Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 36 of 284
Found at i:12681286 original size:22 final size:21
Alignment explanation
Indices: 12681261--12681301 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
12681251 TTGAATTGGT
*
12681261 CACACGAGCGTGTTGCCCCTCC
1 CACACGAGCATG-TGCCCCTCC
*
12681283 CACACGGGCATGTGCCCCT
1 CACACGAGCATGTGCCCCT
12681302 GTGGCTAGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.15, C:0.44, G:0.24, T:0.17
Consensus pattern (21 bp):
CACACGAGCATGTGCCCCTCC
Found at i:12681721 original size:11 final size:11
Alignment explanation
Indices: 12681705--12681736 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
12681695 ACTTGAAACT
12681705 TAACTAAAATA
1 TAACTAAAATA
12681716 TAACTAAAATA
1 TAACTAAAATA
*
12681727 TAACGAAAAT
1 TAACTAAAAT
12681737 GCCTAAGTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.62, C:0.09, G:0.03, T:0.25
Consensus pattern (11 bp):
TAACTAAAATA
Found at i:12683279 original size:20 final size:19
Alignment explanation
Indices: 12683241--12683296 Score: 64
Period size: 20 Copynumber: 3.1 Consensus size: 19
12683231 CTATAAAGTT
*
12683241 AAAATTAAAGAAGTATTCA
1 AAAATTAAACAAGTATTCA
*
12683260 AAAATTAATACAAGTTTTCA
1 AAAATTAA-ACAAGTATTCA
12683280 AAAA-TAAA-AA-TATTCA
1 AAAATTAAACAAGTATTCA
12683296 A
1 A
12683297 TCGTCCTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
16 6 0.18
17 2 0.06
18 1 0.03
19 11 0.33
20 13 0.39
ACGTcount: A:0.59, C:0.07, G:0.05, T:0.29
Consensus pattern (19 bp):
AAAATTAAACAAGTATTCA
Found at i:12687757 original size:7 final size:7
Alignment explanation
Indices: 12687745--12687772 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
12687735 CATTTTCTAT
12687745 CATCAAA
1 CATCAAA
12687752 CATCAAA
1 CATCAAA
12687759 CATCAAA
1 CATCAAA
12687766 CATCAAA
1 CATCAAA
12687773 ATAAATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.29, G:0.00, T:0.14
Consensus pattern (7 bp):
CATCAAA
Found at i:12691738 original size:12 final size:12
Alignment explanation
Indices: 12691721--12691749 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
12691711 ACAGGTTTGG
12691721 CACGGCCTAGCA
1 CACGGCCTAGCA
12691733 CACGGCCTAGCA
1 CACGGCCTAGCA
12691745 CACGG
1 CACGG
12691750 GCGTGTGAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.24, C:0.41, G:0.28, T:0.07
Consensus pattern (12 bp):
CACGGCCTAGCA
Found at i:12696111 original size:18 final size:20
Alignment explanation
Indices: 12696075--12696121 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
12696065 AGTTGCAAGT
12696075 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
12696095 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
12696114 ATGATATA
1 AT-ATATA
12696122 AAATGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:12696619 original size:50 final size:50
Alignment explanation
Indices: 12696555--12696901 Score: 320
Period size: 50 Copynumber: 6.8 Consensus size: 50
12696545 TTAACTTCGA
*
12696555 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGG
* * * * * * *
12696605 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCG-TTAACTTCGA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TAGG
* * * * * *
12696656 TCACATGTGTAGTACTAAGTGCTAAGTGCAAGCTACTATGCGTACCCG-TTAACTTCGA
1 TCACATGTGTAGTACTAAGTGC--A--G---GCTACTACGTGTACCAGATTGA--TAGG
* * * * * * * *
12696714 TCACGTGTGTAGTATTAAGTGCTGGATACTACGTGTATCAGATGGTTAAG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGG
* *
12696764 TCACATGTGTAGTACTAAGTGCAGACTACTACGTGTACTAGATTGATAGG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGG
* * *
12696814 TCGCATGTGTAGTACTAAGTGCAGGCTGCTACGTGTACTAGATTGATAGG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGG
* *
12696864 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTAC
12696902 TAGAGAGCTT
Statistics
Matches: 249, Mismatches: 38, Indels: 20
0.81 0.12 0.07
Matches are distributed among these distances:
49 3 0.01
50 160 0.64
51 35 0.14
52 1 0.00
53 1 0.00
54 1 0.00
55 1 0.00
58 47 0.19
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGG
Found at i:12696709 original size:58 final size:58
Alignment explanation
Indices: 12696619--12696736 Score: 209
Period size: 58 Copynumber: 2.0 Consensus size: 58
12696609 ATGTGTAGTA
*
12696619 CTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCACATGTGTAGTACTAAGTG
1 CTAAGTGCAAGCTACTATGCGTACCCGTTAACTTCGATCACATGTGTAGTACTAAGTG
* *
12696677 CTAAGTGCAAGCTACTATGCGTACCCGTTAACTTCGATCACGTGTGTAGTATTAAGTG
1 CTAAGTGCAAGCTACTATGCGTACCCGTTAACTTCGATCACATGTGTAGTACTAAGTG
12696735 CT
1 CT
12696737 GGATACTACG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (58 bp):
CTAAGTGCAAGCTACTATGCGTACCCGTTAACTTCGATCACATGTGTAGTACTAAGTG
Found at i:12697747 original size:179 final size:180
Alignment explanation
Indices: 12697447--12697802 Score: 538
Period size: 179 Copynumber: 2.0 Consensus size: 180
12697437 TCCGAGAGCT
*
12697447 GTACCATGAGATAAATAATTTTTAGTGAGGAGAGGTCGGAACTGTCAGACAGTGAAACAGGGGTA
1 GTACCATGAGATAAATAATTTTTAGTGAAGAGAGGTCGGAACTGTCAGACAGTGAAACAGGGGTA
*
12697512 TATTTAATGAATAAACTGTACTAATTGGATAAACCAAAAATTCTTAAAATTTTATGGTAAGAATA
66 TATTTAATGAATAAACTGTACTAATTGGATAAACCAAAAATTCTAAAAATTTTATGGTAAGAATA
* * * *
12697577 TATATGAGTCTA-TTTCTG-GGAAAATTAGCGG-TTTTCAATTTGGAGTCTA
131 TATATAAGTCTAGTTTCAGAGG-AAATTAACGGATCTT-AATTTGGAGTCTA
* * *
12697626 GTACCATGAGATAAATAATTTTTAGTGAAGAGAGGTCGGAACTTTCGGACAGTGAAATAGGGGTA
1 GTACCATGAGATAAATAATTTTTAGTGAAGAGAGGTCGGAACTGTCAGACAGTGAAACAGGGGTA
* * * ** *
12697691 TCTTTAATGAATAAACTGTACTTATTGGCTTGACCAAAAATTCTAAAAATTTTATGGTAATAATA
66 TATTTAATGAATAAACTGTACTAATTGGATAAACCAAAAATTCTAAAAATTTTATGGTAAGAATA
12697756 TATATAAGTCTAGTTTCAGAGGAAATTAACGGATCTTAATTTGGAGT
131 TATATAAGTCTAGTTTCAGAGGAAATTAACGGATCTTAATTTGGAGT
12697803 TTCATAGCTC
Statistics
Matches: 159, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
179 130 0.82
180 24 0.15
181 5 0.03
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.33
Consensus pattern (180 bp):
GTACCATGAGATAAATAATTTTTAGTGAAGAGAGGTCGGAACTGTCAGACAGTGAAACAGGGGTA
TATTTAATGAATAAACTGTACTAATTGGATAAACCAAAAATTCTAAAAATTTTATGGTAAGAATA
TATATAAGTCTAGTTTCAGAGGAAATTAACGGATCTTAATTTGGAGTCTA
Found at i:12702634 original size:47 final size:47
Alignment explanation
Indices: 12702568--12702900 Score: 603
Period size: 47 Copynumber: 7.1 Consensus size: 47
12702558 GAAATGATAG
12702568 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
12702615 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
12702662 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
12702709 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
12702756 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
12702803 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * *
12702850 TAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
12702897 TAAG
1 TAAG
12702901 TCCCGAAGGG
Statistics
Matches: 278, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 278 1.00
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:12705412 original size:47 final size:48
Alignment explanation
Indices: 12705305--12705429 Score: 155
Period size: 48 Copynumber: 2.6 Consensus size: 48
12705295 GAAAATCGTA
*
12705305 GTGCTAAGTGGATATACCACGATTACACATATTGATACATGTAACGTG
1 GTGCTAAGTGGATATACCACGATTACACATATCGATACATGTAACGTG
* * ** *
12705353 GTGCTAAGTGGATATGCCGC-AGTTACATTTATCGATTCAT-TAACGTG
1 GTGCTAAGTGGATATACCACGA-TTACACATATCGATACATGTAACGTG
* *
12705400 GTGCTAAGTGGATATACCACGGTTAAACAT
1 GTGCTAAGTGGATATACCACGATTACACAT
12705430 GTAATGTGGT
Statistics
Matches: 63, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
47 31 0.49
48 32 0.51
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.30
Consensus pattern (48 bp):
GTGCTAAGTGGATATACCACGATTACACATATCGATACATGTAACGTG
Found at i:12705448 original size:38 final size:38
Alignment explanation
Indices: 12705397--12705469 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 38
12705387 ATTCATTAAC
12705397 GTGGTGCTAAGTGGATATACCACGGTTAAACATGTAAT
1 GTGGTGCTAAGTGGATATACCACGGTTAAACATGTAAT
* * *
12705435 GTGGTGCTAAGTGGATATGCCATGGTTATACATGT
1 GTGGTGCTAAGTGGATATACCACGGTTAAACATGT
12705470 TAATCTGTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.27, C:0.12, G:0.29, T:0.32
Consensus pattern (38 bp):
GTGGTGCTAAGTGGATATACCACGGTTAAACATGTAAT
Found at i:12712008 original size:27 final size:28
Alignment explanation
Indices: 12711924--12712021 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
12711914 CATGAGATTG
* * * *
12711924 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
12711953 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
12711981 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
12712008 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
12712022 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:12712032 original size:27 final size:27
Alignment explanation
Indices: 12711952--12712034 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
12711942 TAAATTGTAC
* *
12711952 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
12711980 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
12712007 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
12712034 A
1 A
12712035 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:12712035 original size:29 final size:27
Alignment explanation
Indices: 12711924--12712035 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
12711914 CATGAGATTG
** * *
12711924 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
12711953 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
12711981 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
12712008 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
12712036 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:12722869 original size:79 final size:80
Alignment explanation
Indices: 12722770--12722952 Score: 212
Period size: 79 Copynumber: 2.3 Consensus size: 80
12722760 TACTCGATCA
* * *
12722770 AATGCCTTTGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
12722833 ATTTAGTAAC-TCGCACC
64 ATATAGTAACTTAGCA-C
* **
12722850 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGGACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
* *
12722914 ATGGTCACTTAGCAC
66 ATAGTAACTTAGCAC
*
12722929 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
12722953 CATCATTCGA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 58 0.66
80 27 0.31
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:12722952 original size:40 final size:40
Alignment explanation
Indices: 12722749--12722952 Score: 222
Period size: 40 Copynumber: 5.1 Consensus size: 40
12722739 CGGAATTTAA
* *
12722749 CCGGATATAGCT-ACTCG-ATCAAATGCCTTTGGGACATAGC
1 CCGGATATAG-TAACTCGCA-CAAATGCCTTCGGGACTTAGC
* *
12722789 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
12722829 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
12722868 CCGGA-ATTAGTAACTCGGACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
12722908 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
12722948 CCGGA
1 CCGGA
12722953 CATCATTCGA
Statistics
Matches: 139, Mismatches: 17, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 93 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:12723847 original size:85 final size:85
Alignment explanation
Indices: 12723718--12723896 Score: 340
Period size: 85 Copynumber: 2.1 Consensus size: 85
12723708 TATTTTATTG
*
12723718 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGATATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
12723783 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
*
12723803 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCATTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
12723868 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
12723888 CCCATGCTC
1 CCCATGCTC
12723897 ATGGCTGGCC
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 92 1.00
ACGTcount: A:0.26, C:0.26, G:0.08, T:0.39
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:12724632 original size:67 final size:67
Alignment explanation
Indices: 12724560--12724829 Score: 513
Period size: 67 Copynumber: 4.0 Consensus size: 67
12724550 AAAATTTATT
*
12724560 ACAAATTTCAAAATTACCAAGCCATTATCTTCCACTAACATATTAATGGGCTATTTAACACATAA
1 ACAAATTTTAAAATTACCAAGCCATTATCTTCCACTAACATATTAATGGGCTATTTAACACATAA
12724625 GG
66 GG
12724627 ACAAATTTTAAAATTACCAAGCCATTATCTTCCACTAACATATTAATGGGCTATTTAACACATAA
1 ACAAATTTTAAAATTACCAAGCCATTATCTTCCACTAACATATTAATGGGCTATTTAACACATAA
12724692 GG
66 GG
12724694 ACAAATTTTAAAATTACCAAGCCATTATCTTCCACTAACATATTAATGGGCTATTTAACACATAA
1 ACAAATTTTAAAATTACCAAGCCATTATCTTCCACTAACATATTAATGGGCTATTTAACACATAA
12724759 GG
66 GG
* *
12724761 ACAAATTTTAAAATTACCAAGCCATTATCTTCCACTAACATATTAATGGGATATTTACCACATAA
1 ACAAATTTTAAAATTACCAAGCCATTATCTTCCACTAACATATTAATGGGCTATTTAACACATAA
12724826 GG
66 GG
12724828 AC
1 AC
12724830 CTCCACTTTA
Statistics
Matches: 200, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 200 1.00
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (67 bp):
ACAAATTTTAAAATTACCAAGCCATTATCTTCCACTAACATATTAATGGGCTATTTAACACATAA
GG
Found at i:12726374 original size:37 final size:37
Alignment explanation
Indices: 12726311--12726419 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
12726301 GGCTCAGATG
* * *
12726311 AAATCTCCACACGAAGTTATCTGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
12726348 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
12726385 TAATCTCCACACGTAATCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
12726420 ATATATTTCC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:12726620 original size:48 final size:48
Alignment explanation
Indices: 12726561--12726689 Score: 195
Period size: 48 Copynumber: 2.7 Consensus size: 48
12726551 TATAAACACG
* * * *
12726561 TCTCCTACATATTTCACACTAGCCCTTCGGCTTTACCACATATACGTA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
12726609 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCGCATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
* *
12726657 TCTCATATATATTTCAAATTAGCCATTCGGCTT
1 TCTCATACATATTTCACATTAGCCATTCGGCTT
12726690 CACATTAGCC
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 74 1.00
ACGTcount: A:0.27, C:0.28, G:0.09, T:0.36
Consensus pattern (48 bp):
TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
Found at i:12726696 original size:19 final size:19
Alignment explanation
Indices: 12726669--12726708 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
12726659 TCATATATAT
*
12726669 TTCAAATTAGCCATTCGGC
1 TTCAAATTAGCCACTCGGC
*
12726688 TTCACATTAGCCACTCGGC
1 TTCAAATTAGCCACTCGGC
12726707 TT
1 TT
12726709 TACCACAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.23, C:0.30, G:0.15, T:0.33
Consensus pattern (19 bp):
TTCAAATTAGCCACTCGGC
Found at i:12726729 original size:67 final size:67
Alignment explanation
Indices: 12726621--12726756 Score: 227
Period size: 67 Copynumber: 2.0 Consensus size: 67
12726611 TCATACATAT
* * * *
12726621 TTCACATTAGCCATTCGGCTTTACCGCATATACATATCTCATATATATTTCAAATTAGCCATTCG
1 TTCACATTAGCCACTCGGCTTTACCACAAATACATATCTCATACATATTTCAAATTAGCCATTCG
12726686 GC
66 GC
*
12726688 TTCACATTAGCCACTCGGCTTTACCACAAATACATATCTCATACATATTTCACATTAGCCATTCG
1 TTCACATTAGCCACTCGGCTTTACCACAAATACATATCTCATACATATTTCAAATTAGCCATTCG
12726753 GC
66 GC
12726755 TT
1 TT
12726757 TACCACATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
67 64 1.00
ACGTcount: A:0.29, C:0.27, G:0.10, T:0.35
Consensus pattern (67 bp):
TTCACATTAGCCACTCGGCTTTACCACAAATACATATCTCATACATATTTCAAATTAGCCATTCG
GC
Found at i:12726744 original size:48 final size:48
Alignment explanation
Indices: 12726688--12726804 Score: 198
Period size: 48 Copynumber: 2.4 Consensus size: 48
12726678 GCCATTCGGC
*
12726688 TTCACATTAGCCACTCGGCTTTACCACAAATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACAAATACATATCTCATACATAT
* *
12726736 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACAAATACATATCTCATACATAT
*
12726784 TTCACATCAGCCATTCGGCTT
1 TTCACATTAGCCATTCGGCTT
12726805 CACATTAGCC
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 65 1.00
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACAAATACATATCTCATACATAT
Found at i:12726775 original size:115 final size:115
Alignment explanation
Indices: 12726573--12726986 Score: 713
Period size: 115 Copynumber: 3.6 Consensus size: 115
12726563 TCCTACATAT
* * *
12726573 TTCACACTAGCC-CTTCGGCTTTACCACATATACGTATCTCATACATATTTCACATTAGCCATTC
1 TTCACATTAGCCAC-TCGGCTTTACCACAAATACATATCTCATACATATTTCACATTAGCCATTC
* *
12726637 GGCTTTACCGCATATACATATCTCATATATATTTCAAATTAGCCATTCGGC
65 GGCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCGGC
12726688 TTCACATTAGCCACTCGGCTTTACCACAAATACATATCTCATACATATTTCACATTAGCCATTCG
1 TTCACATTAGCCACTCGGCTTTACCACAAATACATATCTCATACATATTTCACATTAGCCATTCG
*
12726753 GCTTTACCACATATACATATCTCATATATATTTCACATCAGCCATTCGGC
66 GCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCGGC
* * *
12726803 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGTCATTCG
1 TTCACATTAGCCACTCGGCTTTACCACAAATACATATCTCATACATATTTCACATTAGCCATTCG
* *
12726868 GATTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGC
66 GCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCGGC
12726918 TTCACATTAGCCACTCGGCTTTACCACAAATACATATCTCATACATATTTCACATTAGCCATTCG
1 TTCACATTAGCCACTCGGCTTTACCACAAATACATATCTCATACATATTTCACATTAGCCATTCG
12726983 GCTT
66 GCTT
12726987 CACATTAGCC
Statistics
Matches: 282, Mismatches: 16, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
115 281 1.00
116 1 0.00
ACGTcount: A:0.29, C:0.28, G:0.08, T:0.34
Consensus pattern (115 bp):
TTCACATTAGCCACTCGGCTTTACCACAAATACATATCTCATACATATTTCACATTAGCCATTCG
GCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCGGC
Found at i:12726807 original size:67 final size:67
Alignment explanation
Indices: 12726736--12726868 Score: 239
Period size: 67 Copynumber: 2.0 Consensus size: 67
12726726 TCATACATAT
*
12726736 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACATCAGCCATTCG
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATCAGCCATTCG
12726801 GC
66 GC
* *
12726803 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGTCATTCG
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATCAGCCATTCG
12726868 G
66 G
12726869 ATTTACCACA
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 63 1.00
ACGTcount: A:0.29, C:0.27, G:0.09, T:0.35
Consensus pattern (67 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATCAGCCATTCG
GC
Found at i:12726808 original size:19 final size:19
Alignment explanation
Indices: 12726784--12726823 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
12726774 TCATATATAT
12726784 TTCACATCAGCCATTCGGC
1 TTCACATCAGCCATTCGGC
*
12726803 TTCACATTAGCCATTCGGC
1 TTCACATCAGCCATTCGGC
12726822 TT
1 TT
12726824 TACCACATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.20, C:0.33, G:0.15, T:0.33
Consensus pattern (19 bp):
TTCACATCAGCCATTCGGC
Found at i:12726859 original size:48 final size:48
Alignment explanation
Indices: 12726803--12726919 Score: 216
Period size: 48 Copynumber: 2.4 Consensus size: 48
12726793 GCCATTCGGC
12726803 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
* *
12726851 TTCACATTAGTCATTCGGATTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
12726899 TTCACATTAGCCATTCGGCTT
1 TTCACATTAGCCATTCGGCTT
12726920 CACATTAGCC
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 65 1.00
ACGTcount: A:0.30, C:0.26, G:0.08, T:0.37
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
Found at i:12726922 original size:67 final size:67
Alignment explanation
Indices: 12726851--12727167 Score: 589
Period size: 67 Copynumber: 4.7 Consensus size: 67
12726841 TCATACATAT
* * * *
12726851 TTCACATTAGTCATTCGGATTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCG
1 TTCACATTAGCCACTCGGCTTTACCACAAATACATATCTCATACATATTTCACATTAGCCATTCG
12726916 GC
66 GC
12726918 TTCACATTAGCCACTCGGCTTTACCACAAATACATATCTCATACATATTTCACATTAGCCATTCG
1 TTCACATTAGCCACTCGGCTTTACCACAAATACATATCTCATACATATTTCACATTAGCCATTCG
12726983 GC
66 GC
12726985 TTCACATTAGCCACTCGGCTTTACCACAAATACATATCTCATACATATTTCACATTAGCCATTCG
1 TTCACATTAGCCACTCGGCTTTACCACAAATACATATCTCATACATATTTCACATTAGCCATTCG
12727050 GC
66 GC
12727052 TTCACATTAGCCACTCGGCTTTACCACAAATACATATCTCATACATATTTCACATTAGCCATTCG
1 TTCACATTAGCCACTCGGCTTTACCACAAATACATATCTCATACATATTTCACATTAGCCATTCG
12727117 GC
66 GC
*
12727119 TTCACATTAGCCACTCGGCTTTACCACAAATACATATCTCACACATATT
1 TTCACATTAGCCACTCGGCTTTACCACAAATACATATCTCATACATATT
12727168 CACTACAAGT
Statistics
Matches: 245, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
67 245 1.00
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (67 bp):
TTCACATTAGCCACTCGGCTTTACCACAAATACATATCTCATACATATTTCACATTAGCCATTCG
GC
Found at i:12726923 original size:19 final size:19
Alignment explanation
Indices: 12726899--12726938 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
12726889 TCATACATAT
*
12726899 TTCACATTAGCCATTCGGC
1 TTCACATTAGCCACTCGGC
12726918 TTCACATTAGCCACTCGGC
1 TTCACATTAGCCACTCGGC
12726937 TT
1 TT
12726939 TACCACAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.20, C:0.33, G:0.15, T:0.33
Consensus pattern (19 bp):
TTCACATTAGCCACTCGGC
Found at i:12726990 original size:19 final size:19
Alignment explanation
Indices: 12726966--12727005 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
12726956 TCATACATAT
*
12726966 TTCACATTAGCCATTCGGC
1 TTCACATTAGCCACTCGGC
12726985 TTCACATTAGCCACTCGGC
1 TTCACATTAGCCACTCGGC
12727004 TT
1 TT
12727006 TACCACAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.20, C:0.33, G:0.15, T:0.33
Consensus pattern (19 bp):
TTCACATTAGCCACTCGGC
Found at i:12727057 original size:19 final size:19
Alignment explanation
Indices: 12727033--12727072 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
12727023 TCATACATAT
*
12727033 TTCACATTAGCCATTCGGC
1 TTCACATTAGCCACTCGGC
12727052 TTCACATTAGCCACTCGGC
1 TTCACATTAGCCACTCGGC
12727071 TT
1 TT
12727073 TACCACAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.20, C:0.33, G:0.15, T:0.33
Consensus pattern (19 bp):
TTCACATTAGCCACTCGGC
Found at i:12727106 original size:182 final size:182
Alignment explanation
Indices: 12726621--12727120 Score: 690
Period size: 182 Copynumber: 2.7 Consensus size: 182
12726611 TCATACATAT
* * *
12726621 TTCACATTAGCCATTCGGCTTTACCGCATATACATATCTCATATATATTTCAAATTAGCCATTCG
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCG
12726686 GCTTCACATTAGCCACTCGGCTTTACCACAAATACATATCTCATACATATTTCACATTAGCCATT
66 GCTTCACATTAGCCACTCGGCTTTACCACAAATACATATCTCATACATATTTCACATTAGCCATT
* *
12726751 CGGCTTTACCACATATACATATCTCATATATATTTCACATCAGCCATTCGGC
131 CGGCTTTACCACAAATACATATCTCATACATATTTCACATCAGCCATTCGGC
*
12726803 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGTCATTCG
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCG
* ** * * ** * * ***
12726868 GATTTACCACATATA--CA-T-ATCTCATA-CATATTTCACATTAGC-CATTC-GGCTTCACATT
66 G-CTT--CACAT-TAGCCACTCGGCT-TTACCACAAAT-ACA-TATCTCATACATATTTCACATT
* *
12726926 AGCCACTCGGCTTTACCACAAATACATATCTCATACATATTTCACATTAGCCATTCGGC
124 AGCCATTCGGCTTTACCACAAATACATATCTCATACATATTTCACATCAGCCATTCGGC
* *
12726985 TTCACATTAGCCACTCGGCTTTACCACAAATACATATCTCATACATATTTCACATTAGCCATTCG
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCG
12727050 GCTTCACATTAGCCACTCGGCTTTACCACAAATACATATCTCATACATATTTCACATTAGCCATT
66 GCTTCACATTAGCCACTCGGCTTTACCACAAATACATATCTCATACATATTTCACATTAGCCATT
12727115 CGGCTT
131 CGGCTT
12727121 CACATTAGCC
Statistics
Matches: 268, Mismatches: 36, Indels: 28
0.81 0.11 0.08
Matches are distributed among these distances:
178 2 0.01
179 5 0.02
180 5 0.02
181 12 0.04
182 220 0.82
183 12 0.04
184 5 0.02
185 5 0.02
186 2 0.01
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.34
Consensus pattern (182 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCG
GCTTCACATTAGCCACTCGGCTTTACCACAAATACATATCTCATACATATTTCACATTAGCCATT
CGGCTTTACCACAAATACATATCTCATACATATTTCACATCAGCCATTCGGC
Found at i:12727124 original size:19 final size:19
Alignment explanation
Indices: 12727100--12727139 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
12727090 TCATACATAT
*
12727100 TTCACATTAGCCATTCGGC
1 TTCACATTAGCCACTCGGC
12727119 TTCACATTAGCCACTCGGC
1 TTCACATTAGCCACTCGGC
12727138 TT
1 TT
12727140 TACCACAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.20, C:0.33, G:0.15, T:0.33
Consensus pattern (19 bp):
TTCACATTAGCCACTCGGC
Found at i:12730300 original size:40 final size:40
Alignment explanation
Indices: 12730256--12731142 Score: 1387
Period size: 40 Copynumber: 22.0 Consensus size: 40
12730246 GAATACACAT
* * * *
12730256 CACCAGCATGATTGCTCTTCGAGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * * *
12730296 CACCAGTATGAATGCTCTTCGGGACTTAGCCCGAATATAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
**
12730336 CATTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
12730376 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
12730416 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
12730456 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
12730496 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
12730536 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
12730576 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
12730616 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
12730656 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
12730696 CACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
12730736 CACCAGCACGAATGCTCTTTGGGGCTTAGCCCGGCTATATAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGG--ATATAA
*
12730778 CACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
12730818 CACCAGCACGAATGCTCTTCGGGGCTTAGCCCGGCTATATAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGG--ATATAA
** * *
12730860 CAGTAGCACGAATGCTCTTTGGGACTTAGCCCGAATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
12730900 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * * *
12730940 CACCAGCACGAATGCTCTTCAGAACTTAGCCCAGCTATATAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCC-G-GATATAA
*
12730982 CACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
** * * *
12731022 CACCAGCACGAATGCTCTTAAGAACTTAGCCCAGCTATATAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCC-G-GATATAA
*
12731064 CACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
12731104 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
12731143 TAACTCTCAA
Statistics
Matches: 776, Mismatches: 63, Indels: 16
0.91 0.07 0.02
Matches are distributed among these distances:
40 635 0.82
41 4 0.01
42 137 0.18
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:12731312 original size:45 final size:45
Alignment explanation
Indices: 12731248--12731335 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
12731238 ATTCAACTTT
* * *
12731248 CAGTTCCCTAGCCACATACAAAGATCACATTTATAGTCGTAACTC
1 CAGTTCCATAGCCACATACAAAAATCACATTTATAGTCATAACTC
12731293 CAGTTCCATAGCCACATACAAAAATCACATTTATAGTCATAAC
1 CAGTTCCATAGCCACATACAAAAATCACATTTATAGTCATAAC
12731336 ACTCTTTCAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.38, C:0.27, G:0.09, T:0.26
Consensus pattern (45 bp):
CAGTTCCATAGCCACATACAAAAATCACATTTATAGTCATAACTC
Found at i:12736001 original size:324 final size:320
Alignment explanation
Indices: 12735408--12736047 Score: 908
Period size: 324 Copynumber: 2.0 Consensus size: 320
12735398 ACCTTCAAAT
* * *
12735408 TCTAGACCACAACAACGAAGCATATCTTTCAGAATCTGTATAATTCTGTGCAAACACGTACCCAA
1 TCTAGAACACAACAACGAAGCATATCATTCAGAATCTGTATAATTCTGTGCAAACACATACCCAA
*
12735473 ATCTTGCAATTTCTTCCAAAATCGCGACGTAAACCTCGAATCTCTATCCAAAATAATAGAAACTA
66 ATCTTGCAATTTCTTCCAAAATCGCGACGTAAACCTCGAATCTCTATACAAAATAATAGAAACTA
* * * **
12735538 GTACCCCGCGCAATCTAACAATCTCAAAGATGTACAATTCTACTAATCTGTCGAGTGAAAAGTCT
131 GTACCCCGCGCAACCTAACAATCTCAAAGATGTACAATTCTAATAATCTATCGAGCAAAAAGTCT
* **
12735603 GTACATATCGAAATGAAATGTGCCAATTTCGTCAAACGATCAGCAACAATTCAAATAGCATCTTT
196 GTACATATCGAAATGAAATGTGCCAATTTCGTCAAACGATCAACAACAACCCAAATAGCATCTTT
* *
12735668 ATTTTTCAGAGATAGGGGTAATCCTAATATGAAATCCATTGTAACTCTATCCCATTTCCAC
261 ATTTTTCAGAGACAGGGGTAAT-CTAATATGAAATCCATCGTAACTCTATCCCATTTCCAC
* *
12735729 TCTAGAACACAACAATGAAGCATAT-ATTCGAGAATCTGTATAATTCTGTGCAAACGCATACCCA
1 TCTAGAACACAACAACGAAGCATATCATTC-AGAATCTGTATAATTCTGTGCAAACACATACCCA
* * * * * *
12735793 AATCTTCTTGCAATTTCTTCCGACATCGTGACGTAAACCTTGGATCTCTATACGAAATAATAGAA
65 AA---TCTTGCAATTTCTTCCAAAATCGCGACGTAAACCTCGAATCTCTATACAAAATAATAGAA
* * *
12735858 ACTGGTACCCTGCGTAACCTAACAATCTCAAAGATGTACAATT-TAGATAATCTATCGAGCAAAA
127 ACTAGTACCCCGCGCAACCTAACAATCTCAAAGATGTACAATTCTA-ATAATCTATCGAGCAAAA
* * * *
12735922 AGTCTGTACGTA-CTGAAATGAAATGTGTCGATTTCGTCAAACGATCAACAACAACCCAGATAGC
191 AGTCTGTACATATC-GAAATGAAATGTGCCAATTTCGTCAAACGATCAACAACAACCCAAATAGC
* * *
12735986 ATCTTTCTTTTTCAGAGACAGGGGTAATCTGATATGAAATCCATCGTAACTCTATTCCATTT
255 ATCTTTATTTTTCAGAGACAGGGGTAATCTAATATGAAATCCATCGTAACTCTATCCCATTT
12736048 AACCTACTAA
Statistics
Matches: 281, Mismatches: 32, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
320 3 0.01
321 57 0.20
323 34 0.12
324 187 0.67
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.28
Consensus pattern (320 bp):
TCTAGAACACAACAACGAAGCATATCATTCAGAATCTGTATAATTCTGTGCAAACACATACCCAA
ATCTTGCAATTTCTTCCAAAATCGCGACGTAAACCTCGAATCTCTATACAAAATAATAGAAACTA
GTACCCCGCGCAACCTAACAATCTCAAAGATGTACAATTCTAATAATCTATCGAGCAAAAAGTCT
GTACATATCGAAATGAAATGTGCCAATTTCGTCAAACGATCAACAACAACCCAAATAGCATCTTT
ATTTTTCAGAGACAGGGGTAATCTAATATGAAATCCATCGTAACTCTATCCCATTTCCAC
Found at i:12740527 original size:44 final size:44
Alignment explanation
Indices: 12740479--12740635 Score: 198
Period size: 43 Copynumber: 3.6 Consensus size: 44
12740469 TGTGCTTTCG
*
12740479 TGTAAGACCATGTCTGGGACGTTGGCATCGAT-TTATGATTTACG
1 TGTAAGACCATGTCTGGGACGTTGGCATCGATATT-TGATTTACA
* *
12740523 TGTAAGACCATGTCTGGGACATCGGCATC-ATATTTGATTT-CA
1 TGTAAGACCATGTCTGGGACGTTGGCATCGATATTTGATTTACA
* *
12740565 TGTAAGACCCTGTTTGGGACAG-TGGCATCGATATTTG-TTTACA
1 TGTAAGACCATGTCTGGGAC-GTTGGCATCGATATTTGATTTACA
* *
12740608 TGTAAGACCACGTCTAGGACGTTGGCAT
1 TGTAAGACCATGTCTGGGACGTTGGCAT
12740636 TGTACGAGTT
Statistics
Matches: 97, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
42 29 0.30
43 39 0.40
44 29 0.30
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.32
Consensus pattern (44 bp):
TGTAAGACCATGTCTGGGACGTTGGCATCGATATTTGATTTACA
Found at i:12747029 original size:27 final size:27
Alignment explanation
Indices: 12746999--12747176 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
12746989 ATATCGAGTC
* * * *
12746999 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
12747026 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
12747053 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
12747081 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
12747108 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
12747135 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
12747162 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
12747177 GTACAATTTA
Statistics
Matches: 132, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
27 108 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:12747138 original size:82 final size:81
Alignment explanation
Indices: 12747020--12747175 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
12747010 TGCTATATAA
*
12747020 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
12747085 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
12747102 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
12747166 CACTTAGTGC
65 CACTTAGTGC
12747176 TGTACAATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.24
82 52 0.76
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:12754649 original size:121 final size:121
Alignment explanation
Indices: 12754435--12754683 Score: 401
Period size: 121 Copynumber: 2.1 Consensus size: 121
12754425 AACCAGTCAT
* * *
12754435 CCGTGTGACTAGCCCATGTACCCTTAGAAATGGTCACACATGCCCGTGTGCCAAGCCGTGTACTA
1 CCGTGTGACTAGCCCATGTACCCTTAGAAATGGCCACACACGCCCGTGTGCCAAGCCATGTACTA
12754500 GGGTGTGCCAAAAATATAGGGTATACTAACTTATGCCACACGGCCAAGTCACACAC
66 GGGTGTGCCAAAAATATAGGGTATACTAACTTATGCCACACGGCCAAGTCACACAC
* * *
12754556 CCGTGTGACTAGCCCATGTACCCTTCA-AAATGGCCGCACACGCCCGTGTGCCAGGCCATGTGCT
1 CCGTGTGACTAGCCCATGTACCCTT-AGAAATGGCCACACACGCCCGTGTGCCAAGCCATGTACT
* * *
12754620 AGGGTGTGGCAAAACTATAGGGTATACTAACTTATGCCACACGGCCAAGTCACACGC
65 AGGGTGTGCCAAAAATATAGGGTATACTAACTTATGCCACACGGCCAAGTCACACAC
12754677 CCGTGTG
1 CCGTGTG
12754684 CTGAGCTGTG
Statistics
Matches: 118, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
121 117 0.99
122 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.24, T:0.21
Consensus pattern (121 bp):
CCGTGTGACTAGCCCATGTACCCTTAGAAATGGCCACACACGCCCGTGTGCCAAGCCATGTACTA
GGGTGTGCCAAAAATATAGGGTATACTAACTTATGCCACACGGCCAAGTCACACAC
Found at i:12758003 original size:42 final size:42
Alignment explanation
Indices: 12757943--12758024 Score: 146
Period size: 42 Copynumber: 2.0 Consensus size: 42
12757933 TAAAAAAGAC
*
12757943 GAGGTAAGTACTTCTGATTACTTAGTAAATGTTAGAATGAAT
1 GAGGTAAGTACTTCTGATTACTTAGTAAACGTTAGAATGAAT
*
12757985 GAGGTAAGTACTTTTGATTACTTAGTAAACGTTAGAATGA
1 GAGGTAAGTACTTCTGATTACTTAGTAAACGTTAGAATGA
12758025 GCATGAAACC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.35, C:0.07, G:0.22, T:0.35
Consensus pattern (42 bp):
GAGGTAAGTACTTCTGATTACTTAGTAAACGTTAGAATGAAT
Found at i:12766476 original size:30 final size:30
Alignment explanation
Indices: 12766442--12766502 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
12766432 TCCTTAACTC
12766442 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
12766472 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
12766502 A
1 A
12766503 GGCTCGGTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:12777669 original size:39 final size:40
Alignment explanation
Indices: 12777569--12777753 Score: 189
Period size: 40 Copynumber: 4.7 Consensus size: 40
12777559 TCGAATGATG
* * * *
12777569 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** * * *
12777609 TCCGCACTAAGAT-CCGAAGGCATTTGTGTGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
12777649 TTCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
12777688 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
12777729 -CCGAGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
12777754 AATGAGTAGC
Statistics
Matches: 118, Mismatches: 22, Indels: 10
0.79 0.15 0.07
Matches are distributed among these distances:
39 32 0.27
40 77 0.65
41 9 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:12783749 original size:29 final size:31
Alignment explanation
Indices: 12783708--12783766 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 31
12783698 TAAAATTTAA
* *
12783708 TATCTCCACATTT-ATCTATTAGAATAAATAC
1 TATCTCCACATTTCATCCATCAG-ATAAATAC
12783739 TATCT-CA-ATTTCATCCATCAGATAAATA
1 TATCTCCACATTTCATCCATCAGATAAATA
12783767 GATACACATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
29 11 0.44
30 9 0.36
31 5 0.20
ACGTcount: A:0.39, C:0.20, G:0.03, T:0.37
Consensus pattern (31 bp):
TATCTCCACATTTCATCCATCAGATAAATAC
Found at i:12784212 original size:21 final size:20
Alignment explanation
Indices: 12784188--12784226 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
12784178 CTTGTATATT
*
12784188 TATCAACAAGCATTCAAAATC
1 TATCAACAAACA-TCAAAATC
*
12784209 TATCATCAAACATCAAAA
1 TATCAACAAACATCAAAA
12784227 CACATGTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.51, C:0.23, G:0.03, T:0.23
Consensus pattern (20 bp):
TATCAACAAACATCAAAATC
Found at i:12792304 original size:41 final size:41
Alignment explanation
Indices: 12792234--12792311 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
12792224 AAATGCAGTC
* *** *
12792234 TAGGGCCTAAGCCCATTACAGTTTTAGTATCATATATGCAT
1 TAGGGCCTAAGCCCATAACAGTCACAGTATCAAATATGCAT
*
12792275 TAGGGCCTAAGCCCATAATAGTCACAGTATCAAATAT
1 TAGGGCCTAAGCCCATAACAGTCACAGTATCAAATAT
12792312 ATACTCCTAC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 31 1.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (41 bp):
TAGGGCCTAAGCCCATAACAGTCACAGTATCAAATATGCAT
Found at i:12806902 original size:25 final size:25
Alignment explanation
Indices: 12806859--12806906 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
12806849 TTATAGTATG
* * *
12806859 AAAATGACTATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
12806884 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
12806907 GTTTAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:12806981 original size:20 final size:20
Alignment explanation
Indices: 12806953--12807809 Score: 1525
Period size: 20 Copynumber: 42.9 Consensus size: 20
12806943 ACAATATTGA
12806953 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
12806973 TATGGTATGCACATGATATG
1 TATGATATGCACATGATATG
12806993 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
12807013 TACGATATGCACATGATATG
1 TATGATATGCACATGATATG
12807033 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
12807053 TACGATATGCACATGATATG
1 TATGATATGCACATGATATG
12807073 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
12807093 TACGATATGCACATGATATG
1 TATGATATGCACATGATATG
12807113 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
12807133 TACGATATGCACATGATATG
1 TATGATATGCACATGATATG
12807153 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
12807173 TACGATATGCACATGATATG
1 TATGATATGCACATGATATG
12807193 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
12807213 TACGATATGCACATGATATG
1 TATGATATGCACATGATATG
12807233 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
12807253 TACGATATGCACATGATATG
1 TATGATATGCACATGATATG
12807273 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
12807293 TACGATATGCACATGATATG
1 TATGATATGCACATGATATG
12807313 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
12807333 TACGATATGCACATGATATG
1 TATGATATGCACATGATATG
12807353 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
12807373 TACGATATGCACATGATATG
1 TATGATATGCACATGATATG
12807393 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
12807413 TACGATATGCACATGATATG
1 TATGATATGCACATGATATG
12807433 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
12807453 TACGATATGCACATGATATG
1 TATGATATGCACATGATATG
12807473 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
12807493 TACGATATGCACATGATATG
1 TATGATATGCACATGATATG
12807513 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
12807533 TACGATATGCACATGATATG
1 TATGATATGCACATGATATG
12807553 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
12807573 TACGATATGCACATGATATG
1 TATGATATGCACATGATATG
12807593 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
12807613 TACGATATGCACATGATATG
1 TATGATATGCACATGATATG
12807633 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
12807653 TACGATATGCACATGATATG
1 TATGATATGCACATGATATG
12807673 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
12807693 TACGATATGCACATGATATG
1 TATGATATGCACATGATATG
12807713 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
12807733 TACGATATGCACATGATATG
1 TATGATATGCACATGATATG
12807753 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
12807773 TACGATATGCACATGATATG
1 TATGATATGCACATGATATG
12807793 TATGATATGCACATGAT
1 TATGATATGCACATGAT
12807810 GTATTCATAA
Statistics
Matches: 795, Mismatches: 42, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 795 1.00
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:12806999 original size:40 final size:40
Alignment explanation
Indices: 12806953--12807809 Score: 1696
Period size: 40 Copynumber: 21.4 Consensus size: 40
12806943 ACAATATTGA
* *
12806953 TATGATATGCACATGATATGTATGGTATGCACATGATATG
1 TATGATATGCACATGATATGTACGATATGCACATGATATG
12806993 TATGATATGCACATGATATGTACGATATGCACATGATATG
1 TATGATATGCACATGATATGTACGATATGCACATGATATG
12807033 TATGATATGCACATGATATGTACGATATGCACATGATATG
1 TATGATATGCACATGATATGTACGATATGCACATGATATG
12807073 TATGATATGCACATGATATGTACGATATGCACATGATATG
1 TATGATATGCACATGATATGTACGATATGCACATGATATG
12807113 TATGATATGCACATGATATGTACGATATGCACATGATATG
1 TATGATATGCACATGATATGTACGATATGCACATGATATG
12807153 TATGATATGCACATGATATGTACGATATGCACATGATATG
1 TATGATATGCACATGATATGTACGATATGCACATGATATG
12807193 TATGATATGCACATGATATGTACGATATGCACATGATATG
1 TATGATATGCACATGATATGTACGATATGCACATGATATG
12807233 TATGATATGCACATGATATGTACGATATGCACATGATATG
1 TATGATATGCACATGATATGTACGATATGCACATGATATG
12807273 TATGATATGCACATGATATGTACGATATGCACATGATATG
1 TATGATATGCACATGATATGTACGATATGCACATGATATG
12807313 TATGATATGCACATGATATGTACGATATGCACATGATATG
1 TATGATATGCACATGATATGTACGATATGCACATGATATG
12807353 TATGATATGCACATGATATGTACGATATGCACATGATATG
1 TATGATATGCACATGATATGTACGATATGCACATGATATG
12807393 TATGATATGCACATGATATGTACGATATGCACATGATATG
1 TATGATATGCACATGATATGTACGATATGCACATGATATG
12807433 TATGATATGCACATGATATGTACGATATGCACATGATATG
1 TATGATATGCACATGATATGTACGATATGCACATGATATG
12807473 TATGATATGCACATGATATGTACGATATGCACATGATATG
1 TATGATATGCACATGATATGTACGATATGCACATGATATG
12807513 TATGATATGCACATGATATGTACGATATGCACATGATATG
1 TATGATATGCACATGATATGTACGATATGCACATGATATG
12807553 TATGATATGCACATGATATGTACGATATGCACATGATATG
1 TATGATATGCACATGATATGTACGATATGCACATGATATG
12807593 TATGATATGCACATGATATGTACGATATGCACATGATATG
1 TATGATATGCACATGATATGTACGATATGCACATGATATG
12807633 TATGATATGCACATGATATGTACGATATGCACATGATATG
1 TATGATATGCACATGATATGTACGATATGCACATGATATG
12807673 TATGATATGCACATGATATGTACGATATGCACATGATATG
1 TATGATATGCACATGATATGTACGATATGCACATGATATG
12807713 TATGATATGCACATGATATGTACGATATGCACATGATATG
1 TATGATATGCACATGATATGTACGATATGCACATGATATG
12807753 TATGATATGCACATGATATGTACGATATGCACATGATATG
1 TATGATATGCACATGATATGTACGATATGCACATGATATG
12807793 TATGATATGCACATGAT
1 TATGATATGCACATGAT
12807810 GTATTCATAA
Statistics
Matches: 815, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 815 1.00
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (40 bp):
TATGATATGCACATGATATGTACGATATGCACATGATATG
Found at i:12807889 original size:26 final size:26
Alignment explanation
Indices: 12807860--12807953 Score: 136
Period size: 26 Copynumber: 3.7 Consensus size: 26
12807850 AGGAAGTGCA
*
12807860 AAAGGGCTTATGCCCTAGTTTACCGG
1 AAAGGGCTTATGCCCCAGTTTACCGG
** *
12807886 AAAGGGCTTATGCCCCAGTTTATTGA
1 AAAGGGCTTATGCCCCAGTTTACCGG
12807912 AAAGGGCTTATGCCCCAGTTTACC-G
1 AAAGGGCTTATGCCCCAGTTTACCGG
*
12807937 AAAGGGCTTTTGCCCCA
1 AAAGGGCTTATGCCCCA
12807954 ATTATTAAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
25 16 0.27
26 44 0.73
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (26 bp):
AAAGGGCTTATGCCCCAGTTTACCGG
Found at i:12811277 original size:46 final size:46
Alignment explanation
Indices: 12811227--12811399 Score: 167
Period size: 46 Copynumber: 3.7 Consensus size: 46
12811217 TGGTTGAGCA
*
12811227 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
12811273 TCCGAACTCATTGAGTTGAGTCTGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
12811318 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
12811366 -CCCAAGCTCATTGAGTTGAGTCCGAGTTCTCTTA
1 TCCGAA-CTCATTGAGTTGAGTCCGAGTTCACTTA
12811400 GGGGCGTGTT
Statistics
Matches: 101, Mismatches: 16, Indels: 20
0.74 0.12 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 7 0.07
46 53 0.52
47 27 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (46 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:12811383 original size:93 final size:93
Alignment explanation
Indices: 12811224--12811394 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
12811214 GGATGGTTGA
* *
12811224 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCATTGAGT
*
12811289 TGAGTCTGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
12811317 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCCAAGCTCATTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAA-CTCATTGAG
12811381 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
12811395 TCTTAGGGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 4 0.05
93 70 0.95
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCATTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:12818268 original size:20 final size:20
Alignment explanation
Indices: 12818240--12819056 Score: 1454
Period size: 20 Copynumber: 40.9 Consensus size: 20
12818230 ACAATATTGA
12818240 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
12818260 TATGGTATGCACATGATATG
1 TATGATATGCACATGATATG
12818280 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
12818300 TACGATATGCACATGATATG
1 TATGATATGCACATGATATG
12818320 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
12818340 TACGATATGCACATGATATG
1 TATGATATGCACATGATATG
12818360 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
12818380 TACGATATGCACATGATATG
1 TATGATATGCACATGATATG
12818400 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
12818420 TACGATATGCACATGATATG
1 TATGATATGCACATGATATG
12818440 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
12818460 TACGATATGCACATGATATG
1 TATGATATGCACATGATATG
12818480 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
12818500 TACGATATGCACATGATATG
1 TATGATATGCACATGATATG
12818520 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
12818540 TACGATATGCACATGATATG
1 TATGATATGCACATGATATG
12818560 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
12818580 TACGATATGCACATGATATG
1 TATGATATGCACATGATATG
12818600 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
12818620 TACGATATGCACATGATATG
1 TATGATATGCACATGATATG
12818640 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
12818660 TACGATATGCACATGATATG
1 TATGATATGCACATGATATG
12818680 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
12818700 TACGATATGCACATGATATG
1 TATGATATGCACATGATATG
12818720 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
12818740 TACGATATGCACATGATATG
1 TATGATATGCACATGATATG
12818760 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
12818780 TACGATATGCACATGATATG
1 TATGATATGCACATGATATG
12818800 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
12818820 TACGATATGCACATGATATG
1 TATGATATGCACATGATATG
12818840 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
12818860 TACGATATGCACATGATATG
1 TATGATATGCACATGATATG
12818880 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
12818900 TACGATATGCACATGATATG
1 TATGATATGCACATGATATG
12818920 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
12818940 TACGATATGCACATGATATG
1 TATGATATGCACATGATATG
12818960 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
12818980 TACGATATGCACATGATATG
1 TATGATATGCACATGATATG
12819000 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
12819020 TACGATATGCACATGATATG
1 TATGATATGCACATGATATG
12819040 TATGATATGCACATGAT
1 TATGATATGCACATGAT
12819057 GTATTCATAA
Statistics
Matches: 757, Mismatches: 40, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 757 1.00
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:12818286 original size:40 final size:40
Alignment explanation
Indices: 12818240--12819056 Score: 1616
Period size: 40 Copynumber: 20.4 Consensus size: 40
12818230 ACAATATTGA
* *
12818240 TATGATATGCACATGATATGTATGGTATGCACATGATATG
1 TATGATATGCACATGATATGTACGATATGCACATGATATG
12818280 TATGATATGCACATGATATGTACGATATGCACATGATATG
1 TATGATATGCACATGATATGTACGATATGCACATGATATG
12818320 TATGATATGCACATGATATGTACGATATGCACATGATATG
1 TATGATATGCACATGATATGTACGATATGCACATGATATG
12818360 TATGATATGCACATGATATGTACGATATGCACATGATATG
1 TATGATATGCACATGATATGTACGATATGCACATGATATG
12818400 TATGATATGCACATGATATGTACGATATGCACATGATATG
1 TATGATATGCACATGATATGTACGATATGCACATGATATG
12818440 TATGATATGCACATGATATGTACGATATGCACATGATATG
1 TATGATATGCACATGATATGTACGATATGCACATGATATG
12818480 TATGATATGCACATGATATGTACGATATGCACATGATATG
1 TATGATATGCACATGATATGTACGATATGCACATGATATG
12818520 TATGATATGCACATGATATGTACGATATGCACATGATATG
1 TATGATATGCACATGATATGTACGATATGCACATGATATG
12818560 TATGATATGCACATGATATGTACGATATGCACATGATATG
1 TATGATATGCACATGATATGTACGATATGCACATGATATG
12818600 TATGATATGCACATGATATGTACGATATGCACATGATATG
1 TATGATATGCACATGATATGTACGATATGCACATGATATG
12818640 TATGATATGCACATGATATGTACGATATGCACATGATATG
1 TATGATATGCACATGATATGTACGATATGCACATGATATG
12818680 TATGATATGCACATGATATGTACGATATGCACATGATATG
1 TATGATATGCACATGATATGTACGATATGCACATGATATG
12818720 TATGATATGCACATGATATGTACGATATGCACATGATATG
1 TATGATATGCACATGATATGTACGATATGCACATGATATG
12818760 TATGATATGCACATGATATGTACGATATGCACATGATATG
1 TATGATATGCACATGATATGTACGATATGCACATGATATG
12818800 TATGATATGCACATGATATGTACGATATGCACATGATATG
1 TATGATATGCACATGATATGTACGATATGCACATGATATG
12818840 TATGATATGCACATGATATGTACGATATGCACATGATATG
1 TATGATATGCACATGATATGTACGATATGCACATGATATG
12818880 TATGATATGCACATGATATGTACGATATGCACATGATATG
1 TATGATATGCACATGATATGTACGATATGCACATGATATG
12818920 TATGATATGCACATGATATGTACGATATGCACATGATATG
1 TATGATATGCACATGATATGTACGATATGCACATGATATG
12818960 TATGATATGCACATGATATGTACGATATGCACATGATATG
1 TATGATATGCACATGATATGTACGATATGCACATGATATG
12819000 TATGATATGCACATGATATGTACGATATGCACATGATATG
1 TATGATATGCACATGATATGTACGATATGCACATGATATG
12819040 TATGATATGCACATGAT
1 TATGATATGCACATGAT
12819057 GTATTCATAA
Statistics
Matches: 775, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 775 1.00
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (40 bp):
TATGATATGCACATGATATGTACGATATGCACATGATATG
Found at i:12819135 original size:26 final size:26
Alignment explanation
Indices: 12819106--12819203 Score: 153
Period size: 26 Copynumber: 3.8 Consensus size: 26
12819096 GAGGAAGTGC
*
12819106 AAAAGGGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
12819132 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
12819158 AAAAGGGCTTATGCCCCAGTTTACC-
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
12819183 AAAAGGGCTTTTGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
12819204 ATTTAAAGAG
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
25 20 0.30
26 46 0.70
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:12819216 original size:25 final size:25
Alignment explanation
Indices: 12819106--12819216 Score: 125
Period size: 26 Copynumber: 4.4 Consensus size: 25
12819096 GAGGAAGTGC
* **
12819106 AAAAGGGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTA-TT
12819132 AAAAGGGCTTATGCCCCAGTTTATT
1 AAAAGGGCTTATGCCCCAGTTTATT
**
12819157 GAAAAGGGCTTATGCCCCAGTTTACC
1 -AAAAGGGCTTATGCCCCAGTTTATT
*
12819183 AAAAGGGCTTTTGCCCCAG-TTATT
1 AAAAGGGCTTATGCCCCAGTTTATT
*
12819207 TAAAGAGGCT
1 AAAAG-GGCT
12819217 AGGCCTCTAG
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
24 7 0.09
25 22 0.30
26 45 0.61
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (25 bp):
AAAAGGGCTTATGCCCCAGTTTATT
Found at i:12820450 original size:20 final size:20
Alignment explanation
Indices: 12820425--12820474 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
12820415 TTGCATATAA
12820425 GAAAAATTTTGAAATTTTAC
1 GAAAAATTTTGAAATTTTAC
12820445 GAAAAATTTTGAAATTTTAC
1 GAAAAATTTTGAAATTTTAC
12820465 GAAAAATTTT
1 GAAAAATTTT
12820475 CTAAGTTCCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.46, C:0.04, G:0.10, T:0.40
Consensus pattern (20 bp):
GAAAAATTTTGAAATTTTAC
Found at i:12820453 original size:12 final size:12
Alignment explanation
Indices: 12820436--12820474 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
12820426 AAAAATTTTG
12820436 AAATTTTACGAA
1 AAATTTTACGAA
12820448 AAATTTT--G--
1 AAATTTTACGAA
12820456 AAATTTTACGAA
1 AAATTTTACGAA
12820468 AAATTTT
1 AAATTTT
12820475 CTAAGTTCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
8 7 0.30
10 2 0.09
12 14 0.61
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (12 bp):
AAATTTTACGAA
Found at i:12827192 original size:20 final size:20
Alignment explanation
Indices: 12827159--12827196 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
12827149 ACCAATTGTG
*
12827159 CATGTTATGCTTAAATGTTT
1 CATGTGATGCTTAAATGTTT
*
12827179 CATGTGATGGTTAAATGT
1 CATGTGATGCTTAAATGT
12827197 GGTATATCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.08, G:0.21, T:0.45
Consensus pattern (20 bp):
CATGTGATGCTTAAATGTTT
Found at i:12831747 original size:17 final size:19
Alignment explanation
Indices: 12831725--12831765 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 19
12831715 GGCTCATTAT
12831725 TGATTTATAT-TT-TAATA
1 TGATTTATATATTATAATA
*
12831742 TGATTTATATATTATATTA
1 TGATTTATATATTATAATA
12831761 TGATT
1 TGATT
12831766 AATAAAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 10 0.48
18 2 0.10
19 9 0.43
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (19 bp):
TGATTTATATATTATAATA
Found at i:12834683 original size:26 final size:26
Alignment explanation
Indices: 12834647--12834703 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
12834637 GAAAGGTTTC
12834647 GCTATGATTATAGCTCCGATGACGAA
1 GCTATGATTATAGCTCCGATGACGAA
12834673 GCTATGATTATAGCTCCGATGACGAA
1 GCTATGATTATAGCTCCGATGACGAA
12834699 GCTAT
1 GCTAT
12834704 TACAGAAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (26 bp):
GCTATGATTATAGCTCCGATGACGAA
Found at i:12837052 original size:16 final size:16
Alignment explanation
Indices: 12837031--12837061 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12837021 GTATGGTTAA
*
12837031 ATAAGTTAATTAAATT
1 ATAAGTTAATAAAATT
12837047 ATAAGTTAATAAAAT
1 ATAAGTTAATAAAAT
12837062 ATATTATAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (16 bp):
ATAAGTTAATAAAATT
Found at i:12837460 original size:30 final size:29
Alignment explanation
Indices: 12837403--12837462 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 29
12837393 TTGACTTATT
*
12837403 GGGACTAAATTGTAAAAATAATAATTTGA
1 GGGACTAAAATGTAAAAATAATAATTTGA
*
12837432 GGGACTAAAATGTGAAATAA-ATTAATTTGA
1 GGGACTAAAATGT-AAA-AATAATAATTTGA
12837462 G
1 G
12837463 AGTGCGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 12 0.44
30 13 0.48
31 2 0.07
ACGTcount: A:0.47, C:0.03, G:0.20, T:0.30
Consensus pattern (29 bp):
GGGACTAAAATGTAAAAATAATAATTTGA
Found at i:12839974 original size:17 final size:19
Alignment explanation
Indices: 12839952--12839992 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 19
12839942 GGTTCGTTAT
12839952 TGATTTATAT-TT-TAATA
1 TGATTTATATATTATAATA
*
12839969 TGATTTATATATTATATTA
1 TGATTTATATATTATAATA
12839988 TGATT
1 TGATT
12839993 AATAAAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 10 0.48
18 2 0.10
19 9 0.43
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (19 bp):
TGATTTATATATTATAATA
Found at i:12848098 original size:104 final size:104
Alignment explanation
Indices: 12847918--12848138 Score: 372
Period size: 104 Copynumber: 2.1 Consensus size: 104
12847908 ATATAAAAGC
** * *
12847918 GGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTTTGA
1 GGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTTTGA
12847983 AATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCGAGG
66 AATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCGAGG
* *
12848022 GGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCTTTG
1 GGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCTTTG
12848086 AAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCGAGG
65 AAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCGAGG
12848126 GGTTGCTAAGTGC
1 GGTTGCTAAGTGC
12848139 GATATCCATT
Statistics
Matches: 110, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 109 0.99
105 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.31, T:0.32
Consensus pattern (104 bp):
GGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTTTGA
AATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCGAGG
Found at i:12848190 original size:71 final size:71
Alignment explanation
Indices: 12848057--12848279 Score: 383
Period size: 71 Copynumber: 3.1 Consensus size: 71
12848047 TCATTGGTGG
*** * *
12848057 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
12848122 GAGGGGT
65 GAGGGGT
12848129 TGCTAAGTGCGATATCCATTGTATATTTGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
1 TGCTAAGTGCGATATCCATTGTATATTTGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
12848194 AGGGGT
66 AGGGGT
*
12848200 TGCGAAGTGCGATATCCATTGTATATTTGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
1 TGCTAAGTGCGATATCCATTGTATATTTGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
12848265 AGGGGT
66 AGGGGT
12848271 TGCTAAGTG
1 TGCTAAGTG
12848280 ATGATTCCCC
Statistics
Matches: 144, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
71 114 0.79
72 30 0.21
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (71 bp):
TGCTAAGTGCGATATCCATTGTATATTTGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
AGGGGT
Found at i:12868361 original size:18 final size:17
Alignment explanation
Indices: 12868329--12868368 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 17
12868319 ATAAAAAATA
12868329 ATTAAAATCATATTTAT
1 ATTAAAATCATATTTAT
*
12868346 ATTAAATATTATATTTAT
1 ATTAAA-ATCATATTTAT
12868364 ATTAA
1 ATTAA
12868369 TGTTAAATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTAAAATCATATTTAT
Found at i:12868566 original size:21 final size:22
Alignment explanation
Indices: 12868533--12868573 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
12868523 CTTATTCATC
* *
12868533 ATTATCTATTACTTTGTTTTGA
1 ATTAACTATTACTATGTTTTGA
12868555 ATTAACTA-TACTATGTTTT
1 ATTAACTATTACTATGTTTT
12868574 CCATTCTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.27, C:0.10, G:0.07, T:0.56
Consensus pattern (22 bp):
ATTAACTATTACTATGTTTTGA
Found at i:12870020 original size:16 final size:17
Alignment explanation
Indices: 12869999--12870031 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
12869989 TATCATAAGC
12869999 AATTGTGATAA-AATTA
1 AATTGTGATAATAATTA
*
12870015 AATTGTTATAATAATTA
1 AATTGTGATAATAATTA
12870032 TTTCTATTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (17 bp):
AATTGTGATAATAATTA
Found at i:12870287 original size:30 final size:30
Alignment explanation
Indices: 12870227--12870288 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
12870217 AATTTATATC
* *
12870227 TTTATAATTTATAAAGGATTAAATTAAATT
1 TTTATAATTTATAAAGGATCAAATGAAATT
* *
12870257 TTTATAATTT-TAAAGGGTCAAAGTGGAATT
1 TTTATAATTTATAAAGGATCAAA-TGAAATT
12870287 TT
1 TT
12870289 ATCTTTATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 10 0.37
30 17 0.63
ACGTcount: A:0.40, C:0.02, G:0.13, T:0.45
Consensus pattern (30 bp):
TTTATAATTTATAAAGGATCAAATGAAATT
Found at i:12873182 original size:90 final size:90
Alignment explanation
Indices: 12873073--12873258 Score: 264
Period size: 90 Copynumber: 2.1 Consensus size: 90
12873063 ATAATGAAAA
*** *
12873073 AATTTGTATGGTGGCAATAATAATTAATAATAGTGACATGATATGTTATCACTATTACATCAATT
1 AATTTGTATGGCCACAATAATAATTAATAATAGTGACATGATATGATATCACTATTACATCAATT
*
12873138 CTCAAGAAAAAAAAAACTTGAAGGC
66 CTCAAGAAAAAAAAAACTTGAACGC
* * * *
12873163 AATTTGTATGGCCACAATAATAATTAATAATAGTGACTTTATATGATGTCACTATTACATCATTT
1 AATTTGTATGGCCACAATAATAATTAATAATAGTGACATGATATGATATCACTATTACATCAATT
* * *
12873228 CTCGAGGAAAAAAAAACTTGGACGC
66 CTCAAGAAAAAAAAAACTTGAACGC
12873253 AATTTG
1 AATTTG
12873259 AACATTTTAT
Statistics
Matches: 84, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
90 84 1.00
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (90 bp):
AATTTGTATGGCCACAATAATAATTAATAATAGTGACATGATATGATATCACTATTACATCAATT
CTCAAGAAAAAAAAAACTTGAACGC
Found at i:12893885 original size:69 final size:71
Alignment explanation
Indices: 12893709--12893885 Score: 207
Period size: 72 Copynumber: 2.5 Consensus size: 71
12893699 CTTTCCAAGG
* **
12893709 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTTT
*
12893774 TTTCTT
66 GTTCTT
* ** *
12893780 CAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTT-ATTTT
1 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTT
12893844 ATGTT-TT
65 -TGTTCTT
** * *
12893851 -AAATTGACTCATATTACGAGAGGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
12893886 TTTAATTTTT
Statistics
Matches: 91, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
69 30 0.33
71 7 0.08
72 54 0.59
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.34
Consensus pattern (71 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTTT
GTTCTT
Found at i:12894030 original size:77 final size:76
Alignment explanation
Indices: 12893903--12894242 Score: 417
Period size: 77 Copynumber: 4.5 Consensus size: 76
12893893 TTTGTTTTTC
* *
12893903 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATTTCT
12893968 GTTGTTAAAAAA
66 GTT-TTAAAAAA
**
12893980 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATTTCT
*
12894045 GTTTT----CA
66 GTTTTAAAAAA
* * * ** * *
12894052 AAATTCAACTTATATTGCGATAAATGAGTTGAGCCTCAAGACA---TGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATTTCT
*
12894114 GTTTTCAAAAA
66 GTTTTAAAAAA
* * *
12894125 AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACATGCTGAGGTAATTTCAATT
12894189 TCTGTTTTTAAAAAA
63 TCTG-TTTTAAAAAA
* *
12894204 AAAATTAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
12894243 ATTACACACT
Statistics
Matches: 230, Mismatches: 21, Indels: 21
0.85 0.08 0.08
Matches are distributed among these distances:
69 23 0.10
72 41 0.18
73 34 0.15
75 3 0.01
76 2 0.01
77 64 0.28
78 19 0.08
79 43 0.19
80 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (76 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATTTCT
GTTTTAAAAAA
Found at i:12894561 original size:73 final size:73
Alignment explanation
Indices: 12894462--12894799 Score: 563
Period size: 73 Copynumber: 4.6 Consensus size: 73
12894452 AATTTCTATT
12894462 TTTTCAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
1 TTTTC-AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
12894527 AATTTCTGC
65 AATTTCTGC
12894536 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
1 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
12894601 ATTTCTGC
66 ATTTCTGC
12894609 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
1 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
12894674 ATTTCTGC
66 ATTTCTGC
* * * *
12894682 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGCAATTTCA
1 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
12894747 ATTTCTG-
66 ATTTCTGC
* * *
12894754 TTGTCAAAAAAATCAACTCATATTGC-AAAAAGTGAGTTGAGCCTCA
1 TTTTC--AAAATTCAACTCATATTGCGAGAAA-TGAGTTGAGCCTCA
12894800 GTTCACATGT
Statistics
Matches: 254, Mismatches: 7, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
72 4 0.02
73 213 0.84
74 37 0.15
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (73 bp):
TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
ATTTCTGC
Found at i:12896602 original size:11 final size:11
Alignment explanation
Indices: 12896586--12896612 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
12896576 GTACGTATTG
12896586 TATATGTTCTA
1 TATATGTTCTA
12896597 TATATGTTCTA
1 TATATGTTCTA
12896608 TATAT
1 TATAT
12896613 TTTTAATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.56
Consensus pattern (11 bp):
TATATGTTCTA
Found at i:12902098 original size:51 final size:51
Alignment explanation
Indices: 12902013--12902188 Score: 158
Period size: 51 Copynumber: 3.5 Consensus size: 51
12902003 CGGATGCCCG
*
12902013 GTGGCCTGCACATAGTACCACCCTTGT-AGTCAAAGCTACCTTCTT-CACAAA
1 GTGGCCTGCACATAGTACCACACTTGTGA-TCAAAGCTACCTT-TTACACAAA
* * * *
12902064 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTTACACATA
1 GTGGCCTGCACATAGTACCACACTTGTGATCAAAGCTACCTTTTACACAAA
* * * * * * *** *
12902115 GTGGTCTGCACTTCGTACCACACATGTGATCGAAGCTATCAGGTACACATA
1 GTGGCCTGCACATAGTACCACACTTGTGATCAAAGCTACCTTTTACACAAA
* * *
12902166 GTAGCCTGCACTTAGTACTACAC
1 GTGGCCTGCACATAGTACCACAC
12902189 ACGCGACCTA
Statistics
Matches: 104, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
50 2 0.02
51 101 0.97
52 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (51 bp):
GTGGCCTGCACATAGTACCACACTTGTGATCAAAGCTACCTTTTACACAAA
Found at i:12902218 original size:50 final size:52
Alignment explanation
Indices: 12902107--12902291 Score: 178
Period size: 50 Copynumber: 3.6 Consensus size: 52
12902097 AGCTATCTTT
* * * * * * * * * *
12902107 TACACATAGTGGTCTGCACTTCGTACCACACATGTGATC-GAAGCTATCAGG
1 TACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAAAGCCATCTGG
12902158 TACACATAGTAGCCTGCACTTAGTACTACACACGCGACCT-AA-CCATCTGG
1 TACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAAAGCCATCTGG
* * * **
12902208 TACACATAGTAGCCTGTACTTAGTACTACACACGTGACCTAAAGCCATTTTA
1 TACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAAAGCCATCTGG
* * * *
12902260 AACATATAGTAGCTTGCACATAGTACTACACA
1 TACACATAGTAGCCTGCACTTAGTACTACACA
12902292 TGTGTTCTCA
Statistics
Matches: 112, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
50 44 0.39
51 36 0.32
52 32 0.29
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.25
Consensus pattern (52 bp):
TACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAAAGCCATCTGG
Found at i:12905165 original size:20 final size:20
Alignment explanation
Indices: 12905142--12905182 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
12905132 AAAAAATGAC
12905142 TAAATTAATAGAAATAAAGT
1 TAAATTAATAGAAATAAAGT
12905162 TAAATTAATAGAAATAAAGT
1 TAAATTAATAGAAATAAAGT
12905182 T
1 T
12905183 TTCCTAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.32
Consensus pattern (20 bp):
TAAATTAATAGAAATAAAGT
Found at i:12910121 original size:27 final size:27
Alignment explanation
Indices: 12910090--12910210 Score: 154
Period size: 27 Copynumber: 4.5 Consensus size: 27
12910080 TTAAATCACT
*
12910090 ACAAAGGCTTCTATCTCATAGATTGCC
1 ACAAAGGCTTCCATCTCATAGATTGCC
12910117 ACAAAGGCTTCCATCTCATAGATTGCC
1 ACAAAGGCTTCCATCTCATAGATTGCC
** * *
12910144 ACAAAAACTCCCATTTCATAGATTGCC
1 ACAAAGGCTTCCATCTCATAGATTGCC
* * * *
12910171 AAAAAGGCTTCCATTTCATAAATTTCC
1 ACAAAGGCTTCCATCTCATAGATTGCC
12910198 ACAAAGG-TTCCAT
1 ACAAAGGCTTCCAT
12910211 TTTTTAGAGT
Statistics
Matches: 82, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
26 6 0.07
27 76 0.93
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.28
Consensus pattern (27 bp):
ACAAAGGCTTCCATCTCATAGATTGCC
Found at i:12912455 original size:37 final size:37
Alignment explanation
Indices: 12912399--12912471 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 37
12912389 ACATGCAATG
* *
12912399 CATGGATACTATAATGAAAGCTTAAAATAAACTAACA
1 CATGAATACTATAACGAAAGCTTAAAATAAACTAACA
*
12912436 CATGAATACTATAGCGAAAGCTTAAAATAAACTAAC
1 CATGAATACTATAACGAAAGCTTAAAATAAACTAAC
12912472 TTAGTTATCC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.51, C:0.15, G:0.11, T:0.23
Consensus pattern (37 bp):
CATGAATACTATAACGAAAGCTTAAAATAAACTAACA
Found at i:12922442 original size:24 final size:26
Alignment explanation
Indices: 12922403--12922452 Score: 70
Period size: 24 Copynumber: 2.0 Consensus size: 26
12922393 ATCATTCAAT
12922403 TACATTATGAATACAT-AATA-AACA
1 TACATTATGAATACATGAATATAACA
12922427 TACATT-TGAATAACATGAATATAACA
1 TACATTATGAAT-ACATGAATATAACA
12922453 ATCGTTCATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 5 0.22
24 10 0.43
25 4 0.17
26 4 0.17
ACGTcount: A:0.52, C:0.12, G:0.06, T:0.30
Consensus pattern (26 bp):
TACATTATGAATACATGAATATAACA
Found at i:12925424 original size:22 final size:22
Alignment explanation
Indices: 12925399--12925443 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
12925389 CTATATTGGT
12925399 GATTTGGATAAAAGAGAACTAA
1 GATTTGGATAAAAGAGAACTAA
12925421 GATTTGGATAAAAGAGAACTAA
1 GATTTGGATAAAAGAGAACTAA
12925443 G
1 G
12925444 TACTGGTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.49, C:0.04, G:0.24, T:0.22
Consensus pattern (22 bp):
GATTTGGATAAAAGAGAACTAA
Found at i:12940334 original size:6 final size:6
Alignment explanation
Indices: 12940323--12940397 Score: 66
Period size: 6 Copynumber: 12.7 Consensus size: 6
12940313 AAGAAAATTG
* * * *
12940323 AAAAAT AAAAAT CAAAAG AAAAAT AAGAAT AAAAGAA ATAAAAT -AAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA-AT A-AAAAT AAAAAT
*
12940372 AAAAAT AAGAAT --AAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
12940398 TAGGAGGATT
Statistics
Matches: 54, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
4 3 0.06
5 5 0.09
6 40 0.74
7 3 0.06
8 3 0.06
ACGTcount: A:0.79, C:0.01, G:0.05, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:12940368 original size:5 final size:5
Alignment explanation
Indices: 12940342--12940399 Score: 57
Period size: 5 Copynumber: 11.2 Consensus size: 5
12940332 AATCAAAAGA
*
12940342 AAAAT AAGAAT AAAA- GAAAT AAAAT AAAAT AAAAAT AAGAAT -AAAT
1 AAAAT AA-AAT AAAAT AAAAT AAAAT AAAAT -AAAAT AA-AAT AAAAT
12940388 AAAAAT AAAAT A
1 -AAAAT AAAAT A
12940400 GGAGGATTCA
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
4 6 0.13
5 22 0.49
6 17 0.38
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:12940379 original size:31 final size:32
Alignment explanation
Indices: 12940308--12940399 Score: 116
Period size: 31 Copynumber: 2.8 Consensus size: 32
12940298 TATGTCTTTC
*
12940308 AAAATAAGAA-AATTGAAAAATAAAAATCAAAAGA
1 AAAATAAGAATAAAT-AAAAAT-AAAAT-AAAAGA
* *
12940342 AAAATAAGAATAAA-AGAAATAAAATAAAATA
1 AAAATAAGAATAAATAAAAATAAAATAAAAGA
12940373 AAAATAAGAATAAATAAAAATAAAATA
1 AAAATAAGAATAAATAAAAATAAAATA
12940400 GGAGGATTCA
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
31 19 0.37
32 16 0.31
33 5 0.10
34 10 0.19
35 2 0.04
ACGTcount: A:0.76, C:0.01, G:0.07, T:0.16
Consensus pattern (32 bp):
AAAATAAGAATAAATAAAAATAAAATAAAAGA
Found at i:12950765 original size:34 final size:34
Alignment explanation
Indices: 12950709--12950780 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
12950699 CATATTTATC
*
12950709 ACTGTTACAGTAACAGGTTAAGGCCCACACTGAT
1 ACTGTTACAGTAACAGGCTAAGGCCCACACTGAT
* ** **
12950743 ACTGTTACTGTAATGGGCTAAGGCTTACACTGAT
1 ACTGTTACAGTAACAGGCTAAGGCCCACACTGAT
12950777 ACTG
1 ACTG
12950781 GACTGTTGCT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (34 bp):
ACTGTTACAGTAACAGGCTAAGGCCCACACTGAT
Found at i:12952363 original size:42 final size:41
Alignment explanation
Indices: 12952211--12952396 Score: 187
Period size: 42 Copynumber: 4.5 Consensus size: 41
12952201 AACAAATCGA
* * *
12952211 CTATGTTTGGCACTTAGTGTGTAAG-TCAGAATAGCTTCGG
1 CTATGTTTGGCACTTAGTGTGCAAGATTATAATAGCTTCGG
* * * * * *
12952251 CTATATATGGCACTTAGTGTACGAGACTGA-GATAGCTTCGG
1 CTATGTTTGGCACTTAGTGTGCAAGA-TTATAATAGCTTCGG
*** *
12952292 CTATGAAAGGCACTTAGTGTGCGAGATTATAATAGCTTCGG
1 CTATGTTTGGCACTTAGTGTGCAAGATTATAATAGCTTCGG
* * *
12952333 CTATGCTTTGGCACTTAGTGTGCAATATTATAATAGCTTTGA
1 CTATG-TTTGGCACTTAGTGTGCAAGATTATAATAGCTTCGG
12952375 CTATGCTTTGGCACTTAGTGTG
1 CTATG-TTTGGCACTTAGTGTG
12952397 TGAGATATCG
Statistics
Matches: 122, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
40 22 0.18
41 47 0.39
42 53 0.43
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (41 bp):
CTATGTTTGGCACTTAGTGTGCAAGATTATAATAGCTTCGG
Found at i:12955202 original size:30 final size:29
Alignment explanation
Indices: 12955168--12955224 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 29
12955158 TTCTTTTGTG
*
12955168 AAATGACCATTTTGCCCCTAGGCTTTGACA
1 AAATGACCATTTTACCCCTAGG-TTTGACA
12955198 AAATGACCATTTTACCCCTAGGTTTGA
1 AAATGACCATTTTACCCCTAGGTTTGA
12955225 AAATCAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 5 0.19
30 21 0.81
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.32
Consensus pattern (29 bp):
AAATGACCATTTTACCCCTAGGTTTGACA
Found at i:12964107 original size:44 final size:44
Alignment explanation
Indices: 12964017--12964174 Score: 123
Period size: 44 Copynumber: 3.7 Consensus size: 44
12964007 ATGTGATTTC
* * *
12964017 GTGTAAGACCACATCTAGGACGTTGGCATCA-GTTTGAGATTTAT
1 GTGTAAGACCACATCTAGGACATTGGCATCATATTTGA-ATTCAT
** * *
12964061 GTGTAAGACCATGTCTGGGACATTGACATCATATTTGAATTCAT
1 GTGTAAGACCACATCTAGGACATTGGCATCATATTTGAATTCAT
* *
12964105 GTG--AGACC-CTATCTAGGACAGTGGCATAGATATTTG-ATTACA-
1 GTGTAAGACCAC-ATCTAGGACATTGGCAT-CATATTTGAATT-CAT
* * *
12964147 -TGTAAGACCACGTCTGGGACGTTGGCAT
1 GTGTAAGACCACATCTAGGACATTGGCAT
12964175 TGTACGAGCT
Statistics
Matches: 90, Mismatches: 17, Indels: 15
0.74 0.14 0.12
Matches are distributed among these distances:
41 2 0.02
42 21 0.23
43 27 0.30
44 35 0.39
45 5 0.06
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (44 bp):
GTGTAAGACCACATCTAGGACATTGGCATCATATTTGAATTCAT
Found at i:12964124 original size:42 final size:42
Alignment explanation
Indices: 12964022--12964174 Score: 112
Period size: 43 Copynumber: 3.6 Consensus size: 42
12964012 ATTTCGTGTA
* * * *
12964022 AGACCACATCTAGGACGTTGGCATCA-GTTTGAGATTTATGTG
1 AGACCATATCTAGGACATTGGCATCATATTTGA-ATTCATGTG
* * *
12964064 TAAGACCATGTCTGGGACATTGACATCATATTTGAATTCATGTG
1 --AGACCATATCTAGGACATTGGCATCATATTTGAATTCATGTG
* * * *
12964108 AGACCCTATCTAGGACAGTGGCATAGATATTTG-ATTACATGTA
1 AGACCATATCTAGGACATTGGCAT-CATATTTGAATT-CATGTG
** * *
12964151 AGACCACGTCTGGGACGTTGGCAT
1 AGACCATATCTAGGACATTGGCAT
12964175 TGTACGAGCT
Statistics
Matches: 86, Mismatches: 20, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
42 22 0.26
43 30 0.35
44 29 0.34
45 5 0.06
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (42 bp):
AGACCATATCTAGGACATTGGCATCATATTTGAATTCATGTG
Found at i:12964173 original size:43 final size:43
Alignment explanation
Indices: 12964004--12964174 Score: 111
Period size: 43 Copynumber: 4.0 Consensus size: 43
12963994 TAGAATTTCT
* * *
12964004 GATATGTGATTTCGTGTAAGACCACATCTAGGACGTTGGCATCA
1 GATATTTGATTACATGTAAGACCACATCTAGGACGTTGGCAT-A
* ** ** * * *
12964048 G-T-TTGAGATTTATGTGTAAGACCATGTCTGGGACATTGACAT-
1 GATATT-TGA-TTACATGTAAGACCACATCTAGGACGTTGGCATA
* *
12964090 CATATTTGAATT-CATGTGAGACC-CTATCTAGGACAG-TGGCATA
1 GATATTTG-ATTACATGTAAGACCAC-ATCTAGGAC-GTTGGCATA
* *
12964133 GATATTTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 GATATTTGATTACATGTAAGACCACATCTAGGACGTTGGCAT
12964175 TGTACGAGCT
Statistics
Matches: 93, Mismatches: 23, Indels: 23
0.67 0.17 0.17
Matches are distributed among these distances:
42 25 0.27
43 37 0.40
44 31 0.33
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (43 bp):
GATATTTGATTACATGTAAGACCACATCTAGGACGTTGGCATA
Found at i:12976207 original size:39 final size:38
Alignment explanation
Indices: 12976164--12976306 Score: 115
Period size: 39 Copynumber: 3.7 Consensus size: 38
12976154 ACCGAAATTT
*
12976164 TTATTATAATTAATGCAATTATTATTTTTCGGTTAAACA
1 TTATTATAATTAATG-AATTATAATTTTTCGGTTAAACA
* * * * * ** *** *
12976203 TTATTTTATTTATTTGAATGATAATTATTATGTTCTGCT
1 TTATTATAATTA-ATGAATTATAATTTTTCGGTTAAACA
12976242 TTATTATAATTAATGTAATTATAATTTTTCGGTTAAACA
1 TTATTATAATTAATG-AATTATAATTTTTCGGTTAAACA
* * *
12976281 TTATTATATTTATTTGAATGATAATT
1 TTATTATAATTA-ATGAATTATAATT
12976307 ATTATGTTCG
Statistics
Matches: 75, Mismatches: 26, Indels: 6
0.70 0.24 0.06
Matches are distributed among these distances:
38 2 0.03
39 69 0.92
40 4 0.05
ACGTcount: A:0.34, C:0.05, G:0.08, T:0.53
Consensus pattern (38 bp):
TTATTATAATTAATGAATTATAATTTTTCGGTTAAACA
Found at i:12976253 original size:78 final size:78
Alignment explanation
Indices: 12976163--12976315 Score: 279
Period size: 78 Copynumber: 2.0 Consensus size: 78
12976153 TACCGAAATT
* *
12976163 TTTATTATAATTAATGCAATTATTATTTTTCGGTTAAACATTATTTTATTTATTTGAATGATAAT
1 TTTATTATAATTAATGCAATTATAATTTTTCGGTTAAACATTATTATATTTATTTGAATGATAAT
12976228 TATTATGTTCTGC
66 TATTATGTTCTGC
*
12976241 TTTATTATAATTAATGTAATTATAATTTTTCGGTTAAACATTATTATATTTATTTGAATGATAAT
1 TTTATTATAATTAATGCAATTATAATTTTTCGGTTAAACATTATTATATTTATTTGAATGATAAT
12976306 TATTATGTTC
66 TATTATGTTC
12976316 GGATTAATTT
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 72 1.00
ACGTcount: A:0.33, C:0.05, G:0.08, T:0.54
Consensus pattern (78 bp):
TTTATTATAATTAATGCAATTATAATTTTTCGGTTAAACATTATTATATTTATTTGAATGATAAT
TATTATGTTCTGC
Found at i:12976968 original size:22 final size:20
Alignment explanation
Indices: 12976930--12976969 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
12976920 TTGCGAGATA
*
12976930 AGCAATTGTATGTGAAGTTT
1 AGCAATTGTATGAGAAGTTT
12976950 AGCAATTGGTTATGAGAAGT
1 AGCAATT-G-TATGAGAAGT
12976970 CAATTTTCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 1 0.06
22 9 0.53
ACGTcount: A:0.33, C:0.05, G:0.28, T:0.35
Consensus pattern (20 bp):
AGCAATTGTATGAGAAGTTT
Found at i:12996546 original size:20 final size:20
Alignment explanation
Indices: 12996521--12996560 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
12996511 GTCGGACCTG
12996521 AAGTATTCGGAAGAGCTCTT
1 AAGTATTCGGAAGAGCTCTT
12996541 AAGTATTCGGAAGAGCTCTT
1 AAGTATTCGGAAGAGCTCTT
12996561 CTTGGGGCCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (20 bp):
AAGTATTCGGAAGAGCTCTT
Found at i:13002655 original size:30 final size:30
Alignment explanation
Indices: 13002598--13002657 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
13002588 TCCCGAGCCC
* *
13002598 AGGGGCAAAAGTGCAATTATGCAAAAGTTT
1 AGGGGCAAAAATGCAATTATACAAAAGTTT
* * *
13002628 AGGGGCAAAAATGTAATTTTACCAAAGTTT
1 AGGGGCAAAAATGCAATTATACAAAAGTTT
13002658 GTATTAAAGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.27
Consensus pattern (30 bp):
AGGGGCAAAAATGCAATTATACAAAAGTTT
Found at i:13005314 original size:42 final size:42
Alignment explanation
Indices: 13005259--13005378 Score: 123
Period size: 42 Copynumber: 2.9 Consensus size: 42
13005249 TACATGGGAC
* * **
13005259 CTCACATCAATGCCATATCCCAGATATGGTCTTATAGGAAAT
1 CTCATATCAATGCCATATCCCAGATATGGTCTTACACAAAAT
* ** * * ** *
13005301 CTCATTTTGATGCCATGTCCCAAACGTGGTATTACACAAAAT
1 CTCATATCAATGCCATATCCCAGATATGGTCTTACACAAAAT
*
13005343 CTCATATCAATTCCATATCCCAGATATGGTCTTACA
1 CTCATATCAATGCCATATCCCAGATATGGTCTTACA
13005379 TGATAACACA
Statistics
Matches: 57, Mismatches: 21, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
42 57 1.00
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.31
Consensus pattern (42 bp):
CTCATATCAATGCCATATCCCAGATATGGTCTTACACAAAAT
Found at i:13023711 original size:46 final size:46
Alignment explanation
Indices: 13023658--13023839 Score: 267
Period size: 46 Copynumber: 4.0 Consensus size: 46
13023648 ATATATACAA
* * **
13023658 ATCTCATACA-GATCTCACATTAGCCATTTAGCTTTACCACATATCC
1 ATCTCATACACG-TTTCGCATTAGCCATTCGGCTTTACCACATATCC
*
13023704 ATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATCC
1 ATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCACATATCC
* * *
13023750 ATCTCATACACGTTTCCCATTAGCCATTCGGCTTCACCTCATATCC
1 ATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCACATATCC
*
13023796 ATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
1 ATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCACATAT
13023840 ATACACTTCC
Statistics
Matches: 124, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
46 123 0.99
47 1 0.01
ACGTcount: A:0.25, C:0.32, G:0.09, T:0.34
Consensus pattern (46 bp):
ATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCACATATCC
Found at i:13023884 original size:47 final size:47
Alignment explanation
Indices: 13023813--13024238 Score: 692
Period size: 47 Copynumber: 9.1 Consensus size: 47
13023803 ACACATTTCG
* * * * * * *
13023813 CATTAGCCATTCGGCTTTACCACATATATACACT-TCCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATGCA-TGTTCACATTCATCA
* * * *
13023860 CATTGGCCATTCTGCCTTGTCACATATATGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
13023907 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
13023954 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
13024001 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
13024048 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
13024095 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
13024142 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
* * * **
13024189 CATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
13024236 CAT
1 CAT
13024239 AAAATCCTAA
Statistics
Matches: 360, Mismatches: 18, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
46 1 0.00
47 359 1.00
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
Found at i:13024729 original size:265 final size:265
Alignment explanation
Indices: 13024256--13024784 Score: 1049
Period size: 265 Copynumber: 2.0 Consensus size: 265
13024246 TAAATCAAAA
*
13024256 TATAAATTTTCATTTATTCACATCACAATTATCCAAATATACTTCACATACCACATATACTTTCA
1 TATAAATTTTCATGTATTCACATCACAATTATCCAAATATACTTCACATACCACATATACTTTCA
13024321 TGTATACACTTTGTCTTGGTTGAATCTACATCTATCATTTTCCAATGAATAATTCAATTTCAAGC
66 TGTATACACTTTGTCTTGGTTGAATCTACATCTATCATTTTCCAATGAATAATTCAATTTCAAGC
13024386 CATACTATCATTTCATATTCAAATACTTATAAACTTACAATTTCACAAATTTTAATATCAAAGAT
131 CATACTATCATTTCATATTCAAATACTTATAAACTTACAATTTCACAAATTTTAATATCAAAGAT
13024451 CCATCTAACACTCATATATCATTTTATAATATCACAATTTAGAATTCACGTATGGGTTTAATCAA
196 CCATCTAACACTCATATATCATTTTATAATATCACAATTTAGAATTCACGTATGGGTTTAATCAA
13024516 TAGCC
261 TAGCC
13024521 TATAAATTTTCATGTATTCACATCACAATTATCCAAATATACTTCACATACCACATATACTTTCA
1 TATAAATTTTCATGTATTCACATCACAATTATCCAAATATACTTCACATACCACATATACTTTCA
13024586 TGTATACACTTTGTCTTGGTTGAATCTACATCTATCATTTTCCAATGAATAATTCAATTTCAAGC
66 TGTATACACTTTGTCTTGGTTGAATCTACATCTATCATTTTCCAATGAATAATTCAATTTCAAGC
13024651 CATACTATCATTTCATATTCAAATACTTATAAACTTACAATTTCACAAATTTTAATATCAAAGAT
131 CATACTATCATTTCATATTCAAATACTTATAAACTTACAATTTCACAAATTTTAATATCAAAGAT
13024716 CCATCTAACACTCATATATCATTTTATAATATCACAATTTAGAATTCACGTATGGGTTTAATCAA
196 CCATCTAACACTCATATATCATTTTATAATATCACAATTTAGAATTCACGTATGGGTTTAATCAA
13024781 TAGC
261 TAGC
13024785 TTATGAGCAA
Statistics
Matches: 263, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
265 263 1.00
ACGTcount: A:0.37, C:0.19, G:0.05, T:0.38
Consensus pattern (265 bp):
TATAAATTTTCATGTATTCACATCACAATTATCCAAATATACTTCACATACCACATATACTTTCA
TGTATACACTTTGTCTTGGTTGAATCTACATCTATCATTTTCCAATGAATAATTCAATTTCAAGC
CATACTATCATTTCATATTCAAATACTTATAAACTTACAATTTCACAAATTTTAATATCAAAGAT
CCATCTAACACTCATATATCATTTTATAATATCACAATTTAGAATTCACGTATGGGTTTAATCAA
TAGCC
Found at i:13028346 original size:28 final size:28
Alignment explanation
Indices: 13028315--13028471 Score: 127
Period size: 28 Copynumber: 5.5 Consensus size: 28
13028305 CTGACTGATT
* *
13028315 TCGCACACATAGCGCTTGATTAAAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
* * *
13028343 TCGCACACATAGTGCCTCAATTACCA-ATC
1 TCGCACACATAGTG-CTCGATTA-AAGAAC
*
13028372 TCGCACACATAGTGCTCGATTGAAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
* * ** *
13028400 TCGCACACATAGTGCCTCAACTACTGATC
1 TCGCACACATAGTG-CTCGATTAAAGAAC
* * **
13028429 TGGCACACATAGTGCTCGGTTGGAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
* *
13028457 TTGCACACACAGTGC
1 TCGCACACATAGTGC
13028472 CTCATAATTC
Statistics
Matches: 100, Mismatches: 25, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
27 1 0.01
28 55 0.55
29 43 0.43
30 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (28 bp):
TCGCACACATAGTGCTCGATTAAAGAAC
Found at i:13028375 original size:29 final size:29
Alignment explanation
Indices: 13028342--13028443 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
13028332 GATTAAAGAA
13028342 CTCGCACACATAGTGCCTCAATTACCAAT
1 CTCGCACACATAGTGCCTCAATTACCAAT
* **
13028371 CTCGCACACATAGTG-CTCGATTGAAGAA-
1 CTCGCACACATAGTGCCTCAATT-ACCAAT
* **
13028399 CTCGCACACATAGTGCCTCAACTACTGAT
1 CTCGCACACATAGTGCCTCAATTACCAAT
*
13028428 CTGGCACACATAGTGC
1 CTCGCACACATAGTGC
13028444 TCGGTTGGAG
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
28 23 0.38
29 38 0.62
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (29 bp):
CTCGCACACATAGTGCCTCAATTACCAAT
Found at i:13028382 original size:57 final size:57
Alignment explanation
Indices: 13028315--13028475 Score: 223
Period size: 57 Copynumber: 2.8 Consensus size: 57
13028305 CTGACTGATT
* * * *
13028315 TCGCACACATAGCGCTTGATTAAAGAACTCGCACACATAGTGCCTCAATTACCAATC
1 TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATC
**
13028372 TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACTGATC
1 TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATC
* * * * *
13028429 TGGCACACATAGTGCTCGGTTGGAGAACTTGCACACACAGTGCCTCA
1 TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCA
13028476 TAATTCCAGC
Statistics
Matches: 93, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 93 1.00
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (57 bp):
TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATC
Found at i:13028556 original size:40 final size:40
Alignment explanation
Indices: 13028503--13028717 Score: 349
Period size: 40 Copynumber: 5.4 Consensus size: 40
13028493 CCTTCGAGGT
* * * *
13028503 TTAGCCCGAATATATCACTAACATGAATGCTCTTTGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
13028543 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
*
13028583 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
*
13028623 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
*
13028663 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
**
13028703 TTAGCTTGGATATAT
1 TTAGCCCGGATATAT
13028718 ATAACTCTCA
Statistics
Matches: 164, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 164 1.00
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (40 bp):
TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
Found at i:13028876 original size:18 final size:18
Alignment explanation
Indices: 13028853--13028908 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
13028843 AAAGATCACA
13028853 TTTATAGTCATAACACTC
1 TTTATAGTCATAACACTC
* *
13028871 TTTATA--CAAAGATCAC-A
1 TTTATAGTCATA-A-CACTC
13028888 TTTATAGTCATAACACTC
1 TTTATAGTCATAACACTC
13028906 TTT
1 TTT
13028909 CAAAATTGCA
Statistics
Matches: 29, Mismatches: 4, Indels: 10
0.67 0.09 0.23
Matches are distributed among these distances:
16 3 0.10
17 10 0.34
18 13 0.45
19 3 0.10
ACGTcount: A:0.36, C:0.20, G:0.05, T:0.39
Consensus pattern (18 bp):
TTTATAGTCATAACACTC
Found at i:13028886 original size:35 final size:35
Alignment explanation
Indices: 13028840--13028908 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
13028830 CATAGCCACT
13028840 TACAAAGATCACATTTATAGTCATAACACTCTTTA
1 TACAAAGATCACATTTATAGTCATAACACTCTTTA
13028875 TACAAAGATCACATTTATAGTCATAACACTCTTT
1 TACAAAGATCACATTTATAGTCATAACACTCTTT
13028909 CAAAATTGCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.39, C:0.20, G:0.06, T:0.35
Consensus pattern (35 bp):
TACAAAGATCACATTTATAGTCATAACACTCTTTA
Found at i:13030286 original size:46 final size:46
Alignment explanation
Indices: 13030233--13030415 Score: 267
Period size: 46 Copynumber: 4.0 Consensus size: 46
13030223 TATATATACA
* * * *
13030233 CATCTCATACAAATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
*
13030279 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
13030325 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
** **
13030371 CATCTCATACTTATTTCGCATTAGCCATTCAACTTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
13030416 ATACACTTCC
Statistics
Matches: 125, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 125 1.00
ACGTcount: A:0.26, C:0.31, G:0.08, T:0.35
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:13030460 original size:47 final size:46
Alignment explanation
Indices: 13030389--13030532 Score: 155
Period size: 47 Copynumber: 3.1 Consensus size: 46
13030379 ACTTATTTCG
* * * * *
13030389 CATTAGCCATTCAACTTTACCACATATATACACTTCCACGTTCATCA
1 CATTGGCCATTCGACCTTATCACATATATACACTT-CACATTCATCA
* * *
13030436 CATTGGCCATTCTG-CCTTGTCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTC-GACCTTATCACATATATACA-CTTCACATTCATCA
* *
13030483 CATTTGCCATTCGACCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGACCTTATCACATATATACAC-TTCACATTCATCA
13030530 CAT
1 CAT
13030533 AAAATCCTAA
Statistics
Matches: 80, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
46 1 0.01
47 77 0.96
48 2 0.03
ACGTcount: A:0.28, C:0.30, G:0.07, T:0.35
Consensus pattern (46 bp):
CATTGGCCATTCGACCTTATCACATATATACACTTCACATTCATCA
Found at i:13030533 original size:25 final size:25
Alignment explanation
Indices: 13030455--13030533 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
13030445 TTCTGCCTTG
**
13030455 TCACATATATGCATGTTCACATTCA
1 TCACATATATGCACATTCACATTCA
*
13030480 TCACAT-T-TGC-CATTCGACCTT-A
1 TCACATATATGCACATTC-ACATTCA
* *
13030502 TCTCATATATACACATTCACATTCA
1 TCACATATATGCACATTCACATTCA
13030527 TCACATA
1 TCACATA
13030534 AAATCCTAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
22 9 0.21
23 8 0.19
24 7 0.17
25 18 0.43
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.35
Consensus pattern (25 bp):
TCACATATATGCACATTCACATTCA
Found at i:13034969 original size:30 final size:30
Alignment explanation
Indices: 13034923--13034983 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
13034913 TTCCTGAGCC
*
13034923 TAGGGGTAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
* * * *
13034953 TAGGGGAAAAATTGTAATTTTGCTAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
13034983 T
1 T
13034984 GAGTTAAGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.39, C:0.03, G:0.25, T:0.33
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAAATATGCAAAAGTT
Found at i:13038300 original size:44 final size:44
Alignment explanation
Indices: 13038250--13038334 Score: 134
Period size: 44 Copynumber: 1.9 Consensus size: 44
13038240 CCAAAACATG
* * *
13038250 TGTCACATATATCACGAACTCAGACCGCAACTCACTGAGTTGGA
1 TGTCACATAAATCACGAACTCAGACCACAACTCAATGAGTTGGA
*
13038294 TGTCACATAAATCATGAACTCAGACCACAACTCAATGAGTT
1 TGTCACATAAATCACGAACTCAGACCACAACTCAATGAGTT
13038335 CAGATTACAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (44 bp):
TGTCACATAAATCACGAACTCAGACCACAACTCAATGAGTTGGA
Found at i:13047074 original size:16 final size:16
Alignment explanation
Indices: 13047053--13047084 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
13047043 TGTTTTGATT
13047053 AGGGAAAGATGCCATA
1 AGGGAAAGATGCCATA
13047069 AGGGAAAGATGCCATA
1 AGGGAAAGATGCCATA
13047085 GGATTAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.31, T:0.12
Consensus pattern (16 bp):
AGGGAAAGATGCCATA
Found at i:13047804 original size:27 final size:27
Alignment explanation
Indices: 13047760--13047961 Score: 208
Period size: 27 Copynumber: 7.5 Consensus size: 27
13047750 GACTCCTAAT
*
13047760 TGGTAAAATGGCTGA-TTTGCCCTTATG
1 TGGTAAAATGACT-ATTTTGCCCTTATG
*
13047787 TGGTAAAATGACTAATTTGCCCTTATG
1 TGGTAAAATGACTATTTTGCCCTTATG
* * * *
13047814 AGGTACAATGATTATTTTACCCTTATG
1 TGGTAAAATGACTATTTTGCCCTTATG
* *
13047841 AGGTAAAATGACTATTTTTCCCTTATG
1 TGGTAAAATGACTATTTTGCCCTTATG
* *
13047868 AGGTAAAATGACTGTTTTGCCCTTATG
1 TGGTAAAATGACTATTTTGCCCTTATG
* * * * *
13047895 TTGTAAAATGATTGTTTTACCCTTATA
1 TGGTAAAATGACTATTTTGCCCTTATG
* * **
13047922 AGGTAAAATGACTATTTTTCCCTTACA
1 TGGTAAAATGACTATTTTGCCCTTATG
*
13047949 TGGTAAGATGACT
1 TGGTAAAATGACT
13047962 GATATGCCCC
Statistics
Matches: 150, Mismatches: 24, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
26 1 0.01
27 149 0.99
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (27 bp):
TGGTAAAATGACTATTTTGCCCTTATG
Found at i:13047954 original size:81 final size:81
Alignment explanation
Indices: 13047761--13047977 Score: 267
Period size: 81 Copynumber: 2.7 Consensus size: 81
13047751 ACTCCTAATT
* * ** * * *
13047761 GGTAAAATGGCTGA-TTTGCCCTTATGTGGTAAAATGACTAATTTGCCCTTATGAGGTACAATGA
1 GGTAAAATGACT-ATTTTTCCCTTACATGGTAAAATGACTGATTTGCCCTTATGTGGTAAAATGA
*
13047825 TTATTTTACCCTTATGA
65 TTATTTTACCCTTATAA
* * *
13047842 GGTAAAATGACTATTTTTCCCTTATGA-GGTAAAATGACTGTTTTGCCCTTATGTTGTAAAATGA
1 GGTAAAATGACTATTTTTCCCTTA-CATGGTAAAATGACTGATTTGCCCTTATGTGGTAAAATGA
*
13047906 TTGTTTTACCCTTATAA
65 TTATTTTACCCTTATAA
* * *
13047923 GGTAAAATGACTATTTTTCCCTTACATGGTAAGATGACTGATATGCCCCTATGTG
1 GGTAAAATGACTATTTTTCCCTTACATGGTAAAATGACTGATTTGCCCTTATGTG
13047978 ATGTATGTTT
Statistics
Matches: 116, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
80 2 0.02
81 114 0.98
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.38
Consensus pattern (81 bp):
GGTAAAATGACTATTTTTCCCTTACATGGTAAAATGACTGATTTGCCCTTATGTGGTAAAATGAT
TATTTTACCCTTATAA
Found at i:13059512 original size:47 final size:47
Alignment explanation
Indices: 13059424--13059513 Score: 117
Period size: 47 Copynumber: 1.9 Consensus size: 47
13059414 ATATGAATGG
* *
13059424 CTTAAAGACATCAGTAGGTCCACAGTCGTATTGGGCAACCCGTATGA
1 CTTAAAGACATCAGTAAGTCCACAGTCGTATTAGGCAACCCGTATGA
* * * * *
13059471 CTTAAAGCCATCAGTAAGTCTACAGTTGTCTTAGGCGACCCGT
1 CTTAAAGACATCAGTAAGTCCACAGTCGTATTAGGCAACCCGT
13059514 GCAACCTTAG
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
47 36 1.00
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (47 bp):
CTTAAAGACATCAGTAAGTCCACAGTCGTATTAGGCAACCCGTATGA
Found at i:13059759 original size:27 final size:27
Alignment explanation
Indices: 13059729--13059872 Score: 103
Period size: 27 Copynumber: 5.3 Consensus size: 27
13059719 GTTTTATAGA
13059729 CATTTTACCTT-TCAGGGATATTACC-GT
1 CATTTTACCTTAT-AGGGATATT-CCAGT
*
13059756 CATTTTACCTTATAGGGGTATTCCAGT
1 CATTTTACCTTATAGGGATATTCCAGT
* * * * * *
13059783 CATTTTTCCCTATGGGGGTATTTCGGT
1 CATTTTACCTTATAGGGATATTCCAGT
* * * **
13059810 CATTTTACCCTATGGGGGTATTTTAGT
1 CATTTTACCTTATAGGGATATTCCAGT
* * * *
13059837 CATTTTACCTTATGGGGGTATTTCGGT
1 CATTTTACCTTATAGGGATATTCCAGT
*
13059864 TATTTTACC
1 CATTTTACC
13059873 CTATGGGGGT
Statistics
Matches: 102, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
26 2 0.02
27 99 0.97
28 1 0.01
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.44
Consensus pattern (27 bp):
CATTTTACCTTATAGGGATATTCCAGT
Found at i:13059787 original size:54 final size:53
Alignment explanation
Indices: 13059700--13059885 Score: 147
Period size: 54 Copynumber: 3.5 Consensus size: 53
13059690 GGGCAAATTA
* * * *
13059700 GTCATTTTACCTCACAGGGGTTTTATAGACATTTTACCTTTCAGGGATATTACC
1 GTCATTTTACCTTATAGGGGTATTATAGTCATTTTACCTTT-AGGGATATTACC
** * * * * * *
13059754 GTCATTTTACCTTATAGGGGTATTCCAGTCATTTTTCCCTATGGGGGTATTTCG
1 GTCATTTTACCTTATAGGGGTATTATAGTCA-TTTTACCTTTAGGGATATTACC
* * * * * * *
13059808 GTCATTTTACCCTATGGGGGTATTTTAGTCATTTTACCTTATGGGGGTATTTCG
1 GTCATTTTACCTTATAGGGGTATTATAGTCATTTTACCTT-TAGGGATATTACC
* * *
13059862 GTTATTTTACCCTATGGGGGTATT
1 GTCATTTTACCTTATAGGGGTATT
13059886 TTGGTTACCA
Statistics
Matches: 111, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
53 7 0.06
54 96 0.86
55 8 0.07
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.42
Consensus pattern (53 bp):
GTCATTTTACCTTATAGGGGTATTATAGTCATTTTACCTTTAGGGATATTACC
Found at i:13059886 original size:54 final size:54
Alignment explanation
Indices: 13059754--13059887 Score: 205
Period size: 54 Copynumber: 2.5 Consensus size: 54
13059744 GGATATTACC
* * ** *
13059754 GTCATTTTACCTTATAGGGGTATTCCAGTCATTTTTCCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTTAGTCATTTTACCCTATGGGGGTATTTCG
*
13059808 GTCATTTTACCCTATGGGGGTATTTTAGTCATTTTACCTTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTTAGTCATTTTACCCTATGGGGGTATTTCG
*
13059862 GTTATTTTACCCTATGGGGGTATTTT
1 GTCATTTTACCCTATGGGGGTATTTT
13059888 GGTTACCATT
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 73 1.00
ACGTcount: A:0.16, C:0.16, G:0.23, T:0.45
Consensus pattern (54 bp):
GTCATTTTACCCTATGGGGGTATTTTAGTCATTTTACCCTATGGGGGTATTTCG
Found at i:13059892 original size:27 final size:27
Alignment explanation
Indices: 13059754--13059886 Score: 185
Period size: 27 Copynumber: 4.9 Consensus size: 27
13059744 GGATATTACC
* * * *
13059754 GTCATTTTACCTTATAGGGGTATTCCA
1 GTCATTTTACCCTATGGGGGTATTTCG
*
13059781 GTCATTTTTCCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
**
13059808 GTCATTTTACCCTATGGGGGTATTTTA
1 GTCATTTTACCCTATGGGGGTATTTCG
*
13059835 GTCATTTTACCTTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
13059862 GTTATTTTACCCTATGGGGGTATTT
1 GTCATTTTACCCTATGGGGGTATTT
13059887 TGGTTACCAT
Statistics
Matches: 93, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 93 1.00
ACGTcount: A:0.17, C:0.16, G:0.23, T:0.44
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Done.