Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032246.1 Gossypioides kirkii chromosome KI_03
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 42061019
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2000 characters in sequence are not A, C, G, or T
File 38 of 135
Found at i:9751688 original size:23 final size:24
Alignment explanation
Indices: 9751658--9751703 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
9751648 ATCATTAATA
*
9751658 AATAAACGAG-TTATAAATGAGTC
1 AATAAACGAGCTTATAAACGAGTC
9751681 AATAAACGAGCTTATAAACGAGT
1 AATAAACGAGCTTATAAACGAGT
9751704 TTTTAAACGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.48, C:0.11, G:0.17, T:0.24
Consensus pattern (24 bp):
AATAAACGAGCTTATAAACGAGTC
Found at i:9751717 original size:12 final size:12
Alignment explanation
Indices: 9751659--9751717 Score: 66
Period size: 12 Copynumber: 5.0 Consensus size: 12
9751649 TCATTAATAA
9751659 ATAAACGAG-TT
1 ATAAACGAGTTT
* **
9751670 ATAAATGAGTCA
1 ATAAACGAGTTT
*
9751682 ATAAACGAGCTT
1 ATAAACGAGTTT
9751694 ATAAACGAGTTT
1 ATAAACGAGTTT
*
9751706 TTAAACGAGTTT
1 ATAAACGAGTTT
9751718 GTTCGTGAAC
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
11 8 0.21
12 30 0.79
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.31
Consensus pattern (12 bp):
ATAAACGAGTTT
Found at i:9754171 original size:9 final size:9
Alignment explanation
Indices: 9754157--9754189 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
9754147 GTTTATTATT
*
9754157 TTATTTCCC
1 TTATTTTCC
9754166 TTATTTTCC
1 TTATTTTCC
9754175 TTATTTTCC
1 TTATTTTCC
9754184 TTATTT
1 TTATTT
9754190 ACTATTTGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.12, C:0.21, G:0.00, T:0.67
Consensus pattern (9 bp):
TTATTTTCC
Found at i:9758543 original size:29 final size:28
Alignment explanation
Indices: 9758485--9758544 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 28
9758475 GGATGCTTGC
*
9758485 AAACAAAAATATAAGTGTTAAAAATAGA
1 AAACAAAAATATAAGTGTTAAAAAAAGA
9758513 AAACAAAAATA-ACAG-GTTTAAAAAAAGGA
1 AAACAAAAATATA-AGTG-TTAAAAAAA-GA
9758542 AAA
1 AAA
9758545 ATACAAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
27 2 0.07
28 21 0.75
29 5 0.18
ACGTcount: A:0.67, C:0.05, G:0.12, T:0.17
Consensus pattern (28 bp):
AAACAAAAATATAAGTGTTAAAAAAAGA
Found at i:9759366 original size:30 final size:30
Alignment explanation
Indices: 9759311--9759398 Score: 135
Period size: 30 Copynumber: 3.0 Consensus size: 30
9759301 TTTTGACTCT
9759311 TAAACTTTT-TAAAATTACA-TTTAACCCC
1 TAAACTTTTCTAAAATTACATTTTAACCCC
* *
9759339 TAAACTTTTCCAAAATTGCATTTTAACCCC
1 TAAACTTTTCTAAAATTACATTTTAACCCC
*
9759369 TAAACTCTTCTAAAATTACATTTTAACCCC
1 TAAACTTTTCTAAAATTACATTTTAACCCC
9759399 GAGTTCTCCA
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
28 9 0.17
29 8 0.15
30 36 0.68
ACGTcount: A:0.36, C:0.25, G:0.01, T:0.38
Consensus pattern (30 bp):
TAAACTTTTCTAAAATTACATTTTAACCCC
Found at i:9763267 original size:12 final size:12
Alignment explanation
Indices: 9763250--9763295 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
9763240 CCAAAGAGAG
9763250 ATGCAAGAACAA
1 ATGCAAGAACAA
*
9763262 ATGCAAGAACAG
1 ATGCAAGAACAA
* *
9763274 TTACAAGAACAA
1 ATGCAAGAACAA
9763286 ATGACAAGAA
1 ATG-CAAGAA
9763296 TGTATAGGGA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
12 21 0.78
13 6 0.22
ACGTcount: A:0.57, C:0.15, G:0.17, T:0.11
Consensus pattern (12 bp):
ATGCAAGAACAA
Found at i:9771619 original size:37 final size:37
Alignment explanation
Indices: 9771576--9771647 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
9771566 AAAGTGATTA
9771576 TCTTCCTGACGAGATACAAAGAAGTAAACCAAATCCG
1 TCTTCCTGACGAGATACAAAGAAGTAAACCAAATCCG
* * * *
9771613 TCTTCCTGATGAGATACAGAGAAGTGAATCAAATC
1 TCTTCCTGACGAGATACAAAGAAGTAAACCAAATC
9771648 AAAGCGGTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.22
Consensus pattern (37 bp):
TCTTCCTGACGAGATACAAAGAAGTAAACCAAATCCG
Found at i:9771645 original size:85 final size:82
Alignment explanation
Indices: 9771528--9771691 Score: 204
Period size: 82 Copynumber: 2.0 Consensus size: 82
9771518 CAAACTCTCA
* ** * *
9771528 TCTTTCTGATGAGATACAGAGAAATGGGTCAAAGAAAT-AAAGTGATTATCTTCCTGACGAGATA
1 TCTTCCTGATGAGATACAGAGAAAT--G--AATCAAATCAAAGCGATCATCTTCCTGACGAGATA
9771592 CAAAGAAGTAAACCAAATCCG
62 CAAAGAAGTAAACCAAATCCG
* * * *
9771613 TCTTCCTGATGAGATACAGAGAAGTGAATCAAATCAAAGCGGTCATCTTCCTGATGAGATACAGA
1 TCTTCCTGATGAGATACAGAGAAATGAATCAAATCAAAGCGATCATCTTCCTGACGAGATACAAA
9771678 GAAGTAAACCAAAT
66 GAAGTAAACCAAAT
9771692 TGATGAAGCA
Statistics
Matches: 69, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
81 6 0.09
82 39 0.57
83 1 0.01
85 23 0.33
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.23
Consensus pattern (82 bp):
TCTTCCTGATGAGATACAGAGAAATGAATCAAATCAAAGCGATCATCTTCCTGACGAGATACAAA
GAAGTAAACCAAATCCG
Found at i:9773759 original size:28 final size:27
Alignment explanation
Indices: 9773594--9773761 Score: 106
Period size: 28 Copynumber: 5.8 Consensus size: 27
9773584 ATTTTCTTTA
* *
9773594 AAAATTATATTTTGATCCTCAAACTTTTC
1 AAAATTACATTTT-A-CCCCAAACTTTTC
*
9773623 TAAAATTGCATTTTAGCCCCTAAACTTTTTCC
1 -AAAATTACATTTTA-CCCC-AAAC-TTTT-C
9773655 AAAATTACATTTTGA-CCCAAA-TGTTTCC
1 AAAATTACATTTT-ACCCCAAACT-TTT-C
* * * *
9773683 ATAATTTCACTTTGACCCCCAAACTTCTCC
1 AAAATTACA-TTTTA-CCCCAAACTT-TTC
* *
9773713 AAAATTGCATTTTCCCCCAAACTCTTTC
1 AAAATTACATTTTACCCCAAACT-TTTC
*
9773741 AAAATTACATTTTAACCCAAA
1 AAAATTACATTTTACCCCAAA
9773762 GTTCTCCGAA
Statistics
Matches: 110, Mismatches: 17, Indels: 24
0.73 0.11 0.16
Matches are distributed among these distances:
27 1 0.01
28 42 0.38
29 14 0.13
30 33 0.30
31 18 0.16
32 2 0.02
ACGTcount: A:0.33, C:0.26, G:0.04, T:0.37
Consensus pattern (27 bp):
AAAATTACATTTTACCCCAAACTTTTC
Found at i:9773802 original size:16 final size:15
Alignment explanation
Indices: 9773778--9773810 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
9773768 CGAAACTTCA
9773778 TTTTTTTTATTTTTC
1 TTTTTTTTATTTTTC
9773793 TTTTTCTTTATTTTTC
1 TTTTT-TTTATTTTTC
9773809 TT
1 TT
9773811 CATACATAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.06, C:0.09, G:0.00, T:0.85
Consensus pattern (15 bp):
TTTTTTTTATTTTTC
Found at i:9775683 original size:47 final size:47
Alignment explanation
Indices: 9775604--9775698 Score: 127
Period size: 47 Copynumber: 2.0 Consensus size: 47
9775594 ATCATTTTTC
* * * *
9775604 TCAACATAGTTGTTCTTGGTAGAGTTTGTTCCAAACAAGAGTTGTTA
1 TCAACATAATTGTTCTTGGTAAAGGTTATTCCAAACAAGAGTTGTTA
* * *
9775651 TCAACATAATTGTTCTTTGTAAAGGTTATTCCAAGCATGAGTTGTTA
1 TCAACATAATTGTTCTTGGTAAAGGTTATTCCAAACAAGAGTTGTTA
9775698 T
1 T
9775699 TTGGTGATGT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.40
Consensus pattern (47 bp):
TCAACATAATTGTTCTTGGTAAAGGTTATTCCAAACAAGAGTTGTTA
Found at i:9776490 original size:30 final size:31
Alignment explanation
Indices: 9776456--9776513 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
9776446 AATTATCTAT
9776456 ATTTTTAT-ACTTTTTAAAG-GATAAAATCAA
1 ATTTTTATCA-TTTTTAAAGAGATAAAATCAA
*
9776486 ATTTTTATCATTTTTAAGGAGATAAAAT
1 ATTTTTATCATTTTTAAAGAGATAAAAT
9776514 ACACTTTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 16 0.64
31 9 0.36
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (31 bp):
ATTTTTATCATTTTTAAAGAGATAAAATCAA
Found at i:9776522 original size:30 final size:31
Alignment explanation
Indices: 9776458--9776524 Score: 77
Period size: 30 Copynumber: 2.2 Consensus size: 31
9776448 TTATCTATAT
*
9776458 TTTTAT-ACTTTTTAAAGGATAAAATCAAAT
1 TTTTATCACTTTTTAAAGGATAAAATCAAAC
* *
9776488 TTTTATCA-TTTTTAAGGAGATAAAAT-ACAC
1 TTTTATCACTTTTTAAAG-GATAAAATCAAAC
9776518 TTTTATC
1 TTTTATC
9776525 TTTACTAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 23 0.72
31 9 0.28
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.45
Consensus pattern (31 bp):
TTTTATCACTTTTTAAAGGATAAAATCAAAC
Found at i:9781481 original size:46 final size:46
Alignment explanation
Indices: 9781429--9781516 Score: 124
Period size: 46 Copynumber: 1.9 Consensus size: 46
9781419 AAGGGAAATA
** *
9781429 AAAACCTAATATAATAGGGAGAA-TAAGTAAAACTAAAACTCTTAAT
1 AAAACCTAATATAATAAAGA-AATTAAATAAAACTAAAACTCTTAAT
*
9781475 AAAACCTAATATAATAAAGAAATTAAATAAATCTAAAACTCT
1 AAAACCTAATATAATAAAGAAATTAAATAAAACTAAAACTCT
9781517 AATTGAAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
45 2 0.05
46 35 0.95
ACGTcount: A:0.57, C:0.11, G:0.07, T:0.25
Consensus pattern (46 bp):
AAAACCTAATATAATAAAGAAATTAAATAAAACTAAAACTCTTAAT
Found at i:9782413 original size:197 final size:198
Alignment explanation
Indices: 9782078--9782468 Score: 604
Period size: 197 Copynumber: 2.0 Consensus size: 198
9782068 CAGCAGTCCT
* * * * * *
9782078 AGCCAATAGCGATTGAAATTGGCGTTGATATTCCTCTACCGTCCCAGTTTGTCTCAGGTTGGCAA
1 AGCCAATAACGATTGAAATTGGCATTGATATTCCTCTACAGCCCCAATTTCTCTCAGGTTGGCAA
* * * *
9782143 GTTCACCCAAGGGGTTATTACTCATAGGTGGCTCAAACCTTACATGACAACACTCTTTGAAGCGC
66 GTTCACCCAAAGGGTTATTACTAATAGGTGGCCCAAACCTTACATGACAACACTCTTTGAAGCAC
9782208 CCCCAATCAAGATTTGCCTCCTCTTCTTCCATTTGATCAAACCAAAATTAT-CTCTCCTAATAGA
131 CCCCAATCAAGATTTGCCTCCTCTTCTTCCATTTGATCAAACCAAAATTATCCTCTCCTAATAGA
9782272 TAG
196 TAG
* *
9782275 AGCCAATAATGATTGAAATTGGCATTGATATTCCTCTATAGCCCCAATTTCTCTCAGGTTGGCAA
1 AGCCAATAACGATTGAAATTGGCATTGATATTCCTCTACAGCCCCAATTTCTCTCAGGTTGGCAA
* * *
9782340 GTTCCCCCAAAGGGTTATTACTAATTGGTGGCCCAAACTTTACATGACAACACTCTTTGAAGCAC
66 GTTCACCCAAAGGGTTATTACTAATAGGTGGCCCAAACCTTACATGACAACACTCTTTGAAGCAC
* * *
9782405 CCCCAATCAAGATTTGCCTCCTTTTCTTCCATTTGATCAAACCACAATTGTGCCTCTCCTAATA
131 CCCCAATCAAGATTTGCCTCCTCTTCTTCCATTTGATCAAACCAAAATTAT-CCTCTCCTAATA
9782469 AATGGAATGA
Statistics
Matches: 174, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
197 163 0.94
199 11 0.06
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (198 bp):
AGCCAATAACGATTGAAATTGGCATTGATATTCCTCTACAGCCCCAATTTCTCTCAGGTTGGCAA
GTTCACCCAAAGGGTTATTACTAATAGGTGGCCCAAACCTTACATGACAACACTCTTTGAAGCAC
CCCCAATCAAGATTTGCCTCCTCTTCTTCCATTTGATCAAACCAAAATTATCCTCTCCTAATAGA
TAG
Found at i:9792466 original size:21 final size:21
Alignment explanation
Indices: 9792421--9792467 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
9792411 CTTGTCGCGG
*
9792421 CAACGAGCTTCCTCATAGTGG
1 CAACGAGCTTCCTCATAGTGA
* * *
9792442 CAACTAGCTTCCTCGTCGTGA
1 CAACGAGCTTCCTCATAGTGA
9792463 CAACG
1 CAACG
9792468 TATGTTCGAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.23
Consensus pattern (21 bp):
CAACGAGCTTCCTCATAGTGA
Found at i:9794199 original size:17 final size:18
Alignment explanation
Indices: 9794177--9794218 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
9794167 CCCAATGAGA
*
9794177 TAAATTTGGTTTTAAA-T
1 TAAATTTGATTTTAAATT
9794194 TAAATTT-ATTTTAAATT
1 TAAATTTGATTTTAAATT
9794211 TAAATTTG
1 TAAATTTG
9794219 CACAAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (18 bp):
TAAATTTGATTTTAAATT
Found at i:9794252 original size:17 final size:17
Alignment explanation
Indices: 9794189--9794252 Score: 53
Period size: 17 Copynumber: 3.8 Consensus size: 17
9794179 AATTTGGTTT
*
9794189 TAAA-TTAAATTTATTT
1 TAAATTTAAATTTATTA
*
9794205 TAAATTTAAATTTGCA-CA
1 TAAATTTAAATTT--ATTA
*
9794223 -AAATTTAAGTTTATTA
1 TAAATTTAAATTTATTA
*
9794239 TAAATATAAATTTA
1 TAAATTTAAATTTA
9794253 AAATTAAATT
Statistics
Matches: 37, Mismatches: 6, Indels: 9
0.71 0.12 0.17
Matches are distributed among these distances:
15 1 0.03
16 5 0.14
17 30 0.81
19 1 0.03
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (17 bp):
TAAATTTAAATTTATTA
Found at i:9796154 original size:29 final size:29
Alignment explanation
Indices: 9796111--9796191 Score: 87
Period size: 29 Copynumber: 2.8 Consensus size: 29
9796101 GTAAGTCTCT
*
9796111 AAACTGTCCAGAAATTACATTTTGA-CCTCG
1 AAACT-TCCAAAAATTACATTTTGATCC-CG
9796141 AAACTTCCAAAAATTACTATTTTGATCCCG
1 AAACTTCCAAAAATTAC-ATTTTGATCCCG
*
9796171 -AACTTTCC-AAAATTCCATTTT
1 AAAC-TTCCAAAAATTACATTTT
9796192 AACCCCGATT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
28 5 0.11
29 21 0.46
30 18 0.39
31 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.07, T:0.35
Consensus pattern (29 bp):
AAACTTCCAAAAATTACATTTTGATCCCG
Found at i:9796209 original size:58 final size:59
Alignment explanation
Indices: 9796147--9796609 Score: 600
Period size: 58 Copynumber: 7.9 Consensus size: 59
9796137 CTCGAAACTT
* * * *
9796147 CCAAAAATTACTATTTTGATCC-CGAACTTTCCAAAATTCCA-TTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTT-ACCCTCAAACTTTCCAAAATTCCATTTTTAACCCTGATTTCA
*
9796205 CCAAAAATTACCATTTTACCCTCAAACTTTCTAAAATTCCA-TTTTAACCCTGATTTCA
1 CCAAAAATTACCATTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACCCTGATTTCA
*
9796263 CCAAAAATTACCATTTTACCCCCAAACTTTCC-AAA-TCTCATTTTTAACCCTGATTTCA
1 CCAAAAATTACCATTTTACCCTCAAACTTTCCAAAATTC-CATTTTTAACCCTGATTTCA
* * * *
9796321 CCAAAAATTACCATTTTACCCTCGAACTTTCTAAAATCCCATTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACCCTGATTTCA
* * *
9796380 CCAAAAATTACCATTTTACCC-CTAAACTTTCTAAAATCCCATTTTTAACCTTGATTTCA
1 CCAAAAATTACCATTTTACCCTC-AAACTTTCCAAAATTCCATTTTTAACCCTGATTTCA
* * * *
9796439 CCAAAAATTATCGTTTTACCCTCAAAATTTCCAAAATCCCA-TTTTAACCCTGATTTCA
1 CCAAAAATTACCATTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACCCTGATTTCA
* * * * * *
9796497 CCAAAAATTATCGTTTTACCGTCGAACTTTCCAAAATTTCATTTTTAACCTTGATTTCA
1 CCAAAAATTACCATTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACCCTGATTTCA
* * *
9796556 CCAAAAATTACCGTTTTATCCC-CGAACTTTCCAAAATTCCATTTTTAATCCTGA
1 CCAAAAATTACCATTTTA-CCCTCAAACTTTCCAAAATTCCATTTTTAACCCTGA
9796610 ATTTTCCCGA
Statistics
Matches: 365, Mismatches: 31, Indels: 17
0.88 0.08 0.04
Matches are distributed among these distances:
56 2 0.01
57 8 0.02
58 178 0.49
59 173 0.47
60 4 0.01
ACGTcount: A:0.33, C:0.28, G:0.04, T:0.36
Consensus pattern (59 bp):
CCAAAAATTACCATTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACCCTGATTTCA
Found at i:9796444 original size:29 final size:29
Alignment explanation
Indices: 9796295--9796444 Score: 71
Period size: 29 Copynumber: 5.1 Consensus size: 29
9796285 CAAACTTTCC
*
9796295 AAATCTCATTTTTAACC-CTGATTTCACCAA
1 AAATCCCATTTTTAACCTC-GATTTCACC-A
* * *
9796325 AAATTACCA-TTTTACCCTCGAACTTT--CTA
1 AAA-TCCCATTTTTAACCTCG-A-TTTCACCA
*
9796354 AAATCCCATTTTTAACCCCGATTTCACCAA
1 AAATCCCATTTTTAACCTCGATTTCACC-A
* * ** *
9796384 AAATTACCA-TTTTACCCCTAAACTTT--CTA
1 AAA-TCCCATTTTTA-ACCTCGA-TTTCACCA
*
9796413 AAATCCCATTTTTAACCTTGATTTCACCA
1 AAATCCCATTTTTAACCTCGATTTCACCA
9796442 AAA
1 AAA
9796445 ATTATCGTTT
Statistics
Matches: 87, Mismatches: 19, Indels: 29
0.64 0.14 0.21
Matches are distributed among these distances:
27 6 0.07
28 13 0.15
29 28 0.32
30 22 0.25
31 12 0.14
32 6 0.07
ACGTcount: A:0.34, C:0.28, G:0.03, T:0.35
Consensus pattern (29 bp):
AAATCCCATTTTTAACCTCGATTTCACCA
Found at i:9796484 original size:117 final size:117
Alignment explanation
Indices: 9796147--9796609 Score: 594
Period size: 117 Copynumber: 4.0 Consensus size: 117
9796137 CTCGAAACTT
* * * * *
9796147 CCAAAAATTACTATTTTGATCCC-GAACTTTCCAAAATTCCA-TTTTAACCCCGATTTCACCAAA
1 CCAAAAATTACCATTTT-ACCCCTAAACTTTCCAAAATCCCATTTTTAACCCTGATTTCACCAAA
* *
9796210 AATTACCATTTTACCCTCAAACTTTCTAAAATTCCATTTTAACCCTGATTTCA
65 AATTACCATTTTACCCTCAAACTTTCCAAAATCCCATTTTAACCCTGATTTCA
* *
9796263 CCAAAAATTACCATTTTACCCCCAAACTTTCC-AAATCTCATTTTTAACCCTGATTTCACCAAAA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCTGATTTCACCAAAA
* * *
9796327 ATTACCATTTTACCCTCGAACTTTCTAAAATCCCATTTTTAACCCCGATTTCA
66 ATTACCATTTTACCCTCAAACTTTCCAAAATCCCA-TTTTAACCCTGATTTCA
* *
9796380 CCAAAAATTACCATTTTACCCCTAAACTTTCTAAAATCCCATTTTTAACCTTGATTTCACCAAAA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCTGATTTCACCAAAA
* * *
9796445 ATTATCGTTTTACCCTCAAAATTTCCAAAATCCCATTTTAACCCTGATTTCA
66 ATTACCATTTTACCCTCAAACTTTCCAAAATCCCATTTTAACCCTGATTTCA
* * * * ** *
9796497 CCAAAAATTATCGTTTTA-CCGTCGAACTTTCCAAAATTTCATTTTTAACCTTGATTTCACCAAA
1 CCAAAAATTACCATTTTACCCCT-AAACTTTCCAAAATCCCATTTTTAACCCTGATTTCACCAAA
* * * *
9796561 AATTACCGTTTTATCCC-CGAACTTTCCAAAATTCCATTTTTAATCCTGA
65 AATTACCATTTTA-CCCTCAAACTTTCCAAAATCCCA-TTTTAACCCTGA
9796610 ATTTTCCCGA
Statistics
Matches: 309, Mismatches: 31, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
115 10 0.03
116 82 0.27
117 143 0.46
118 74 0.24
ACGTcount: A:0.33, C:0.28, G:0.04, T:0.36
Consensus pattern (117 bp):
CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCTGATTTCACCAAAA
ATTACCATTTTACCCTCAAACTTTCCAAAATCCCATTTTAACCCTGATTTCA
Found at i:9796615 original size:29 final size:29
Alignment explanation
Indices: 9796524--9796630 Score: 69
Period size: 30 Copynumber: 3.6 Consensus size: 29
9796514 ACCGTCGAAC
*
9796524 TTTCCAAAATTTCATTTTTAA-CCTTG-AT
1 TTTCCAAAATTCCATTTTTAATCC-TGAAT
* * * *
9796552 TTCACCAAAAATTACC-GTTTT-ATCCCCGAAC
1 TT-TCC-AAAATT-CCATTTTTAAT-CCTGAAT
9796583 TTTCCAAAATTCCATTTTTAATCCTGAAT
1 TTTCCAAAATTCCATTTTTAATCCTGAAT
* *
9796612 TTTCCCGAAATTACATTTT
1 TTT-CCAAAATTCCATTTT
9796631 CGCCATTGAG
Statistics
Matches: 59, Mismatches: 11, Indels: 16
0.69 0.13 0.19
Matches are distributed among these distances:
28 4 0.07
29 21 0.36
30 28 0.47
31 6 0.10
ACGTcount: A:0.30, C:0.23, G:0.05, T:0.42
Consensus pattern (29 bp):
TTTCCAAAATTCCATTTTTAATCCTGAAT
Found at i:9796625 original size:59 final size:58
Alignment explanation
Indices: 9796147--9796609 Score: 585
Period size: 59 Copynumber: 7.9 Consensus size: 58
9796137 CTCGAAACTT
* * * *
9796147 CCAAAAATTACTATTTTGATCCCGAACTTTCCAAAATTCCA-TTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTT-ACCCCAAACTTTCCAAAATTCCATTTTTAACCCTGATTTCA
*
9796205 CCAAAAATTACCATTTTACCCTCAAACTTTCTAAAATTCCA-TTTTAACCCTGATTTCA
1 CCAAAAATTACCATTTTACCC-CAAACTTTCCAAAATTCCATTTTTAACCCTGATTTCA
9796263 CCAAAAATTACCATTTTACCCCCAAACTTTCC-AAA-TCTCATTTTTAACCCTGATTTCA
1 CCAAAAATTACCATTTTA-CCCCAAACTTTCCAAAATTC-CATTTTTAACCCTGATTTCA
* * * *
9796321 CCAAAAATTACCATTTTACCCTCGAACTTTCTAAAATCCCATTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCC-CAAACTTTCCAAAATTCCATTTTTAACCCTGATTTCA
* * *
9796380 CCAAAAATTACCATTTTACCCCTAAACTTTCTAAAATCCCATTTTTAACCTTGATTTCA
1 CCAAAAATTACCATTTTACCCC-AAACTTTCCAAAATTCCATTTTTAACCCTGATTTCA
* * * *
9796439 CCAAAAATTATCGTTTTACCCTCAAAATTTCCAAAATCCCA-TTTTAACCCTGATTTCA
1 CCAAAAATTACCATTTTACCC-CAAACTTTCCAAAATTCCATTTTTAACCCTGATTTCA
* * * * * *
9796497 CCAAAAATTATCGTTTTACCGTCGAACTTTCCAAAATTTCATTTTTAACCTTGATTTCA
1 CCAAAAATTACCATTTTACC-CCAAACTTTCCAAAATTCCATTTTTAACCCTGATTTCA
* * *
9796556 CCAAAAATTACCGTTTTATCCCCGAACTTTCCAAAATTCCATTTTTAATCCTGA
1 CCAAAAATTACCATTTTA-CCCCAAACTTTCCAAAATTCCATTTTTAACCCTGA
9796610 ATTTTCCCGA
Statistics
Matches: 364, Mismatches: 29, Indels: 23
0.88 0.07 0.06
Matches are distributed among these distances:
56 2 0.01
57 11 0.03
58 171 0.47
59 176 0.48
60 4 0.01
ACGTcount: A:0.33, C:0.28, G:0.04, T:0.36
Consensus pattern (58 bp):
CCAAAAATTACCATTTTACCCCAAACTTTCCAAAATTCCATTTTTAACCCTGATTTCA
Found at i:9796660 original size:117 final size:116
Alignment explanation
Indices: 9796179--9796659 Score: 471
Period size: 117 Copynumber: 4.1 Consensus size: 116
9796169 CGAACTTTCC
** * * * *
9796179 AAAATTCCA-TTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCTCAAACTTTCTAAAATT
1 AAAATTCCATTTTTAACCTTGATTTCACCAAAAATTACCGTTTTACCCTCGAACTTTCCAAAATC
**
9796243 CCA-TTTTAACCCTGATTTCACCAAAAATTACCATTTTACCCCCA-AACTTTC-
66 CCATTTTTAACCCTGATTTCACCAAAAATTACCATTTT-CCCATAGAA--TTCA
* * * *
9796294 CAAA-TCTCATTTTTAACCCTGATTTCACCAAAAATTACCATTTTACCCTCGAACTTTCTAAAAT
1 AAAATTC-CATTTTTAACCTTGATTTCACCAAAAATTACCGTTTTACCCTCGAACTTTCCAAAAT
* * *
9796358 CCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCTA-AACTTTCT
65 CCCATTTTTAACCCTGATTTCACCAAAAATTACCATTTT-CCCATAGAA--TTCA
* * * *
9796412 AAAATCCCATTTTTAACCTTGATTTCACCAAAAATTATCGTTTTACCCTCAAAATTTCCAAAATC
1 AAAATTCCATTTTTAACCTTGATTTCACCAAAAATTACCGTTTTACCCTCGAACTTTCCAAAATC
* * * * * *
9796477 CCA-TTTTAACCCTGATTTCACCAAAAATTATCGTTTTACCGTCGAACTTTCC
66 CCATTTTTAACCCTGATTTCACCAAAAATTACCATTTTCCCATAGAA--TTCA
*
9796529 AAAATTTCATTTTTAACCTTGATTTCACCAAAAATTACCGTTTTATCCC-CGAACTTTCCAAAAT
1 AAAATTCCATTTTTAACCTTGATTTCACCAAAAATTACCGTTTTA-CCCTCGAACTTTCCAAAAT
* * * * *
9796593 TCCATTTTTAATCCTGAATTTTC-CC-GAAATTA-CATTTTCGCCATTGAGAGTCA
65 CCCATTTTTAACCCTG-A-TTTCACCAAAAATTACCATTTTC-CCATAGA-ATTCA
9796646 AAAATTACCATTTT
1 AAAATT-CCATTTT
9796660 ACCCCCGGGC
Statistics
Matches: 317, Mismatches: 36, Indels: 23
0.84 0.10 0.06
Matches are distributed among these distances:
114 2 0.01
115 5 0.02
116 58 0.18
117 155 0.49
118 88 0.28
119 5 0.02
120 4 0.01
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.36
Consensus pattern (116 bp):
AAAATTCCATTTTTAACCTTGATTTCACCAAAAATTACCGTTTTACCCTCGAACTTTCCAAAATC
CCATTTTTAACCCTGATTTCACCAAAAATTACCATTTTCCCATAGAATTCA
Found at i:9796660 original size:176 final size:171
Alignment explanation
Indices: 9796147--9796609 Score: 592
Period size: 176 Copynumber: 2.6 Consensus size: 171
9796137 CTCGAAACTT
* *
9796147 CCAAAAATTACTATTTTGATCC-CGAACTTTCCAAAATTCCA-TTTTAACCCCGATTTCACCAAA
1 CCAAAAATTACCATTTT-ACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAA
9796210 AATTACCATTTTACCCTCAAACTTTCTAAAATTCCA-TTTTAACCCTGATTTCACCAAAAATTAC
65 AATTACCATTTTACCC-CAAACTTTCTAAAATTCCATTTTTAA-CCTGATTTCACCAAAAATTAC
** * *
9796274 CATTTTACCCCCAAACTTTCCAAATCTCATTTTTAACCCTGATTTCA
128 CATTTTACCCATAAA-ATTCAAAATC-CA-TTTTAACCCTGATTTCA
* *
9796321 CCAAAAATTACCATTTTACCCTCGAACTTTCTAAAATCCCATTTTTAACCCCGATTTCACCAAAA
1 CCAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAA
* *
9796386 ATTACCATTTTACCCCTAAACTTTCTAAAATCCCATTTTTAACCTTGATTTCACCAAAAATTATC
66 ATTACCATTTTACCCC-AAACTTTCTAAAATTCCATTTTTAACC-TGATTTCACCAAAAATTACC
*
9796451 GTTTTACCC-TCAAAATTTCCAAAATCCCATTTTAACCCTGATTTCA
129 ATTTTACCCAT-AAAA-TT-CAAAAT-CCATTTTAACCCTGATTTCA
* * * * **
9796497 CCAAAAATTATCGTTTTACCGTCGAACTTTCCAAAATTTCATTTTTAACCTTGATTTCACCAAAA
1 CCAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAA
* * *
9796562 ATTACCGTTTTATCCCCGAACTTTCCAAAATTCCATTTTTAATCCTGA
66 ATTACCATTTTA-CCCCAAACTTTCTAAAATTCCATTTTTAA-CCTGA
9796610 ATTTTCCCGA
Statistics
Matches: 256, Mismatches: 22, Indels: 20
0.86 0.07 0.07
Matches are distributed among these distances:
173 3 0.01
174 34 0.13
175 57 0.22
176 148 0.58
177 13 0.05
178 1 0.00
ACGTcount: A:0.33, C:0.28, G:0.04, T:0.36
Consensus pattern (171 bp):
CCAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAA
ATTACCATTTTACCCCAAACTTTCTAAAATTCCATTTTTAACCTGATTTCACCAAAAATTACCAT
TTTACCCATAAAATTCAAAATCCATTTTAACCCTGATTTCA
Found at i:9809137 original size:200 final size:199
Alignment explanation
Indices: 9808786--9809436 Score: 1050
Period size: 200 Copynumber: 3.3 Consensus size: 199
9808776 AGTAGTTCAA
*
9808786 CAAAACATTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAGCGCTCAACA
1 CAAAACAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAGCGCTCAACA
* *
9808851 CGAGCCAATCTTCGAACCCAGCTTCCTGATGAGACATTGACAAGCAGGTCGAAGCAATAAAATGG
66 CGAGCCAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAATGG
9808916 TTAGCTTCCTGATGAGATACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAAGC
131 TTAGCTTCCTGATGAGATACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAAGC
9808981 GAAT
196 GAAT
* *
9808985 CAAAACAAGTGAGGCGGTCATCTCCCTGATGAGATACAGAGAAGAATACCAACTCAGCACTCAAC
1 CAAAAC-AGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAGCGCTCAAC
*
9809050 ACGAGCCAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAATG
65 ACGAGCCAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAATG
* *
9809115 GTTAGCTTCCTGATAAGATACAGAGAAGTGGACCAGATTCGTCTTCCTGAGAAGATCCAGAGAAG
130 GTTAGCTTCCTGATGAGATACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAAG
9809180 CGAAT
195 CGAAT
* * *
9809185 CAAAACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAGCTCAACGCTCAAC
1 CAAAAC-AGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAGCGCTCAAC
* * * *
9809250 GCGAGCAAATCTTCGAACCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAAAG
65 ACGAGCCAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAATG
* * *
9809315 GTTAGCTTCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCTAGAGAAG
130 GTTAGCTTCCTGATGAGATACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAAG
9809380 CGAAT
195 CGAAT
* * * * * *
9809385 TAAAACAGATGATCGCGATCATCTTCTTGATGAGACACAGAGAAGAAGACCA
1 CAAAACAG-TGA-GGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCA
9809437 GGTCAATGAA
Statistics
Matches: 419, Mismatches: 30, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
199 8 0.02
200 377 0.90
201 34 0.08
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.19
Consensus pattern (199 bp):
CAAAACAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAGCGCTCAACA
CGAGCCAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAATGG
TTAGCTTCCTGATGAGATACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAAGC
GAAT
Found at i:9809792 original size:17 final size:18
Alignment explanation
Indices: 9809770--9809811 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
9809760 CCCAATGAGA
*
9809770 TAAATTTGGTTTTAAA-T
1 TAAATTTGATTTTAAATT
9809787 TAAATTT-ATTTTAAATT
1 TAAATTTGATTTTAAATT
9809804 TAAATTTG
1 TAAATTTG
9809812 CACAAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (18 bp):
TAAATTTGATTTTAAATT
Found at i:9809845 original size:17 final size:17
Alignment explanation
Indices: 9809782--9809845 Score: 53
Period size: 17 Copynumber: 3.8 Consensus size: 17
9809772 AATTTGGTTT
*
9809782 TAAA-TTAAATTTATTT
1 TAAATTTAAATTTATTA
*
9809798 TAAATTTAAATTTGCA-CA
1 TAAATTTAAATTT--ATTA
*
9809816 -AAATTTAAGTTTATTA
1 TAAATTTAAATTTATTA
*
9809832 TAAATATAAATTTA
1 TAAATTTAAATTTA
9809846 AAATTTAATT
Statistics
Matches: 37, Mismatches: 6, Indels: 9
0.71 0.12 0.17
Matches are distributed among these distances:
15 1 0.03
16 5 0.14
17 30 0.81
19 1 0.03
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (17 bp):
TAAATTTAAATTTATTA
Found at i:9811803 original size:29 final size:29
Alignment explanation
Indices: 9811771--9812050 Score: 110
Period size: 30 Copynumber: 9.5 Consensus size: 29
9811761 CCTGAACTTT
9811771 CCAAAATT-CCATTTTTGACCCCAATTTCA
1 CCAAAATTACCATTTTT-ACCCCAATTTCA
9811800 CCAAAAATTACCA-TTTTACCCCCAAACTTT--
1 CC-AAAATTACCATTTTTA-CCCC-AA-TTTCA
*
9811830 CCAAAA-TCCCATTTTTAACCCCAATTTCA
1 CCAAAATTACCATTTTT-ACCCCAATTTCA
*
9811859 TCGAAAATTACCA-TTTTACCCCTAAACTTT--
1 -CCAAAATTACCATTTTTACCCC--AA-TTTCA
** * ** * *
9811889 TTAAAA-TCCCATTTTTAACCTTAGTTTTA
1 CCAAAATTACCATTTTT-ACCCCAATTTCA
9811918 CCAAAAATTACCA-TTTTACCCCCAAACTTT--
1 CC-AAAATTACCATTTTTA-CCCC-AA-TTTCA
* * *
9811948 CTAAAA-TCCCATTTTTAACCCCAATTTTA
1 CCAAAATTACCATTTTT-ACCCCAATTTCA
9811977 CCAAAAATTACCA-TTTTACCCCTGAACTTT--
1 CC-AAAATTACCATTTTTACCCC--AA-TTTCA
* *
9812007 CCAAAATT-CCATTTTTAACCTCGATTTCA
1 CCAAAATTACCATTTTT-ACCCCAATTTCA
9812036 CCAAAAATTA-CATTT
1 CC-AAAATTACCATTT
9812051 ATTTTCCCGA
Statistics
Matches: 192, Mismatches: 21, Indels: 75
0.67 0.07 0.26
Matches are distributed among these distances:
27 12 0.06
28 21 0.11
29 59 0.31
30 66 0.34
31 22 0.11
32 12 0.06
ACGTcount: A:0.34, C:0.29, G:0.02, T:0.35
Consensus pattern (29 bp):
CCAAAATTACCATTTTTACCCCAATTTCA
Found at i:9811806 original size:59 final size:59
Alignment explanation
Indices: 9811743--9812050 Score: 413
Period size: 59 Copynumber: 5.2 Consensus size: 59
9811733 CAAAACTTCT
* * * *
9811743 AAAAATTACTATTTTGA-CCCTGAACTTTCCAAAATTCCATTTTTGACCCCAATTTCACC
1 AAAAATTACCATTTT-ACCCCTAAACTTTCCAAAATCCCATTTTTAACCCCAATTTCACC
* *
9811802 AAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCCCAATTTCATC
1 AAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCCAATTTCACC
* ** ** * *
9811861 GAAAATTACCATTTTACCCCTAAACTTTTTAAAATCCCATTTTTAACCTTAGTTTTACC
1 AAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCCAATTTCACC
* * *
9811920 AAAAATTACCATTTTACCCCCAAACTTTCTAAAATCCCATTTTTAACCCCAATTTTACC
1 AAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCCAATTTCACC
* * * *
9811979 AAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACC
1 AAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCCAATTTCACC
9812038 AAAAATTA-CATTT
1 AAAAATTACCATTT
9812051 ATTTTCCCGA
Statistics
Matches: 220, Mismatches: 28, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
58 6 0.03
59 214 0.97
ACGTcount: A:0.34, C:0.28, G:0.02, T:0.36
Consensus pattern (59 bp):
AAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCCAATTTCACC
Found at i:9812531 original size:29 final size:29
Alignment explanation
Indices: 9812498--9812662 Score: 117
Period size: 28 Copynumber: 5.7 Consensus size: 29
9812488 TTTGCCATTA
* *
9812498 TTTTTCAGAATTTTACACTTTTACAACTAG
1 TTTTCCAG-ATTTTACAGTTTTACAACTAG
* *
9812528 TTTTCCAGA-TTTACAGTTTTGCCACTAG
1 TTTTCCAGATTTTACAGTTTTACAACTAG
* *
9812556 TTTTCCAAATTTTACAGTTCTA-ACACTA-
1 TTTTCCAGATTTTACAGTTTTACA-ACTAG
* *
9812584 TTTTCCAGATTTTACAATTTTATC-A-TTG
1 TTTTCCAGATTTTACAGTTTTA-CAACTAG
* * * * *
9812612 ATTTTCCAAAATTTT-CAATTCTACCACTAA
1 -TTTTCC-AGATTTTACAGTTTTACAACTAG
*
9812642 TTTTCCATATTTTACAGTTTT
1 TTTTCCAGATTTTACAGTTTT
9812663 TTCACTATTC
Statistics
Matches: 106, Mismatches: 19, Indels: 21
0.73 0.13 0.14
Matches are distributed among these distances:
27 1 0.01
28 51 0.48
29 40 0.38
30 14 0.13
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (29 bp):
TTTTCCAGATTTTACAGTTTTACAACTAG
Found at i:9812549 original size:57 final size:56
Alignment explanation
Indices: 9812478--9812662 Score: 187
Period size: 57 Copynumber: 3.2 Consensus size: 56
9812468 CGTGTTGGTC
* * * *
9812478 ATTTTATAGTTTTGCCATTATTTTTCAGAATTTTACACTTTTACAACTAGTTTTCCAG
1 ATTTTACAGTTTTGCCATTATTTTCCA-AATTTTACAATTCTACAACTA-TTTTCCAG
* *
9812536 A-TTTACAGTTTTGCCACTAGTTTTCCAAATTTTACAGTTCTA-ACACTATTTTCCAG
1 ATTTTACAGTTTTGCCATTA-TTTTCCAAATTTTACAATTCTACA-ACTATTTTCCAG
* ** * *
9812592 ATTTTACAATTTTATCATTGATTTTCCAAAATTTT-CAATTCTACCACTAATTTTCCAT
1 ATTTTACAGTTTTGCCATT-ATTTTCC-AAATTTTACAATTCTACAACT-ATTTTCCAG
9812650 ATTTTACAGTTTT
1 ATTTTACAGTTTT
9812663 TTCACTATTC
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
56 10 0.09
57 62 0.58
58 35 0.33
ACGTcount: A:0.28, C:0.18, G:0.06, T:0.48
Consensus pattern (56 bp):
ATTTTACAGTTTTGCCATTATTTTCCAAATTTTACAATTCTACAACTATTTTCCAG
Found at i:9812554 original size:28 final size:28
Alignment explanation
Indices: 9812478--9812671 Score: 149
Period size: 29 Copynumber: 6.8 Consensus size: 28
9812468 CGTGTTGGTC
* * * *
9812478 ATTTTATAGTTTTGCCATTATTTTTCAG
1 ATTTTACAGTTTTACCACTATTTTCCAG
* *
9812506 AATTTTACACTTTTACAACTAGTTTTCCAG
1 -ATTTTACAGTTTTACCACTA-TTTTCCAG
* *
9812536 A-TTTACAGTTTTGCCACTAGTTTTCCAA
1 ATTTTACAGTTTTACCACTA-TTTTCCAG
* *
9812564 ATTTTACAGTTCTAACACTATTTTCCAG
1 ATTTTACAGTTTTACCACTATTTTCCAG
* * * *
9812592 ATTTTACAATTTTATCATTGATTTTCCAAA
1 ATTTTACAGTTTTACCACT-ATTTTCC-AG
* * *
9812622 ATTTT-CAATTCTACCACTAATTTTCCAT
1 ATTTTACAGTTTTACCACT-ATTTTCCAG
**
9812650 ATTTTACAGTTTTTTCACTATT
1 ATTTTACAGTTTTACCACTATT
9812672 CTTAAAAAAT
Statistics
Matches: 132, Mismatches: 28, Indels: 11
0.77 0.16 0.06
Matches are distributed among these distances:
28 55 0.42
29 64 0.48
30 13 0.10
ACGTcount: A:0.27, C:0.18, G:0.06, T:0.48
Consensus pattern (28 bp):
ATTTTACAGTTTTACCACTATTTTCCAG
Found at i:9813800 original size:127 final size:127
Alignment explanation
Indices: 9813474--9813839 Score: 459
Period size: 127 Copynumber: 2.9 Consensus size: 127
9813464 GTTCGTTGTA
* * *
9813474 TATTCACAGTTTAGCAAATTCCAACTGCGACTTTATAAACGGAGTATCCACGACTTTCTCTAACA
1 TATTCACAGCTTAGCAGATTCCAACTGCGACTTTATAAACGGAGTATCCACGACTTTCTCTGACA
* * * * *
9813539 GCTTTTATTTATGAGGGATTGTGGATCCTCAACCATATGACAACTTGTTTGCACCCTCTGTG
66 GCTTTTATCTACGAGGGATTGTAGATCCTCAACCATACGACAACTTGTCTGCACCCTCTGTG
* * *
9813601 TATTCACAACTTAGCAGATTCCAACTGCGACTTTATAAATGGAGTATCCATGACTTTCTCTGACA
1 TATTCACAGCTTAGCAGATTCCAACTGCGACTTTATAAACGGAGTATCCACGACTTTCTCTGACA
* * * *
9813666 ACCTTTATCTACGAAGGG-TTGTAGATCCTCAACCATACGTCAGCTTGTCTGCACCCTCTGTG
66 GCTTTTATCTACG-AGGGATTGTAGATCCTCAACCATACGACAACTTGTCTGCACCCTCTGTG
* * * * *
9813728 TATTCACTGCTTAGCAGATTCCAACTGCGACTTTATGAACGGAGCATCCACGATTTTCTTTGACA
1 TATTCACAGCTTAGCAGATTCCAACTGCGACTTTATAAACGGAGTATCCACGACTTTCTCTGACA
* * ** * *
9813793 GCTTTTATATATGAGAAATTAT-GATCCTCAACCAAACGA-AAGCTTGT
66 GCTTTTATCTACGAGGGATTGTAGATCCTCAACCATACGACAA-CTTGT
9813840 TTACACTTAT
Statistics
Matches: 203, Mismatches: 33, Indels: 7
0.84 0.14 0.03
Matches are distributed among these distances:
125 1 0.00
126 22 0.11
127 176 0.87
128 4 0.02
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (127 bp):
TATTCACAGCTTAGCAGATTCCAACTGCGACTTTATAAACGGAGTATCCACGACTTTCTCTGACA
GCTTTTATCTACGAGGGATTGTAGATCCTCAACCATACGACAACTTGTCTGCACCCTCTGTG
Found at i:9814321 original size:13 final size:13
Alignment explanation
Indices: 9814290--9814314 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9814280 CTTAGGATGC
9814290 ATGTTATTTATTA
1 ATGTTATTTATTA
9814303 ATGTTATTTATT
1 ATGTTATTTATT
9814315 GTCGTTAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (13 bp):
ATGTTATTTATTA
Found at i:9829702 original size:15 final size:15
Alignment explanation
Indices: 9829661--9829704 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
9829651 TTTGCAATTT
** *
9829661 TTTTCTTTTTTTTCT
1 TTTTCTTTTTCCTCA
9829676 TTTTCATTTTTCCTCA
1 TTTTC-TTTTTCCTCA
9829692 TTTTCTTTTTCCT
1 TTTTCTTTTTCCT
9829705 ACCCTAACTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 13 0.52
16 12 0.48
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTTCTTTTTCCTCA
Found at i:9830552 original size:43 final size:44
Alignment explanation
Indices: 9830490--9830597 Score: 130
Period size: 43 Copynumber: 2.5 Consensus size: 44
9830480 TTTAGCAGAG
* * ** * *
9830490 AAAAGAAGATAAAACGAAATT-GGAAAGAAGAAATTTCATCGGGA
1 AAAAGAAGAAAAAAGGAAATTAGG-AAGAAGAAAGGTCACCGAGA
9830534 AAAAGAA-AAAAAAGGAAATTAGGAAGAAGAAAGGTCACCGAGA
1 AAAAGAAGAAAAAAGGAAATTAGGAAGAAGAAAGGTCACCGAGA
9830577 AAAAGAAAGAAAAAAGGAAAT
1 AAAAG-AAGAAAAAAGGAAAT
9830598 AGTTTTAAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
43 32 0.58
44 11 0.20
45 12 0.22
ACGTcount: A:0.61, C:0.06, G:0.23, T:0.10
Consensus pattern (44 bp):
AAAAGAAGAAAAAAGGAAATTAGGAAGAAGAAAGGTCACCGAGA
Found at i:9834944 original size:12 final size:12
Alignment explanation
Indices: 9834891--9834949 Score: 59
Period size: 12 Copynumber: 4.9 Consensus size: 12
9834881 TTTAGAGTTT
9834891 AAGAAG-AGAAA
1 AAGAAGAAGAAA
* *
9834902 AAAAAAAAGAAA
1 AAGAAGAAGAAA
*
9834914 AA-AAGAAGAGGAG
1 AAGAAGAAGA--AA
9834927 AAGAAGAAGAAA
1 AAGAAGAAGAAA
9834939 AAGAAGAAGAA
1 AAGAAGAAGAA
9834950 GAGAAAAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
11 10 0.26
12 19 0.49
13 3 0.08
14 7 0.18
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (12 bp):
AAGAAGAAGAAA
Found at i:9834945 original size:15 final size:16
Alignment explanation
Indices: 9834925--9834956 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
9834915 AAAGAAGAGG
9834925 AGAAGAAGAAGA-AAA
1 AGAAGAAGAAGAGAAA
9834940 AGAAGAAGAAGAGAAA
1 AGAAGAAGAAGAGAAA
9834956 A
1 A
9834957 AATTAAAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (16 bp):
AGAAGAAGAAGAGAAA
Found at i:9835108 original size:18 final size:17
Alignment explanation
Indices: 9835087--9835136 Score: 50
Period size: 18 Copynumber: 3.0 Consensus size: 17
9835077 TATGAACTCA
9835087 AGTTTTTCTTTTGTTTT
1 AGTTTTTCTTTTGTTTT
***
9835104 GAGTTTTGAGTTTGTTTT
1 -AGTTTTTCTTTTGTTTT
9835122 A--TTTTCTTTTGTTTT
1 AGTTTTTCTTTTGTTTT
9835137 TGTAGATTTC
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
15 11 0.42
17 1 0.04
18 14 0.54
ACGTcount: A:0.08, C:0.04, G:0.16, T:0.72
Consensus pattern (17 bp):
AGTTTTTCTTTTGTTTT
Found at i:9849991 original size:14 final size:14
Alignment explanation
Indices: 9849972--9850000 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
9849962 GTTAAGAGAG
9849972 TAATCTACTATGAA
1 TAATCTACTATGAA
9849986 TAATCTACTATGAA
1 TAATCTACTATGAA
9850000 T
1 T
9850001 CAACAACAAA
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):
TAATCTACTATGAA
Found at i:9854253 original size:24 final size:24
Alignment explanation
Indices: 9854226--9854277 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
9854216 GGGTACATTT
*
9854226 GAGGTGGAG-GATACATCGGCGGTG
1 GAGGTGG-GTGATACATCGGAGGTG
*
9854250 GAGGTGGGTGATACATTGGAGGTG
1 GAGGTGGGTGATACATCGGAGGTG
9854274 GAGG
1 GAGG
9854278 ATGCATTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 1 0.04
24 24 0.96
ACGTcount: A:0.21, C:0.08, G:0.52, T:0.19
Consensus pattern (24 bp):
GAGGTGGGTGATACATCGGAGGTG
Found at i:9855214 original size:14 final size:13
Alignment explanation
Indices: 9855190--9855234 Score: 51
Period size: 10 Copynumber: 3.6 Consensus size: 13
9855180 CAAAATGTAC
9855190 AATATAATTAAAT
1 AATATAATTAAAT
9855203 AATATAAATTAAAT
1 AATAT-AATTAAAT
9855217 --TA-AATTAAAT
1 AATATAATTAAAT
*
9855227 AATTTAAT
1 AATATAAT
9855235 GAATTATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
10 8 0.30
12 3 0.11
13 8 0.30
14 8 0.30
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AATATAATTAAAT
Found at i:9859514 original size:30 final size:30
Alignment explanation
Indices: 9859478--9859836 Score: 194
Period size: 30 Copynumber: 12.1 Consensus size: 30
9859468 CTCTGGAGGT
*
9859478 CCCTAAACTGTCCAAAAATCATATTTTGAC
1 CCCTAAACTTTCCAAAAATCATATTTTGAC
*
9859508 CCCTAAACTTTTTCAAAAATACAT-TTTT-AC
1 CCCTAAAC-TTTCCAAAAAT-CATATTTTGAC
*
9859538 CCTTAAACTTTCCAAAAATCATATTTTGAC
1 CCCTAAACTTTCCAAAAATCATATTTTGAC
* * * *
9859568 CCTTAAACTTTTCCAAAAATTACATTTTTA-
1 CCCTAAAC-TTTCCAAAAATCATATTTTGAC
* * *
9859598 CCCTAAACTTTCCAAAATTC-CATTTTGAT
1 CCCTAAACTTTCCAAAAATCATATTTTGAC
* * * *
9859627 CCC-AAACTTTTCCAGAAATTACATTTTTAC
1 CCCTAAAC-TTTCCAAAAATCATATTTTGAC
* *
9859657 CCCTAAACTTTCTAAAATTC-TATTTTTGA-
1 CCCTAAACTTTCCAAAAATCATA-TTTTGAC
** * * * *
9859686 CCCTGAAGTTTTCAAAAAATTACATTTTTA-
1 CCCT-AAACTTTCCAAAAATCATATTTTGAC
* *
9859716 CCCTCGAACTTTCCAAAATTTCAT-TTTTGA-
1 CCCT-AAACTTTCCAAAA-ATCATATTTTGAC
* * *
9859746 CCTTGAAAC-TTCCAAAAATTACTGTTTT-A-
1 CCCT-AAACTTTCCAAAAATCA-TATTTTGAC
* *
9859775 CTCTAGAA-TGTCCAAAAATCCCAT-TTTTGA-
1 CCCTA-AACTTTCCAAAAAT--CATATTTTGAC
* *
9859805 CCCTAAAATTTCCAAAAATTACTATTTT-AC
1 CCCTAAACTTTCCAAAAATCA-TATTTTGAC
9859835 CC
1 CC
9859837 TCAGATGTCC
Statistics
Matches: 255, Mismatches: 50, Indels: 48
0.72 0.14 0.14
Matches are distributed among these distances:
28 18 0.07
29 72 0.28
30 123 0.48
31 39 0.15
32 3 0.01
ACGTcount: A:0.34, C:0.24, G:0.04, T:0.38
Consensus pattern (30 bp):
CCCTAAACTTTCCAAAAATCATATTTTGAC
Found at i:9859555 original size:60 final size:61
Alignment explanation
Indices: 9859481--9859872 Score: 347
Period size: 60 Copynumber: 6.6 Consensus size: 61
9859471 TGGAGGTCCC
* * *
9859481 TAAACTGTCCAAAAATCATATTTTGACCCCTAAACTTTTTCAAAAA-TACATTTTTACCCT
1 TAAACTTTCCAAAATTCATATTTTGACCCCTAAACTTTTCCAAAAATTACATTTTTACCCT
* *
9859541 TAAACTTTCCAAAAATCATATTTTGACCCTTAAACTTTTCCAAAAATTACATTTTTACCC-
1 TAAACTTTCCAAAATTCATATTTTGACCCCTAAACTTTTCCAAAAATTACATTTTTACCCT
* * * *
9859601 TAAACTTTCCAAAATTC-CATTTTGATCCC-AAACTTTTCCAGAAATTACATTTTTACCCC
1 TAAACTTTCCAAAATTCATATTTTGACCCCTAAACTTTTCCAAAAATTACATTTTTACCCT
* * * *
9859660 TAAACTTTCTAAAATTC-TATTTTTGA-CCCTGAAGTTTTCAAAAAATTACATTTTTACCCT
1 TAAACTTTCCAAAATTCATA-TTTTGACCCCTAAACTTTTCCAAAAATTACATTTTTACCCT
** * *
9859720 CGAACTTTCCAAAATTTCAT-TTTTGA-CCTTGAAAC--TTCCAAAAATTAC-TGTTTTACTC-
1 TAAACTTTCCAAAA-TTCATATTTTGACCCCT-AAACTTTTCCAAAAATTACAT-TTTTACCCT
* * *
9859778 TAGAA-TGTCCAAAAATCCCAT-TTTTGA-CCCTAAA-ATTTCCAAAAATTAC-TATTTTACCCT
1 TA-AACTTTCC-AAAAT-TCATATTTTGACCCCTAAACTTTTCCAAAAATTACAT-TTTTACCCT
* * *
9859838 CAGA-TGTCCAAAAATTCCAT-TTTTGACCCC-AAACT
1 TAAACTTTCC-AAAATT-CATATTTTGACCCCTAAACT
9859873 CCGAAAATTA
Statistics
Matches: 281, Mismatches: 34, Indels: 34
0.81 0.10 0.10
Matches are distributed among these distances:
58 37 0.13
59 111 0.40
60 114 0.41
61 18 0.06
62 1 0.00
ACGTcount: A:0.34, C:0.23, G:0.05, T:0.38
Consensus pattern (61 bp):
TAAACTTTCCAAAATTCATATTTTGACCCCTAAACTTTTCCAAAAATTACATTTTTACCCT
Found at i:9859726 original size:119 final size:119
Alignment explanation
Indices: 9859478--9859872 Score: 361
Period size: 119 Copynumber: 3.3 Consensus size: 119
9859468 CTCTGGAGGT
* * * * *
9859478 CCCTAAACTGTCCAAAAATCATATTTTGACCCCTAAACTTTTTCAAAAATACATTTTTACCCTTA
1 CCCTAAACTTTCCAAAATTC-CATTTTGACCCCTAAACTTTTCCAAAAATACATTTTTACCCCTA
*
9859543 AACTTTCCAAAAATCATATTTTGACCCTTAAACTTTTCCAAAAATTACATTTTTA
65 AACTTTCCAAAAATCATATTTTGACCCTTAAACTTTTCAAAAAATTACATTTTTA
* *
9859598 CCCTAAACTTTCCAAAATTCCATTTTGATCCC-AAACTTTTCCAGAAATTACATTTTTACCCCTA
1 CCCTAAACTTTCCAAAATTCCATTTTGACCCCTAAACTTTTCCA-AAAATACATTTTTACCCCTA
* * * *
9859662 AACTTTCTAAAATTC-TATTTTTGACCC-TGAAGTTTTCAAAAAATTACATTTTTA
65 AACTTTCCAAAAATCATA-TTTTGACCCTTAAACTTTTCAAAAAATTACATTTTTA
* * *
9859716 CCCTCGAACTTTCCAAAATTTCATTTTTGA-CCTTGAAAC--TTCCAAAAATTAC-TGTTTTA-C
1 CCCT-AAACTTTCCAAAATTCCA-TTTTGACCCCT-AAACTTTTCCAAAAA-TACAT-TTTTACC
* * * *
9859776 TCTAGAA-TGTCCAAAAATCCCAT-TTTTGACCC-TAAA-ATTTCCAAAAATTAC-TATTTTA
61 CCTA-AACTTTCCAAAAAT--CATATTTTGACCCTTAAACTTTTCAAAAAATTACAT-TTTTA
* *
9859834 CCCTCAGA-TGTCCAAAAATTCCATTTTTGACCCC-AAACT
1 CCCT-AAACTTTCC-AAAATTCCA-TTTTGACCCCTAAACT
9859873 CCGAAAATTA
Statistics
Matches: 231, Mismatches: 28, Indels: 34
0.79 0.10 0.12
Matches are distributed among these distances:
117 9 0.04
118 95 0.41
119 97 0.42
120 25 0.11
121 5 0.02
ACGTcount: A:0.34, C:0.24, G:0.05, T:0.37
Consensus pattern (119 bp):
CCCTAAACTTTCCAAAATTCCATTTTGACCCCTAAACTTTTCCAAAAATACATTTTTACCCCTAA
ACTTTCCAAAAATCATATTTTGACCCTTAAACTTTTCAAAAAATTACATTTTTA
Found at i:9859793 original size:59 final size:58
Alignment explanation
Indices: 9859478--9859889 Score: 259
Period size: 59 Copynumber: 7.0 Consensus size: 58
9859468 CTCTGGAGGT
*
9859478 CCCTA-AACTGTCCAAAAA-T-CATATTTTGACCCCT-AAACTTTTTCAAAAA-TACATTTTTA
1 CCCTAGAA-TGTCCAAAAATTCCAT-TTTTGA-CCCTAAAAC--TTCCAAAAATTAC-TTTTTA
* *
9859537 CCCTTA-AACTTTCCAAAAA-T-CATATTTTGACCCTTAAACTTTTCCAAAAATTACATTTTTA
1 CCC-TAGAA-TGTCCAAAAATTCCAT-TTTTGACCCTAAAAC--TTCCAAAAATTAC-TTTTTA
* *
9859598 CCCTA-AACTTTCC-AAAATTCCA-TTTTGATCCC--AAACTTTTCCAGAAATTACATTTTTA
1 CCCTAGAA-TGTCCAAAAATTCCATTTTTGA-CCCTAAAAC--TTCCAAAAATTAC-TTTTTA
* * * *** *
9859656 CCCCTA-AACT-TTCTAAAATTCTATTTTTGACCCTGAAGTTTTCAAAAAATTACATTTTTA
1 -CCCTAGAA-TGTCCAAAAATTCCATTTTTGACCCT-AAAACTTCCAAAAATTAC-TTTTTA
* * * * *
9859716 CCCTCGAACTTTCC-AAAATTTCATTTTTGACCTTGAAACTTCCAAAAATTACTGTTTTA
1 CCCTAGAA-TGTCCAAAAATTCCATTTTTGACCCTAAAACTTCCAAAAATTACT-TTTTA
* * *
9859775 CTCTAGAATGTCCAAAAATCCCATTTTTGACCCTAAAATTTCCAAAAATTACTATTTTA
1 CCCTAGAATGTCCAAAAATTCCATTTTTGACCCTAAAACTTCCAAAAATTACT-TTTTA
* *
9859834 CCCTCAG-ATGTCCAAAAATTCCATTTTTGACCC-CAAAC-TCCGAAAATTACTATTTT
1 CCCT-AGAATGTCCAAAAATTCCATTTTTGACCCTAAAACTTCCAAAAATTACT-TTTT
9859890 TCTCCTGAAG
Statistics
Matches: 302, Mismatches: 34, Indels: 36
0.81 0.09 0.10
Matches are distributed among these distances:
57 17 0.06
58 35 0.12
59 132 0.44
60 100 0.33
61 17 0.06
62 1 0.00
ACGTcount: A:0.34, C:0.24, G:0.05, T:0.37
Consensus pattern (58 bp):
CCCTAGAATGTCCAAAAATTCCATTTTTGACCCTAAAACTTCCAAAAATTACTTTTTA
Found at i:9859861 original size:29 final size:30
Alignment explanation
Indices: 9859700--9859866 Score: 109
Period size: 29 Copynumber: 5.7 Consensus size: 30
9859690 GAAGTTTTCA
*
9859700 AAAAATTACATTTTT-ACCCTC-GAACTTTCC
1 AAAAATTACATTTTTGACCCTCAG-A-TGTCC
* * * *
9859730 -AAAATTTCATTTTTGACCTTGAAACT-TCC
1 AAAAATTACATTTTTGACCCTCAGA-TGTCC
*
9859759 AAAAATTAC-TGTTTT-ACTCT-AGAATGTCC
1 AAAAATTACAT-TTTTGACCCTCAG-ATGTCC
** * * *
9859788 AAAAATCCCATTTTTGACCCTAAAATTTCC
1 AAAAATTACATTTTTGACCCTCAGATGTCC
9859818 AAAAATTAC-TATTTT-ACCCTCAGATGTCC
1 AAAAATTACAT-TTTTGACCCTCAGATGTCC
*
9859847 AAAAATTCCATTTTTGACCC
1 AAAAATTACATTTTTGACCC
9859867 CAAACTCCGA
Statistics
Matches: 106, Mismatches: 19, Indels: 24
0.71 0.13 0.16
Matches are distributed among these distances:
28 2 0.02
29 59 0.56
30 44 0.42
31 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.06, T:0.37
Consensus pattern (30 bp):
AAAAATTACATTTTTGACCCTCAGATGTCC
Found at i:9861781 original size:107 final size:107
Alignment explanation
Indices: 9861585--9861792 Score: 362
Period size: 107 Copynumber: 1.9 Consensus size: 107
9861575 ACAATTTGTC
*
9861585 TTATTATATCAACATGGATGCAATTCCTGAACTTGGAAAGTGTGCAAGGAGCTAAGAGTCTAGAA
1 TTATGATATCAACATGGATGCAATTCCTGAACTTGGAAAGTGTGCAAGGAGCTAAGAGTCTAGAA
*
9861650 CACGACGGTGTCGAGCATAATTCCCGAAGTTTGAACAACTGT
66 CACGACGGTGTCGAGCATAATTCCCAAAGTTTGAACAACTGT
* *
9861692 TTATGATATCAACATGGATGCAATTCCTGAAGTTGGAAAGTGTTCAAGGAGCTAAGAGTCTAGAA
1 TTATGATATCAACATGGATGCAATTCCTGAACTTGGAAAGTGTGCAAGGAGCTAAGAGTCTAGAA
* *
9861757 CACGACTGTGTCGAGCATAGTTCCCAAAGTTTGAAC
66 CACGACGGTGTCGAGCATAATTCCCAAAGTTTGAAC
9861793 TATGTTCGAG
Statistics
Matches: 95, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
107 95 1.00
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (107 bp):
TTATGATATCAACATGGATGCAATTCCTGAACTTGGAAAGTGTGCAAGGAGCTAAGAGTCTAGAA
CACGACGGTGTCGAGCATAATTCCCAAAGTTTGAACAACTGT
Found at i:9868321 original size:32 final size:32
Alignment explanation
Indices: 9868280--9868345 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
9868270 TAAGTTGTGT
9868280 ATGACTCGAAGCTCTAGCACTCTAACTGAACC
1 ATGACTCGAAGCTCTAGCACTCTAACTGAACC
9868312 ATGACTCGAAGCTCTAGCACTCTAACTGAACC
1 ATGACTCGAAGCTCTAGCACTCTAACTGAACC
9868344 AT
1 AT
9868346 ACCCAGATTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.32, C:0.30, G:0.15, T:0.23
Consensus pattern (32 bp):
ATGACTCGAAGCTCTAGCACTCTAACTGAACC
Found at i:9869405 original size:22 final size:22
Alignment explanation
Indices: 9869377--9869425 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
9869367 AACAACGAGC
9869377 TGTGGGCAATGACCAAACTACA
1 TGTGGGCAATGACCAAACTACA
* *
9869399 TGTGGGCAATGACCATACTGCA
1 TGTGGGCAATGACCAAACTACA
9869421 TGTGG
1 TGTGG
9869426 TCAAAGATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (22 bp):
TGTGGGCAATGACCAAACTACA
Found at i:9871419 original size:15 final size:15
Alignment explanation
Indices: 9871399--9871438 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
9871389 ACCATTAAGC
9871399 CCAAACCCAATTGAA
1 CCAAACCCAATTGAA
*
9871414 CCAAACTCAATTGAA
1 CCAAACCCAATTGAA
*
9871429 CCAAATCCAA
1 CCAAACCCAA
9871439 ACCCAAACCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.47, C:0.33, G:0.05, T:0.15
Consensus pattern (15 bp):
CCAAACCCAATTGAA
Found at i:9871517 original size:13 final size:13
Alignment explanation
Indices: 9871501--9871531 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
9871491 TTGACTGTTA
*
9871501 ACTTTGATCGTTG
1 ACTTTGATCATTG
9871514 ACTTTGATCATTG
1 ACTTTGATCATTG
9871527 ACTTT
1 ACTTT
9871532 TTTCGAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.48
Consensus pattern (13 bp):
ACTTTGATCATTG
Found at i:9872594 original size:3 final size:3
Alignment explanation
Indices: 9872580--9872617 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
9872570 CAAAATTTAC
9872580 ATT ATT -TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
9872618 TTGGGTTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:9872724 original size:22 final size:24
Alignment explanation
Indices: 9872674--9872724 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 24
9872664 AAATACAATT
*
9872674 TATTTTGGGACGTTTGATATTTCA
1 TATTTTGGGACGTTTGATATTACA
9872698 T-TTTTGGGA-GTTT-A-ATTAACA
1 TATTTTGGGACGTTTGATATT-ACA
9872719 TATTTT
1 TATTTT
9872725 ATTTTTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
20 3 0.12
21 4 0.17
22 8 0.33
23 8 0.33
24 1 0.04
ACGTcount: A:0.24, C:0.06, G:0.18, T:0.53
Consensus pattern (24 bp):
TATTTTGGGACGTTTGATATTACA
Found at i:9878537 original size:15 final size:15
Alignment explanation
Indices: 9878498--9878531 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
9878488 ACCATTAAGC
9878498 CCAAACCCAATTGAA
1 CCAAACCCAATTGAA
9878513 CCAAACCCAATTGAA
1 CCAAACCCAATTGAA
9878528 CCAA
1 CCAA
9878532 GTCCAAACCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.47, C:0.35, G:0.06, T:0.12
Consensus pattern (15 bp):
CCAAACCCAATTGAA
Found at i:9879644 original size:5 final size:5
Alignment explanation
Indices: 9879634--9879672 Score: 51
Period size: 5 Copynumber: 7.4 Consensus size: 5
9879624 AAAATTTACA
*
9879634 TTATT TTATT TTATT TTATT ATTATT ATATT TTGATT TT
1 TTATT TTATT TTATT TTATT -TTATT TTATT TT-ATT TT
9879673 GGGTTATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
5 20 0.67
6 10 0.33
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (5 bp):
TTATT
Found at i:9882798 original size:2 final size:2
Alignment explanation
Indices: 9882793--9882820 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
9882783 TAAAAAAAAT
9882793 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
9882821 ATACTTCAAG
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:9886432 original size:30 final size:30
Alignment explanation
Indices: 9886385--9886449 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 30
9886375 ATTTCAAGCA
* *
9886385 CTTATACATGATTTAATTTTAAAAAATTATT
1 CTTATACAAGATTTAATTAT-AAAAATTATT
9886416 CTTATACAAG-TTTAATTATAAAAATTATT
1 CTTATACAAGATTTAATTATAAAAATTATT
9886445 -TTATA
1 CTTATA
9886450 AGCATGAACA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
28 5 0.16
29 10 0.31
30 8 0.25
31 9 0.28
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.48
Consensus pattern (30 bp):
CTTATACAAGATTTAATTATAAAAATTATT
Found at i:9892872 original size:15 final size:14
Alignment explanation
Indices: 9892852--9892894 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
9892842 CAATCATAAT
9892852 TTTATTTTTATTTTA
1 TTTA-TTTTATTTTA
* *
9892867 TTTATTATATATTTG
1 TTTATTTTAT-TTTA
9892882 TTTATTTTATTTT
1 TTTATTTTATTTT
9892895 TCTTTATCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 8 0.33
15 16 0.67
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (14 bp):
TTTATTTTATTTTA
Found at i:9896078 original size:17 final size:17
Alignment explanation
Indices: 9896056--9896091 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
9896046 TTCTCATAAG
9896056 CACTTTTGAGATAAAAA
1 CACTTTTGAGATAAAAA
*
9896073 CACTTTTGATATAAAAA
1 CACTTTTGAGATAAAAA
9896090 CA
1 CA
9896092 TTACTAAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.47, C:0.14, G:0.08, T:0.31
Consensus pattern (17 bp):
CACTTTTGAGATAAAAA
Found at i:9898163 original size:33 final size:33
Alignment explanation
Indices: 9898115--9898182 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 33
9898105 TTTCAACCAC
* *
9898115 ACCACACAAAAAAAAATAA-AAAAGTAGTCACAA
1 ACCACACAAAAAAAAACAAGAAAA-AAGTCACAA
* *
9898148 ACCACACCAACAAAAACAAGAAAAAAGTCACAA
1 ACCACACAAAAAAAAACAAGAAAAAAGTCACAA
9898181 AC
1 AC
9898183 GTACAATTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 26 0.87
34 4 0.13
ACGTcount: A:0.65, C:0.24, G:0.06, T:0.06
Consensus pattern (33 bp):
ACCACACAAAAAAAAACAAGAAAAAAGTCACAA
Found at i:9899754 original size:59 final size:61
Alignment explanation
Indices: 9899682--9899813 Score: 160
Period size: 60 Copynumber: 2.2 Consensus size: 61
9899672 TCAATATAAT
* * *
9899682 ATTTGATATCTGAACTTAACA-CTTTTTCTTAATTTGGTACCTAAACTTTTTTT-GACCCA
1 ATTTGGTACCTGAACTTAACATCTTTTTCCTAATTTGGTACCTAAACTTTTTTTAGACCCA
* * * * **
9899741 ATTTGGTACCTGAACTTGATATTTTTTTCCTAATTTGGTACCTAAGCTTTTTTTAAGATTCA
1 ATTTGGTACCTGAACTTAACATCTTTTTCCTAATTTGGTACCTAAACTTTTTTT-AGACCCA
9899803 ATTTGGTACCT
1 ATTTGGTACCT
9899814 AAATTTATTA
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
59 17 0.28
60 29 0.48
62 15 0.25
ACGTcount: A:0.25, C:0.17, G:0.11, T:0.47
Consensus pattern (61 bp):
ATTTGGTACCTGAACTTAACATCTTTTTCCTAATTTGGTACCTAAACTTTTTTTAGACCCA
Found at i:9900137 original size:29 final size:29
Alignment explanation
Indices: 9900082--9900137 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
9900072 AAAAATTGTC
* *
9900082 AAGTTTGAGTATCAAATTGGACCAAAAAA
1 AAGTTTAAGTATCAAATTGGACAAAAAAA
9900111 AAGTTTAAGTATCAAATTAGGA-AAAAA
1 AAGTTTAAGTATCAAATT-GGACAAAAA
9900138 TGTCAAGTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 21 0.88
30 3 0.12
ACGTcount: A:0.52, C:0.07, G:0.16, T:0.25
Consensus pattern (29 bp):
AAGTTTAAGTATCAAATTGGACAAAAAAA
Found at i:9900158 original size:31 final size:30
Alignment explanation
Indices: 9899967--9900158 Score: 85
Period size: 31 Copynumber: 6.4 Consensus size: 30
9899957 TAAAAAGATT
* *
9899967 AGGTACCGAATTAGGAAAACGAGTCAAGTTC
1 AGGTACCAAATTAGGAAAA-AAGTCAAGTTC
***
9899998 AGGTACCAAATT-GGACCCCAA--CAAGTTC
1 AGGTACCAAATTAGGA-AAAAAGTCAAGTTC
* ** * * *
9900026 AAGTACCAGCTTA-AAAAAAAGTGTCAGGTTT
1 AGGTACCAAATTAGGAAAAAA--GTCAAGTTC
*
9900057 AGGTACCAAATTAGGAAAAATTGTCAAGTT-
1 AGGTACCAAATTAGGAAAAA-AGTCAAGTTC
* * * *
9900087 TGAGTATCAAATT-GGACCAAAAA--AAAGTTT
1 AG-GTACCAAATTAGGA--AAAAAGTCAAGTTC
* *
9900117 AAGTATCAAATTAGGAAAAAATGTCAAGTTC
1 AGGTACCAAATTAGGAAAAAA-GTCAAGTTC
9900148 AGGTACCAAAT
1 AGGTACCAAAT
9900159 ATTGTATTAA
Statistics
Matches: 115, Mismatches: 30, Indels: 32
0.65 0.17 0.18
Matches are distributed among these distances:
27 2 0.02
28 22 0.19
29 15 0.13
30 11 0.10
31 56 0.49
32 9 0.08
ACGTcount: A:0.43, C:0.15, G:0.19, T:0.23
Consensus pattern (30 bp):
AGGTACCAAATTAGGAAAAAAGTCAAGTTC
Found at i:9901358 original size:15 final size:15
Alignment explanation
Indices: 9901318--9901382 Score: 60
Period size: 15 Copynumber: 4.2 Consensus size: 15
9901308 TCATATTGGT
*
9901318 TTTTAATTTTTTTTAAA
1 TTTTAATATTTTTT--A
9901335 TATTT-ATATTTTTTA
1 T-TTTAATATTTTTTA
**
9901350 TTTTAATATTTAATA
1 TTTTAATATTTTTTA
*
9901365 ATTTAATATTTTTTA
1 TTTTAATATTTTTTA
9901380 TTT
1 TTT
9901383 ATTAAAAAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
14 3 0.08
15 24 0.62
17 9 0.23
18 3 0.08
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTAATATTTTTTA
Found at i:9903361 original size:61 final size:60
Alignment explanation
Indices: 9903259--9903430 Score: 222
Period size: 59 Copynumber: 2.9 Consensus size: 60
9903249 AATTGAATAT
* * *
9903259 AAAAAAGATTAGGTACCAAATTA-GAAAAAAATGACAAGTTCAAGTATCAAATTGGGTCCA
1 AAAAAAGTTTAGGTACCAAATTAGGAAAAAAATGTCAAGTTCAAGTACCAAATTGGGT-CA
* *
9903319 AAAAAAGTTTAGGTACCAAATTAGGAAAAAAGTGTCAAGTTCAGGTACCAAATTGGGTCA
1 AAAAAAGTTTAGGTACCAAATTAGGAAAAAAATGTCAAGTTCAAGTACCAAATTGGGTCA
* ** * * *
9903379 AACAAA-TTTACATACCAAATTAGGAAAAAAATATCAAGTTTAGGTACCAAAT
1 AAAAAAGTTTAGGTACCAAATTAGGAAAAAAATGTCAAGTTCAAGTACCAAAT
9903431 GTTATATTGA
Statistics
Matches: 100, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
59 41 0.41
60 29 0.29
61 30 0.30
ACGTcount: A:0.48, C:0.12, G:0.16, T:0.23
Consensus pattern (60 bp):
AAAAAAGTTTAGGTACCAAATTAGGAAAAAAATGTCAAGTTCAAGTACCAAATTGGGTCA
Found at i:9904277 original size:32 final size:31
Alignment explanation
Indices: 9904222--9904282 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 31
9904212 TTTTTTAAAC
* *
9904222 GGACCTAATTTTTTTATCCAAACTCATTTTTT
1 GGACCTAATATTTTTAGCCAAACTC-TTTTTT
9904254 GGACCTAATATTTTT-GCCTAAACTCTTTT
1 GGACCTAATATTTTTAGCC-AAACTCTTTT
9904283 GAATTTCGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 6 0.23
32 20 0.77
ACGTcount: A:0.25, C:0.20, G:0.08, T:0.48
Consensus pattern (31 bp):
GGACCTAATATTTTTAGCCAAACTCTTTTTT
Found at i:9905087 original size:20 final size:20
Alignment explanation
Indices: 9905064--9905114 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
9905054 ACCATAAACA
9905064 AAACAAAACAACAATTAAAG
1 AAACAAAACAACAATTAAAG
*
9905084 AAACAAAACAGCAATTAAAG
1 AAACAAAACAACAATTAAAG
*
9905104 AAACTAAACAA
1 AAACAAAACAA
9905115 AAACTGCCAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.69, C:0.16, G:0.06, T:0.10
Consensus pattern (20 bp):
AAACAAAACAACAATTAAAG
Found at i:9906127 original size:2 final size:2
Alignment explanation
Indices: 9906120--9906147 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
9906110 AAAAGTTTTA
9906120 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
9906148 TTCAAATGTT
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:9908347 original size:41 final size:41
Alignment explanation
Indices: 9908257--9908441 Score: 244
Period size: 41 Copynumber: 4.5 Consensus size: 41
9908247 TCTTATGCTC
* * * *
9908257 TTTCGAGTCATAAGTCTTCCTTTAACCATATTCTCATTCTCA
1 TTTCGAGACATGAGTCTTCC-TTAATCATAATCTCATTCTCA
* * *
9908299 TCTCGAGACATGAGTCTTCCTTAATCAAAATCTTATTCTCA
1 TTTCGAGACATGAGTCTTCCTTAATCATAATCTCATTCTCA
*
9908340 TTTCGAGACATGAGTCTTCCTTATTCATAATCTCATTCTCA
1 TTTCGAGACATGAGTCTTCCTTAATCATAATCTCATTCTCA
** * *
9908381 TTTCGAGACATGAGTCTTTATTATTCATAATATCATTCTCA
1 TTTCGAGACATGAGTCTTCCTTAATCATAATCTCATTCTCA
*
9908422 TCTCGAGACATGAGTCTTCC
1 TTTCGAGACATGAGTCTTCC
9908442 ATTTATACAA
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
41 109 0.87
42 17 0.13
ACGTcount: A:0.26, C:0.24, G:0.10, T:0.40
Consensus pattern (41 bp):
TTTCGAGACATGAGTCTTCCTTAATCATAATCTCATTCTCA
Found at i:9909330 original size:22 final size:21
Alignment explanation
Indices: 9909283--9909330 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
9909273 GACTTTCATA
*
9909283 ATTAACTTAATTAATCATCTT
1 ATTAACTTAATTAATCATATT
* * *
9909304 TTTAACCTTAATTTATCCTATT
1 ATTAA-CTTAATTAATCATATT
9909326 ATTAA
1 ATTAA
9909331 TCAATATTTG
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.35, C:0.15, G:0.00, T:0.50
Consensus pattern (21 bp):
ATTAACTTAATTAATCATATT
Found at i:9910636 original size:23 final size:23
Alignment explanation
Indices: 9910609--9910681 Score: 58
Period size: 28 Copynumber: 2.9 Consensus size: 23
9910599 AACTCAACCC
9910609 ATTTTAAATTTATTTTAAATTAA
1 ATTTTAAATTTATTTTAAATTAA
* *
9910632 ATTTTAGAATAAATTTAAATTT-AATTTA
1 A-TTT----TAAATTT-ATTTTAAATTAA
9910660 ATTTTAAATTTATATTTAAATT
1 ATTTTAAATTTAT-TTTAAATT
9910682 TAAAACTATT
Statistics
Matches: 39, Mismatches: 3, Indels: 15
0.68 0.05 0.26
Matches are distributed among these distances:
22 1 0.03
23 11 0.28
24 7 0.18
27 3 0.08
28 13 0.33
29 4 0.10
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (23 bp):
ATTTTAAATTTATTTTAAATTAA
Found at i:9910637 original size:12 final size:12
Alignment explanation
Indices: 9910609--9910658 Score: 52
Period size: 11 Copynumber: 4.3 Consensus size: 12
9910599 AACTCAACCC
*
9910609 ATTTTAAATT-T
1 ATTTTAAATTAA
9910620 ATTTTAAATTAA
1 ATTTTAAATTAA
9910632 ATTTTAGAA-TAA
1 ATTTTA-AATTAA
*
9910644 A-TTTAAATTTA
1 ATTTTAAATTAA
9910655 ATTT
1 ATTT
9910659 AATTTTAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
10 2 0.06
11 17 0.52
12 12 0.36
13 2 0.06
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (12 bp):
ATTTTAAATTAA
Found at i:9910652 original size:6 final size:6
Alignment explanation
Indices: 9910611--9910685 Score: 70
Period size: 6 Copynumber: 13.0 Consensus size: 6
9910601 CTCAACCCAT
*
9910611 TTTAAA TTT-AT TTTAAA -TTAAA TTTTAGAA --TAAA TTTAAA TTT-AA
1 TTTAAA TTTAAA TTTAAA TTTAAA -TTTA-AA TTTAAA TTTAAA TTTAAA
* *
9910656 TTTAAT TTTAAA TTTATA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
9910686 ACTATTATAA
Statistics
Matches: 56, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
4 2 0.04
5 16 0.29
6 33 0.59
7 3 0.05
8 2 0.04
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.53
Consensus pattern (6 bp):
TTTAAA
Found at i:9911123 original size:36 final size:36
Alignment explanation
Indices: 9911076--9911155 Score: 160
Period size: 36 Copynumber: 2.2 Consensus size: 36
9911066 TCAAAAAGAG
9911076 AATCAATACAAAAAAATCAATAGCAAGAATACACAC
1 AATCAATACAAAAAAATCAATAGCAAGAATACACAC
9911112 AATCAATACAAAAAAATCAATAGCAAGAATACACAC
1 AATCAATACAAAAAAATCAATAGCAAGAATACACAC
9911148 AATCAATA
1 AATCAATA
9911156 GAGAGAAGAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 44 1.00
ACGTcount: A:0.61, C:0.19, G:0.05, T:0.15
Consensus pattern (36 bp):
AATCAATACAAAAAAATCAATAGCAAGAATACACAC
Found at i:9912376 original size:30 final size:30
Alignment explanation
Indices: 9912308--9912574 Score: 243
Period size: 29 Copynumber: 9.1 Consensus size: 30
9912298 CCTTGCAAGT
9912308 CCCTAAACTATC-CAAAAATTACATTTTT-A
1 CCCTAAACT-TCTCAAAAATTACATTTTTAA
*
9912337 CCCTAAACTTCTCAAAAATTATATTTTTAA
1 CCCTAAACTTCTCAAAAATTACATTTTTAA
* *
9912367 CCTTAAACTT-TCTAAAAATTACATTTTTAC
1 CCCTAAACTTCTC-AAAAATTACATTTTTAA
* * *
9912397 CCCTAAACTTCTCCAAAATTATA-TTTTGA
1 CCCTAAACTTCTCAAAAATTACATTTTTAA
*
9912426 CCCCAAACTT-TCCAAAAATTACATTTTT-A
1 CCCTAAACTTCT-CAAAAATTACATTTTTAA
*
9912455 CCCTAAACTTTTCAAAAATTACA-TTTTAA
1 CCCTAAACTTCTCAAAAATTACATTTTTAA
* * * *
9912484 CCCT-AATTTCACAAAAATTACCA-TTTCAT
1 CCCTAAACTTCTCAAAAATTA-CATTTTTAA
* * *
9912513 CCCCAAAC-TCTCCAAAATTCCATTTTTAA
1 CCCTAAACTTCTCAAAAATTACATTTTTAA
* *
9912542 TCCCGAAACTT-TTAAAAATTACCA-TTTTAA
1 -CCCTAAACTTCTCAAAAATTA-CATTTTTAA
9912572 CCC
1 CCC
9912575 CAAATATCCA
Statistics
Matches: 195, Mismatches: 29, Indels: 28
0.77 0.12 0.11
Matches are distributed among these distances:
28 22 0.11
29 99 0.51
30 69 0.35
31 5 0.03
ACGTcount: A:0.38, C:0.25, G:0.01, T:0.36
Consensus pattern (30 bp):
CCCTAAACTTCTCAAAAATTACATTTTTAA
Found at i:9912576 original size:59 final size:58
Alignment explanation
Indices: 9912312--9912578 Score: 274
Period size: 59 Copynumber: 4.6 Consensus size: 58
9912302 GCAAGTCCCT
* * * * *
9912312 AAACTATCCAAAAATTACATTTTTACCCTAAACTTCTCAAAAATTATATTTTTAACCTT
1 AAACTTTCCAAAAATTACATTTTTACCCCAAACTTCTCCAAAATTACATTTTTAACC-C
* * * *
9912371 AAACTTTCTAAAAATTACATTTTTACCCCTAAACTTCTCCAAAATTATATTTTGACCCC
1 AAACTTTCCAAAAATTACATTTTTACCCC-AAACTTCTCCAAAATTACATTTTTAACCC
* * *
9912430 AAACTTTCCAAAAATTACATTTTTACCCTAAACTTTTCAAAAATTACA-TTTTAACCC
1 AAACTTTCCAAAAATTACATTTTTACCCCAAACTTCTCCAAAATTACATTTTTAACCC
* * *
9912487 TAA-TTTCACAAAAATTACCA-TTTCATCCCCAAAC-TCTCCAAAATTCCATTTTTAATCCC
1 AAACTTTC-CAAAAATTA-CATTTTTA-CCCCAAACTTCTCCAAAATTACATTTTTAA-CCC
* *
9912546 GAAACTTT-TAAAAATTACCATTTTAACCCCAAA
1 -AAACTTTCCAAAAATTA-CATTTTTACCCCAAA
9912579 TATCCAAAAA
Statistics
Matches: 176, Mismatches: 23, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
56 4 0.02
57 33 0.19
58 31 0.18
59 74 0.42
60 31 0.18
61 3 0.02
ACGTcount: A:0.39, C:0.24, G:0.01, T:0.36
Consensus pattern (58 bp):
AAACTTTCCAAAAATTACATTTTTACCCCAAACTTCTCCAAAATTACATTTTTAACCC
Found at i:9912594 original size:59 final size:59
Alignment explanation
Indices: 9912495--9912628 Score: 153
Period size: 59 Copynumber: 2.3 Consensus size: 59
9912485 CCTAATTTCA
* * * * ** * * *
9912495 CAAAAATTACCATTTCATCCCCAAACTCTCCAAAATTCCATTTTTAATCCCGAAACTTT
1 CAAAAATTACCATTTTAACCCCAAACTATCCAAAACTCCATTTACAACCCCAAAACTCT
* *
9912554 TAAAAATTACCATTTTAACCCCAAA-TATCCAAAAACTCCATTTACGACCCCAAAACTCT
1 CAAAAATTACCATTTTAACCCCAAACTATCC-AAAACTCCATTTACAACCCCAAAACTCT
9912613 CAAAAATTACCATTTT
1 CAAAAATTACCATTTT
9912629 GCCTTGAAAA
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
58 4 0.06
59 58 0.94
ACGTcount: A:0.40, C:0.29, G:0.01, T:0.30
Consensus pattern (59 bp):
CAAAAATTACCATTTTAACCCCAAACTATCCAAAACTCCATTTACAACCCCAAAACTCT
Found at i:9918266 original size:17 final size:17
Alignment explanation
Indices: 9918203--9918284 Score: 60
Period size: 17 Copynumber: 4.5 Consensus size: 17
9918193 AGATACAATA
* *
9918203 AAGAAAAAATAAATAAA
1 AAGAAAAAAAAAATAAG
*
9918220 AAGAAGAAAAAGAAAAAAG
1 AAGAA-AAAAA-AAATAAG
9918239 AAAAGCCAAAAAAAAAATAAG
1 --AAG--AAAAAAAAAATAAG
9918260 AAGAAAAACAAAAAT-AG
1 AAGAAAAA-AAAAATAAG
9918277 AA-AAAAAA
1 AAGAAAAAA
9918285 GGAGAGGTCG
Statistics
Matches: 54, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
15 1 0.02
16 5 0.09
17 14 0.26
18 10 0.19
19 8 0.15
21 9 0.17
22 5 0.09
23 2 0.04
ACGTcount: A:0.80, C:0.04, G:0.11, T:0.05
Consensus pattern (17 bp):
AAGAAAAAAAAAATAAG
Found at i:9919704 original size:99 final size:99
Alignment explanation
Indices: 9919455--9919738 Score: 342
Period size: 99 Copynumber: 2.9 Consensus size: 99
9919445 GCGCCATGAA
* * * * *
9919455 ACATGACGGGAAAGATCTAAGACCGCAACGGTGGATCCAGTACCGCAAAAATACAAAAGGGAAAA
1 ACATGAC-GAAAAAATCTAAGACCGCAACGGCGGATCCAGTACCGCAAAGATACAAAAGGGAAAG
* *
9919520 GTTACGATCGCAATGGCGAACCTTATACCTTAAAG
65 GTTACAATCGCAATGGCGAACCTTATACCTCAAAG
9919555 ACATGACGAAAAAATCTAAGACCGCAACGGCGGATCCAGTACCGCAAAGATACAAAAGGG-AAGG
1 ACATGACGAAAAAATCTAAGACCGCAACGGCGGATCCAGTACCGCAAAGATACAAAAGGGAAAGG
* *
9919619 TTACAATCGCAATGACGAACCTTATACCTCAGAG
66 TTACAATCGCAATGGCGAACCTTATACCTCAAAG
* * * * * * **
9919653 ACATGACGTGAAAAATCTAA-AGTCGCGATGGCGGATCCAGTACCACGAAGAT-TTAAAGGGAAA
1 ACATGACG-AAAAAATCTAAGA-CCGCAACGGCGGATCCAGTACCGCAAAGATACAAAAGGGAAA
*
9919716 GGTTTA-AGTCGCAATGGCGAACC
64 GG-TTACAATCGCAATGGCGAACC
9919739 CGGTACCTTA
Statistics
Matches: 161, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
98 48 0.30
99 103 0.64
100 10 0.06
ACGTcount: A:0.39, C:0.21, G:0.24, T:0.16
Consensus pattern (99 bp):
ACATGACGAAAAAATCTAAGACCGCAACGGCGGATCCAGTACCGCAAAGATACAAAAGGGAAAGG
TTACAATCGCAATGGCGAACCTTATACCTCAAAG
Found at i:9920002 original size:38 final size:38
Alignment explanation
Indices: 9919960--9920034 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 38
9919950 GATTCAAGAA
9919960 GGGCAAAATGAAG-ATTCTGATCTCTTACCCCGAGCTAG
1 GGGCAAAATGAAGCATT-TGATCTCTTACCCCGAGCTAG
* * *
9919998 GGGCAGATTGAAGCCATTTGATCTTTTACCCCGAGCT
1 GGGCAAAATGAAG-CATTTGATCTCTTACCCCGAGCT
9920035 TGGAGCAGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
38 11 0.34
39 18 0.56
40 3 0.09
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (38 bp):
GGGCAAAATGAAGCATTTGATCTCTTACCCCGAGCTAG
Found at i:9920073 original size:78 final size:78
Alignment explanation
Indices: 9919979--9920124 Score: 204
Period size: 78 Copynumber: 1.9 Consensus size: 78
9919969 GAAGATTCTG
* * * *
9919979 ATCTCTTACCCCGAGCTAGGGGCAGATTG-AAGCCATTTGATCTTTTACCCCGAGCTTGGAGCAG
1 ATCTCTTACCCCGAGCTAGGGACAAATTGCAA-CCATCTAATCTTTTACCCCGAGCTTGGAGCAG
9920043 ATCATCATTAACCA
65 ATCATCATTAACCA
* * * *
9920057 ATCTCTTACCCCGAGCTTGGGACAAATTGCAACCATCTAATCTTTTATCCCGGGCTTGGGGCAGA
1 ATCTCTTACCCCGAGCTAGGGACAAATTGCAACCATCTAATCTTTTACCCCGAGCTTGGAGCAGA
9920122 TCA
66 TCA
9920125 CCAGACTCTA
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
78 57 0.97
79 2 0.03
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (78 bp):
ATCTCTTACCCCGAGCTAGGGACAAATTGCAACCATCTAATCTTTTACCCCGAGCTTGGAGCAGA
TCATCATTAACCA
Found at i:9920585 original size:206 final size:206
Alignment explanation
Indices: 9920231--9920841 Score: 988
Period size: 206 Copynumber: 3.0 Consensus size: 206
9920221 CAACTCGATG
* * * *
9920231 CTCGATGTGAGCAAATCTTCGAATCCTAGCTTCTTGATGAGACACTGAGAAGCAGGTCGAAGCAA
1 CTCGATGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAA
*
9920296 TAAAACGGTTAGCTTCTTGATGAGATACTGAGAAGCGGACCAAATTCGTCTTCCTGATGAGATAC
66 TAAAATGGTTAGCTTCTTGATGAGATACTGAGAAGCGGACCAAATTCGTCTTCCTGATGAGATAC
9920361 AGAGAAGTGGATTGAAACAAACGATGCGGTCATTTTCCTGATGAGATACTGAGAAGAAGACCAAA
131 AGAGAAGTGGATTGAAACAAACGATGCGGTCATTTTCCTGATGAGATACTGAGAAGAAGACCAAA
9920426 TCAAACCCACA
196 TCAAACCCACA
* *
9920437 CTCGATGTGAGCAAATCTTCGAACCCCAACTTCCTGATGAGATACTGAGAAGCAGGTCAAAGCAA
1 CTCGATGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAA
* * *
9920502 TAAAATGGTTAGCTTCCTGATGAGACACTGAGAAGCGGACTAAATTCGTCTTCCTGATGAGATAC
66 TAAAATGGTTAGCTTCTTGATGAGATACTGAGAAGCGGACCAAATTCGTCTTCCTGATGAGATAC
*
9920567 AAAGAAGTGGATTGAAACAAACGATGCGGTCATTTTCCTGATGAGATACTGAGAAGAAGACCAAA
131 AGAGAAGTGGATTGAAACAAACGATGCGGTCATTTTCCTGATGAGATACTGAGAAGAAGACCAAA
* *
9920632 TCAAACCTACG
196 TCAAACCCACA
* *
9920643 CTCGATATGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGTAA
1 CTCGATGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAA
*
9920708 TAAAATGGTTAGCTTCTTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATAC
66 TAAAATGGTTAGCTTCTTGATGAGATACTGAGAAGCGGACCAAATTCGTCTTCCTGATGAGATAC
* * ** * * * * * *
9920773 AGAGAAGCGAATTGAAACAAGTGACGTGGTCATCTTCCTGATGAGATACGGAGAAGAAGGCCAAG
131 AGAGAAGTGGATTGAAACAAACGATGCGGTCATTTTCCTGATGAGATACTGAGAAGAAGACCAAA
9920838 TCAA
196 TCAA
9920842 TGAAACTAGA
Statistics
Matches: 373, Mismatches: 32, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
206 373 1.00
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.23
Consensus pattern (206 bp):
CTCGATGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAA
TAAAATGGTTAGCTTCTTGATGAGATACTGAGAAGCGGACCAAATTCGTCTTCCTGATGAGATAC
AGAGAAGTGGATTGAAACAAACGATGCGGTCATTTTCCTGATGAGATACTGAGAAGAAGACCAAA
TCAAACCCACA
Found at i:9921182 original size:6 final size:6
Alignment explanation
Indices: 9921173--9921282 Score: 74
Period size: 6 Copynumber: 19.0 Consensus size: 6
9921163 TCAACCCATT
* *
9921173 TTTAAA TTT-AT TTTAAGA -TTAAA TTT-AT TTTAAA TTTAAA TTT--A
1 TTTAAA TTTAAA TTTAA-A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * *
9921217 TCTTAAA TTTATA TTT--A TTCTAAAA TTTAAA TAT-AA TTTAAG TTTAAA
1 T-TTAAA TTTAAA TTTAAA TT-T-AAA TTTAAA TTTAAA TTTAAA TTTAAA
*
9921265 TTTATA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA
9921283 ACTATTATAA
Statistics
Matches: 81, Mismatches: 11, Indels: 24
0.70 0.09 0.21
Matches are distributed among these distances:
4 5 0.06
5 16 0.20
6 54 0.67
7 3 0.04
8 3 0.04
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:9921196 original size:17 final size:17
Alignment explanation
Indices: 9921173--9921296 Score: 133
Period size: 17 Copynumber: 7.2 Consensus size: 17
9921163 TCAACCCATT
9921173 TTTAAATTTATTTTAAGA
1 TTTAAATTTATTTTAA-A
9921191 -TTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
*
9921207 TTTAAATTTATCTTAAA
1 TTTAAATTTATTTTAAA
* *
9921224 TTTATATTTATTCTAAAA
1 TTTAAATTTATT-TTAAA
* * *
9921242 TTTAAATATAATTTAAG
1 TTTAAATTTATTTTAAA
9921259 TTTAAATTTATATTTAAA
1 TTTAAATTTAT-TTTAAA
** *
9921277 TTTAAAACTATTATAAA
1 TTTAAATTTATTTTAAA
9921294 TTT
1 TTT
9921297 GAATGTCCAG
Statistics
Matches: 88, Mismatches: 15, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
16 1 0.01
17 60 0.68
18 27 0.31
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:9922972 original size:28 final size:28
Alignment explanation
Indices: 9922935--9923018 Score: 98
Period size: 28 Copynumber: 3.0 Consensus size: 28
9922925 TTACATTTTT
*
9922935 ACCCTCAAACTTCTCAAAAATTATATTG
1 ACCCTAAAACTTCTCAAAAATTATATTG
* *
9922963 ACCCTAAAACTT-TCTAAAAATTACATTTT
1 ACCCTAAAACTTCTC-AAAAATTATA-TTG
* *
9922992 ACCCTTAAACTTCTCCAAAATTATATT
1 ACCCTAAAACTTCTCAAAAATTATATT
9923019 TTGACCCCGA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
27 2 0.04
28 22 0.47
29 21 0.45
30 2 0.04
ACGTcount: A:0.39, C:0.24, G:0.01, T:0.36
Consensus pattern (28 bp):
ACCCTAAAACTTCTCAAAAATTATATTG
Found at i:9923011 original size:58 final size:56
Alignment explanation
Indices: 9922917--9923076 Score: 198
Period size: 58 Copynumber: 2.8 Consensus size: 56
9922907 CCTTAAATTA
9922917 TCCAAAAATTACATTTTTACCCTCAAACTTCTCAAAAATTATA-TTGACCCTAAAACTT
1 TCCAAAAATTACA-TTTTACCCTCAAACTTCTC-AAAATTATATTTGACCC-AAAACTT
* * **
9922975 TCTAAAAATTACATTTTACCCTTAAACTTCTCCAAAATTATATTTTGACCCCGAACTT
1 TCCAAAAATTACATTTTACCCTCAAACTTCT-CAAAATTATA-TTTGACCCAAAACTT
* *
9923033 TCCAAAAATTACATTTTGACCC-CAAACTTTTCAAAATTACATTT
1 TCCAAAAATTACATTTT-ACCCTCAAACTTCTCAAAATTATATTT
9923077 TTAACCTCAA
Statistics
Matches: 90, Mismatches: 8, Indels: 10
0.83 0.07 0.09
Matches are distributed among these distances:
56 3 0.03
57 35 0.39
58 41 0.46
59 11 0.12
ACGTcount: A:0.38, C:0.24, G:0.03, T:0.36
Consensus pattern (56 bp):
TCCAAAAATTACATTTTACCCTCAAACTTCTCAAAATTATATTTGACCCAAAACTT
Found at i:9923077 original size:28 final size:29
Alignment explanation
Indices: 9922921--9923086 Score: 153
Period size: 29 Copynumber: 5.8 Consensus size: 29
9922911 AAATTATCCA
* *
9922921 AAAATTACATTTTTACCCTCAAACTTCTC
1 AAAATTACATTTTGACCCTCAAACTTTTC
* * *
9922950 AAAAATT--ATATTGACCCTAAAACTTTCTA
1 -AAAATTACATTTTGACCCTCAAACTTT-TC
* *
9922979 AAAATTACATTTT-ACCCTTAAACTTCTCC
1 AAAATTACATTTTGACCCTCAAACTT-TTC
* * *
9923008 AAAATTATATTTTGACCC-CGAACTTTCC
1 AAAATTACATTTTGACCCTCAAACTTTTC
9923036 AAAAATTACATTTTGACCC-CAAACTTTTC
1 -AAAATTACATTTTGACCCTCAAACTTTTC
* *
9923065 AAAATTACATTTTTAACCTCAA
1 AAAATTACATTTTGACCCTCAA
9923087 TTTCACCAAA
Statistics
Matches: 112, Mismatches: 17, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
28 40 0.36
29 57 0.51
30 15 0.13
ACGTcount: A:0.38, C:0.23, G:0.02, T:0.36
Consensus pattern (29 bp):
AAAATTACATTTTGACCCTCAAACTTTTC
Found at i:9923096 original size:58 final size:57
Alignment explanation
Indices: 9922978--9923198 Score: 205
Period size: 59 Copynumber: 3.8 Consensus size: 57
9922968 AAAACTTTCT
* * *
9922978 AAAAATTACATTTTACCCTTAAACTTCTCCAAAATTATA-TTTTGACCCCGAACTTT--CC
1 AAAAATTACATTTTACCC-CAAACTT-TCCAAAATTACATTTTTGACCTC-AA-TTTCACC
* *
9923036 AAAAATTACATTTTGACCCCAAACTTTTCAAAATTACATTTTTAACCTCAATTTCACC
1 AAAAATTACATTTT-ACCCCAAACTTTCCAAAATTACATTTTTGACCTCAATTTCACC
* * ** * *
9923094 AAAATTTACCATTTTACCACCGAACTTTTTAAAATTCCATTTTTGACCTCGATTTCACC
1 AAAAATTA-CATTTTACC-CCAAACTTTCCAAAATTACATTTTTGACCTCAATTTCACC
* * * *
9923153 AAAAATTTCCATTTTATGCCCAAACTCTCCAAAATTCCATTTTTGA
1 AAAAA-TTACATTTTA-CCCCAAACTTTCCAAAATTACATTTTTGA
9923199 TCTCGAAACT
Statistics
Matches: 137, Mismatches: 18, Indels: 15
0.81 0.11 0.09
Matches are distributed among these distances:
56 3 0.02
57 12 0.09
58 40 0.29
59 79 0.58
60 3 0.02
ACGTcount: A:0.34, C:0.25, G:0.04, T:0.37
Consensus pattern (57 bp):
AAAAATTACATTTTACCCCAAACTTTCCAAAATTACATTTTTGACCTCAATTTCACC
Found at i:9923197 original size:59 final size:58
Alignment explanation
Indices: 9923034--9923263 Score: 202
Period size: 59 Copynumber: 3.9 Consensus size: 58
9923024 CCCGAACTTT
* * * *
9923034 CCAAAAATTA-CATTTTGACCCCAAACTTTTCAAAATTACATTTTTAACCTCAATTTCA
1 CCAAAATTTACCATTTT-ACCCCAAACTTTTCAAAATTCCATTTTTGACCTCGATTTCA
* *
9923092 CCAAAATTTACCATTTTACCACCGAACTTTTTAAAATTCCATTTTTGACCTCGATTTCA
1 CCAAAATTTACCATTTTACC-CCAAACTTTTCAAAATTCCATTTTTGACCTCGATTTCA
* * * * *
9923151 CCAAAAATTT-CCATTTTATGCCCAAACTCTCCAAAATTCCATTTTTGATCTCGAAACTTTTA
1 CC-AAAATTTACCATTTTA-CCCCAAACTTTTCAAAATTCCATTTTTGACCTCG--A-TTTCA
* * * *
9923213 --AAAA-TTACCATTTTAACCCCAAA-TATCCAAAAACTCCATTTTTGACTTCGA
1 CCAAAATTTACCATTTT-ACCCCAAACTTTTC-AAAATTCCATTTTTGACCTCGA
9923264 AACTCTCAAA
Statistics
Matches: 144, Mismatches: 18, Indels: 21
0.79 0.10 0.11
Matches are distributed among these distances:
57 1 0.01
58 18 0.12
59 111 0.77
60 9 0.06
61 1 0.01
62 4 0.03
ACGTcount: A:0.35, C:0.25, G:0.04, T:0.36
Consensus pattern (58 bp):
CCAAAATTTACCATTTTACCCCAAACTTTTCAAAATTCCATTTTTGACCTCGATTTCA
Found at i:9923208 original size:30 final size:30
Alignment explanation
Indices: 9923124--9923284 Score: 79
Period size: 30 Copynumber: 5.4 Consensus size: 30
9923114 CGAACTTTTT
* ** *
9923124 AAAATTCCATTTTTGACCTCG-ATTTCACC
1 AAAATTCCATTTTTGATCTCGAAACTCTCC
*
9923153 AAAAATTTCCA-TTTT-ATGC-CCAAACTCTCC
1 -AAAA-TTCCATTTTTGAT-CTCGAAACTCTCC
* **
9923183 AAAATTCCATTTTTGATCTCGAAACTTTTA
1 AAAATTCCATTTTTGATCTCGAAACTCTCC
* * * *
9923213 AAAATTACCA-TTTT-AACCCCAAA-TATCC
1 AAAATT-CCATTTTTGATCTCGAAACTCTCC
*
9923241 AAAAACTCCATTTTTGA-CTTCGAAACTCT-C
1 -AAAATTCCATTTTTGATC-TCGAAACTCTCC
9923271 AAAATTACCATTTT
1 AAAATT-CCATTTT
9923285 ACCGTAAAAA
Statistics
Matches: 98, Mismatches: 20, Indels: 26
0.68 0.14 0.18
Matches are distributed among these distances:
28 10 0.10
29 32 0.33
30 46 0.47
31 10 0.10
ACGTcount: A:0.35, C:0.25, G:0.04, T:0.36
Consensus pattern (30 bp):
AAAATTCCATTTTTGATCTCGAAACTCTCC
Found at i:9923281 original size:58 final size:59
Alignment explanation
Indices: 9923153--9923285 Score: 164
Period size: 59 Copynumber: 2.3 Consensus size: 59
9923143 CGATTTCACC
* ** * * *
9923153 AAAAATTTCCATTTTATGCCCAAACTCTCCAAAATTCCATTTTTGATCTCGAAACTTTT
1 AAAAATTACCATTTTAACCCCAAACTATCCAAAACTCCATTTTTGATCTCGAAACTTCT
9923212 AAAAATTACCATTTTAACCCCAAA-TATCCAAAAACTCCATTTTTGA-CTTCGAAAC-TCT
1 AAAAATTACCATTTTAACCCCAAACTATCC-AAAACTCCATTTTTGATC-TCGAAACTTCT
*
9923270 CAAAATTACCATTTTA
1 AAAAATTACCATTTTA
9923286 CCGTAAAAAT
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
58 22 0.34
59 43 0.66
ACGTcount: A:0.37, C:0.24, G:0.04, T:0.35
Consensus pattern (59 bp):
AAAAATTACCATTTTAACCCCAAACTATCCAAAACTCCATTTTTGATCTCGAAACTTCT
Found at i:9927156 original size:23 final size:22
Alignment explanation
Indices: 9927107--9927163 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 22
9927097 GTTGGGGAAA
* *
9927107 CAGTAAGCACACAGAGTGCAAT
1 CAGTAGGCACACAGAGCGCAAT
*
9927129 CAGTAGGCACACATAGCGCAAAT
1 CAGTAGGCACACAGAGCGC-AAT
9927152 CAGTAGGCACAC
1 CAGTAGGCACAC
9927164 GAGGTGCGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
22 16 0.52
23 15 0.48
ACGTcount: A:0.39, C:0.26, G:0.23, T:0.12
Consensus pattern (22 bp):
CAGTAGGCACACAGAGCGCAAT
Found at i:9927178 original size:23 final size:22
Alignment explanation
Indices: 9927079--9927205 Score: 98
Period size: 23 Copynumber: 5.5 Consensus size: 22
9927069 CGAAGTACTT
*
9927079 AACAGTAAGCACACAAGTGTTGGGGA
1 AACAGTAAGCACAC-AG-G-T-GCGA
9927105 AACAGTAAGCACACAGAGTGC-A
1 AACAGTAAGCACACAG-GTGCGA
* *
9927127 ATCAGTAGGCACACA--TAGCGCA
1 AACAGTAAGCACACAGGT-GCG-A
*
9927149 AATCAGTAGGCACACGAGGTGCGA
1 AA-CAGTAAGCACAC-AGGTGCGA
*
9927173 AACAGTAAGCACACGAAGTGCGA
1 AACAGTAAGCACAC-AGGTGCGA
9927196 AACAGTAAGC
1 AACAGTAAGC
9927206 GTGCTAGCGT
Statistics
Matches: 87, Mismatches: 7, Indels: 17
0.78 0.06 0.15
Matches are distributed among these distances:
19 1 0.01
20 2 0.02
22 16 0.18
23 42 0.48
24 5 0.06
25 6 0.07
26 15 0.17
ACGTcount: A:0.40, C:0.21, G:0.27, T:0.12
Consensus pattern (22 bp):
AACAGTAAGCACACAGGTGCGA
Found at i:9927202 original size:46 final size:45
Alignment explanation
Indices: 9927103--9927205 Score: 113
Period size: 46 Copynumber: 2.3 Consensus size: 45
9927093 AAGTGTTGGG
* *
9927103 GAAACAGTAAGCACACAGAGTGCAATCAGTAGGCACACATAGCGC
1 GAAACAGTAAGCACACAGAGTGCAAACAGTAAGCACACATAGCGC
* *
9927148 -AAATCAGTAGGCACAC-GAGGTGCGAAACAGTAAGCACACGA-AGTGC
1 GAAA-CAGTAAGCACACAGA-GTGC-AAACAGTAAGCACAC-ATAGCGC
9927194 GAAACAGTAAGC
1 GAAACAGTAAGC
9927206 GTGCTAGCGT
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
44 5 0.10
45 15 0.31
46 24 0.50
47 4 0.08
ACGTcount: A:0.41, C:0.22, G:0.26, T:0.11
Consensus pattern (45 bp):
GAAACAGTAAGCACACAGAGTGCAAACAGTAAGCACACATAGCGC
Found at i:9931760 original size:17 final size:16
Alignment explanation
Indices: 9931710--9931761 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
9931700 GAAGAGAATG
*
9931710 AAAAATAAAGAGAGAAA
1 AAAAATAAA-AGAAAAA
* *
9931727 AAAAAGAAAAGTTAAAA
1 AAAAATAAAAG-AAAAA
*
9931744 AAACATAAAAGAAAAA
1 AAAAATAAAAGAAAAA
9931760 AA
1 AA
9931762 TTAAATAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
16 8 0.29
17 20 0.71
ACGTcount: A:0.79, C:0.02, G:0.12, T:0.08
Consensus pattern (16 bp):
AAAAATAAAAGAAAAA
Found at i:9952091 original size:29 final size:29
Alignment explanation
Indices: 9952056--9952122 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
9952046 CACTAAAACA
*
9952056 AATATTAAAACATCAAACAAATTAAAAAT
1 AATATTAAAACAACAAACAAATTAAAAAT
* *
9952085 AATATTAAAACAACAATCAAATTGAAAAT
1 AATATTAAAACAACAAACAAATTAAAAAT
*
9952114 -ACATTAAAA
1 AATATTAAAA
9952123 ATATTTATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 8 0.24
29 26 0.76
ACGTcount: A:0.64, C:0.10, G:0.01, T:0.24
Consensus pattern (29 bp):
AATATTAAAACAACAAACAAATTAAAAAT
Found at i:9952852 original size:24 final size:24
Alignment explanation
Indices: 9952793--9952853 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
9952783 GAATAATAAG
* * *
9952793 AGTTTGACTCAAACAAATAAACAG
1 AGTTTAACTGAAACAAATAAACAA
*
9952817 AGTTTAATTGAAACAAATAAACAA
1 AGTTTAACTGAAACAAATAAACAA
9952841 AGTTTAACTGAAA
1 AGTTTAACTGAAA
9952854 GATTATTTCT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.52, C:0.11, G:0.11, T:0.25
Consensus pattern (24 bp):
AGTTTAACTGAAACAAATAAACAA
Found at i:9954806 original size:24 final size:24
Alignment explanation
Indices: 9954745--9954807 Score: 99
Period size: 24 Copynumber: 2.6 Consensus size: 24
9954735 TAGAGTAATA
* *
9954745 AGAGTTTGACTCAAACAAATAAAC
1 AGAGTTTAACTGAAACAAATAAAC
*
9954769 AGAGTTTAATTGAAACAAATAAAC
1 AGAGTTTAACTGAAACAAATAAAC
9954793 AGAGTTTAACTGAAA
1 AGAGTTTAACTGAAA
9954808 GATTATTTCT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.51, C:0.11, G:0.14, T:0.24
Consensus pattern (24 bp):
AGAGTTTAACTGAAACAAATAAAC
Found at i:9955011 original size:35 final size:35
Alignment explanation
Indices: 9954965--9955034 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
9954955 TTTTCCTTAG
9954965 CTAAATAATAGCATTAAAAACCAATAACCTAAAAT
1 CTAAATAATAGCATTAAAAACCAATAACCTAAAAT
9955000 CTAAATAATAGCATTAAAAACCAATAACCTAAAAT
1 CTAAATAATAGCATTAAAAACCAATAACCTAAAAT
9955035 GGTATTGTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.57, C:0.17, G:0.03, T:0.23
Consensus pattern (35 bp):
CTAAATAATAGCATTAAAAACCAATAACCTAAAAT
Found at i:9955025 original size:19 final size:19
Alignment explanation
Indices: 9954968--9955026 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
9954958 TCCTTAGCTA
9954968 AATAATAGCATTAAAAACC
1 AATAATAGCATTAAAAACC
* * *
9954987 AAT-A-A-C-CTAAAATCTA
1 AATAATAGCATTAAAAAC-C
9955003 AATAATAGCATTAAAAACC
1 AATAATAGCATTAAAAACC
9955022 AATAA
1 AATAA
9955027 CCTAAAATGG
Statistics
Matches: 29, Mismatches: 6, Indels: 10
0.64 0.13 0.22
Matches are distributed among these distances:
15 6 0.21
16 4 0.14
17 2 0.07
18 2 0.07
19 9 0.31
20 6 0.21
ACGTcount: A:0.59, C:0.15, G:0.03, T:0.22
Consensus pattern (19 bp):
AATAATAGCATTAAAAACC
Found at i:9957214 original size:25 final size:23
Alignment explanation
Indices: 9957110--9957236 Score: 84
Period size: 23 Copynumber: 5.4 Consensus size: 23
9957100 ACGGAACAAA
* *
9957110 CAGAGAGTAC-CAAAGTACTAA-
1 CAGAGAGCACACAAAGTGCTAAT
*
9957131 CAGAGAGCACA-TAAGTGCTGGGCAA-
1 CAGAGAGCACACAAAGTGCT----AAT
* *
9957156 CAGAGAGCTCACACAGTGCTAAT
1 CAGAGAGCACACAAAGTGCTAAT
9957179 CAGAGAGCACACAAAGTGCTAAT
1 CAGAGAGCACACAAAGTGCTAAT
* * *
9957202 CATAGAGTACACACAA-TGGTAAT
1 CAGAGAGCACACA-AAGTGCTAAT
9957225 AACAGAGAGCAC
1 --CAGAGAGCAC
9957237 GAGACGTGCT
Statistics
Matches: 83, Mismatches: 13, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
21 15 0.18
22 2 0.02
23 38 0.46
24 2 0.02
25 20 0.24
26 6 0.07
ACGTcount: A:0.42, C:0.21, G:0.23, T:0.14
Consensus pattern (23 bp):
CAGAGAGCACACAAAGTGCTAAT
Found at i:9959367 original size:45 final size:45
Alignment explanation
Indices: 9959284--9959369 Score: 127
Period size: 45 Copynumber: 1.9 Consensus size: 45
9959274 ATTGCTCAAG
* * *
9959284 TATAAATAATTAATAATAAATGCTATGTAGTTTAATTAAATTTAA
1 TATAAATAATTAATAATAAATACTATGTAATTCAATTAAATTTAA
* *
9959329 TATAAATAATTTATAATAAATACTATGTAATTCGATTAAAT
1 TATAAATAATTAATAATAAATACTATGTAATTCAATTAAAT
9959370 ATTTCAAAGG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.49, C:0.03, G:0.06, T:0.42
Consensus pattern (45 bp):
TATAAATAATTAATAATAAATACTATGTAATTCAATTAAATTTAA
Found at i:9959969 original size:18 final size:18
Alignment explanation
Indices: 9959935--9959970 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
9959925 TGACACGTGT
*
9959935 GTATTTTTTTTAAATACG
1 GTATTTTTTTGAAATACG
*
9959953 GTATTTTTTTGATATACG
1 GTATTTTTTTGAAATACG
9959971 AAAATACGAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.06, G:0.14, T:0.56
Consensus pattern (18 bp):
GTATTTTTTTGAAATACG
Found at i:9960195 original size:61 final size:62
Alignment explanation
Indices: 9960078--9960369 Score: 353
Period size: 61 Copynumber: 4.8 Consensus size: 62
9960068 ATTTCAGAAA
** *
9960078 AAAAAAATTT-AAATTTTTTT-GTGTCAGCCATCAAATGACCGACACCGACCTTTTCTC-AAG
1 AAAAAAATTTCAAATTTTTTTGGTGTTGGCCATCAAATGACCGACACC-CCCTTTTCTCGAAG
* ** ** *
9960138 AAAAAAATTACAAATTTTTTTGGTGTTGAACATCAAATGGTCGACACCCCCTATTCTCG-AG
1 AAAAAAATTTCAAATTTTTTTGGTGTTGGCCATCAAATGACCGACACCCCCTTTTCTCGAAG
* * * *
9960199 -AAAAAATTTCAAATTTTTTTGGGTGTTGGCCATTAAATGCCCGACATCCCCTTTTCTCGAAT
1 AAAAAAATTTCAAATTTTTTT-GGTGTTGGCCATCAAATGACCGACACCCCCTTTTCTCGAAG
* *
9960261 AAAAAAATTTCAAATTTTTTTCGTGTTGGCCATCAAATGACCGACA-CCCCTTTTCTCGAAT
1 AAAAAAATTTCAAATTTTTTTGGTGTTGGCCATCAAATGACCGACACCCCCTTTTCTCGAAG
* * * *
9960322 AAAATAATTTCAAATTTTTTTTGTGTAGGCCATCAAATGGCCGACACC
1 AAAAAAATTTCAAATTTTTTTGGTGTTGGCCATCAAATGACCGACACC
9960370 AACTTTTCCT
Statistics
Matches: 200, Mismatches: 25, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
60 28 0.14
61 108 0.54
62 44 0.22
63 20 0.10
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.34
Consensus pattern (62 bp):
AAAAAAATTTCAAATTTTTTTGGTGTTGGCCATCAAATGACCGACACCCCCTTTTCTCGAAG
Found at i:9960275 original size:123 final size:120
Alignment explanation
Indices: 9960079--9960377 Score: 363
Period size: 123 Copynumber: 2.5 Consensus size: 120
9960069 TTTCAGAAAA
9960079 AAAAAATTT-AAATTTTTTTGTGTCA-GCCATCAAATGACCGACACCGACCTTTTCTCAAGAAAA
1 AAAAAATTTCAAATTTTTTTGTGT-AGGCCATCAAATGACCGACACC-ACCTTTTCTCAAGAAAA
* **
9960142 AAATTACAAATTTTTTTGGTGTTGAACATCAAATGGTCGACACCCCCTATTCTCG-AG
64 AAATTACAAATTTTTTTCGTGTTGAACATCAAATGACCGACA-CCCCTATTCTCGAAG
* * * *
9960199 AAAAAATTTCAAATTTTTTTGGGTGTTGGCCATTAAATGCCCGACATCC-CCTTTTCTCGAATAA
1 AAAAAATTTCAAATTTTTTT--GTGTAGGCCATCAAATGACCGACA-CCACCTTTTCTC-AAGAA
* ** * *
9960263 AAAAATTTCAAATTTTTTTCGTGTTGGCCATCAAATGACCGACACCCCTTTTCTCGAAT
62 AAAAATTACAAATTTTTTTCGTGTTGAACATCAAATGACCGACACCCCTATTCTCGAAG
* *
9960322 AAAATAATTTCAAATTTTTTTTGTGTAGGCCATCAAATGGCCGACACCAACTTTTC
1 AAAA-AATTTCAAA-TTTTTTTGTGTAGGCCATCAAATGACCGACACCACCTTTTC
9960378 CTCATTCTCT
Statistics
Matches: 153, Mismatches: 16, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
120 9 0.06
121 10 0.07
122 22 0.14
123 94 0.61
124 11 0.07
125 7 0.05
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.34
Consensus pattern (120 bp):
AAAAAATTTCAAATTTTTTTGTGTAGGCCATCAAATGACCGACACCACCTTTTCTCAAGAAAAAA
ATTACAAATTTTTTTCGTGTTGAACATCAAATGACCGACACCCCTATTCTCGAAG
Found at i:9964487 original size:165 final size:166
Alignment explanation
Indices: 9964212--9964569 Score: 528
Period size: 165 Copynumber: 2.2 Consensus size: 166
9964202 AAAAAGATAG
* * *
9964212 TTATTATATTACAATTTATATCAAATATTGTATTAATTTGACAATACATTATTTATCAAATTTTC
1 TTATTATATTACAATTTTTATCATATAATGTATTAATTTGACAATACATTATTTATCAAATTTTC
*
9964277 ATATTTAAAGTACAAATTATTATTATATTATAATTTTTATCATATAATGTATTGATTTAACAATA
66 ATATTTAAAGTAAAAATTATTATTATATTATAATTTTTATCATATAATGTATTGATTTAACAATA
*
9964342 CATTATTTATTAATTTTATATCTTTAAATAGAAA-TT
131 AATTATTTATTAATTTTATATCTTTAAATA-AAATTT
* * * * *
9964378 TTATTATATTATAATTTTTATCATATAATGTGTTGATTTGACAATACATTGTTTAT-TAATTTT-
1 TTATTATATTACAATTTTTATCATATAATGTATTAATTTGACAATACATTATTTATCAAATTTTC
* *
9964441 ATATCTTTAAA-TAAAAATT-TCTATTATATTATAATTTTTATCATATAATGTGTTGATTTGACA
66 ATA--TTTAAAGTAAAAATTAT-TATTATATTATAATTTTTATCATATAATGTATTGATTTAACA
9964504 ATAAATTATTTATTAATTTTATATCTTTAAATAAAATTTT
128 ATAAATTATTTATTAATTTTATATCTTTAAATAAAA-TTT
9964544 TTATTATATTACAATTTTTATCATAT
1 TTATTATATTACAATTTTTATCATAT
9964570 TTTAAATTTA
Statistics
Matches: 174, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
164 7 0.04
165 85 0.49
166 82 0.47
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (166 bp):
TTATTATATTACAATTTTTATCATATAATGTATTAATTTGACAATACATTATTTATCAAATTTTC
ATATTTAAAGTAAAAATTATTATTATATTATAATTTTTATCATATAATGTATTGATTTAACAATA
AATTATTTATTAATTTTATATCTTTAAATAAAATTT
Found at i:9964502 original size:83 final size:82
Alignment explanation
Indices: 9964212--9964569 Score: 513
Period size: 83 Copynumber: 4.3 Consensus size: 82
9964202 AAAAAGATAG
* * * * * *
9964212 TTATTATATTACAATTTATATCAAATATTGTATTAATTTGACAATACATTATTTATCAAATTTTC
1 TTATTATATTATAATTTTTATCATATAATGTATTGATTTGACAATACATTATTTAT-TAATTTT-
*
9964277 ATA--TTTAAAGTACAAATT
64 ATATCTTTAAA-TAAAAATT
*
9964295 ATTATTATATTATAATTTTTATCATATAATGTATTGATTTAACAATACATTATTTATTAATTTTA
1 -TTATTATATTATAATTTTTATCATATAATGTATTGATTTGACAATACATTATTTATTAATTTTA
*
9964360 TATCTTTAAATAGAAATT
65 TATCTTTAAATAAAAATT
* *
9964378 TTATTATATTATAATTTTTATCATATAATGTGTTGATTTGACAATACATTGTTTATTAATTTTAT
1 TTATTATATTATAATTTTTATCATATAATGTATTGATTTGACAATACATTATTTATTAATTTTAT
9964443 ATCTTTAAATAAAAATT
66 ATCTTTAAATAAAAATT
* *
9964460 TCTATTATATTATAATTTTTATCATATAATGTGTTGATTTGACAATAAATTATTTATTAATTTTA
1 T-TATTATATTATAATTTTTATCATATAATGTATTGATTTGACAATACATTATTTATTAATTTTA
*
9964525 TATCTTTAAATAAAATTTT
65 TATCTTTAAATAAAA-ATT
*
9964544 TTATTATATTACAATTTTTATCATAT
1 TTATTATATTATAATTTTTATCATAT
9964570 TTTAAATTTA
Statistics
Matches: 254, Mismatches: 16, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
82 82 0.32
83 113 0.44
84 59 0.23
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (82 bp):
TTATTATATTATAATTTTTATCATATAATGTATTGATTTGACAATACATTATTTATTAATTTTAT
ATCTTTAAATAAAAATT
Found at i:9966468 original size:30 final size:30
Alignment explanation
Indices: 9966434--9966525 Score: 91
Period size: 30 Copynumber: 3.1 Consensus size: 30
9966424 TCCCTTTACT
*
9966434 TTTTAAATTTAA-TTTGTAATTTCGTT-TTTA
1 TTTTAAATTTAATTTTG-AATTTC-TTGTATA
9966464 TTTTAAATTTAATTTTGAATTTCTTGTATA
1 TTTTAAATTTAATTTTGAATTTCTTGTATA
* ** *
9966494 TTTTAATTTTTCTTTCT-AATTTCATGTATA
1 TTTTAAATTTAATTT-TGAATTTCTTGTATA
9966524 TT
1 TT
9966526 CTAATTATTA
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
29 2 0.04
30 47 0.87
31 5 0.09
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.63
Consensus pattern (30 bp):
TTTTAAATTTAATTTTGAATTTCTTGTATA
Found at i:9967921 original size:60 final size:60
Alignment explanation
Indices: 9967433--9968032 Score: 469
Period size: 62 Copynumber: 9.9 Consensus size: 60
9967423 ACCAACACCC
* * *
9967433 AAAAATGTGAATTTTTTTTCTCGAGAAAAGGGGGGTGTCGACCATCTGATGGCCAACACAAAA
1 AAAAAT-TGAA-TTTTTTTCTCGAGAAAA-GGGGGTGTCGGCCATTTGATGGCCAACACCAAA
* * *** * *
9967496 AAAAATTGAAATTTTTTTCTTGAGAAAAGGGGGTGTCGACCATGAAATGACTAACA-CAAA
1 AAAAATTG-AATTTTTTTCTCGAGAAAAGGGGGTGTCGGCCATTTGATGGCCAACACCAAA
* * * *
9967556 AAAAATTTAAATTTTTTTTCTCGAGAAAAAAGGGAGTGTCAGTCATTTGATGGCCAACACCAAA
1 AAAAA-TTGAA-TTTTTTTCTCGAG--AAAAGGGGGTGTCGGCCATTTGATGGCCAACACCAAA
* * * * *** *
9967620 ACAATTTGAATTTTTTTCTAGAGAAAAGGGGGGTGTCGACCATGCAATGTCCAACACCAAA
1 AAAAATTGAATTTTTTTCTCGAGAAAA-GGGGGTGTCGGCCATTTGATGGCCAACACCAAA
**
9967681 AAATTTTGAATTTTTTTTCTCGAGAAAAGGGGGTGTCGGCCA--T--T-GCCAACACCAAA
1 AAAAATTGAA-TTTTTTTCTCGAGAAAAGGGGGTGTCGGCCATTTGATGGCCAACACCAAA
* * * ***
9967737 AAAATTTGAATTTTTTTCTCAAAAAAAGGGGGTGTCGGCCATGCAATGGCCAACACCAAA
1 AAAAATTGAATTTTTTTCTCGAGAAAAGGGGGTGTCGGCCATTTGATGGCCAACACCAAA
* * ** * *
9967797 AAAAATTGAAATTTTTTCTCGAGAAAAAAGAGTGGTGTCGGCCA-TTGCATGATCAATA-CTAA
1 AAAAATTGAATTTTTTTCTCGAG--AAAAG-GGGGTGTCGGCCATTTG-ATGGCCAACACCAAA
** *
9967859 AAAAATTGAATTTTTTTCTCGAGAAATAGGGAATGTCGGCCATTTGATGGCC-A-A-CATA
1 AAAAATTGAATTTTTTTCTCGAGAAA-AGGGGGTGTCGGCCATTTGATGGCCAACACCAAA
* * *
9967917 AAAAA-TGTAATTTTTTT-T--AGAAAAGGGGGTGTCGACCATTTGATGACCAACACCCAA
1 AAAAATTG-AATTTTTTTCTCGAGAAAAGGGGGTGTCGGCCATTTGATGGCCAACACCAAA
** * * * *
9967974 AAATTTTGAAATTTTTTT-TCTGACAAAAAAGGAGTATCGGCCA-TTGCATGGCCAACACC
1 AAAAATTG-AATTTTTTTCTC-GA-GAAAAGGGGGTGTCGGCCATTTG-ATGGCCAACACC
9968033 CTAATTTTTT
Statistics
Matches: 433, Mismatches: 75, Indels: 59
0.76 0.13 0.10
Matches are distributed among these distances:
54 21 0.05
55 35 0.08
56 21 0.05
57 9 0.02
58 29 0.07
59 2 0.00
60 62 0.14
61 92 0.21
62 101 0.23
63 54 0.12
64 7 0.02
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (60 bp):
AAAAATTGAATTTTTTTCTCGAGAAAAGGGGGTGTCGGCCATTTGATGGCCAACACCAAA
Found at i:9967943 original size:177 final size:174
Alignment explanation
Indices: 9967419--9968032 Score: 442
Period size: 177 Copynumber: 3.4 Consensus size: 174
9967409 ATCCGAGGAA
* * * * ** *
9967419 AATGACCAACACC-CAAAAATGTGAATTTTTTTTCTCGAGAAAAGGGGGGTGTCGACCATCTG-A
1 AATGGCCAACACCAAAAAAATTTGAA-ATTTTTT-TCGAGAAAAAAGGGGTGTCGGCCAT-TGCA
* * * * * ** *
9967482 TGGCCAACACAAAAAAAAATTGAAATTTTTTTCTTGAGAAAAGGGGGTGTCGACCATGAAATGAC
63 TGTCCAACACCAAAAAATATTGAATTTTTTTTCTCGAGAAAAGGGAATGTCGGCCAT----TG-C
* * * * * **
9967547 TAACACAAAAAAAATTTAAATTTTTTTTCTCGAGAAAAAAGGGAGTGTC-AGTCATTT
123 CAACAC-AAAAAAATGTGAA-TTTTTTTCT--A-AAAAAAGGGGGTGTCGA-CCATGC
* * ** *
9967604 GATGGCCAACACCAAAACAATTTG-AATTTTTTTCTAGAGAAAAGGGGGGTGTCGACCA-TGCAA
1 AATGGCCAACACCAAAAAAATTTGAAATTTTTTTC--GAGAAAAAAGGGGTGTCGGCCATTGC-A
* **
9967667 TGTCCAACACCAAAAAATTTTGAATTTTTTTTCTCGAGAAAAGGGGGTGTCGGCCATTGCCAACA
63 TGTCCAACACCAAAAAATATTGAATTTTTTTTCTCGAGAAAAGGGAATGTCGGCCATTGCCAACA
* *
9967732 CCAAAAAAATTTGAATTTTTTTCTCAAAAAAAGGGGGTGTCGGCCATGC
128 -CAAAAAAATGTGAATTTTTTTCT-AAAAAAAGGGGGTGTCGACCATGC
*
9967781 AATGGCCAACACCAAAAAAAATTGAAATTTTTTCTCGAGAAAAAAGAGTGGTGTCGGCCATTGCA
1 AATGGCCAACACCAAAAAAATTTGAAATTTTTT-TCGAGAAAAAAG-G-GGTGTCGGCCATTGCA
* *
9967846 TGAT-CAATACTAAAAAA-ATTGAA-TTTTTTTCTCGAGAAATAGGGAATGTCGGCCATTTGATG
63 TG-TCCAACACCAAAAAATATTGAATTTTTTTTCTCGAGAAA-AGGGAATGTCGGCCA--T--T-
* * **
9967908 GCCAACA-TAAAAAATGT-AATTTTTTT-T-AGAAAAGGGGGTGTCGACCATTT
121 GCCAACACAAAAAAATGTGAATTTTTTTCTAAAAAAAGGGGGTGTCGACCATGC
* * * * * * *
9967958 GATGACCAACACCCAAAAATTTTGAAATTTTTTTTCTGACAAAAAAGGAGTATCGGCCATTGCAT
1 AATGGCCAACACCAAAAAAATTTGAAA-TTTTTTTC-GAGAAAAAAGGGGTGTCGGCCATTGCAT
*
9968023 GGCCAACACC
64 GTCCAACACC
9968033 CTAATTTTTT
Statistics
Matches: 358, Mismatches: 49, Indels: 53
0.78 0.11 0.12
Matches are distributed among these distances:
176 21 0.06
177 106 0.30
178 43 0.12
179 36 0.10
180 31 0.09
181 11 0.03
182 1 0.00
183 11 0.03
184 6 0.02
185 85 0.24
186 7 0.02
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (174 bp):
AATGGCCAACACCAAAAAAATTTGAAATTTTTTTCGAGAAAAAAGGGGTGTCGGCCATTGCATGT
CCAACACCAAAAAATATTGAATTTTTTTTCTCGAGAAAAGGGAATGTCGGCCATTGCCAACACAA
AAAAATGTGAATTTTTTTCTAAAAAAAGGGGGTGTCGACCATGC
Found at i:9968033 original size:62 final size:60
Alignment explanation
Indices: 9967424--9968032 Score: 479
Period size: 61 Copynumber: 10.1 Consensus size: 60
9967414 AGGAAAATGA
* * ** *
9967424 CCAACACC-CAAAAATGTGAATTTTTTTTCTCGAGAAAAGGGGGGTGTCGACCATCTGATGG
1 CCAACACCAAAAAAATTTGAA-TTTTTTTCTCGAGAAAAAAGGGGTGTCGGCCAT-TGATGG
* * * * * *
9967485 CCAACACAAAAAAAAATTGAAATTTTTTTCTTGAG-AAAAGGGGGTGTCGACCA-TGAAATGA
1 CCAACACCAAAAAAATTTG-AATTTTTTTCTCGAGAAAAAAGGGGTGTCGGCCATTG--ATGG
* * * * *
9967546 CTAACACAAAAAAAATTTAAATTTTTTTTCTCGAGAAAAAAGGGAGTGTCAGTCATTTGATGG
1 CCAACACCAAAAAAATTTGAA-TTTTTTTCTCGAGAAAAAAGGG-GTGTCGGCCA-TTGATGG
* * ** * *
9967609 CCAACACCAAAACAATTTGAATTTTTTTCTAGAGAAAAGGGGGGTGTCGACCA-TGCAATGT
1 CCAACACCAAAAAAATTTGAATTTTTTTCTCGAGAAAAAAGGGGTGTCGGCCATTG--ATGG
* *
9967670 CCAACACCAAAAAATTTTGAATTTTTTTTCTCGAG-AAAAGGGGGTGTCGGCCA-T--T-G
1 CCAACACCAAAAAAATTTGAA-TTTTTTTCTCGAGAAAAAAGGGGTGTCGGCCATTGATGG
9967726 CCAACACCAAAAAAATTTGAATTTTTTTCTC-A-AAAAAAGGGGGTGTCGGCCA-TGCAATGG
1 CCAACACCAAAAAAATTTGAATTTTTTTCTCGAGAAAAAA-GGGGTGTCGGCCATTG--ATGG
* * *
9967786 CCAACACCAAAAAAAATTGAAATTTTTTCTCGAGAAAAAAGAGTGGTGTCGGCCATTGCATGA
1 CCAACACCAAAAAAATTTGAATTTTTTTCTCGAGAAAAAAG-G-GGTGTCGGCCATTG-ATGG
* * * * *
9967849 TCAATACTAAAAAAA-TTGAATTTTTTTCTCGAG-AAATAGGGAATGTCGGCCATTTGATGG
1 CCAACACCAAAAAAATTTGAATTTTTTTCTCGAGAAAAAAGGG-GTGTCGGCCA-TTGATGG
* * * * *
9967909 CCAACA--TAAAAAATGT-AATTTTTTT-T--AG-AAAAGGGGGTGTCGACCATTTGATGA
1 CCAACACCAAAAAAATTTGAATTTTTTTCTCGAGAAAAAAGGGGTGTCGGCCA-TTGATGG
* * * * *
9967963 CCAACACCCAAAAATTTTGAAATTTTTTT-TCTGACAAAAAAGGAGTATCGGCCATTGCATGG
1 CCAACACCAAAAAAATTTG-AATTTTTTTCTC-GAGAAAAAAGGGGTGTCGGCCATTG-ATGG
9968025 CCAACACC
1 CCAACACC
9968033 CTAATTTTTT
Statistics
Matches: 448, Mismatches: 64, Indels: 71
0.77 0.11 0.12
Matches are distributed among these distances:
54 26 0.06
55 32 0.07
56 27 0.06
57 2 0.00
58 25 0.06
59 7 0.02
60 49 0.11
61 115 0.26
62 106 0.24
63 55 0.12
64 2 0.00
65 2 0.00
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (60 bp):
CCAACACCAAAAAAATTTGAATTTTTTTCTCGAGAAAAAAGGGGTGTCGGCCATTGATGG
Found at i:9983879 original size:21 final size:23
Alignment explanation
Indices: 9983844--9983887 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
9983834 CTGATAAACA
9983844 TTTTTTTAGATAATTACATTTAT
1 TTTTTTTAGATAATTACATTTAT
*
9983867 TTTTTTTA-A-AATTTCATTTAT
1 TTTTTTTAGATAATTACATTTAT
9983888 AATTTATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 11 0.55
22 1 0.05
23 8 0.40
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.64
Consensus pattern (23 bp):
TTTTTTTAGATAATTACATTTAT
Found at i:9990039 original size:9 final size:9
Alignment explanation
Indices: 9990025--9990049 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
9990015 AACTCTGATC
9990025 CAAGAAAAT
1 CAAGAAAAT
9990034 CAAGAAAAT
1 CAAGAAAAT
9990043 CAAGAAA
1 CAAGAAA
9990050 GCTCTGATGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.12, G:0.12, T:0.08
Consensus pattern (9 bp):
CAAGAAAAT
Found at i:9991963 original size:30 final size:30
Alignment explanation
Indices: 9991929--9992246 Score: 192
Period size: 30 Copynumber: 10.7 Consensus size: 30
9991919 TGTTTTGTTT
* *
9991929 AAAAATTACATTTTAACCAC-CGAACTTCTC
1 AAAAATTACATTTTAACC-CTCAAACTTTTC
* * * *
9991959 AAAAATCACATTTTGACACTCAAACTTCTC
1 AAAAATTACATTTTAACCCTCAAACTTTTC
* *
9991989 AAAAATTATATTTTGACCC-CTAAACTTTTC
1 AAAAATTACATTTTAACCCTC-AAACTTTTC
* *
9992019 CAAAATTACATTTTAACCCTCAAATTTTTC
1 AAAAATTACATTTTAACCCTCAAACTTTTC
* *
9992049 CAAAATTACATTTTTACCCT-AAACTTTTC
1 AAAAATTACATTTTAACCCTCAAACTTTTC
* * * *
9992078 CAAAATTACATTTTTACCCTCGAAC-ATTC
1 AAAAATTACATTTTAACCCTCAAACTTTTC
* * *
9992107 AAAAATTACCATTTTTGACCCCCAAA--TATC
1 AAAAATTA-CA-TTTTAACCCTCAAACTTTTC
* ** * ***
9992137 TAAAAGTTACCATTTTTCCCCT-AAGC-ACCC
1 -AAAAATTA-CATTTTAACCCTCAAACTTTTC
* * *
9992167 AAAAATTACTATTTTGACCC-CAAAC-ATCC
1 AAAAATTAC-ATTTTAACCCTCAAACTTTTC
*
9992196 AAAAATTACCATTTTGACCCT-AAACTTTTC
1 AAAAATTA-CATTTTAACCCTCAAACTTTTC
*
9992226 CAAAATTACCATTTT-ACCCTC
1 AAAAATTA-CATTTTAACCCTC
9992247 GAGCATCCAA
Statistics
Matches: 236, Mismatches: 38, Indels: 28
0.78 0.13 0.09
Matches are distributed among these distances:
28 1 0.00
29 90 0.38
30 123 0.52
31 22 0.09
ACGTcount: A:0.37, C:0.26, G:0.03, T:0.34
Consensus pattern (30 bp):
AAAAATTACATTTTAACCCTCAAACTTTTC
Found at i:9992024 original size:60 final size:59
Alignment explanation
Indices: 9991929--9992244 Score: 220
Period size: 60 Copynumber: 5.3 Consensus size: 59
9991919 TGTTTTGTTT
* * * * * * *
9991929 AAAAATTACATTTTAACCACC-GAACTTCTCAAAAATCACATTTTGACACTCAAACTTCTC
1 AAAAATTACATTTTGACC-CCTAAACTTTTCCAAAATTACATTTTAACCCTCAAACTT-TC
* *
9991989 AAAAATTATATTTTGACCCCTAAACTTTTCCAAAATTACATTTTAACCCTCAAATTTTTC
1 AAAAATTACATTTTGACCCCTAAACTTTTCCAAAATTACATTTTAACCCTCAAA-CTTTC
* * * * *
9992049 CAAAATTACATTTTTA-CCCTAAACTTTTCCAAAATTACATTTTTACCCTCGAACATTC
1 AAAAATTACATTTTGACCCCTAAACTTTTCCAAAATTACATTTTAACCCTCAAACTTTC
* * * ** * ***
9992107 AAAAATTACCATTTTTGACCCCCAAA--TATCTAAAAGTTACCATTTTTCCCCT-AAGCACCC
1 AAAAATTA-CA-TTTTGACCCCTAAACTTTTCCAAAA-TTA-CATTTTAACCCTCAAACTTTC
* *
9992167 AAAAATTACTATTTTGACCCC-AAAC--ATCCAAAAATTACCATTTTGACCCT-AAACTTTTC
1 AAAAATTAC-ATTTTGACCCCTAAACTTTTCC-AAAATTA-CATTTTAACCCTCAAAC-TTTC
*
9992226 CAAAATTACCATTTT-ACCC
1 AAAAATTA-CATTTTGACCC
9992245 TCGAGCATCC
Statistics
Matches: 210, Mismatches: 34, Indels: 26
0.78 0.13 0.10
Matches are distributed among these distances:
58 37 0.18
59 74 0.35
60 80 0.38
61 19 0.09
ACGTcount: A:0.37, C:0.26, G:0.03, T:0.34
Consensus pattern (59 bp):
AAAAATTACATTTTGACCCCTAAACTTTTCCAAAATTACATTTTAACCCTCAAACTTTC
Found at i:9992240 original size:59 final size:58
Alignment explanation
Indices: 9991930--9992302 Score: 210
Period size: 59 Copynumber: 6.3 Consensus size: 58
9991920 GTTTTGTTTA
* * * * * * *
9991930 AAAATTACATTTTAACCACCGAACTTCTCAAAAATCACATTTTGACACTCAAACTTCTCA
1 AAAATTACATTTTGACC-CCAAACATC-CAAAAATTACATTTTGACCCTCAAACTTTTCC
* * * *
9991990 AAAATTATATTTTGACCCCTAAACTTTTCC-AAAATTACATTTTAACCCTCAAATTTTTCC
1 AAAATTACATTTTGACCCC-AAAC--ATCCAAAAATTACATTTTGACCCTCAAACTTTTCC
* * * * * * *
9992050 AAAATTACATTTTTACCCTAAACTTTTCC-AAAATTACATTTTTACCCTCGAAC-ATTCA
1 AAAATTACATTTTGACCCCAAAC--ATCCAAAAATTACATTTTGACCCTCAAACTTTTCC
* * * ** * **
9992108 AAAATTACCATTTTTGACCCCCAAATATCTAAAAGTTACCATTTTTCCCCT-AAGC--ACCC
1 AAAATTA-CA-TTTTGA-CCCCAAACATCCAAAAATTA-CATTTTGACCCTCAAACTTTTCC
9992167 AAAAATTACTATTTTGACCCCAAACATCCAAAAATTACCATTTTGACCCT-AAACTTTTCC
1 -AAAATTAC-ATTTTGACCCCAAACATCCAAAAATTA-CATTTTGACCCTCAAACTTTTCC
* * * **
9992227 AAAATTACCATTTT-ACCCTCGAGCATCCAAAAATCATCGCTTTG-CCCTCAAA--TTTCC
1 AAAATTA-CATTTTGACCC-CAAACATCCAAAAATTA-CATTTTGACCCTCAAACTTTTCC
*
9992284 AAAAGTCACATTTTCGACC
1 AAAA-TTACATTTT-GACC
9992303 TTAAATTTTC
Statistics
Matches: 251, Mismatches: 44, Indels: 37
0.76 0.13 0.11
Matches are distributed among these distances:
57 15 0.06
58 51 0.20
59 82 0.33
60 82 0.33
61 18 0.07
62 3 0.01
ACGTcount: A:0.36, C:0.27, G:0.04, T:0.33
Consensus pattern (58 bp):
AAAATTACATTTTGACCCCAAACATCCAAAAATTACATTTTGACCCTCAAACTTTTCC
Found at i:9992259 original size:29 final size:30
Alignment explanation
Indices: 9991958--9992260 Score: 177
Period size: 29 Copynumber: 10.2 Consensus size: 30
9991948 CCGAACTTCT
* * *
9991958 CAAAAATCA-CATTTTGACACTCAAACTTC
1 CAAAAATTACCATTTTGACCCTCAAACATC
* *
9991987 TCAAAAATTA-TATTTTGACCC-CTAAACTTTTC
1 -CAAAAATTACCATTTTGACCCTC-AAAC--ATC
* **
9992019 C-AAAATTA-CATTTTAACCCTCAAATTTTTC
1 CAAAAATTACCATTTTGACCCTCAAA--CATC
* *
9992049 C-AAAATTA-CATTTTTACCCT-AAACTTTTC
1 CAAAAATTACCATTTTGACCCTCAAAC--ATC
* * *
9992078 C-AAAATTA-CATTTTTACCCTCGAACATT
1 CAAAAATTACCATTTTGACCCTCAAACATC
* *
9992106 CAAAAATTACCATTTTTGACCCCCAAATATC
1 CAAAAATTACCA-TTTTGACCCTCAAACATC
* * ** * *
9992137 TAAAAGTTACCATTTTTCCCCT-AAGCACC
1 CAAAAATTACCATTTTGACCCTCAAACATC
*
9992166 CAAAAATTACTATTTTGACCC-CAAACATC
1 CAAAAATTACCATTTTGACCCTCAAACATC
*
9992195 CAAAAATTACCATTTTGACCCT-AAACTTTTC
1 CAAAAATTACCATTTTGACCCTCAAAC--ATC
* *
9992226 C-AAAATTACCATTTT-ACCCTCGAGCATC
1 CAAAAATTACCATTTTGACCCTCAAACATC
9992254 CAAAAAT
1 CAAAAAT
9992261 CATCGCTTTG
Statistics
Matches: 219, Mismatches: 36, Indels: 37
0.75 0.12 0.13
Matches are distributed among these distances:
28 5 0.02
29 93 0.42
30 90 0.41
31 28 0.13
32 3 0.01
ACGTcount: A:0.37, C:0.26, G:0.03, T:0.33
Consensus pattern (30 bp):
CAAAAATTACCATTTTGACCCTCAAACATC
Done.