 53, Mismatches: 15, Indels: 8
0.70 0.20 0.11
Matches are distributed among these distances:
13 1 0.02
14 10 0.19
15 40 0.75
16 2 0.04
ACGTcount: A:0.40, C:0.06, G:0.10, T:0.44
Consensus pattern (15 bp):
TAATATGATATTGTA
Found at i:1027635 original size:2 final size:2
Alignment explanation
Indices: 1027628--1027686 Score: 100
Period size: 2 Copynumber: 29.5 Consensus size: 2
1027618 TGTACAGTAA
* *
1027628 TC TC TC TC TC TC TC TC TC TT TC TC TC TC TC TC TT 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
1027670 TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC T
1027687 GGTACTATAA
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:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (2 bp):
TC
Found at i:1031368 original size:22 final size:22
Alignment explanation
Indices: 1031338--1031392 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
1031328 ATTATAAAAG
*
1031338 GCGAAGGCGAAAGCGCGAAGAT
1 GCGATGGCGAAAGCGCGAAGAT
* * *
1031360 GCGATGGCGAGAGTGCGAAGTT
1 GCGATGGCGAAAGCGCGAAGAT
1031382 GCGATGGCGAA
1 GCGATGGCGAA
1031393 GGAGCGATGG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.29, C:0.16, G:0.44, T:0.11
Consensus pattern (22 bp):
GCGATGGCGAAAGCGCGAAGAT
Found at i:1031399 original size:22 final size:22
Alignment explanation
Indices: 1031338--1031399 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
1031328 ATTATAAAAG
* * *
1031338 GCGAAGGCGAAAGCGCGAAGAT
1 GCGATGGCGAAGGAGCGAAGAT
* *
1031360 GCGATGGCG-AGAGTGCGAAGTT
1 GCGATGGCGAAG-GAGCGAAGAT
1031382 GCGATGGCGAAGGAGCGA
1 GCGATGGCGAAGGAGCGA
1031400 TGGTAGTATC
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
21 1 0.03
22 30 0.91
23 2 0.06
ACGTcount: A:0.29, C:0.16, G:0.45, T:0.10
Consensus pattern (22 bp):
GCGATGGCGAAGGAGCGAAGAT
Found at i:1031443 original size:22 final size:22
Alignment explanation
Indices: 1031415--1031463 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1031405 GTATCGCTTC
* *
1031415 TTCGCCTTTGCAACTTCTCACT
1 TTCGCCTTCGCAACTTCGCACT
*
1031437 TTCGCCTTCGCATCTTCGCACT
1 TTCGCCTTCGCAACTTCGCACT
*
1031459 CTCGC
1 TTCGC
1031464 ACCTCGACCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.10, C:0.41, G:0.12, T:0.37
Consensus pattern (22 bp):
TTCGCCTTCGCAACTTCGCACT
Found at i:1032204 original size:21 final size:21
Alignment explanation
Indices: 1032179--1032506 Score: 393
Period size: 21 Copynumber: 15.9 Consensus size: 21
1032169 TAATTTTTAT
*
1032179 TAATTTGTTATAACAGATTAG
1 TAATTTGTTATAACAAATTAG
1032200 TAATTTGTTATAACAAATTAG
1 TAATTTGTTATAACAAATTAG
** * *
1032221 TAATTTAATATAACAGATTAT
1 TAATTTGTTATAACAAATTAG
*
1032242 TAATTTGTTATAACAAATTAT
1 TAATTTGTTATAACAAATTAG
* *
1032263 TAATCTGTTATAACAGATTA-
1 TAATTTGTTATAACAAATTAG
*
1032283 TCAATTTGTTATAACAGATTAG
1 T-AATTTGTTATAACAAATTAG
1032305 TAATTTGTTATAACAAATT-G
1 TAATTTGTTATAACAAATTAG
*
1032325 ----TTGTTATAACAGATTA-
1 TAATTTGTTATAACAAATTAG
1032341 TCAATTTGTTATAACAAATTA-
1 T-AATTTGTTATAACAAATTAG
* *
1032362 TCAATTTGTTATAACAGATTAT
1 T-AATTTGTTATAACAAATTAG
*
1032384 TAATTTGTTATAACAAATTAT
1 TAATTTGTTATAACAAATTAG
*
1032405 TAATTTTTTATAACAAATTAG
1 TAATTTGTTATAACAAATTAG
*
1032426 TATTTTGTTATAACAAATTAG
1 TAATTTGTTATAACAAATTAG
* * *
1032447 TTATTTGATATAACAAATTAA
1 TAATTTGTTATAACAAATTAG
* *
1032468 TAATTTGTTATAACAAAATAC
1 TAATTTGTTATAACAAATTAG
1032489 TAATTTGTTATAACAAAT
1 TAATTTGTTATAACAAAT
1032507 CAATAAAAAA
Statistics
Matches: 269, Mismatches: 29, Indels: 18
0.85 0.09 0.06
Matches are distributed among these distances:
16 14 0.05
20 2 0.01
21 251 0.93
22 2 0.01
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.44
Consensus pattern (21 bp):
TAATTTGTTATAACAAATTAG
Found at i:1032439 original size:142 final size:142
Alignment explanation
Indices: 1032183--1032506 Score: 438
Period size: 142 Copynumber: 2.2 Consensus size: 142
1032173 TTTTATTAAT
1032183 TTGTTATAACAGATTAGTAATTTGTTATAACAAATTAGTAATTTAATATAACAGATTATTAATTT
1 TTGTTATAACAGATTAGTAATTTGTTATAACAAATTAGTAATTTAATATAACAGATTATTAATTT
* * *
1032248 GTTATAACAAATTATTAATCTGTTATAACAGATTATCAATTTGTTATAACAGATTAGTAATTTGT
66 GTTATAACAAATTATTAATCTGTTATAACAAATTATCAATTTGTTATAACAAATTAGTAATTTGA
1032313 TATAACAAATTG
131 TATAACAAATTG
**
1032325 TTGTTATAACAGATTA-TCAATTTGTTATAACAAATTA-TCAATTTGTTATAACAGATTATTAAT
1 TTGTTATAACAGATTAGT-AATTTGTTATAACAAATTAGT-AATTTAATATAACAGATTATTAAT
* * * *
1032388 TTGTTATAACAAATTATTAATTTTTTATAACAAATTAGT-ATTTTGTTATAACAAATTAGTTATT
64 TTGTTATAACAAATTATTAATCTGTTATAACAAATTA-TCAATTTGTTATAACAAATTAGTAATT
*
1032452 TGATATAACAAATTAATAAT
128 TGATATAACAAA-T--T--G
* * *
1032472 TTGTTATAACAAAATACTAATTTGTTATAACAAAT
1 TTGTTATAACAGATTAGTAATTTGTTATAACAAAT
1032507 CAATAAAAAA
Statistics
Matches: 161, Mismatches: 12, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
141 2 0.01
142 124 0.77
143 2 0.01
145 1 0.01
147 31 0.19
148 1 0.01
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.44
Consensus pattern (142 bp):
TTGTTATAACAGATTAGTAATTTGTTATAACAAATTAGTAATTTAATATAACAGATTATTAATTT
GTTATAACAAATTATTAATCTGTTATAACAAATTATCAATTTGTTATAACAAATTAGTAATTTGA
TATAACAAATTG
Found at i:1039647 original size:20 final size:20
Alignment explanation
Indices: 1039589--1039672 Score: 98
Period size: 20 Copynumber: 4.0 Consensus size: 20
1039579 ATAATGTATG
1039589 ATATGATATTGTATATTATATA
1 ATATGATATTG--TATTATATA
* *
1039611 ATGT-ATTATATGATATTGTATA
1 ATATGA-TAT-TG-TATTATATA
1039633 ATATGATATTGTATTATATA
1 ATATGATATTGTATTATATA
1039653 ATATGATATTGTATTATATA
1 ATATGATATTGTATTATATA
1039673 TTATTGTATG
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
20 28 0.51
21 3 0.05
22 21 0.38
23 3 0.05
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (20 bp):
ATATGATATTGTATTATATA
Found at i:1039660 original size:35 final size:35
Alignment explanation
Indices: 1039618--1039695 Score: 104
Period size: 35 Copynumber: 2.2 Consensus size: 35
1039608 ATAATGTATT
* *
1039618 ATATGATATTGTATAATATGA-TATTGTATTATATA
1 ATATGATATTGTATAATAT-ATTATTGTATGATACA
* *
1039653 ATATGATATTGTATTATATATTATTGTATGATACG
1 ATATGATATTGTATAATATATTATTGTATGATACA
1039688 ATATGATA
1 ATATGATA
1039696 CAATATTAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
34 1 0.03
35 37 0.97
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.47
Consensus pattern (35 bp):
ATATGATATTGTATAATATATTATTGTATGATACA
Found at i:1039671 original size:15 final size:15
Alignment explanation
Indices: 1039535--1039656 Score: 106
Period size: 15 Copynumber: 8.2 Consensus size: 15
1039525 GATGGTATAT
* *
1039535 TATTGTATCACATGA
1 TATTGTATTATATGA
* *
1039550 TATTGTATGATATAA
1 TATTGTATTATATGA
* *
1039565 TATTTTGA-TATATAA
1 TATTGT-ATTATATGA
* *
1039580 TAATGTATGATATGA
1 TATTGTATTATATGA
1039595 TATTGTA-TATTAT-A
1 TATTGTATTA-TATGA
*
1039609 TAATGTATTATATGA
1 TATTGTATTATATGA
*
1039624 TATTGTATAATATGA
1 TATTGTATTATATGA
*
1039639 TATTGTATTATATAA
1 TATTGTATTATATGA
1039654 TAT
1 TAT
1039657 GATATTGTAT
Statistics
Matches: 86, Mismatches: 16, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
14 12 0.14
15 73 0.85
16 1 0.01
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.48
Consensus pattern (15 bp):
TATTGTATTATATGA
Found at i:1044048 original size:170 final size:167
Alignment explanation
Indices: 1043684--1044069 Score: 476
Period size: 170 Copynumber: 2.3 Consensus size: 167
1043674 ACCCCTGGGG
** * * *
1043684 ACCATGATTAAAACAAACTTGAATCTAAACTGTCTGAGGATGCTTCAACACAAGTTTCAGCTTTT
1 ACCATGATTTGAACAAACTTGAATCTACACTATCTGAGGATGCTTCAACACAAGTTTCAGCTCTT
* *
1043749 CTGGCCAAATGGTATTTGAACTAGAAGATTTTTTAAAGATTAACTCTATATATTCCTATGTAAAA
66 CTGGCCAAATGGTATTTG-A--AGAAGATTTTTAAAAGATTAACTCTATATACTCCTATGTAAAA
**** *
1043814 CTTTGACCCCCCACTCCATTGTGGCCCAACCTTACCCTTGGGG
128 CTTTGA---CCCACTCCATTGTGGCCCAACCTTACCCCCAAGA
1043857 ACCATGATTTGAACAAACTTGAATCTACACTATCTGAGGATGCTTCCACACAAGTTCACAAGTTT
1 ACCATGATTTGAACAAACTTGAATCTACACTATCTGAGGATGCTT-----CAA---CACAAGTTT
1043922 CAGCTCTTCTGGCCAAATGGTATTTG-AGAAGA-TTTTAAAAGATTAACTCTATATACTCCTATG
58 CAGCTCTTCTGGCCAAATGGTATTTGAAGAAGATTTTTAAAAGATTAACTCTATATACTCCTATG
* *
1043985 TAAAACTTTGA-CC-C-CCATTGTGGCCCCATCTTACCCCCAAGA
123 TAAAACTTTGACCCACTCCATTGTGGCCCAACCTTACCCCCAAGA
*
1044027 ACCATGATTTGAACAAACTTGAATCTACACTATCTTAGGATGC
1 ACCATGATTTGAACAAACTTGAATCTACACTATCTGAGGATGC
1044070 AGCATCATGC
Statistics
Matches: 190, Mismatches: 15, Indels: 19
0.85 0.07 0.08
Matches are distributed among these distances:
170 63 0.33
171 1 0.01
172 2 0.01
173 41 0.22
176 40 0.21
177 6 0.03
178 3 0.02
181 34 0.18
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (167 bp):
ACCATGATTTGAACAAACTTGAATCTACACTATCTGAGGATGCTTCAACACAAGTTTCAGCTCTT
CTGGCCAAATGGTATTTGAAGAAGATTTTTAAAAGATTAACTCTATATACTCCTATGTAAAACTT
TGACCCACTCCATTGTGGCCCAACCTTACCCCCAAGA
Found at i:1045339 original size:16 final size:16
Alignment explanation
Indices: 1045314--1045346 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
1045304 TCAATGCATG
*
1045314 ACAATGGATTTGAAAA
1 ACAATAGATTTGAAAA
1045330 ACAATAGATTTGAAAA
1 ACAATAGATTTGAAAA
1045346 A
1 A
1045347 TAAGTACCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.55, C:0.06, G:0.15, T:0.24
Consensus pattern (16 bp):
ACAATAGATTTGAAAA
Found at i:1056681 original size:23 final size:23
Alignment explanation
Indices: 1056651--1056811 Score: 322
Period size: 23 Copynumber: 7.0 Consensus size: 23
1056641 ATAGCTGAGT
1056651 TAAACCCAGAGAGTATTGTCATA
1 TAAACCCAGAGAGTATTGTCATA
1056674 TAAACCCAGAGAGTATTGTCATA
1 TAAACCCAGAGAGTATTGTCATA
1056697 TAAACCCAGAGAGTATTGTCATA
1 TAAACCCAGAGAGTATTGTCATA
1056720 TAAACCCAGAGAGTATTGTCATA
1 TAAACCCAGAGAGTATTGTCATA
1056743 TAAACCCAGAGAGTATTGTCATA
1 TAAACCCAGAGAGTATTGTCATA
1056766 TAAACCCAGAGAGTATTGTCATA
1 TAAACCCAGAGAGTATTGTCATA
1056789 TAAACCCAGAGAGTATTGTCATA
1 TAAACCCAGAGAGTATTGTCATA
1056812 NNNNNNNNNN
Statistics
Matches: 138, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 138 1.00
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.26
Consensus pattern (23 bp):
TAAACCCAGAGAGTATTGTCATA
Found at i:1057634 original size:11 final size:11
Alignment explanation
Indices: 1057618--1057647 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
1057608 CTAGGATGAA
1057618 AAAAAAGGAAG
1 AAAAAAGGAAG
*
1057629 AAAAAATGAAG
1 AAAAAAGGAAG
1057640 AAAAAAGG
1 AAAAAAGG
1057648 TTTGTGTTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.73, C:0.00, G:0.23, T:0.03
Consensus pattern (11 bp):
AAAAAAGGAAG
Found at i:1062358 original size:16 final size:16
Alignment explanation
Indices: 1062337--1062367 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1062327 AAGTGTAGAA
1062337 GGGCAAAAATCACACG
1 GGGCAAAAATCACACG
1062353 GGGCAAAAATCACAC
1 GGGCAAAAATCACAC
1062368 TGTATACTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.26, G:0.23, T:0.06
Consensus pattern (16 bp):
GGGCAAAAATCACACG
Found at i:1072050 original size:16 final size:16
Alignment explanation
Indices: 1072029--1072060 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
1072019 ATTTTTCTTC
1072029 AAAAAAAAAAAGAAGA
1 AAAAAAAAAAAGAAGA
1072045 AAAAAAAAAAAGAAGA
1 AAAAAAAAAAAGAAGA
1072061 TGAGTCTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAGAAGA
Found at i:1089296 original size:13 final size:14
Alignment explanation
Indices: 1089273--1089299 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1089263 TACATATGAC
1089273 TTTGTTTTTTTTTT
1 TTTGTTTTTTTTTT
1089287 TTTGTTTTTTTTT
1 TTTGTTTTTTTTT
1089300 GTATGGATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (14 bp):
TTTGTTTTTTTTTT
Found at i:1090937 original size:2 final size:2
Alignment explanation
Indices: 1090932--1090969 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1090922 AGGTTTTTTG
1090932 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
1090970 ATATTCAGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1091577 original size:2 final size:2
Alignment explanation
Indices: 1091570--1091656 Score: 142
Period size: 2 Copynumber: 44.5 Consensus size: 2
1091560 TTGTATGATT
* *
1091570 GA GA GA GA GA GA AA GA GA GA GA GA -A GC GA GA GA GA GA -A GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1091610 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
1091652 GA GA G
1 GA GA G
1091657 CATCCATAAT
Statistics
Matches: 79, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
1 2 0.03
2 77 0.97
ACGTcount: A:0.51, C:0.01, G:0.48, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1091978 original size:2 final size:2
Alignment explanation
Indices: 1091971--1092020 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
1091961 TTGATTGATT
1091971 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
1092013 GA GA GA GA
1 GA GA GA GA
1092021 TTGATTGACT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1118482 original size:8 final size:8
Alignment explanation
Indices: 1118465--1118548 Score: 77
Period size: 8 Copynumber: 10.6 Consensus size: 8
1118455 AAACTTCAGT
1118465 AAAAAA-A
1 AAAAAACA
1118472 AAAAAAC-
1 AAAAAACA
1118479 -AAAAACA
1 AAAAAACA
*
1118486 AACAAACA
1 AAAAAACA
*
1118494 AACAAACA
1 AAAAAACA
*
1118502 AACAAACA
1 AAAAAACA
*
1118510 AACAAACA
1 AAAAAACA
1118518 AACAAAAC-
1 AA-AAAACA
1118526 AAAAAACA
1 AAAAAACA
1118534 AAACGAAACA
1 AAA--AAACA
1118544 AAAAA
1 AAAAA
1118549 GTAAAGTATT
Statistics
Matches: 68, Mismatches: 2, Indels: 13
0.82 0.02 0.16
Matches are distributed among these distances:
6 6 0.09
7 11 0.16
8 39 0.57
9 4 0.06
10 8 0.12
ACGTcount: A:0.81, C:0.18, G:0.01, T:0.00
Consensus pattern (8 bp):
AAAAAACA
Found at i:1118488 original size:4 final size:4
Alignment explanation
Indices: 1118481--1118545 Score: 96
Period size: 4 Copynumber: 15.8 Consensus size: 4
1118471 AAAAAAACAA
1118481 AAAC AAAC AAAC AAAC AAAC AAAC AAAC AAAC AAAC AAAC AAAAC AAA-
1 AAAC AAAC AAAC AAAC AAAC AAAC AAAC AAAC AAAC AAAC -AAAC AAAC
1118529 AAAC AAAAC GAAAC AAA
1 AAAC -AAAC -AAAC AAA
1118546 AAAGTAAAGT
Statistics
Matches: 57, Mismatches: 1, Indels: 6
0.89 0.02 0.09
Matches are distributed among these distances:
3 3 0.05
4 42 0.74
5 12 0.21
ACGTcount: A:0.77, C:0.22, G:0.02, T:0.00
Consensus pattern (4 bp):
AAAC
Found at i:1118546 original size:16 final size:15
Alignment explanation
Indices: 1118465--1118548 Score: 100
Period size: 16 Copynumber: 5.4 Consensus size: 15
1118455 AAACTTCAGT
*
1118465 AAAAAA-AAAAAAAC
1 AAAAAACAAACAAAC
1118479 -AAAAACAAACAAAC
1 AAAAAACAAACAAAC
1118493 AAACAAACAAACAAAC
1 AAA-AAACAAACAAAC
1118509 AAACAAACAAACAAAAC
1 AAA-AAACAAAC-AAAC
1118526 AAAAAACAAAACGAAAC
1 AAAAAAC-AAAC-AAAC
1118543 AAAAAA
1 AAAAAA
1118549 GTAAAGTATT
Statistics
Matches: 63, Mismatches: 2, Indels: 7
0.88 0.03 0.10
Matches are distributed among these distances:
13 5 0.08
14 7 0.11
15 2 0.03
16 28 0.44
17 21 0.33
ACGTcount: A:0.81, C:0.18, G:0.01, T:0.00
Consensus pattern (15 bp):
AAAAAACAAACAAAC
Found at i:1120569 original size:2 final size:2
Alignment explanation
Indices: 1120562--1120611 Score: 91
Period size: 2 Copynumber: 24.5 Consensus size: 2
1120552 CGTTACAATC
1120562 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
1120604 AG ATG AG A
1 AG A-G AG A
1120612 TGGGATGAGA
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 45 0.96
3 2 0.04
ACGTcount: A:0.50, C:0.00, G:0.48, T:0.02
Consensus pattern (2 bp):
AG
Found at i:1121550 original size:13 final size:13
Alignment explanation
Indices: 1121532--1121559 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1121522 CTTGTTCTCT
1121532 TTTATTCACTTTA
1 TTTATTCACTTTA
1121545 TTTATTCACTTTA
1 TTTATTCACTTTA
1121558 TT
1 TT
1121560 AACACAGCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTATTCACTTTA
Found at i:1128205 original size:207 final size:206
Alignment explanation
Indices: 1127840--1128262 Score: 828
Period size: 207 Copynumber: 2.0 Consensus size: 206
1127830 TGTAATATCA
1127840 AAAATGTATTACATATGTGATACCACTGTATATTGAGCTAAACATAAATGTGATAAATATATATA
1 AAAATGTATTACATATGTGATACCACTGTATATTGAGCTAAACATAAATGTGATAAATATATATA
1127905 ACATTTTAAGTGGGACTTGCGAATCATTTGAAAGTATTGGCAACGCCTCAAGAATTGCAAAATGT
66 ACATTTTAAGTGGGACTTGCGAATCATTTGAAAGTATTGGCAACGCCTCAAGAATTGCAAAATGT
1127970 TTTCTTAAAAATTCGTAAACTATTTTAATCACATCTATATCAGAACAACCTGTTAAGCTACTGAA
131 TTTCTTAAAAATTCGTAAACTATTTTAATCACATCTATATCAGAACAACCTGTTAAGCTACTGAA
1128035 TTCATGTCTTC
196 TTCATGTCTTC
1128046 AAAATGTATTNACATATGTGATACCACTGTATATTGAGCTAAACATAAATGTGATAAATATATAT
1 AAAATGTATT-ACATATGTGATACCACTGTATATTGAGCTAAACATAAATGTGATAAATATATAT
*
1128111 AACATTTTAAGTGGGACTTGTGAATCATTTGAAAGTATTGGCAACGCCTCAAGAATTGCAAAATG
65 AACATTTTAAGTGGGACTTGCGAATCATTTGAAAGTATTGGCAACGCCTCAAGAATTGCAAAATG
1128176 TTTTCTTAAAAATTCGTAAACTATTTTAATCACATCTATATCAGAACAACCTGTTAAGCTACTGA
130 TTTTCTTAAAAATTCGTAAACTATTTTAATCACATCTATATCAGAACAACCTGTTAAGCTACTGA
1128241 ATTCATGTCTTC
195 ATTCATGTCTTC
1128253 AAAATGTATT
1 AAAATGTATT
1128263 CTTCGATTAA
Statistics
Matches: 215, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
206 10 0.05
207 205 0.95
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.34
Consensus pattern (206 bp):
AAAATGTATTACATATGTGATACCACTGTATATTGAGCTAAACATAAATGTGATAAATATATATA
ACATTTTAAGTGGGACTTGCGAATCATTTGAAAGTATTGGCAACGCCTCAAGAATTGCAAAATGT
TTTCTTAAAAATTCGTAAACTATTTTAATCACATCTATATCAGAACAACCTGTTAAGCTACTGAA
TTCATGTCTTC
Found at i:1130079 original size:17 final size:16
Alignment explanation
Indices: 1130053--1130132 Score: 63
Period size: 17 Copynumber: 4.7 Consensus size: 16
1130043 GCCCCCCCCC
*
1130053 CAAAAAAAAAAACAAAA
1 CAAAACAAAAAAC-AAA
1130070 CAAAACAAAAAAAACAAA
1 CAAAAC--AAAAAACAAA
*
1130088 -AACACCAAAGAAACAAA
1 CAA-AACAAA-AAACAAA
*
1130105 CAACAACAACAAACAAA
1 CAA-AACAAAAAACAAA
*
1130122 CAACACAAAAA
1 CAAAACAAAAA
1130133 TATTGATTTA
Statistics
Matches: 52, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
16 9 0.17
17 24 0.46
18 12 0.23
19 7 0.13
ACGTcount: A:0.78, C:0.21, G:0.01, T:0.00
Consensus pattern (16 bp):
CAAAACAAAAAACAAA
Found at i:1130083 original size:9 final size:9
Alignment explanation
Indices: 1130057--1130089 Score: 57
Period size: 9 Copynumber: 3.6 Consensus size: 9
1130047 CCCCCCCAAA
1130057 AAAAAAAAC
1 AAAAAAAAC
1130066 AAAACAAAAC
1 AAAA-AAAAC
1130076 AAAAAAAAC
1 AAAAAAAAC
1130085 AAAAA
1 AAAAA
1130090 CACCAAAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 14 0.61
10 9 0.39
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:1130107 original size:21 final size:21
Alignment explanation
Indices: 1130081--1130132 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
1130071 AAAACAAAAA
* *
1130081 AAACAAAAACACCAAAGAAAC
1 AAACAAAAACAACAAACAAAC
*
1130102 AAACAACAACAACAAACAAAC
1 AAACAAAAACAACAAACAAAC
1130123 AACACAAAAA
1 AA-ACAAAAA
1130133 TATTGATTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 20 0.77
22 6 0.23
ACGTcount: A:0.73, C:0.25, G:0.02, T:0.00
Consensus pattern (21 bp):
AAACAAAAACAACAAACAAAC
Found at i:1130120 original size:43 final size:40
Alignment explanation
Indices: 1130052--1130132 Score: 101
Period size: 43 Copynumber: 1.9 Consensus size: 40
1130042 TGCCCCCCCC
1130052 CCAAAAAAAAAAACAAAACAAAACAAAAAAAACAAAAACA
1 CCAAAAAAAAAAACAAAACAAAACAAAAAAAACAAAAACA
* *
1130092 CCAAAGAAACAAACAACAACAAC-AAACAAACAACACAAAAA
1 CCAAA-AAA-AAA-AACAA-AACAAAACAAAAAAAACAAAAA
1130133 TATTGATTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
40 5 0.14
41 3 0.09
42 3 0.09
43 21 0.60
44 3 0.09
ACGTcount: A:0.77, C:0.22, G:0.01, T:0.00
Consensus pattern (40 bp):
CCAAAAAAAAAAACAAAACAAAACAAAAAAAACAAAAACA
Found at i:1131166 original size:71 final size:71
Alignment explanation
Indices: 1131008--1131149 Score: 266
Period size: 71 Copynumber: 2.0 Consensus size: 71
1130998 GCATTTCCTC
* *
1131008 CAATAAATGACATAAAACTCGAAGAACAATATTCATACATAAAACCTTGAAAATATCACATAGTA
1 CAATAAATGACATAAAACTCGAAGAACAATATTCATACATAAAACCTTGAAAATATAACAAAGTA
1131073 TCCTGA
66 TCCTGA
1131079 CAATAAATGACATAAAACTCGAAGAACAATATTCATACATAAAACCTTGAAAATATAACAAAGTA
1 CAATAAATGACATAAAACTCGAAGAACAATATTCATACATAAAACCTTGAAAATATAACAAAGTA
1131144 TCCTGA
66 TCCTGA
1131150 GATTGAGACT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 69 1.00
ACGTcount: A:0.51, C:0.18, G:0.08, T:0.23
Consensus pattern (71 bp):
CAATAAATGACATAAAACTCGAAGAACAATATTCATACATAAAACCTTGAAAATATAACAAAGTA
TCCTGA
Found at i:1138257 original size:16 final size:16
Alignment explanation
Indices: 1138231--1138268 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
1138221 TGCACTTCTT
1138231 ATCAA-GTGATTACTA
1 ATCAATGTGATTACTA
1138246 ATCAATGTGATTACTA
1 ATCAATGTGATTACTA
1138262 ATCAATG
1 ATCAATG
1138269 AATTATTCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 5 0.23
16 17 0.77
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.34
Consensus pattern (16 bp):
ATCAATGTGATTACTA
Found at i:1177468 original size:172 final size:172
Alignment explanation
Indices: 1177173--1177746 Score: 904
Period size: 172 Copynumber: 3.4 Consensus size: 172
1177163 TCACACTTTT
* * *
1177173 TTGTAAGCGCTCTCATGCCTACACATTTTGACGGATTTTCATTACATTAATACCAAATGTTTATA
1 TTGTAAGCGCTCTCATGCCTACAAATTTTGACGGATTTTCATTAAATTTATACCAAATGTTTATA
* * *
1177238 CACCTATTACCTTGGTCAAGTTCGAAAATCAGCATTGGTCGATACTGTTTGTTGGAGTTATGGGA
66 CACCTATTACCTTGGTCAAGTTTGAAAATCAGCATTGGTCGATACTTTTTGCTGGAGTTATGGGA
1177303 CTCTGACCACAATAATGACTCCGTTTTATCCAAAAATTGACC
131 CTCTGACCACAATAATGACTCCGTTTTATCCAAAAATTGACC
*
1177345 TTGTAAGCGCTCTCATGCCTACAAATTTTGACGGATTTTCATTAAATTTATATCAAATGTTTATA
1 TTGTAAGCGCTCTCATGCCTACAAATTTTGACGGATTTTCATTAAATTTATACCAAATGTTTATA
* *
1177410 CACCTATTACCTTGGACAAGTTTGAAAATCAGCATTGGTCGATACTTTTTGCTGGAGTTATTGGA
66 CACCTATTACCTTGGTCAAGTTTGAAAATCAGCATTGGTCGATACTTTTTGCTGGAGTTATGGGA
1177475 CTCTGACCACAATAATGACTCCGTTTTATCCAAAAATTGACC
131 CTCTGACCACAATAATGACTCCGTTTTATCCAAAAATTGACC
* * *
1177517 TTGTAAGCGCTCTCATGCCTACAAATTTTGATGGATTTACATGAAATTTATACCAAATGTTTATA
1 TTGTAAGCGCTCTCATGCCTACAAATTTTGACGGATTTTCATTAAATTTATACCAAATGTTTATA
1177582 CACCTATTACCTTGGTCAAGTTTGAAAATCAGCATTGGTCGATACTTTTTGCTGGAGTTATGGGA
66 CACCTATTACCTTGGTCAAGTTTGAAAATCAGCATTGGTCGATACTTTTTGCTGGAGTTATGGGA
* * * * * *
1177647 ATTTGACCACAATAATTACTTCATTATAT-C-AAAATTGACC
131 CTCTGACCACAATAATGACTCCGTTTTATCCAAAAATTGACC
* * * * * *
1177687 TTGAAAGTGCTTTCATGCCTACAAATTTT-A-AGATATTCATAAAATTTATACCAAATGTTT
1 TTGTAAGCGCTCTCATGCCTACAAATTTTGACGGATTTTCATTAAATTTATACCAAATGTTT
1177747 TATGCTCACA
Statistics
Matches: 374, Mismatches: 28, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
168 26 0.07
169 1 0.00
170 36 0.10
171 1 0.00
172 310 0.83
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.36
Consensus pattern (172 bp):
TTGTAAGCGCTCTCATGCCTACAAATTTTGACGGATTTTCATTAAATTTATACCAAATGTTTATA
CACCTATTACCTTGGTCAAGTTTGAAAATCAGCATTGGTCGATACTTTTTGCTGGAGTTATGGGA
CTCTGACCACAATAATGACTCCGTTTTATCCAAAAATTGACC
Found at i:1182170 original size:55 final size:55
Alignment explanation
Indices: 1182086--1182253 Score: 336
Period size: 55 Copynumber: 3.1 Consensus size: 55
1182076 CATATTTGCG
1182086 ATAATTTTACAATGTAAAATCTTCCTCCCTTCTAGATCCGCGCATGTTTTCATAC
1 ATAATTTTACAATGTAAAATCTTCCTCCCTTCTAGATCCGCGCATGTTTTCATAC
1182141 ATAATTTTACAATGTAAAATCTTCCTCCCTTCTAGATCCGCGCATGTTTTCATAC
1 ATAATTTTACAATGTAAAATCTTCCTCCCTTCTAGATCCGCGCATGTTTTCATAC
1182196 ATAATTTTACAATGTAAAATCTTCCTCCCTTCTAGATCCGCGCATGTTTTCATAC
1 ATAATTTTACAATGTAAAATCTTCCTCCCTTCTAGATCCGCGCATGTTTTCATAC
1182251 ATA
1 ATA
1182254 TGACACTGCA
Statistics
Matches: 113, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 113 1.00
ACGTcount: A:0.28, C:0.25, G:0.09, T:0.38
Consensus pattern (55 bp):
ATAATTTTACAATGTAAAATCTTCCTCCCTTCTAGATCCGCGCATGTTTTCATAC
Found at i:1207582 original size:74 final size:75
Alignment explanation
Indices: 1207452--1207599 Score: 219
Period size: 74 Copynumber: 2.0 Consensus size: 75
1207442 TCTAGTTAAT
* *
1207452 TTTCAAACTATTGATGAATCATTTTTTTTACAAAAATGTTAATAAGAATCACGGTAA-ACAACTT
1 TTTCAAACTATTGATGAATCA-TTTTTTCACAAAAATGTAAATAAGAATCACGGTAATA-AACTT
1207516 CTTGAATGACTA
64 CTTGAATGACTA
* * *
1207528 TTTCAAGCTATTGATGAATCA-TTTTTCACAAAAATGTAAATGAGAATCATGGTAATAAACTTCT
1 TTTCAAACTATTGATGAATCATTTTTTCACAAAAATGTAAATAAGAATCACGGTAATAAACTTCT
1207592 TGAATGAC
66 TGAATGAC
1207600 GATTGTTTGG
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
74 45 0.68
75 1 0.02
76 20 0.30
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.36
Consensus pattern (75 bp):
TTTCAAACTATTGATGAATCATTTTTTCACAAAAATGTAAATAAGAATCACGGTAATAAACTTCT
TGAATGACTA
Found at i:1212650 original size:2 final size:2
Alignment explanation
Indices: 1212643--1212700 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
1212633 CTAATCACTC
1212643 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
1212685 GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA
1212701 TAATTTGTTT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1212889 original size:17 final size:15
Alignment explanation
Indices: 1212847--1212880 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
1212837 GTAAATTTAT
1212847 TTATTAAGTTATCTG
1 TTATTAAGTTATCTG
1212862 TTATTAAGTTATCTG
1 TTATTAAGTTATCTG
1212877 TTAT
1 TTAT
1212881 ATTAAGTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.26, C:0.06, G:0.12, T:0.56
Consensus pattern (15 bp):
TTATTAAGTTATCTG
Found at i:1213676 original size:24 final size:24
Alignment explanation
Indices: 1213646--1214063 Score: 611
Period size: 24 Copynumber: 17.4 Consensus size: 24
1213636 AGTTTACTCA
1213646 TTATTATTCACAGTACACTGTCCG
1 TTATTATTCACAGTACACTGTCCG
*
1213670 TAATTATTCACAGTACACTGTCCG
1 TTATTATTCACAGTACACTGTCCG
*
1213694 TAATTATTCACAGTACACTGTCCG
1 TTATTATTCACAGTACACTGTCCG
1213718 TTATTATTCACAGTACACTGTCCG
1 TTATTATTCACAGTACACTGTCCG
*
1213742 TTAGTATTCACAGTACACTGTCCG
1 TTATTATTCACAGTACACTGTCCG
*
1213766 TTAGTATTCACAGTACACTGTCCG
1 TTATTATTCACAGTACACTGTCCG
*
1213790 TTATTATTCACAGAACACTGTCCG
1 TTATTATTCACAGTACACTGTCCG
* * * *
1213814 TTATCATTTACAGTACAATGTCTG
1 TTATTATTCACAGTACACTGTCCG
** * *
1213838 TTAAAATTCACAGTACCCTGTTCG
1 TTATTATTCACAGTACACTGTCCG
1213862 TTATTATTCACAGTACACTGTCCG
1 TTATTATTCACAGTACACTGTCCG
*
1213886 TTATTATTCACTGTACACTGTCCG
1 TTATTATTCACAGTACACTGTCCG
* *
1213910 TTATTATTCAAAGTACACTCTCCG
1 TTATTATTCACAGTACACTGTCCG
*
1213934 TTATTATTCACTGTACACTGTCCG
1 TTATTATTCACAGTACACTGTCCG
*
1213958 TTATTATTCACAGTACACTGTTCG
1 TTATTATTCACAGTACACTGTCCG
* * **
1213982 TTATTATTCAAAGTACACTTTAGG
1 TTATTATTCACAGTACACTGTCCG
* * *
1214006 TTATTATTCACTGTACACTCTTCG
1 TTATTATTCACAGTACACTGTCCG
1214030 TTATTATTCACAGTACACTGTCCG
1 TTATTATTCACAGTACACTGTCCG
1214054 TTATTATTCA
1 TTATTATTCA
1214064 TTAACTGAGT
Statistics
Matches: 352, Mismatches: 42, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 352 1.00
ACGTcount: A:0.26, C:0.23, G:0.12, T:0.38
Consensus pattern (24 bp):
TTATTATTCACAGTACACTGTCCG
Found at i:1225116 original size:15 final size:16
Alignment explanation
Indices: 1225098--1225135 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
1225088 CACTCGATGG
1225098 CTCGAACTTC-GATCT
1 CTCGAACTTCTGATCT
*
1225113 CTCGAAGTTCTTGATCT
1 CTCGAACTTC-TGATCT
1225130 CTCGAA
1 CTCGAA
1225136 GTGAACTCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 9 0.45
17 11 0.55
ACGTcount: A:0.21, C:0.29, G:0.16, T:0.34
Consensus pattern (16 bp):
CTCGAACTTCTGATCT
Found at i:1225224 original size:17 final size:17
Alignment explanation
Indices: 1225185--1225233 Score: 66
Period size: 17 Copynumber: 3.0 Consensus size: 17
1225175 GCAAATTTAC
*
1225185 TCTTGATCTCTCGAA-C
1 TCTTGATCTCTCGAAGT
*
1225201 TC-CGATCTCTCGAAGT
1 TCTTGATCTCTCGAAGT
1225217 TCTTGATCTCTCGAAGT
1 TCTTGATCTCTCGAAGT
1225234 AGAACCTGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 11 0.39
16 4 0.14
17 13 0.46
ACGTcount: A:0.18, C:0.29, G:0.16, T:0.37
Consensus pattern (17 bp):
TCTTGATCTCTCGAAGT
Found at i:1241901 original size:15 final size:15
Alignment explanation
Indices: 1241881--1241912 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
1241871 TCTCGCAGGG
1241881 AACATTGTGTTTTAT
1 AACATTGTGTTTTAT
1241896 AACATTGTGTTTTAT
1 AACATTGTGTTTTAT
1241911 AA
1 AA
1241913 GATGTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.06, G:0.12, T:0.50
Consensus pattern (15 bp):
AACATTGTGTTTTAT
Found at i:1248796 original size:22 final size:21
Alignment explanation
Indices: 1248765--1248812 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
1248755 GACGTTTGTG
*
1248765 TGTTTGTTTATTTGTTTGTTT
1 TGTTTGTTTATTTGTTTATTT
* *
1248786 TAGTTTTTTTATTTTTTTATTT
1 T-GTTTGTTTATTTGTTTATTT
1248808 TGTTT
1 TGTTT
1248813 AACTGTGTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.08, C:0.00, G:0.12, T:0.79
Consensus pattern (21 bp):
TGTTTGTTTATTTGTTTATTT
Found at i:1250938 original size:17 final size:17
Alignment explanation
Indices: 1250905--1250953 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
1250895 TGGTACTTTT
*
1250905 TTGTTTTTGTT-TGTTTG
1 TTGTTTTT-TTATATTTG
1250922 TTGTTTTTTTATATTTG
1 TTGTTTTTTTATATTTG
1250939 TT-TCTTTTTTATATT
1 TTGT-TTTTTTATATT
1250954 CTCTAAAATC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 3 0.10
17 26 0.90
ACGTcount: A:0.08, C:0.02, G:0.12, T:0.78
Consensus pattern (17 bp):
TTGTTTTTTTATATTTG
Found at i:1256769 original size:11 final size:12
Alignment explanation
Indices: 1256753--1256782 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
1256743 AATAGAAATG
1256753 AAACAAAAAA-A
1 AAACAAAAAACA
1256764 AAACAAAAAACA
1 AAACAAAAAACA
1256776 AAACAAA
1 AAACAAA
1256783 CAAGAGGCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (12 bp):
AAACAAAAAACA
Found at i:1257827 original size:163 final size:163
Alignment explanation
Indices: 1257332--1258053 Score: 756
Period size: 166 Copynumber: 4.4 Consensus size: 163
1257322 ATGATTTAAA
* * * *
1257332 CTACATTACCTGAGGATGCTTCTATTTGAATTTGAGCTTTTCTGGCCTAATTGTTTTTGAGAAGA
1 CTACACTACCTGAGGATGCTTCCATTTTAATTTGAGCTTTTCTGGCCTAATAGTTTTTGAGAAGA
* * * * **
1257397 TTTTTAAAGA-TTACTCT-TCATATTCCTTTGTAAAACTTGACCCCCCTCTTGTGGCCATACCCT
66 TTTTTAAAGATTTTCTCTAT-ATATTCCTATGTAAAACTTGATCCCCCTATTGTGGCCCCACCCT
* *
1257460 ACCGA-CAGGGACCATGATTTGAACAAACCTGAAC
130 ACC-ACCAGGGACCATGATTTGAACAAACTTGAAT
* * * *
1257494 CTACACTACCTGAGGATACTCCCATTTTAATTTCAGCTTTTCTGGCCTGATAGTTTTTGAGAAGA
1 CTACACTACCTGAGGATGCTTCCATTTTAATTTGAGCTTTTCTGGCCTAATAGTTTTT--G-AGA
* * * * *
1257559 AGATTTTTAAAGATTTTCTCTATAAATTCCTGTGTAAAAATTCATTCCCCC-ATTATGGCCCCAC
63 AGATTTTTAAAGATTTTCTCTATATATTCCTATGTAAAACTTGA-TCCCCCTATTGTGGCCCCAC
* * * * **
1257623 CATACCACCAGGGACTATGATTAGAACAAATTTTCAT
127 CCTACCACCAGGGACCATGATTTGAACAAACTTGAAT
*
1257660 CTACACTTA-CTAAGGATGCTTCCATTTTAATTTGAGCTTTTCTGGCCTAATAGTTTTTGAGAAG
1 CTACAC-TACCTGAGGATGCTTCCATTTTAATTTGAGCTTTTCTGGCCTAATAGTTTTTGAGAAG
* * *
1257724 ATTTTTAAAGATTTTCTCTGTATATTTCAATG-AAGAACTTGATCCCCCTATTGTGGCCCCACCC
65 ATTTTTAAAGATTTTCTCTATATATTCCTATGTAA-AACTTGATCCCCCTATTGTGGCCCCACCC
*** *
1257788 TAATTCCGGGGACCATGATTTGAACAAACTTGAAT
129 TACCACCAGGGACCATGATTTGAACAAACTTGAAT
* * * * * * *
1257823 CTACACTATCTGAGAATACTACCATTTTAATTTGAGCTCTTCGGGCCTGATAGTTTTTGAGAAGA
1 CTACACTACCTGAGGATGCTTCCATTTTAATTTGAGCTTTTCTGGCCTAATAGTTTTT--G-AGA
* * *
1257888 AGATTTTTAAAGAGTTTCTCTATATATTCCTATGTAAAACTTGATCCCCCTCTTGTGGCCCCTCC
63 AGATTTTTAAAGATTTTCTCTATATATTCCTATGTAAAACTTGATCCCCCTATTGTGGCCCCACC
* * * * * *
1257953 CTTCCCCCGGGGACCACGATTTGAACCAACTTAAAT
128 CTACCACCAGGGACCATGATTTGAACAAACTTGAAT
* *** * * * *
1257989 CTACACTACCTGAGGATGCCTCCA-CACAAGTTTAAGCTTTTCAGGCCGAATAGTTTCTGAGAAG
1 CTACACTACCTGAGGATGCTTCCATTTTAA-TTTGAGCTTTTCTGGCCTAATAGTTTTTGAGAAG
1258053 A
65 A
1258054 AAATATTTTT
Statistics
Matches: 461, Mismatches: 83, Indels: 31
0.80 0.14 0.05
Matches are distributed among these distances:
162 60 0.13
163 130 0.28
164 3 0.01
165 20 0.04
166 238 0.52
167 10 0.02
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (163 bp):
CTACACTACCTGAGGATGCTTCCATTTTAATTTGAGCTTTTCTGGCCTAATAGTTTTTGAGAAGA
TTTTTAAAGATTTTCTCTATATATTCCTATGTAAAACTTGATCCCCCTATTGTGGCCCCACCCTA
CCACCAGGGACCATGATTTGAACAAACTTGAAT
Found at i:1257993 original size:329 final size:329
Alignment explanation
Indices: 1257327--1258053 Score: 885
Period size: 329 Copynumber: 2.2 Consensus size: 329
1257317 GGACCATGAT
* * *
1257327 TTAAA-CTACA-TTACCTGAGGATGCTTCTATTTGAATTTGAGCTTTTCTGGCCTAATTGTTTTT
1 TTAAATCTACACTTACCTGAGGATGCTTCCATTTCAATTTGAGCTTTTCTGGCCTAATAGTTTTT
** * *
1257390 GAGAAGATTTTTAAAGATTACTCTTCATATTCCTTTGTAAAACTTGACCCCCCTCTTGTGGCCAT
66 GAGAAGATTTTTAAAGATTACTCTTCATATTCCAATGTAAAACTTGACCCCCCTATTGTGGCCAC
* * *
1257455 ACCCTACCGACAGGGACCATGATTTGAACAAACCTGAACCTACACTACCTGAGGATACTCCCATT
131 ACCCTAACGACAGGGACCATGATTTGAACAAACCTGAACCTACACTACCTGAGAATACTACCATT
* * *
1257520 TTAATTTCAGCTTTTCTGGCCTGATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTCTCTATAAA
196 TTAATTTCAGCTCTTCGGGCCTGATAGTTTTTGAGAAGAAGATTTTTAAAGAGTTTCTCTATAAA
* * *
1257585 TTCCTGTGTAAAAATTCATTCCCCCATTATGGCCCCACCATACCACCAGGGACTATGATTAGAAC
261 TTCCTATGTAAAAATTCATTCCCCCATTATGGCCCCACCATACCACCAGGGACCACGATTAGAAC
*
1257650 AAAT
326 AAAC
** * *
1257654 TTTCATCTACACTTA-CTAAGGATGCTTCCATTTTAATTTGAGCTTTTCTGGCCTAATAGTTTTT
1 TTAAATCTACACTTACCTGAGGATGCTTCCATTTCAATTTGAGCTTTTCTGGCCTAATAGTTTTT
* * *
1257718 GAGAAGATTTTTAAAGATTTTCTCTGT-ATATTTCAATG-AAGAACTTGATCCCCCTATTGTGGC
66 GAGAAGATTTTTAAAGA-TTACTCT-TCATATTCCAATGTAA-AACTTGACCCCCCTATTGTGGC
* *** * * * *
1257781 CCCACCCTAATTCCGGGGACCATGATTTGAACAAACTTGAATCTACACTATCTGAGAATACTACC
128 CACACCCTAACGACAGGGACCATGATTTGAACAAACCTGAACCTACACTACCTGAGAATACTACC
*
1257846 ATTTTAATTTGAGCTCTTCGGGCCTGATAGTTTTTGAGAAGAAGATTTTTAAAGAGTTTCTCTAT
193 ATTTTAATTTCAGCTCTTCGGGCCTGATAGTTTTTGAGAAGAAGATTTTTAAAGAGTTTCTCTAT
* * * * * * * * * * *
1257911 ATATTCCTATGTAAAACTTGA-TCCCCCTCTTGTGGCCCCTCCCTTCCCCCGGGGACCACGATTT
258 AAATTCCTATGTAAAAATTCATTCCCCC-ATTATGGCCCCACCATACCACCAGGGACCACGATTA
*
1257975 GAACCAAC
322 GAACAAAC
* ** * * * *
1257983 TTAAATCTACAC-TACCTGAGGATGCCTCCA-CACAAGTTTAAGCTTTTCAGGCCGAATAGTTTC
1 TTAAATCTACACTTACCTGAGGATGCTTCCATTTCAA-TTTGAGCTTTTCTGGCCTAATAGTTTT
1258046 TGAGAAGA
65 TGAGAAGA
1258054 AAATATTTTT
Statistics
Matches: 337, Mismatches: 55, Indels: 14
0.83 0.14 0.03
Matches are distributed among these distances:
327 3 0.01
328 79 0.23
329 254 0.75
330 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.34
Consensus pattern (329 bp):
TTAAATCTACACTTACCTGAGGATGCTTCCATTTCAATTTGAGCTTTTCTGGCCTAATAGTTTTT
GAGAAGATTTTTAAAGATTACTCTTCATATTCCAATGTAAAACTTGACCCCCCTATTGTGGCCAC
ACCCTAACGACAGGGACCATGATTTGAACAAACCTGAACCTACACTACCTGAGAATACTACCATT
TTAATTTCAGCTCTTCGGGCCTGATAGTTTTTGAGAAGAAGATTTTTAAAGAGTTTCTCTATAAA
TTCCTATGTAAAAATTCATTCCCCCATTATGGCCCCACCATACCACCAGGGACCACGATTAGAAC
AAAC
Found at i:1263089 original size:35 final size:35
Alignment explanation
Indices: 1263050--1263147 Score: 110
Period size: 34 Copynumber: 2.8 Consensus size: 35
1263040 GAGTGAGAAA
* *
1263050 CAGAAAAAATAGTCCACACGACTCTGCATACTG-AC
1 CAGAAAAAATAATGCACACGACTCTGCATA-TGAAC
* *
1263085 CAG-AAAAATAATGCACATGACTCTGCACATGAAC
1 CAGAAAAAATAATGCACACGACTCTGCATATGAAC
* * *
1263119 CAGAAAAAATATTGTACACGACTGTGCAT
1 CAGAAAAAATAATGCACACGACTCTGCAT
1263148 GGGAATCAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
33 2 0.04
34 27 0.52
35 23 0.44
ACGTcount: A:0.42, C:0.23, G:0.15, T:0.19
Consensus pattern (35 bp):
CAGAAAAAATAATGCACACGACTCTGCATATGAAC
Found at i:1263175 original size:32 final size:32
Alignment explanation
Indices: 1263134--1263992 Score: 996
Period size: 32 Copynumber: 26.6 Consensus size: 32
1263124 AAAATATTGT
* *
1263134 ACACGACTGTGCATGGGAATCAAAATTAGTAC
1 ACACGACTCTGCATGTGAATCAAAATTAGTAC
* * **
1263166 ACAGGACTGTGCACATGAATCAAAATTAGTAC
1 ACACGACTCTGCATGTGAATCAAAATTAGTAC
1263198 ACACGACTCTGCATGTGAATCAAAA--AGTAC
1 ACACGACTCTGCATGTGAATCAAAATTAGTAC
1263228 ACACGACTCTGCATGTGAATCAAAATTAGTAC
1 ACACGACTCTGCATGTGAATCAAAATTAGTAC
1263260 ACACGACTCTGCATGTGAATCAAAATTAGTAC
1 ACACGACTCTGCATGTGAATCAAAATTAGTAC
1263292 ACACGACTCTGCATGTGAATCAAAATTTAGTAC
1 ACACGACTCTGCATGTGAATCAAAA-TTAGTAC
*
1263325 ACACGACTCTGCATGTGAATCAAAATTTGTAC
1 ACACGACTCTGCATGTGAATCAAAATTAGTAC
*
1263357 ACACGACTCTGCATGTGAATCAAAATAAGTAC
1 ACACGACTCTGCATGTGAATCAAAATTAGTAC
1263389 ACACGACTCTGCATGTGAATCAAAATTAGTAC
1 ACACGACTCTGCATGTGAATCAAAATTAGTAC
1263421 ACACGACTCTGCATGTGAATCAAAATTAGTAC
1 ACACGACTCTGCATGTGAATCAAAATTAGTAC
* *
1263453 ACAAGACTCTGCATGTGAATCAAAATTAGAAC
1 ACACGACTCTGCATGTGAATCAAAATTAGTAC
* *
1263485 ACACGACTCTGCATGTGAACCAGACAAATAGTAC
1 ACACGACTCTGCATGTGAATCA-A-AATTAGTAC
* * *
1263519 ACACGACTCTGCATGTGAACCAGAAAAATA-AACC
1 ACACGACTCTGCATGTGAATC--AAAATTAGTA-C
*
1263553 ACAGGACTCTGCATGTGAATC--AA-T--TAC
1 ACACGACTCTGCATGTGAATCAAAATTAGTAC
* * *
1263580 ACAGGACTCTGCATGTGAACCAGACAAATAGTAC
1 ACACGACTCTGCATGTGAATCA-A-AATTAGTAC
* * * *
1263614 ACAAGACTCTGCATGTGAACCAAAAAAAATAGCAC
1 ACACGACTCTGCATGTGAATC---AAAATTAGTAC
*
1263649 ACATGACTCTGCATGTGAATCAAAATTAGTAC
1 ACACGACTCTGCATGTGAATCAAAATTAGTAC
*
1263681 AGACGACTCTGCATGTGAATCAAAATTAGTAC
1 ACACGACTCTGCATGTGAATCAAAATTAGTAC
1263713 ACACGACTCTGCATGTGAATCAAAATTAGTAC
1 ACACGACTCTGCATGTGAATCAAAATTAGTAC
*
1263745 ACAAC-ACTCTGCATGTGAATCAAAATTAGAAC
1 AC-ACGACTCTGCATGTGAATCAAAATTAGTAC
*
1263777 ACACGACTCTGCATGTGAACCAGACATATT-GTAC
1 ACACGACTCTGCATGTGAATCA-A-A-ATTAGTAC
* * *
1263811 ACACGACTCTGCATGTGAACCAGAAAAATA-AACC
1 ACACGACTCTGCATGTGAATC--AAAATTAGTA-C
*
1263845 ACATGACTCTGCATGTGAATC--AA-T--TAC
1 ACACGACTCTGCATGTGAATCAAAATTAGTAC
* * *
1263872 ACAGGACTCTGCATGTGAACCAGACAAATAGTAC
1 ACACGACTCTGCATGTGAATCA-A-AATTAGTAC
* * *
1263906 ACAAGACTCTGCATGTGAACCAAAAAAATAGTAC
1 ACACGACTCTGCATGTGAATC--AAAATTAGTAC
* * ***
1263940 ACATGACTCTGCATGTGCATCAGAAAAGGGGTAC
1 ACACGACTCTGCATGTGAATC--AAAATTAGTAC
1263974 ACAC-ATCTCTGCATGTGAA
1 ACACGA-CTCTGCATGTGAA
1263993 CCAGTAATTT
Statistics
Matches: 738, Mismatches: 52, Indels: 72
0.86 0.06 0.08
Matches are distributed among these distances:
27 41 0.06
28 2 0.00
29 2 0.00
30 34 0.05
31 6 0.01
32 378 0.51
33 41 0.06
34 196 0.27
35 33 0.04
36 4 0.01
37 1 0.00
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.22
Consensus pattern (32 bp):
ACACGACTCTGCATGTGAATCAAAATTAGTAC
Found at i:1263715 original size:292 final size:291
Alignment explanation
Indices: 1263134--1263992 Score: 1258
Period size: 292 Copynumber: 3.0 Consensus size: 291
1263124 AAAATATTGT
* * * * ** *
1263134 ACACGACTGTGCATGGGAATCAAAATTAGTACACAGGACTGTGCACATGAATCAAAATTAGTACA
1 ACACGACTCTGCATGTGAATCAAAATTAGTACACAAGACTCTGCATGTGAATCAAAATTAGAACA
* * * *
1263199 CACGACTCTGCATGTGAATC--A-AAA-AGTACACACGACTCTGCATGTGAATC--AAAATTAGT
66 CACGACTCTGCATGTGAACCAGACAAATAGTACACACGACTCTGCATGTGAACCAGAAAAATA-A
* * *
1263258 A-CACACGACTCTGCATGTGAATCAAAATTAGTACACACGACTCTGCATGTGAATCA-A-AATTT
130 ACCACACGACTCTGCATGTGAATC--AA-T--TACACAGGACTCTGCATGTGAACCAGACAA-AT
* * * * *
1263320 AGTACACACGACTCTGCATGTGAATC--AAAATTTGTACACACGACTCTGCATGTGAATCAAAAT
189 AGTACACAAGACTCTGCATGTGAACCAAAAAAATAGTACACATGACTCTGCATGTGAATCAAAAT
1263383 AAGTACACACGACTCTGCATGTGAATCAAAATTAGTAC
254 AAGTACACACGACTCTGCATGTGAATCAAAATTAGTAC
1263421 ACACGACTCTGCATGTGAATCAAAATTAGTACACAAGACTCTGCATGTGAATCAAAATTAGAACA
1 ACACGACTCTGCATGTGAATCAAAATTAGTACACAAGACTCTGCATGTGAATCAAAATTAGAACA
1263486 CACGACTCTGCATGTGAACCAGACAAATAGTACACACGACTCTGCATGTGAACCAGAAAAATAAA
66 CACGACTCTGCATGTGAACCAGACAAATAGTACACACGACTCTGCATGTGAACCAGAAAAATAAA
*
1263551 CCACAGGACTCTGCATGTGAATCAATTACACAGGACTCTGCATGTGAACCAGACAAATAGTACAC
131 CCACACGACTCTGCATGTGAATCAATTACACAGGACTCTGCATGTGAACCAGACAAATAGTACAC
* *
1263616 AAGACTCTGCATGTGAACCAAAAAAAATAGCACACATGACTCTGCATGTGAATCAAAATTAGTAC
196 AAGACTCTGCATGTGAACC-AAAAAAATAGTACACATGACTCTGCATGTGAATCAAAATAAGTAC
*
1263681 AGACGACTCTGCATGTGAATCAAAATTAGTAC
260 ACACGACTCTGCATGTGAATCAAAATTAGTAC
*
1263713 ACACGACTCTGCATGTGAATCAAAATTAGTACACAACACTCTGCATGTGAATCAAAATTAGAACA
1 ACACGACTCTGCATGTGAATCAAAATTAGTACACAAGACTCTGCATGTGAATCAAAATTAGAACA
* *
1263778 CACGACTCTGCATGTGAACCAGACATATTGTACACACGACTCTGCATGTGAACCAGAAAAATAAA
66 CACGACTCTGCATGTGAACCAGACAAATAGTACACACGACTCTGCATGTGAACCAGAAAAATAAA
*
1263843 CCACATGACTCTGCATGTGAATCAATTACACAGGACTCTGCATGTGAACCAGACAAATAGTACAC
131 CCACACGACTCTGCATGTGAATCAATTACACAGGACTCTGCATGTGAACCAGACAAATAGTACAC
* *
1263908 AAGACTCTGCATGTGAACCAAAAAAATAGTACACATGACTCTGCATGTGCATCAGAAA-AGGGGT
196 AAGACTCTGCATGTGAACCAAAAAAATAGTACACATGACTCTGCATGTGAATCA-AAATA--AGT
1263972 ACACAC-ATCTCTGCATGTGAA
258 ACACACGA-CTCTGCATGTGAA
1263993 CCAGTAATTT
Statistics
Matches: 524, Mismatches: 32, Indels: 26
0.90 0.05 0.04
Matches are distributed among these distances:
287 77 0.15
288 23 0.04
289 27 0.05
290 6 0.01
291 60 0.11
292 284 0.54
293 47 0.09
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.22
Consensus pattern (291 bp):
ACACGACTCTGCATGTGAATCAAAATTAGTACACAAGACTCTGCATGTGAATCAAAATTAGAACA
CACGACTCTGCATGTGAACCAGACAAATAGTACACACGACTCTGCATGTGAACCAGAAAAATAAA
CCACACGACTCTGCATGTGAATCAATTACACAGGACTCTGCATGTGAACCAGACAAATAGTACAC
AAGACTCTGCATGTGAACCAAAAAAATAGTACACATGACTCTGCATGTGAATCAAAATAAGTACA
CACGACTCTGCATGTGAATCAAAATTAGTAC
Found at i:1263883 original size:61 final size:61
Alignment explanation
Indices: 1263808--1263924 Score: 182
Period size: 61 Copynumber: 1.9 Consensus size: 61
1263798 AGACATATTG
*
1263808 TACACACGACTCTGCATGTGAACCAGAAAAATA-AACCACATGACTCTGCATGTGAATCAAT
1 TACACACGACTCTGCATGTGAACCAGAAAAATAGAA-CACAAGACTCTGCATGTGAATCAAT
* * *
1263869 TACACAGGACTCTGCATGTGAACCAGACAAATAGTACACAAGACTCTGCATGTGAA
1 TACACACGACTCTGCATGTGAACCAGAAAAATAGAACACAAGACTCTGCATGTGAA
1263925 CCAAAAAAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
61 50 0.98
62 1 0.02
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.21
Consensus pattern (61 bp):
TACACACGACTCTGCATGTGAACCAGAAAAATAGAACACAAGACTCTGCATGTGAATCAAT
Found at i:1266036 original size:3 final size:3
Alignment explanation
Indices: 1266030--1266287 Score: 394
Period size: 3 Copynumber: 86.0 Consensus size: 3
1266020 ATTATCAGTT
* * *
1266030 GTA GTA GTA GTA GTA GTA ATA GTA GTA GAA GTA GTA GTG GTA GTA GTA
1 GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA
*
1266078 GTA GTA GTA GTA GTA GTA GTA GTA ATA GTA GTA GTA GTA GTA GTA GTA
1 GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA
* * *
1266126 GTA GTA GTA GTA GTA GTA ATA GTA GTA GTA GTA GCA ATA -TCA GTA
1 GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GT-A GTA
*
1266171 GTA GTA GTA GTA GTA ATA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA
1 GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA
* *
1266219 GTA GTA GTA GTA GTA GTA GCA ATA -TCA GTA GTA GTA GTA GTA GTA
1 GTA GTA GTA GTA GTA GTA GTA GTA GT-A GTA GTA GTA GTA GTA GTA
1266264 GTA GTA GTA GTA GTA GTA GTA GTA
1 GTA GTA GTA GTA GTA GTA GTA GTA
1266288 NNNNNNNNNN
Statistics
Matches: 233, Mismatches: 18, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
2 2 0.01
3 229 0.98
4 2 0.01
ACGTcount: A:0.36, C:0.02, G:0.31, T:0.32
Consensus pattern (3 bp):
GTA
Found at i:1279684 original size:2 final size:2
Alignment explanation
Indices: 1279677--1279713 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1279667 ACTCTAAGTG
1279677 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1279714 AATAAAAAAG
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:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:1279900 original size:1 final size:1
Alignment explanation
Indices: 1279894--1279930 Score: 74
Period size: 1 Copynumber: 37.0 Consensus size: 1
1279884 ACACTTCATC
1279894 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1279931 TTACCATACT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:1283563 original size:141 final size:141
Alignment explanation
Indices: 1283283--1283696 Score: 749
Period size: 141 Copynumber: 2.9 Consensus size: 141
1283273 AATGGGGAGA
*
1283283 AATCAAGCAACACATACTTATACTTACGGTAATGATAATTCCATGAAAATCCTGTTCAAAATGGC
1 AATCAAGCCACACATACTTATACTTACGGTAATGATAATTCCATGAAAATCCTGTTCAAAATGGC
*
1283348 CAA-TTTTTTCTGCGCATGTGCAGATCCAATTTCCCCTTTGGACTTTGACAGTATAACAGTAGTT
66 CAATTTTTTTCTGCGCATGTGCAGATCCAATTTCCCCTTTGGACTTTGACAGTATAACAGTAATT
1283412 TAGCCAATTTT
131 TAGCCAATTTT
*
1283423 AATCAAGCCACCCATACTTATACTTACGGTAATGATAATTCCATGAAAATCCTGTTCAAAATGGC
1 AATCAAGCCACACATACTTATACTTACGGTAATGATAATTCCATGAAAATCCTGTTCAAAATGGC
* *
1283488 CAATTTTTTTCTGCGCATGTGCAAATCCAATTTCCCCTTTGGACTTTGACAGTATAACAGTATTT
66 CAATTTTTTTCTGCGCATGTGCAGATCCAATTTCCCCTTTGGACTTTGACAGTATAACAGTAATT
1283553 TAGCCAATTTT
131 TAGCCAATTTT
*
1283564 AATCAAGCCACACATACCTATACTTACGGTAATGATAATTCCATGAAAATCCTGTTCAAAATGGC
1 AATCAAGCCACACATACTTATACTTACGGTAATGATAATTCCATGAAAATCCTGTTCAAAATGGC
* *
1283629 CAATTTTTTTCTGCGCATGTGCAGATCAAATTTCCCCTTTGGACTTTGATAGTATAACAGTAATT
66 CAATTTTTTTCTGCGCATGTGCAGATCCAATTTCCCCTTTGGACTTTGACAGTATAACAGTAATT
1283694 TAG
131 TAG
1283697 TCTTCATAAG
Statistics
Matches: 263, Mismatches: 10, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
140 66 0.25
141 197 0.75
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.34
Consensus pattern (141 bp):
AATCAAGCCACACATACTTATACTTACGGTAATGATAATTCCATGAAAATCCTGTTCAAAATGGC
CAATTTTTTTCTGCGCATGTGCAGATCCAATTTCCCCTTTGGACTTTGACAGTATAACAGTAATT
TAGCCAATTTT
Found at i:1287299 original size:12 final size:12
Alignment explanation
Indices: 1287282--1287306 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1287272 TTGATGAAGA
1287282 TTTATCACAAAC
1 TTTATCACAAAC
1287294 TTTATCACAAAC
1 TTTATCACAAAC
1287306 T
1 T
1287307 AATCTAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.24, G:0.00, T:0.36
Consensus pattern (12 bp):
TTTATCACAAAC
Found at i:1300260 original size:24 final size:24
Alignment explanation
Indices: 1300228--1300274 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
1300218 TGTTCCCAGT
1300228 GCAGAGGCAGGAATTGTGGCAGCC
1 GCAGAGGCAGGAATTGTGGCAGCC
*
1300252 GCAGCGGCAGGAATTGTGGCAGC
1 GCAGAGGCAGGAATTGTGGCAGC
1300275 GGCCGGTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.23, C:0.21, G:0.43, T:0.13
Consensus pattern (24 bp):
GCAGAGGCAGGAATTGTGGCAGCC
Found at i:1301061 original size:148 final size:148
Alignment explanation
Indices: 1300759--1301426 Score: 1107
Period size: 148 Copynumber: 4.5 Consensus size: 148
1300749 TACATGTACA
* ** * *
1300759 TGTTAACATAAAATTCATAATAAT-AGAAACATGTCCCACCGACCATATGGGTAACACAGACCCA
1 TGTTAACATTAAATTCATAATTGTAAGGAACATGTCCCACTGACCATATGGGTAACACAGACCCA
* * *
1300823 ATGTTCCTTCATCATTATTAGTACATGAAGATTCAAACATGCATGTAACTAAATAGTCCCAACAT
66 ATATTCCTTCATCATTATTAGTACATGTAGATTCAAACAT-TATGTAACTAAATAGTCCCAACAT
1300888 GACTTTAATTACATAACAT
130 GACTTTAATTACATAACAT
* **
1300907 TATTAACATTAAATTCATAATTGTAAGGAACATGTCCCACTGACCATAACGGTAACACAGACCCA
1 TGTTAACATTAAATTCATAATTGTAAGGAACATGTCCCACTGACCATATGGGTAACACAGACCCA
* *
1300972 ATGTTCCTTCATCACTATTAGTACATGTAGATTCAAACATTATGTAACTAAATAGTCCCAACATG
66 ATATTCCTTCATCATTATTAGTACATGTAGATTCAAACATTATGTAACTAAATAGTCCCAACATG
1301037 ACTTTAATTACATAACAT
131 ACTTTAATTACATAACAT
1301055 TGTTAACATTAAATTCATAATTGTAAGGAACATGTCCCACTGACCATATGGGTAACACAGACCCA
1 TGTTAACATTAAATTCATAATTGTAAGGAACATGTCCCACTGACCATATGGGTAACACAGACCCA
1301120 ATATTCCTTCATCATTATTAGTACATGTAGATTCAAACATTATGTAACTAAATAGTCCCAACATG
66 ATATTCCTTCATCATTATTAGTACATGTAGATTCAAACATTATGTAACTAAATAGTCCCAACATG
1301185 ACTTTAATTACATAACAT
131 ACTTTAATTACATAACAT
*
1301203 TATTAACATTAAATTCATAATTGTAAGGAACATGT-CCACTGACCATATGGGTAACACAGACCCA
1 TGTTAACATTAAATTCATAATTGTAAGGAACATGTCCCACTGACCATATGGGTAACACAGACCCA
*
1301267 ATATTCCTTCATCATTATTAGTACATGTAGATTCAAACATTATGTAACTATATAGTCCCAACATG
66 ATATTCCTTCATCATTATTAGTACATGTAGATTCAAACATTATGTAACTAAATAGTCCCAACATG
*
1301332 A-TTT--TTA-ATTACA-
131 ACTTTAATTACATAACAT
* *
1301345 TGTTAACATTAAATTCATAATTGTAAGGGAACATGTCCCACTGGCCATATGGGTAACACAGACAC
1 TGTTAACATTAAATTCATAATTGTAA-GGAACATGTCCCACTGACCATATGGGTAACACAGACCC
1301410 AATATTCCTTCATCATT
65 AATATTCCTTCATCATT
1301427 CTTTAGTTTG
Statistics
Matches: 495, Mismatches: 22, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
142 25 0.05
143 14 0.03
144 46 0.09
146 3 0.01
147 94 0.19
148 239 0.48
149 74 0.15
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (148 bp):
TGTTAACATTAAATTCATAATTGTAAGGAACATGTCCCACTGACCATATGGGTAACACAGACCCA
ATATTCCTTCATCATTATTAGTACATGTAGATTCAAACATTATGTAACTAAATAGTCCCAACATG
ACTTTAATTACATAACAT
Found at i:1329086 original size:196 final size:195
Alignment explanation
Indices: 1328752--1329142 Score: 773
Period size: 196 Copynumber: 2.0 Consensus size: 195
1328742 GTACTTTGAT
1328752 ATTTTAATGAGAAGGATTTTGTGTTACATTTAACGTATATATCCTTAGGGGGACCACAGGTCACC
1 ATTTTAATGAGAAGGATTTTGTGTTACATTTAACGTATATATCCTTAGGGGGACCACAGGTCACC
1328817 TTATTTCTATATAACGTATATCATATATCTTTCAAATAACAGTCAATGTTGAATTTTTTATCCTC
66 TTATTTCTATATAACGTATATCATATATCTTTCAAATAACAGTCAATGTTGAATTTTTTATCCTC
1328882 TATAGTGTACTTCCAATACTTAGAGGGGTATTCTTTACTAAAAATACATTTCTGCCTGTTGTATA
131 TATAGTGTACTTCCAATACTTAGAGGGGTATTCTTTACTAAAAATACATTTCTGCCTGTTGTATA
1328947 NATTTTAATGAGAAGGATTTTGTGTTACATTTAACGTATATATCCTTAGGGGGACCACAGGTCAC
1 -ATTTTAATGAGAAGGATTTTGTGTTACATTTAACGTATATATCCTTAGGGGGACCACAGGTCAC
1329012 CTTATTTCTATATAACGTATATCATATATCTTTCAAATAACAGTCAATGTTGAATTTTTTATCCT
65 CTTATTTCTATATAACGTATATCATATATCTTTCAAATAACAGTCAATGTTGAATTTTTTATCCT
1329077 CTATAGTGTACTTCCAATACTTAGAGGGGTATTCTTTACTAAAAATACATTTCTGCCTGTTGTAT
130 CTATAGTGTACTTCCAATACTTAGAGGGGTATTCTTTACTAAAAATACATTTCTGCCTGTTGTAT
1329142 A
195 A
1329143 TCATTTCTAA
Statistics
Matches: 195, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
196 195 1.00
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.40
Consensus pattern (195 bp):
ATTTTAATGAGAAGGATTTTGTGTTACATTTAACGTATATATCCTTAGGGGGACCACAGGTCACC
TTATTTCTATATAACGTATATCATATATCTTTCAAATAACAGTCAATGTTGAATTTTTTATCCTC
TATAGTGTACTTCCAATACTTAGAGGGGTATTCTTTACTAAAAATACATTTCTGCCTGTTGTATA
Found at i:1331578 original size:3 final size:3
Alignment explanation
Indices: 1331570--1331596 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
1331560 TCTTTTCTAG
1331570 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1331597 CCACTATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:1332568 original size:16 final size:16
Alignment explanation
Indices: 1332529--1332568 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
1332519 TTTCCTCAGC
*
1332529 GTCCGTCAGTCCGTCT
1 GTCCGTCCGTCCGTCT
1332545 GTCCGTCCGTCCGTCT
1 GTCCGTCCGTCCGTCT
*
1332561 GTCTGTCC
1 GTCCGTCC
1332569 CACTTCAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.03, C:0.40, G:0.25, T:0.33
Consensus pattern (16 bp):
GTCCGTCCGTCCGTCT
Found at i:1339580 original size:2 final size:2
Alignment explanation
Indices: 1339573--1339618 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
1339563 NNNNNNNNNN
1339573 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
1339615 TC TC
1 TC TC
1339619 ATTGATAACA
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:1343313 original size:11 final size:11
Alignment explanation
Indices: 1343297--1343355 Score: 73
Period size: 11 Copynumber: 5.1 Consensus size: 11
1343287 GGTAAAATTG
1343297 CAACATATGTT
1 CAACATATGTT
1343308 CAACATATGTT
1 CAACATATGTT
*
1343319 TAACATATGTT
1 CAACATATGTT
*
1343330 GAACATATGTT
1 CAACATATGTT
1343341 CTGAAACATATGTT
1 C---AACATATGTT
1343355 C
1 C
1343356 GCCATAAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
11 31 0.74
14 11 0.26
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (11 bp):
CAACATATGTT
Found at i:1343326 original size:22 final size:24
Alignment explanation
Indices: 1343298--1343439 Score: 94
Period size: 22 Copynumber: 5.9 Consensus size: 24
1343288 GTAAAATTGC
1343298 AACATATGTTCAACATATGTT-T-
1 AACATATGTTCAACATATGTTCTA
*
1343320 AACATATGTTGAACATATGTTCTGA
1 AACATATGTTCAACATATGTTCT-A
** **** *
1343345 AACATATGTTCGCCATAAAAAACGA
1 AACATATGTTCAACAT-ATGTTCTA
* *
1343370 GCACCATATGTTAAACATATGTTCATA
1 --AACATATGTTCAACATATGTTC-TA
*
1343397 AACATATGTTCATCATATGTT-T-
1 AACATATGTTCAACATATGTTCTA
* *
1343419 AACATATATTAAACATATGTT
1 AACATATGTTCAACATATGTT
1343440 TTTGATAACC
Statistics
Matches: 89, Mismatches: 24, Indels: 14
0.70 0.19 0.11
Matches are distributed among these distances:
22 38 0.43
23 2 0.02
25 32 0.36
26 4 0.04
27 13 0.15
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (24 bp):
AACATATGTTCAACATATGTTCTA
Found at i:1343390 original size:11 final size:11
Alignment explanation
Indices: 1343374--1343439 Score: 69
Period size: 11 Copynumber: 5.7 Consensus size: 11
1343364 AAACGAGCAC
1343374 CATATGTTAAA
1 CATATGTTAAA
1343385 CATATGTTCATAAA
1 CATATG-T--TAAA
* *
1343399 CATATGTTCAT
1 CATATGTTAAA
*
1343410 CATATGTTTAA
1 CATATGTTAAA
*
1343421 CATATATTAAA
1 CATATGTTAAA
1343432 CATATGTT
1 CATATGTT
1343440 TTTGATAACC
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
11 33 0.73
12 1 0.02
13 1 0.02
14 10 0.22
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (11 bp):
CATATGTTAAA
Found at i:1343400 original size:14 final size:14
Alignment explanation
Indices: 1343381--1343409 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1343371 CACCATATGT
1343381 TAAACATATGTTCA
1 TAAACATATGTTCA
1343395 TAAACATATGTTCA
1 TAAACATATGTTCA
1343409 T
1 T
1343410 CATATGTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.38
Consensus pattern (14 bp):
TAAACATATGTTCA
Found at i:1343440 original size:22 final size:23
Alignment explanation
Indices: 1343374--1343505 Score: 90
Period size: 22 Copynumber: 5.4 Consensus size: 23
1343364 AAACGAGCAC
1343374 CATATGTTAAACATATGTTCATAAA
1 CATATGTTAAACATATGTT--TAAA
* *
1343399 CATATGTTCATCATATGTTT-AA
1 CATATGTTAAACATATGTTTAAA
*
1343421 CATATATTAAACATATGTTTTTGATAA
1 CATATGTTAAACATATG--TTT-A-AA
*
1343448 CCATATGGTT-ACCATATGTTTATAAA
1 -CATAT-GTTAAACATATG-TT-TAAA
* * *
1343474 TATATGTTAGACATATG-TTGAA
1 CATATGTTAAACATATGTTTAAA
1343496 CATATGTTAA
1 CATATGTTAA
1343506 TTTCATTTTT
Statistics
Matches: 85, Mismatches: 13, Indels: 21
0.71 0.11 0.18
Matches are distributed among these distances:
22 27 0.32
23 2 0.02
24 6 0.07
25 27 0.32
26 2 0.02
27 6 0.07
28 13 0.15
29 2 0.02
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.41
Consensus pattern (23 bp):
CATATGTTAAACATATGTTTAAA
Found at i:1344047 original size:2 final size:2
Alignment explanation
Indices: 1344040--1344075 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1344030 GTAAGTTCTG
1344040 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
1344076 NCGTTAACAA
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:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1346066 original size:105 final size:105
Alignment explanation
Indices: 1345879--1346090 Score: 415
Period size: 105 Copynumber: 2.0 Consensus size: 105
1345869 AATGATCGAT
1345879 ACCAATGAGTGGGTATTTAGGACGTCATATCTCTAAATTGTGTTCTTTAGGTCAAATTTCACTAC
1 ACCAATGAGTGGGTATTTAGGACGTCATATCTCTAAATTGTGTTCTTTAGGTCAAATTTCACTAC
1345944 AATTTTTATCACTGTCCCAAATGAGAATTTCAGACAAAAG
66 AATTTTTATCACTGTCCCAAATGAGAATTTCAGACAAAAG
*
1345984 ACCAGTGAGTGGGTATTTAGGACGTCATATCTCTAAATTGTGTTCTTTAGGTCAAATTTCACTAC
1 ACCAATGAGTGGGTATTTAGGACGTCATATCTCTAAATTGTGTTCTTTAGGTCAAATTTCACTAC
1346049 AATTTTTATCACTGTCCCAAATGAGAATTTCAGACAAAAG
66 AATTTTTATCACTGTCCCAAATGAGAATTTCAGACAAAAG
1346089 AC
1 AC
1346091 TGATTTGAAG
Statistics
Matches: 106, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
105 106 1.00
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (105 bp):
ACCAATGAGTGGGTATTTAGGACGTCATATCTCTAAATTGTGTTCTTTAGGTCAAATTTCACTAC
AATTTTTATCACTGTCCCAAATGAGAATTTCAGACAAAAG
Found at i:1346471 original size:15 final size:15
Alignment explanation
Indices: 1346451--1346486 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
1346441 AAACGAGTTG
*
1346451 ATATTGTGTCATATA
1 ATATTGTATCATATA
*
1346466 ATATTGTATCATATG
1 ATATTGTATCATATA
1346481 ATATTG
1 ATATTG
1346487 CATCTAAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.33, C:0.06, G:0.14, T:0.47
Consensus pattern (15 bp):
ATATTGTATCATATA
Found at i:1347783 original size:20 final size:20
Alignment explanation
Indices: 1347742--1347783 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
1347732 TACAATACTG
* *
1347742 TATCATATCATAAGGTACAA
1 TATCATATCATAAGATAAAA
*
1347762 TATCATATCATATGATAAAA
1 TATCATATCATAAGATAAAA
1347782 TA
1 TA
1347784 AATGAAATGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.12, G:0.07, T:0.33
Consensus pattern (20 bp):
TATCATATCATAAGATAAAA
Found at i:1348976 original size:16 final size:16
Alignment explanation
Indices: 1348955--1348985 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1348945 GTTTGAAAAT
1348955 AAACTACAAGCTTTAC
1 AAACTACAAGCTTTAC
*
1348971 AAACTATAAGCTTTA
1 AAACTACAAGCTTTA
1348986 AGGCACGTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.19, G:0.06, T:0.29
Consensus pattern (16 bp):
AAACTACAAGCTTTAC
Found at i:1356999 original size:13 final size:13
Alignment explanation
Indices: 1356981--1357006 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1356971 TGGTATTTTA
1356981 TTTTTTGTTCATT
1 TTTTTTGTTCATT
1356994 TTTTTTGTTCATT
1 TTTTTTGTTCATT
1357007 GTATTGGGCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.08, G:0.08, T:0.77
Consensus pattern (13 bp):
TTTTTTGTTCATT
Found at i:1362055 original size:179 final size:179
Alignment explanation
Indices: 1361755--1362147 Score: 450
Period size: 179 Copynumber: 2.2 Consensus size: 179
1361745 GATTGATAAC
* *
1361755 ATCCTGTATCCCACATCAGTGCCTTCATATTTGGTTGGAATGAGGCCCCGGGACAGCAAGGTCGA
1 ATCCTGTATCCCACATCAGGGCCTTCATATTTGGTTGGAATGAGGCCCCAGGACAGCAAGGTCGA
* * *** * * * *
1361820 CACATTAAAGGAATTGGGTTTACACGGCCATTAACAGGTTTAGCTAGCCTGGCGAAATTATGAAA
66 CACATCAAAAGAATCAAGTTTACACGGCCATTAACAGGCTAAGCTAGCCTGGCGAAAATAGGAAA
*
1361885 AATCGTATAAAACAATTATAATGGGATATCTTTCAAGGGGATGGCTAAT
131 AATCGTATAAAACAATTATAATAGGATATCTTTCAAGGGGATGGCTAAT
* * * * * *
1361934 ATCCTGTATCCCACATCTGGGCCTTTATATTTTGTTGGGATGGGGCCCCAGGACAGCCCA-GTCG
1 ATCCTGTATCCCACATCAGGGCCTTCATATTTGGTTGGAATGAGGCCCCAGGACAG-CAAGGTCG
*
1361998 ACTC-TCAATAAGAATCAAGTTTACACGGCCATTAACAGGCTAAGCTAGCCTGGCGAAAATAGGA
65 ACACATCAA-AAGAATCAAGTTTACACGGCCATTAACAGGCTAAGCTAGCCTGGCGAAAATAGGA
* ** * * * * *
1362062 CATTTCGTATAATACAATTCTGATAGGATATCTTTCAAGGGGCTGGCTAAC
129 AAAATCGTATAAAACAATTATAATAGGATATCTTTCAAGGGGATGGCTAAT
* * ***
1362113 A-CATTTTATCCCACATCTTAGCCTTCATATTTGGT
1 ATC-CTGTATCCCACATCAGGGCCTTCATATTTGGT
1362148 GAGGATAGAG
Statistics
Matches: 178, Mismatches: 33, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
178 4 0.02
179 172 0.97
180 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (179 bp):
ATCCTGTATCCCACATCAGGGCCTTCATATTTGGTTGGAATGAGGCCCCAGGACAGCAAGGTCGA
CACATCAAAAGAATCAAGTTTACACGGCCATTAACAGGCTAAGCTAGCCTGGCGAAAATAGGAAA
AATCGTATAAAACAATTATAATAGGATATCTTTCAAGGGGATGGCTAAT
Found at i:1364210 original size:99 final size:97
Alignment explanation
Indices: 1363939--1364219 Score: 266
Period size: 99 Copynumber: 2.8 Consensus size: 97
1363929 CATTATCAAT
* * * *
1363939 TAAAAGTTGAACGATGCTTTCATGTCCTTTCTCACAAGCTGTATAGAGAGGACTGTCTCCGGTTT
1 TAAAAGTTGAACGATGCTGTCATATCCTTTCTCACAAGCTATA-AGAGAGGACTG-CTCCGATTT
*
1364004 TCTTACACATATTGACATCTGCACCGTTATTCAG
64 TCTTACACATATTGATATCTGCACCGTTATTCAG
* * * * *
1364038 TAAAAGTTGAACGATGCTGTCATGTCCGTCTTAATTGACACGCTATAAAGAGAGAACTGGCTCC-
1 TAAAAGTTGAACGATGCTGTCATATCC-T-TT--CTCACAAGCTAT-AAGAGAGGACT-GCTCCG
* * * *
1364102 A--GT-TGACACAAATTGATATCTGCACCGTTATTGAG
60 ATTTTCTTACACATATTGATATCTGCACCGTTATTCAG
* * * *
1364137 TAAAAGTTGTACGGTTCTTTCATAAT-CTTTCTCACAAGCTATAACGAGAGGACTAGCTCCGATT
1 TAAAAGTTGAACGATGCTGTCAT-ATCCTTTCTCACAAGCTATAA-GAGAGGACT-GCTCCGATT
1364201 TTCTTACACATATTGATAT
63 TTCTTACACATATTGATAT
1364220 GTCATGGCCG
Statistics
Matches: 145, Mismatches: 25, Indels: 24
0.75 0.13 0.12
Matches are distributed among these distances:
94 2 0.01
95 22 0.15
96 1 0.01
97 2 0.01
98 2 0.01
99 88 0.61
100 3 0.02
101 2 0.01
103 21 0.14
104 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (97 bp):
TAAAAGTTGAACGATGCTGTCATATCCTTTCTCACAAGCTATAAGAGAGGACTGCTCCGATTTTC
TTACACATATTGATATCTGCACCGTTATTCAG
Found at i:1364778 original size:198 final size:198
Alignment explanation
Indices: 1364479--1364931 Score: 615
Period size: 198 Copynumber: 2.3 Consensus size: 198
1364469 CAGTCGTGCT
* * *
1364479 CAAATTGATATCCGCCCCGTTATTCAGTAAAAGTTGTACGATACTCTCATGTCCTTCTTGACACG
1 CAAATTGATATCCGCCCCGTTATCCAGTAAAAGTTGTACGGTACTGTCATGTCCTTCTTGACACG
* *
1364544 CCATAAAGAGAGGACTGGCTCCGGTTTTCCTACACAAATTGATATCTGCACCGTTATT-CAGTAA
66 CCATAAAGAGAGGACTGGCTCCGGTATTCCTACACAAATTGATATCCGCACC-TTATTCCAGTAA
* * * **
1364608 AAGTTGTACGATACTCTCATGTCC-TTCTTGACACGCCATAAAGAGAGGACTGGCTCCGTCTCCG
130 AAGTTGTACGATACTCTCATGTCCTTTC-TCACAAGCCACAAAGAGAGGACTGAATCCGTCTCCG
*
1364672 TGACA
194 TCACA
* * *
1364677 CAAATTGATATCTGCACCGTTATCCAGTAAAAGTTGTACGGTACTGTCATGTCCTTTTTGACACG
1 CAAATTGATATCCGCCCCGTTATCCAGTAAAAGTTGTACGGTACTGTCATGTCCTTCTTGACACG
** * * *
1364742 CTGTAAAGAGAGGACTGTCTCC-GTAATTCGTACACAAATTGATATCCGCACCTTTTTCCAGTAA
66 CCATAAAGAGAGGACTGGCTCCGGT-ATTCCTACACAAATTGATATCCGCACCTTATTCCAGTAA
* * * * *
1364806 AAGTTGTACGATACTGTCATGTCCTTTCTCACAAGCTACAAGGAGAGGGCTGAATCCGTCTTCGT
130 AAGTTGTACGATACTCTCATGTCCTTTCTCACAAGCCACAAAGAGAGGACTGAATCCGTCTCCGT
1364871 CACA
195 CACA
* * *
1364875 CAATTTGATATCCGCCCCGTTATCCAGTAAAAGTTGTACGGTTCTGCCATGTCCTTC
1 CAAATTGATATCCGCCCCGTTATCCAGTAAAAGTTGTACGGTACTGTCATGTCCTTC
1364932 ATAACAAGCC
Statistics
Matches: 222, Mismatches: 30, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
197 6 0.03
198 213 0.96
199 3 0.01
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (198 bp):
CAAATTGATATCCGCCCCGTTATCCAGTAAAAGTTGTACGGTACTGTCATGTCCTTCTTGACACG
CCATAAAGAGAGGACTGGCTCCGGTATTCCTACACAAATTGATATCCGCACCTTATTCCAGTAAA
AGTTGTACGATACTCTCATGTCCTTTCTCACAAGCCACAAAGAGAGGACTGAATCCGTCTCCGTC
ACA
Found at i:1364940 original size:99 final size:98
Alignment explanation
Indices: 1364479--1364931 Score: 552
Period size: 99 Copynumber: 4.6 Consensus size: 98
1364469 CAGTCGTGCT
* *
1364479 CAAATTGATATCCGCCCCGTTATTCAGTAAAAGTTGTACGATACT-CTCATGTCCTTCTTGACAC
1 CAAATTGATATCCGCACCGTTATCCAGTAAAAGTTGTACGATACTGC-CATGTCCTTCTTGACAC
* *
1364543 GCCATAAAGAGAGGACTGGCTCCGGTTTTCCTACA
65 GCCATAAAGAGAGGACTGGCTCC-GTCTTCGTACA
* *
1364578 CAAATTGATATCTGCACCGTTATTCAGTAAAAGTTGTACGATACT-CTCATGTCCTTCTTGACAC
1 CAAATTGATATCCGCACCGTTATCCAGTAAAAGTTGTACGATACTGC-CATGTCCTTCTTGACAC
*
1364642 GCCATAAAGAGAGGACTGGCTCCGTCTCCGTGACA
65 GCCATAAAGAGAGGACTGGCTCCGTCTTCGT-ACA
* * * *
1364677 CAAATTGATATCTGCACCGTTATCCAGTAAAAGTTGTACGGTACTGTCATGTCCTTTTTGACACG
1 CAAATTGATATCCGCACCGTTATCCAGTAAAAGTTGTACGATACTGCCATGTCCTTCTTGACACG
** * *
1364742 CTGTAAAGAGAGGACTGTCTCCGTAATTCGTACA
66 CCATAAAGAGAGGACTGGCTCCGT-CTTCGTACA
* * * * *
1364776 CAAATTGATATCCGCACCTTTTTCCAGTAAAAGTTGTACGATACTGTCATGTCCTT-TCTCACAA
1 CAAATTGATATCCGCACCGTTATCCAGTAAAAGTTGTACGATACTGCCATGTCCTTCT-TGACAC
* * * * **
1364840 GCTACAAGGAGAGGGCTGAATCCGTCTTCGTCACA
65 GCCATAAAGAGAGGACTGGCTCCGTCTTCGT-ACA
* * * *
1364875 CAATTTGATATCCGCCCCGTTATCCAGTAAAAGTTGTACGGTTCTGCCATGTCCTTC
1 CAAATTGATATCCGCACCGTTATCCAGTAAAAGTTGTACGATACTGCCATGTCCTTC
1364932 ATAACAAGCC
Statistics
Matches: 314, Mismatches: 34, Indels: 11
0.87 0.09 0.03
Matches are distributed among these distances:
98 11 0.04
99 299 0.95
100 4 0.01
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (98 bp):
CAAATTGATATCCGCACCGTTATCCAGTAAAAGTTGTACGATACTGCCATGTCCTTCTTGACACG
CCATAAAGAGAGGACTGGCTCCGTCTTCGTACA
Found at i:1366114 original size:13 final size:13
Alignment explanation
Indices: 1366098--1366123 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1366088 TGTTTTAAAC
1366098 ATGTAAAATATAT
1 ATGTAAAATATAT
1366111 ATGTAAAATATAT
1 ATGTAAAATATAT
1366124 GTTGAACACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (13 bp):
ATGTAAAATATAT
Found at i:1370935 original size:1 final size:1
Alignment explanation
Indices: 1370931--1370972 Score: 75
Period size: 1 Copynumber: 42.0 Consensus size: 1
1370921 TGCAAAAATA
*
1370931 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCTCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
1370973 TCCCAGTTCC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.00, C:0.98, G:0.00, T:0.02
Consensus pattern (1 bp):
C
Done.