Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 131 of 322
Found at i:42823209 original size:41 final size:41
Alignment explanation
Indices: 42823164--42823246 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
42823154 TTGTAATTAG
42823164 TTTTTAGAGGTTTGCTATCAGTGTATGAGAAGAGGCATTCC
1 TTTTTAGAGGTTTGCTATCAGTGTATGAGAAGAGGCATTCC
42823205 TTTTTAGAGGTTTGCTATCAGTGTATGAGAAGAGGCATTCC
1 TTTTTAGAGGTTTGCTATCAGTGTATGAGAAGAGGCATTCC
42823246 T
1 T
42823247 GCTAACAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.24, C:0.12, G:0.27, T:0.37
Consensus pattern (41 bp):
TTTTTAGAGGTTTGCTATCAGTGTATGAGAAGAGGCATTCC
Found at i:42835821 original size:25 final size:25
Alignment explanation
Indices: 42835783--42835837 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
42835773 ACCATTCTAT
*
42835783 TGAAATGTCTAATTGCA-TGTTCGAC
1 TGAAATGTCCAATTG-ATTGTTCGAC
* *
42835808 TGAATTGTCCAATTGATTGTTTGAC
1 TGAAATGTCCAATTGATTGTTCGAC
42835833 TGAAA
1 TGAAA
42835838 GGCACCATGT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
24 1 0.04
25 24 0.96
ACGTcount: A:0.29, C:0.13, G:0.20, T:0.38
Consensus pattern (25 bp):
TGAAATGTCCAATTGATTGTTCGAC
Found at i:42839642 original size:25 final size:25
Alignment explanation
Indices: 42839621--42839707 Score: 77
Period size: 25 Copynumber: 3.5 Consensus size: 25
42839611 CATATTGATC
*
42839621 GTTCAACTGAAAT-TCCTGATTGACT
1 GTTCAACTAAAATGTCC-GATTGACT
* *
42839646 GTTCAACTAAAATGTCCGATTAAGT
1 GTTCAACTAAAATGTCCGATTGACT
* * * *
42839671 GTTCGATTGATATGTCCGATTGACT
1 GTTCAACTAAAATGTCCGATTGACT
**
42839696 GTTTGACTAAAA
1 GTTCAACTAAAA
42839708 GGCACTGGTG
Statistics
Matches: 48, Mismatches: 13, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
25 45 0.94
26 3 0.06
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (25 bp):
GTTCAACTAAAATGTCCGATTGACT
Found at i:42839866 original size:24 final size:24
Alignment explanation
Indices: 42839837--42839882 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
42839827 TTGATTGACC
42839837 CATATGACTGTAAAGTACATATAG
1 CATATGACTGTAAAGTACATATAG
42839861 CATATGACTGTAAAGTACATAT
1 CATATGACTGTAAAGTACATAT
42839883 GGTGTGTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.30
Consensus pattern (24 bp):
CATATGACTGTAAAGTACATATAG
Found at i:42845491 original size:47 final size:47
Alignment explanation
Indices: 42845422--42845834 Score: 727
Period size: 47 Copynumber: 8.7 Consensus size: 47
42845412 TTCGGATTCT
42845422 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
42845469 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
42845518 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
42845565 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
42845612 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
42845659 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
42845706 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
42845753 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
42845800 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
42845835 TCCCGAAGGG
Statistics
Matches: 352, Mismatches: 12, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
47 306 0.87
49 46 0.13
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:42863282 original size:43 final size:43
Alignment explanation
Indices: 42863225--42863307 Score: 166
Period size: 43 Copynumber: 1.9 Consensus size: 43
42863215 CGTACATACT
42863225 TGTACCATCTAGTACTAATCTCTTTCTCTAACTAGTCATTACA
1 TGTACCATCTAGTACTAATCTCTTTCTCTAACTAGTCATTACA
42863268 TGTACCATCTAGTACTAATCTCTTTCTCTAACTAGTCATT
1 TGTACCATCTAGTACTAATCTCTTTCTCTAACTAGTCATT
42863308 CTTTTATCCG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.27, C:0.25, G:0.07, T:0.41
Consensus pattern (43 bp):
TGTACCATCTAGTACTAATCTCTTTCTCTAACTAGTCATTACA
Found at i:42869550 original size:47 final size:47
Alignment explanation
Indices: 42869491--42869626 Score: 182
Period size: 47 Copynumber: 2.9 Consensus size: 47
42869481 TAGTATGGCG
*
42869491 TAATGACCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * *
42869538 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGTC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * * * * *
42869585 GAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATA
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
42869627 TGTCCCGAAG
Statistics
Matches: 78, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 78 1.00
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
Found at i:42869803 original size:37 final size:37
Alignment explanation
Indices: 42869747--42869825 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
42869737 TCGAGCTCTA
* * *
42869747 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
42869784 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
42869821 AAGAC
1 AAGAC
42869826 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:42870348 original size:106 final size:106
Alignment explanation
Indices: 42870199--42870405 Score: 369
Period size: 106 Copynumber: 2.0 Consensus size: 106
42870189 TCGGGGATCA
*
42870199 TCAGAAACTAGTCACACTATCACTATCCATTGTTTGGTACTGCTACGTTTTGGATTATCTTATGG
1 TCAGAAACTAGTCACACTATCACTATCCACTGTTTGGTACTGCTACGTTTTGGATTATCTTATGG
*
42870264 CATGTATAGAATAGACTAGTGGCGGAAGAATATTTTTGGTG
66 CATGTATAAAATAGACTAGTGGCGGAAGAATATTTTTGGTG
* * *
42870305 TCAGCAACTAGTCACACTATCACTATCCACTGTTTGGTTCTGCTATGTTTTGGATTATCTTATGG
1 TCAGAAACTAGTCACACTATCACTATCCACTGTTTGGTACTGCTACGTTTTGGATTATCTTATGG
42870370 CATGTATAAAATAGACTAGTGGCGGAAGAATATTTT
66 CATGTATAAAATAGACTAGTGGCGGAAGAATATTTT
42870406 GGTTAATGTA
Statistics
Matches: 96, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
106 96 1.00
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (106 bp):
TCAGAAACTAGTCACACTATCACTATCCACTGTTTGGTACTGCTACGTTTTGGATTATCTTATGG
CATGTATAAAATAGACTAGTGGCGGAAGAATATTTTTGGTG
Found at i:42872921 original size:40 final size:40
Alignment explanation
Indices: 42872825--42873004 Score: 231
Period size: 40 Copynumber: 4.5 Consensus size: 40
42872815 TATTCGGATG
42872825 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAGTTGCT
*
42872868 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTG-CT
* **
42872908 ATATCCGGGCTAAGTCCCGAAGGCAATCATGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTG-CT
* *
42872948 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
*
42872988 ATATCC-GGCTAAATCCC
1 ATATCCGGGCTAAGTCCC
42873005 AAAGATACTT
Statistics
Matches: 123, Mismatches: 12, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
39 11 0.09
40 79 0.64
41 2 0.02
43 31 0.25
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
Found at i:42874936 original size:30 final size:31
Alignment explanation
Indices: 42874861--42874943 Score: 116
Period size: 30 Copynumber: 2.7 Consensus size: 31
42874851 TCAACCTCAA
*
42874861 CATAT-ACTGGGCCGAAGCCATTGCATTATT
1 CATATCACTGGGCCGAAGCCTTTGCATTATT
* * *
42874891 CATGTCACCGGGCCGAAGCCTTTTCATTA-T
1 CATATCACTGGGCCGAAGCCTTTGCATTATT
42874921 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
42874944 ACTGTAACCG
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
30 26 0.57
31 20 0.43
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTGCATTATT
Found at i:42875184 original size:24 final size:25
Alignment explanation
Indices: 42875157--42875234 Score: 79
Period size: 25 Copynumber: 3.1 Consensus size: 25
42875147 GCCTAGCCTC
*
42875157 TTTTAAT-AACT-GTGGCGAAGCCCT
1 TTTTAATAAACTAG-GGCAAAGCCCT
*
42875181 TTTTGATAAACTAGGGCAAAGCCCT
1 TTTTAATAAACTAGGGCAAAGCCCT
* * *
42875206 TTTCAGTAAACTGGGGCAAAAGCCCT
1 TTTTAATAAACTAGGGC-AAAGCCCT
42875232 TTT
1 TTT
42875235 GCACTTCCTC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
24 6 0.13
25 27 0.60
26 12 0.27
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (25 bp):
TTTTAATAAACTAGGGCAAAGCCCT
Found at i:42875313 original size:11 final size:11
Alignment explanation
Indices: 42875282--42875319 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
42875272 AAATGAATAC
42875282 ATCATGTGCAT
1 ATCATGTGCAT
42875293 ATCAT-T-CAT
1 ATCATGTGCAT
42875302 ATCATGTGCAT
1 ATCATGTGCAT
42875313 ATCATGT
1 ATCATGT
42875320 CCAATCGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 8 0.32
10 2 0.08
11 15 0.60
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.39
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:42877271 original size:63 final size:63
Alignment explanation
Indices: 42877193--42878011 Score: 1629
Period size: 63 Copynumber: 13.0 Consensus size: 63
42877183 CGTTAAATGA
*
42877193 ATACCATGTTATATGCTTTTGATTTTGTATAAGTGTGTAAGAGATTAAGGTTGACCAAAGCTT
1 ATACCATGTTATATGCTTTTGATTCTGTATAAGTGTGTAAGAGATTAAGGTTGACCAAAGCTT
42877256 ATACCATGTTATATGCTTTTGATTCTGTATAAGTGTGTAAGAGATTAAGGTTGACCAAAGCTT
1 ATACCATGTTATATGCTTTTGATTCTGTATAAGTGTGTAAGAGATTAAGGTTGACCAAAGCTT
42877319 ATACCATGTTATATGCTTTTGATTCTGTATAAGTGTGTAAGAGATTAAGGTTGACCAAAGCTT
1 ATACCATGTTATATGCTTTTGATTCTGTATAAGTGTGTAAGAGATTAAGGTTGACCAAAGCTT
42877382 ATACCATGTTATATGCTTTTGATTCTGTATAAGTGTGTAAGAGATTAAGGTTGACCAAAGCTT
1 ATACCATGTTATATGCTTTTGATTCTGTATAAGTGTGTAAGAGATTAAGGTTGACCAAAGCTT
42877445 ATACCATGTTATATGCTTTTGATTCTGTATAAGTGTGTAAGAGATTAAGGTTGACCAAAGCTT
1 ATACCATGTTATATGCTTTTGATTCTGTATAAGTGTGTAAGAGATTAAGGTTGACCAAAGCTT
42877508 ATACCATGTTATATGCTTTTGATTCTGTATAAGTGTGTAAGAGATTAAGGTTGACCAAAGCTT
1 ATACCATGTTATATGCTTTTGATTCTGTATAAGTGTGTAAGAGATTAAGGTTGACCAAAGCTT
42877571 ATACCATGTTATATGCTTTTGATTCTGTATAAGTGTGTAAGAGATTAAGGTTGACCAAAGCTT
1 ATACCATGTTATATGCTTTTGATTCTGTATAAGTGTGTAAGAGATTAAGGTTGACCAAAGCTT
42877634 ATACCATGTTATATGCTTTTGATTCTGTATAAGTGTGTAAGAGATTAAGGTTGACCAAAGCTT
1 ATACCATGTTATATGCTTTTGATTCTGTATAAGTGTGTAAGAGATTAAGGTTGACCAAAGCTT
42877697 ATACCATGTTATATGCTTTTGATTCTGTATAAGTGTGTAAGAGATTAAGGTTGACCAAAGCTT
1 ATACCATGTTATATGCTTTTGATTCTGTATAAGTGTGTAAGAGATTAAGGTTGACCAAAGCTT
42877760 ATACCATGTTATATGCTTTTGATTCTGTATAAGTGTGTAAGAGATTAAGGTTGACCAAAGCTT
1 ATACCATGTTATATGCTTTTGATTCTGTATAAGTGTGTAAGAGATTAAGGTTGACCAAAGCTT
42877823 ATACCATGTTATATGCTTTTGATTCTGTATAAGTGTGTAAGAGATTAAGGTTGACCAAAGCTT
1 ATACCATGTTATATGCTTTTGATTCTGTATAAGTGTGTAAGAGATTAAGGTTGACCAAAGCTT
42877886 ATACCATGTTATATGCTTTTGATTCTGTATAAGTGTGTAAGAGATTAAGGTTGACCAAAGCTT
1 ATACCATGTTATATGCTTTTGATTCTGTATAAGTGTGTAAGAGATTAAGGTTGACCAAAGCTT
42877949 ATACCATGTTATATGCTTTTGATTCTGTATAAGTGTGTAAGAGATTAAGGTTGACCAAAGCTT
1 ATACCATGTTATATGCTTTTGATTCTGTATAAGTGTGTAAGAGATTAAGGTTGACCAAAGCTT
42878012 GGAAAATAGC
Statistics
Matches: 755, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 755 1.00
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (63 bp):
ATACCATGTTATATGCTTTTGATTCTGTATAAGTGTGTAAGAGATTAAGGTTGACCAAAGCTT
Found at i:42880031 original size:30 final size:30
Alignment explanation
Indices: 42879997--42880057 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
42879987 TTCCCGAGCC
*
42879997 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGAAAAAGTT
* * *
42880027 TAGGGGCAAAATTGTAATTTTGAAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGAAAAAGTT
42880057 T
1 T
42880058 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.41, C:0.05, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGAAAAAGTT
Found at i:42880887 original size:64 final size:64
Alignment explanation
Indices: 42880790--42880973 Score: 176
Period size: 67 Copynumber: 2.8 Consensus size: 64
42880780 AGACATTATG
* * * * * * *
42880790 ATGTAGCTAGGTCGTATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTTCCAGGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* *
42880854 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGTAGGACACCATGTAGACAAGAGAGCTATGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTTCCAGGTGT---ACACCATGTAGACAAGAGAGCTACGAGAT
42880919 AA
63 AA
* * * * *
42880921 AT-TGGCTAGGTCACATGGGTGG-TACTGAGTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTTCCAG-GTGTACACCATGTAG-ACAAGAGAGC
42880974 CGAACTATAT
Statistics
Matches: 100, Mismatches: 15, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
62 1 0.01
63 18 0.18
64 27 0.27
65 3 0.03
66 21 0.21
67 30 0.30
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.25
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTTCCAGGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:42888403 original size:50 final size:48
Alignment explanation
Indices: 42888242--42888417 Score: 173
Period size: 49 Copynumber: 3.6 Consensus size: 48
42888232 AGAAATGCTA
* *
42888242 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCATC-CATCAAGT--CG
1 ATGCCATGT-CCAGACATGGTCTTACACTGGCTC-TCACATCTAGTGCCG
** * *
42888289 ATGCCATGTCTCAGACAAAGTCTTACACTGGCTATCGAAAT-T-GATGCCG
1 ATGCCATGTC-CAGACATGGTCTTACACTGGCTCTC-ACATCTAG-TGCCG
*
42888338 ACGCCATGTACCAGACATGGTCTTACACTGGCTCTCACATCTACGTGCCG
1 ATGCCATGT-CCAGACATGGTCTTACACTGGCTCTCACATCTA-GTGCCG
*
42888388 ATGTCATGTGCCAGACATGGTCTTACACTG
1 ATGCCATGT-CCAGACATGGTCTTACACTG
42888418 ACACATCTCA
Statistics
Matches: 105, Mismatches: 14, Indels: 17
0.77 0.10 0.12
Matches are distributed among these distances:
46 4 0.04
47 29 0.28
48 5 0.05
49 33 0.31
50 33 0.31
51 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (48 bp):
ATGCCATGTCCAGACATGGTCTTACACTGGCTCTCACATCTAGTGCCG
Found at i:42888546 original size:46 final size:48
Alignment explanation
Indices: 42888490--42888610 Score: 144
Period size: 46 Copynumber: 2.6 Consensus size: 48
42888480 AGAGCTAGTT
*
42888490 TAAG-ACATGTCTGGAACATGCATCGACCT-CGAGATG-TAAGTCAGTG
1 TAAGAACATGTCTGGAACATGCATCGACCTACGAGATGAT-AGTCAATG
*
42888536 TAA-AACATGTCTGGAACATGCATCG-GCTACGAGATGATAGTCAATG
1 TAAGAACATGTCTGGAACATGCATCGACCTACGAGATGATAGTCAATG
* * *
42888582 TAAGACCGTGTCTGGGACATGGCATCGAC
1 TAAGAACATGTCTGGAACAT-GCATCGAC
42888611 TTGAAATATG
Statistics
Matches: 63, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
45 2 0.03
46 41 0.65
47 14 0.22
48 6 0.10
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (48 bp):
TAAGAACATGTCTGGAACATGCATCGACCTACGAGATGATAGTCAATG
Found at i:42891297 original size:2 final size:2
Alignment explanation
Indices: 42891290--42891320 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
42891280 AAATCAGATA
*
42891290 AG AG AG AG AA AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
42891321 AAAAGATGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (2 bp):
AG
Found at i:42907904 original size:29 final size:29
Alignment explanation
Indices: 42907869--42907942 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
42907859 GTTGTGAGAT
* *
42907869 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
42907898 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
42907927 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
42907943 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:42920780 original size:10 final size:10
Alignment explanation
Indices: 42920767--42920791 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
42920757 ATATGTGTAA
42920767 AAATGTGAAT
1 AAATGTGAAT
42920777 AAATGTGAAT
1 AAATGTGAAT
42920787 AAATG
1 AAATG
42920792 AAAAATGTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.20, T:0.28
Consensus pattern (10 bp):
AAATGTGAAT
Found at i:42927580 original size:14 final size:14
Alignment explanation
Indices: 42927561--42927591 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
42927551 TAATTGATTT
42927561 TTTAATTAAATAAA
1 TTTAATTAAATAAA
*
42927575 TTTAATTAATTAAA
1 TTTAATTAAATAAA
42927589 TTT
1 TTT
42927592 TCTAAATTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TTTAATTAAATAAA
Found at i:42928074 original size:3 final size:3
Alignment explanation
Indices: 42928066--42928164 Score: 134
Period size: 3 Copynumber: 33.7 Consensus size: 3
42928056 GTAAGTCCAT
*
42928066 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTT TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
*
42928114 TTC TTC TTC TTC TTC TTC TTC TT- TATC TGTC TAC -TC TTC -TC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC T-TC T-TC TTC TTC TTC TTC TTC
42928158 -TC TTC TT
1 TTC TTC TT
42928165 TGATGGTAAC
Statistics
Matches: 86, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
2 6 0.07
3 76 0.88
4 4 0.05
ACGTcount: A:0.02, C:0.31, G:0.01, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:42932427 original size:5 final size:5
Alignment explanation
Indices: 42932417--42932466 Score: 84
Period size: 5 Copynumber: 10.0 Consensus size: 5
42932407 AATTTGTGTG
42932417 TTATT TTATT TT-TCT TTATT TTATT TTATT TTATT TTATT TTATT TTATT
1 TTATT TTATT TTAT-T TTATT TTATT TTATT TTATT TTATT TTATT TTATT
42932467 CACAAATTGG
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
4 1 0.02
5 41 0.95
6 1 0.02
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:42936894 original size:5 final size:5
Alignment explanation
Indices: 42936884--42936921 Score: 58
Period size: 5 Copynumber: 7.4 Consensus size: 5
42936874 AATTTGTGTG
*
42936884 TTATT TTATT TTTTCT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTAT-T TTATT TTATT TTATT TTATT TT
42936922 TTTCACAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 26 0.87
6 4 0.13
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.82
Consensus pattern (5 bp):
TTATT
Found at i:42940127 original size:21 final size:20
Alignment explanation
Indices: 42940085--42940123 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
42940075 ATTTAGCCAT
*
42940085 TTTTTATTTTTATTTTAATA
1 TTTTTATTTTTAATTTAATA
*
42940105 TTTTTGTTTTTAATTTAAT
1 TTTTTATTTTTAATTTAAT
42940124 TATTACACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (20 bp):
TTTTTATTTTTAATTTAATA
Found at i:42963938 original size:49 final size:48
Alignment explanation
Indices: 42963866--42964041 Score: 192
Period size: 51 Copynumber: 3.5 Consensus size: 48
42963856 CTGGTATGCA
*
42963866 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAAT-TGGTACACG
* * * * *
42963915 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTC-ATTGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA--CAATTG-GTACACG
* ** *
42963966 TAGTAGCCTGCACTTAGTACTACACATGCTAATTAACAGTATGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGC-GACCAACAAT-TGGTACACG
42964016 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
42964042 CGTGTATTCA
Statistics
Matches: 106, Mismatches: 14, Indels: 13
0.80 0.11 0.10
Matches are distributed among these distances:
49 30 0.28
50 36 0.34
51 38 0.36
52 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.25
Consensus pattern (48 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATTGGTACACG
Found at i:42964044 original size:101 final size:100
Alignment explanation
Indices: 42963863--42964045 Score: 303
Period size: 101 Copynumber: 1.8 Consensus size: 100
42963853 TATCTGGTAT
* *
42963863 GCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGTACACGTAGTAGCCTGCAC
1 GCATAGTAGCCTGCACTTAGTACTACACATGCAACCAACAATACGGTACACGTAGTAGCCTGCAC
42963928 TTAGTACTACACACGTGATCGAAGTCATTGAGTAC
66 TTAGTACTACACACGTGATCGAAGTCATTGAGTAC
** * *
42963963 GCATAGTAGCCTGCACTTAGTACTACACATGCTAATTAACAGTATGGTACACGTAGTAGCCTGCA
1 GCATAGTAGCCTGCACTTAGTACTACACATGC-AACCAACAATACGGTACACGTAGTAGCCTGCA
42964028 CTTAGTACTACACACGTG
65 CTTAGTACTACACACGTG
42964046 TATTCACAAT
Statistics
Matches: 76, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
100 32 0.42
101 44 0.58
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.25
Consensus pattern (100 bp):
GCATAGTAGCCTGCACTTAGTACTACACATGCAACCAACAATACGGTACACGTAGTAGCCTGCAC
TTAGTACTACACACGTGATCGAAGTCATTGAGTAC
Found at i:42975282 original size:41 final size:39
Alignment explanation
Indices: 42975237--42975350 Score: 106
Period size: 41 Copynumber: 2.8 Consensus size: 39
42975227 TGAATCCATG
*
42975237 AAATGGTTGAAAGGAAGCTATTCGAAAAGGATAACACTTGA
1 AAATGGTTGAAAGGAAG-TATTCGAAAAGGATAACACAT-A
* * *
42975278 AAAT-GTTAAAAAGAAAGTTATCCGAAAAGGATAACACATA
1 AAATGGTT-GAAAGGAAG-TATTCGAAAAGGATAACACATA
* *
42975318 AAAAGGTTGAAAAGGATA-TATTCGAAAATGATA
1 AAATGGTTG-AAAGGA-AGTATTCGAAAAGGATA
42975351 TCAAATGAAA
Statistics
Matches: 59, Mismatches: 10, Indels: 9
0.76 0.13 0.12
Matches are distributed among these distances:
40 20 0.34
41 38 0.64
42 1 0.02
ACGTcount: A:0.50, C:0.08, G:0.20, T:0.22
Consensus pattern (39 bp):
AAATGGTTGAAAGGAAGTATTCGAAAAGGATAACACATA
Found at i:42975404 original size:41 final size:40
Alignment explanation
Indices: 42975296--42975404 Score: 139
Period size: 40 Copynumber: 2.7 Consensus size: 40
42975286 AAAAGAAAGT
* * *
42975296 TATCCGAAAAGGATAACACATAAAAAGGTTGAAAAGGATA
1 TATCCGAAAAGGATAACAAATGAAAAGGCTGAAAAGGATA
* * *
42975336 TATTCGAAAATGATATCAAATGAAAAGGCTGAAAAGGATA
1 TATCCGAAAAGGATAACAAATGAAAAGGCTGAAAAGGATA
42975376 TGATCCAGAAAA-GATAACAAATGAAAAGG
1 T-ATCC-GAAAAGGATAACAAATGAAAAGG
42975405 GATGTGTTTA
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
40 35 0.59
41 19 0.32
42 5 0.08
ACGTcount: A:0.52, C:0.09, G:0.20, T:0.18
Consensus pattern (40 bp):
TATCCGAAAAGGATAACAAATGAAAAGGCTGAAAAGGATA
Found at i:42975998 original size:38 final size:38
Alignment explanation
Indices: 42975952--42976045 Score: 152
Period size: 38 Copynumber: 2.5 Consensus size: 38
42975942 TTTTATCCTA
42975952 GAAAAAAGAATTTAAAAAGAAGATAACCTTGAATTGTT
1 GAAAAAAGAATTTAAAAAGAAGATAACCTTGAATTGTT
* *
42975990 GAAAAAAGAATTTAAAAAGAAGATAATCTTGGATTGTT
1 GAAAAAAGAATTTAAAAAGAAGATAACCTTGAATTGTT
* *
42976028 TAAAAGAGAATTTAAAAA
1 GAAAAAAGAATTTAAAAA
42976046 AAAAAAGGAG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 52 1.00
ACGTcount: A:0.54, C:0.03, G:0.16, T:0.27
Consensus pattern (38 bp):
GAAAAAAGAATTTAAAAAGAAGATAACCTTGAATTGTT
Found at i:42985272 original size:46 final size:46
Alignment explanation
Indices: 42985205--42985379 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
42985195 TGTAACCCGC
*
42985205 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* * *
42985251 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * *
42985301 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
42985344 CCACAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
42985380 ATGCTCAACC
Statistics
Matches: 107, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 1 0.01
46 61 0.57
47 27 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:42985324 original size:93 final size:93
Alignment explanation
Indices: 42985212--42985383 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
42985202 CGCCCATAAG
* * *
42985212 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCACAAGTGAACTCAGACTCAACTCA
42985277 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
42985305 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCACAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCACAAGTGAACTCAGACTCAACTCA
42985370 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
42985384 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCACAAGTGAACTCAGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:42987078 original size:45 final size:44
Alignment explanation
Indices: 42987014--42987219 Score: 229
Period size: 45 Copynumber: 4.6 Consensus size: 44
42987004 AGGCATTGGA
**
42987014 TCTTTCAAAAATGGTCTTATTCATTTCCTTCAT-GTTGCCATAGTG
1 TCTTTCAACTATGGTCTTATTCATTTCCTT-ATAG-TGCCATAGTG
* *
42987059 TCTTTCAACTAAGGTCTTATTCATTTCCCTTATAGTGTCATAGTG
1 TCTTTCAACTATGGTCTTATTCATTT-CCTTATAGTGCCATAGTG
* * *
42987104 TCTTTCAACTATGGTTTTATTCATTT-CTGGTATAGTGCCACAATG
1 TCTTTCAACTATGGTCTTATTCATTTCCT--TATAGTGCCATAGTG
** *
42987149 TCTTTCAACTATGGTCTTATTCATTT-CTGGTATAGTGTTACAGTG
1 TCTTTCAACTATGGTCTTATTCATTTCCT--TATAGTGCCATAGTG
*
42987194 TCTTTCCACTATGGTCTTATTCATTT
1 TCTTTCAACTATGGTCTTATTCATTT
42987220 TTTCAAGCCA
Statistics
Matches: 143, Mismatches: 14, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
43 2 0.01
45 136 0.95
46 5 0.03
ACGTcount: A:0.21, C:0.19, G:0.14, T:0.46
Consensus pattern (44 bp):
TCTTTCAACTATGGTCTTATTCATTTCCTTATAGTGCCATAGTG
Found at i:42988233 original size:3 final size:3
Alignment explanation
Indices: 42988225--42988294 Score: 90
Period size: 3 Copynumber: 23.3 Consensus size: 3
42988215 AAATAGATGC
* *
42988225 TTA TTA TTA TAA TTA TTAA TTA TTA TTG TT- TATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA T-TA TTA TTA TTA TTA
42988271 TTA TTA TTA TTA TTA TTA -TA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
42988295 GGAATAAATT
Statistics
Matches: 60, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
2 3 0.05
3 53 0.88
4 4 0.07
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:42989551 original size:44 final size:44
Alignment explanation
Indices: 42989483--42989569 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 44
42989473 TTCGACCTTG
* *
42989483 AGTCGATGAGGCACTATAAGTGTCGTACTGTTACT-TTGACTTCA
1 AGTCAATGAGGCACCATAAGTGTCGTACTGTTACTGTT-ACTTCA
**
42989527 AGTCAATGAGGCACCATGTGTGTCGTACTGTTACTGTTACTTC
1 AGTCAATGAGGCACCATAAGTGTCGTACTGTTACTGTTACTTC
42989570 GGTTTAATCT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
44 36 0.95
45 2 0.05
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (44 bp):
AGTCAATGAGGCACCATAAGTGTCGTACTGTTACTGTTACTTCA
Found at i:42995739 original size:38 final size:38
Alignment explanation
Indices: 42995691--42995965 Score: 370
Period size: 38 Copynumber: 7.2 Consensus size: 38
42995681 TCGAAATATG
* *
42995691 ATATCTGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
42995729 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
* * * *
42995767 ATATTCGGGTTAAATCCCGCAGGATTCGTGTTGGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
* * *
42995805 ATATCTGGGTTAAATCCTGCAGGCTTCGTGCTAGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
* * *
42995843 ATATTCGGGTTAAATCCCGCAAGCTTCGTGCTGGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
* *
42995881 ATATCCGGGTTAAATCCTGCAGGCTTCGTGATGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
* * * * *
42995919 ATATCCAGGTTAAATCCCGTAGGCCTAGTACTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
*
42995957 ATATTCGGG
1 ATATCCGGG
42995966 CCTTTGAGCC
Statistics
Matches: 204, Mismatches: 33, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 204 1.00
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (38 bp):
ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
Found at i:43000134 original size:16 final size:17
Alignment explanation
Indices: 43000113--43000148 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
43000103 AACCATTACG
43000113 ACAGAGAGAGAGAGA-A
1 ACAGAGAGAGAGAGAGA
*
43000129 ACAGAGAGATAGAGAGA
1 ACAGAGAGAGAGAGAGA
43000146 ACA
1 ACA
43000149 ACTGTGTGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.56, C:0.08, G:0.33, T:0.03
Consensus pattern (17 bp):
ACAGAGAGAGAGAGAGA
Found at i:43003745 original size:20 final size:20
Alignment explanation
Indices: 43003720--43003770 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
43003710 AACGTAATTT
*
43003720 GGTATCGATACCTTACCACG
1 GGTATCGATACCATACCACG
43003740 GGTATCGATACCATACCACG
1 GGTATCGATACCATACCACG
43003760 GGTATCGATAC
1 GGTATCGATAC
43003771 TCGGGGTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (20 bp):
GGTATCGATACCATACCACG
Found at i:43005266 original size:13 final size:13
Alignment explanation
Indices: 43005248--43005272 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43005238 TAATGGTATA
43005248 TTGAATCCATGAC
1 TTGAATCCATGAC
43005261 TTGAATCCATGA
1 TTGAATCCATGA
43005273 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:43005863 original size:27 final size:27
Alignment explanation
Indices: 43005832--43006009 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
43005822 TAAATTGTAC
43005832 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
43005859 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
43005885 ATGCACTAAGTGTGCGAATTGACCATGT
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
43005913 GGCACTAAGTGTGCAAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
43005941 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
43005968 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
43005995 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
43006010 GGCTCAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:43005946 original size:82 final size:81
Alignment explanation
Indices: 43005833--43005988 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
43005823 AAATTGTACA
* * *
43005833 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCAATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
43005897 TGCGAATTGACCATGTG
65 TGCGAATTGACCATGTG
** *
43005914 GCACTAAGTGTGCAAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCAA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
43005979 TGCGAGTTGA
65 TGCGAATTGA
43005989 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 14 0.21
82 51 0.77
83 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCAATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGTG
Found at i:43006000 original size:82 final size:81
Alignment explanation
Indices: 43005832--43006008 Score: 221
Period size: 82 Copynumber: 2.2 Consensus size: 81
43005822 TAAATTGTAC
* * *
43005832 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTG
1 AGCACTAAGTGTGCAATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTG
*
43005897 TGCGAATTGACCATGT
66 TGCGAATTGACCATAT
* ** *
43005913 GGCACTAAGTGTGCAAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAG
1 AGCACTAAGTGTGCAA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAG
* **
43005977 TGTGCGAGTTGATTATAT
64 TGTGCGAATTGACCATAT
*
43005995 AGCACTGAGTGTGC
1 AGCACTAAGTGTGC
43006009 GGGCTCAATA
Statistics
Matches: 81, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 15 0.19
82 66 0.81
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.31
Consensus pattern (81 bp):
AGCACTAAGTGTGCAATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTG
TGCGAATTGACCATAT
Found at i:43008571 original size:30 final size:30
Alignment explanation
Indices: 43008537--43008593 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
43008527 TCAACTCAAC
* *
43008537 TTCAGCTCTCGAGCTCAGACTCAGCTCACT
1 TTCAGCTCACAAGCTCAGACTCAGCTCACT
* *
43008567 TTCAGCTCACAAGCTCGGACTTAGCTC
1 TTCAGCTCACAAGCTCAGACTCAGCTC
43008594 GATTATAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.21, C:0.35, G:0.18, T:0.26
Consensus pattern (30 bp):
TTCAGCTCACAAGCTCAGACTCAGCTCACT
Found at i:43010938 original size:54 final size:54
Alignment explanation
Indices: 43010866--43011228 Score: 286
Period size: 54 Copynumber: 6.7 Consensus size: 54
43010856 ATTACCAAAG
* * * *
43010866 TACCCCCGATTTACAGAATTACCGTTCTACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTT
* * * * ***
43010920 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTT
* * ***** * * * * ***
43010974 TACCC-CTGGTTTGTAAAATTACTAAAATACCCCCTGATTTGTAAAATTACTAAAA
1 TACCCTC-GATTTATAAAATTACCGTTTTACCCTC-GATTTATAGAATTACCATTT
* * ****
43011029 TACCCTCGACTTGTAAAATTTACCAAAGTACCCTCGATTTATAGAATTA-C-TGTT
1 TACCCTCGATTTATAAAA-TTACCGTTTTACCCTCGATTTATAGAATTACCAT-TT
* *
43011083 TACTCTCGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTT
* * * *
43011137 TACCATCGATTTATAGAATTACTGTTTTACCCTCGATTTACA-ACATTACCATTT
1 TACCCTCGATTTATAAAATTACCGTTTTACCCTCGATTTATAGA-ATTACCATTT
* *
43011191 TAACCTC-AGTTTATAAAATTATCGTTTTACCCTCGATT
1 TACCCTCGA-TTTATAAAATTACCGTTTTACCCTCGATT
43011229 GTGAAATTAC
Statistics
Matches: 250, Mismatches: 50, Indels: 18
0.79 0.16 0.06
Matches are distributed among these distances:
53 29 0.12
54 162 0.65
55 45 0.18
56 14 0.06
ACGTcount: A:0.32, C:0.23, G:0.09, T:0.37
Consensus pattern (54 bp):
TACCCTCGATTTATAAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTT
Found at i:43011016 original size:28 final size:27
Alignment explanation
Indices: 43010947--43011079 Score: 140
Period size: 28 Copynumber: 4.9 Consensus size: 27
43010937 ATTACCGTTT
* **
43010947 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCCCGATTTGTAAAATTACTAAAA
* *
43010974 TACCCCTGGTTTGTAAAATTACTAAAA
1 TACCCCCGATTTGTAAAATTACTAAAA
43011001 TACCCCCTGATTTGTAAAATTACTAAAA
1 TACCCCC-GATTTGTAAAATTACTAAAA
* * * *
43011029 TACCCTCGACTTGTAAAATTTACCAAAG
1 TACCCCCGATTTGTAAAA-TTACTAAAA
* * *
43011057 TACCCTCGATTTATAGAATTACT
1 TACCCCCGATTTGTAAAATTACT
43011080 GTTTACTCTC
Statistics
Matches: 89, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
27 42 0.47
28 47 0.53
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.32
Consensus pattern (27 bp):
TACCCCCGATTTGTAAAATTACTAAAA
Found at i:43011043 original size:55 final size:55
Alignment explanation
Indices: 43010947--43011079 Score: 153
Period size: 55 Copynumber: 2.4 Consensus size: 55
43010937 ATTACCGTTT
* * ** *
43010947 TACCCTCGATTTACAAAATTACTAAAATACCCCTGGTTTGTAAAA-TTACTAAAA
1 TACCCCCGATTTATAAAATTACTAAAATACCCCTGACTTGTAAAATTTACCAAAA
* *
43011001 TACCCCCTGATTTGTAAAATTACTAAAATA-CCCTCGACTTGTAAAATTTACCAAAG
1 TACCCCC-GATTTATAAAATTACTAAAATACCCCT-GACTTGTAAAATTTACCAAAA
* *
43011057 TACCCTCGATTTATAGAATTACT
1 TACCCCCGATTTATAAAATTACT
43011080 GTTTACTCTC
Statistics
Matches: 66, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
54 10 0.15
55 43 0.65
56 13 0.20
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.32
Consensus pattern (55 bp):
TACCCCCGATTTATAAAATTACTAAAATACCCCTGACTTGTAAAATTTACCAAAA
Found at i:43011164 original size:27 final size:27
Alignment explanation
Indices: 43010866--43011228 Score: 239
Period size: 27 Copynumber: 13.4 Consensus size: 27
43010856 ATTACCAAAG
* * *
43010866 TACCCCCGATTTACAGAATTACCGTTC
1 TACCCTCGATTTATAGAATTACCGTTT
*
43010893 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCGTTT
43010920 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* * *****
43010947 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTATAGAATTACCGTTT
* * * *****
43010974 TACCC-CTGGTTTGTAAAATTACTAAAA
1 TACCCTC-GATTTATAGAATTACCGTTT
* * * *****
43011001 TACCCCCTGATTTGTAAAATTACTAAAA
1 TACCCTC-GATTTATAGAATTACCGTTT
* * * ****
43011029 TACCCTCGACTTGTAAAATTTACCAAAG
1 TACCCTCGATTTATAGAA-TTACCGTTT
*
43011057 TACCCTCGATTTATAGAATTACTG-TT
1 TACCCTCGATTTATAGAATTACCGTTT
* * *
43011083 TACTCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
*
43011110 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCGTTT
* *
43011137 TACCATCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* *
43011164 TACCCTCGATTTACA-ACATTACCATTT
1 TACCCTCGATTTATAGA-ATTACCGTTT
* * *
43011191 TAACCTC-AGTTTATAAAATTATCGTTT
1 TACCCTCGA-TTTATAGAATTACCGTTT
43011218 TACCCTCGATT
1 TACCCTCGATT
43011229 GTGAAATTAC
Statistics
Matches: 281, Mismatches: 47, Indels: 16
0.82 0.14 0.05
Matches are distributed among these distances:
26 23 0.08
27 207 0.74
28 51 0.18
ACGTcount: A:0.32, C:0.23, G:0.09, T:0.37
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCGTTT
Found at i:43011250 original size:27 final size:27
Alignment explanation
Indices: 43011227--43011358 Score: 124
Period size: 27 Copynumber: 4.9 Consensus size: 27
43011217 TTACCCTCGA
**
43011227 TTGTGAAATTACTGAAATACCCCT-GT
1 TTGTGAAATTACCAAAATACCCCTAGT
**
43011253 AGGATAGAA-TTACCAAAATACCCCTAGT
1 TTG-T-GAAATTACCAAAATACCCCTAGT
*
43011281 TTGTAAAATTACCAAAATACCCCTAGT
1 TTGTGAAATTACCAAAATACCCCTAGT
* ** ** *
43011308 TTGTGGAATTACTGAAATACCTTTAAT
1 TTGTGAAATTACCAAAATACCCCTAGT
*
43011335 TTGTAAAATTACCAAAATACCCCT
1 TTGTGAAATTACCAAAATACCCCT
43011359 GATTTACAAA
Statistics
Matches: 82, Mismatches: 20, Indels: 7
0.75 0.18 0.06
Matches are distributed among these distances:
26 3 0.04
27 73 0.89
28 6 0.07
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (27 bp):
TTGTGAAATTACCAAAATACCCCTAGT
Found at i:43011299 original size:54 final size:53
Alignment explanation
Indices: 43011227--43011359 Score: 149
Period size: 54 Copynumber: 2.5 Consensus size: 53
43011217 TTACCCTCGA
* ** *
43011227 TTGTGAAATTACTGAAATACCCCTGTAGGATAGAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTGTAGG-TAGAATTACCAAAATACCCCTAAT
** * ** **
43011281 TTGTAAAATTACCAAAATACCCCTAGTTTGTGGAATTACTGAAATACCTTTAAT
1 TTGTAAAATTACCAAAATACCCCT-GTAGGTAGAATTACCAAAATACCCCTAAT
43011335 TTGTAAAATTACCAAAATACCCCTG
1 TTGTAAAATTACCAAAATACCCCTG
43011360 ATTTACAAAG
Statistics
Matches: 67, Mismatches: 11, Indels: 3
0.83 0.14 0.04
Matches are distributed among these distances:
53 1 0.01
54 63 0.94
55 3 0.04
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.31
Consensus pattern (53 bp):
TTGTAAAATTACCAAAATACCCCTGTAGGTAGAATTACCAAAATACCCCTAAT
Found at i:43011363 original size:27 final size:27
Alignment explanation
Indices: 43011260--43011358 Score: 135
Period size: 27 Copynumber: 3.7 Consensus size: 27
43011250 TGTAGGATAG
43011260 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
**
43011287 AATTACCAAAATACCCCTAGTTTGTGG
1 AATTACCAAAATACCCCTAGTTTGTAA
** ** *
43011314 AATTACTGAAATACCTTTAATTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
43011341 AATTACCAAAATACCCCT
1 AATTACCAAAATACCCCT
43011359 GATTTACAAA
Statistics
Matches: 59, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 59 1.00
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:43011379 original size:54 final size:53
Alignment explanation
Indices: 43011280--43011466 Score: 153
Period size: 54 Copynumber: 3.4 Consensus size: 53
43011270 ATACCCCTAG
***
43011280 TTTGTAAAATTACCAAAATACCCCT-AGTTTGTGGAATTACTGAAATACCTTTAA
1 TTTGTAAAATTACCAAAATACCCCTGA-TTT-ACAAATTACTGAAATACCTTTAA
* * *
43011334 TTTGTAAAATTACCAAAATACCCCTGATTTACAAAGTTACAGAAATACCCTTGAC
1 TTTGTAAAATTACCAAAATACCCCTGATTTACAAA-TTACTGAAATA-CCTTTAA
* * ** * * *
43011389 TTTCTAAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAATACCCTTAG
1 TTTGT-AAAATTACCA-AAATACCCCTGATTTAC-AAATTACTGAAATACCTTTAA
* * *
43011444 TTTGTAGATTTACCAAAACACCC
1 TTTGTAAAATTACCAAAATACCC
43011467 TTGTAGGATG
Statistics
Matches: 105, Mismatches: 21, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
53 2 0.02
54 49 0.47
55 20 0.19
56 31 0.30
57 3 0.03
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.33
Consensus pattern (53 bp):
TTTGTAAAATTACCAAAATACCCCTGATTTACAAATTACTGAAATACCTTTAA
Found at i:43011434 original size:27 final size:27
Alignment explanation
Indices: 43011314--43011441 Score: 107
Period size: 27 Copynumber: 4.7 Consensus size: 27
43011304 TAGTTTGTGG
* * **
43011314 AATTACTGAAATACCTTTAATTTGTAA
1 AATTACTGAAATACCCTTGATTTACAA
** *
43011341 AATTACCAAAATACCCCTGATTTACAA
1 AATTACTGAAATACCCTTGATTTACAA
* *
43011368 AGTTACAGAAATACCCTTGACTTT-CTAAA
1 AATTACTGAAATACCCTTGA-TTTAC--AA
* *
43011397 AATTA-TAGAAATACCATTGGTTTACAA
1 AATTACT-GAAATACCCTTGATTTACAA
43011424 AATTACTGAAATACCCTT
1 AATTACTGAAATACCCTT
43011442 AGTTTGTAGA
Statistics
Matches: 79, Mismatches: 16, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
27 54 0.68
28 7 0.09
29 18 0.23
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.33
Consensus pattern (27 bp):
AATTACTGAAATACCCTTGATTTACAA
Found at i:43011446 original size:27 final size:27
Alignment explanation
Indices: 43011268--43011447 Score: 105
Period size: 27 Copynumber: 6.6 Consensus size: 27
43011258 AGAATTACCA
* * **
43011268 AAATACCCCTAGTTTGTAAAATTACCA
1 AAATACCCTTAGTTTGCAAAATTACTG
* ***
43011295 AAATACCCCTAGTTTGTGGAATTACTG
1 AAATACCCTTAGTTTGCAAAATTACTG
* * * **
43011322 AAATACCTTTAATTTGTAAAATTACCA
1 AAATACCCTTAGTTTGCAAAATTACTG
* * * *
43011349 AAATACCCCT-GATTTACAAAGTTACAG
1 AAATACCCTTAG-TTTGCAAAATTACTG
*
43011376 AAATACCCTTGACTTT-CTAAAAATTA-TAG
1 AAATACCCTT-AGTTTGC--AAAATTACT-G
* * *
43011405 AAATACCATTGGTTTACAAAATTACTG
1 AAATACCCTTAGTTTGCAAAATTACTG
43011432 AAATACCCTTAGTTTG
1 AAATACCCTTAGTTTG
43011448 TAGATTTACC
Statistics
Matches: 116, Mismatches: 29, Indels: 16
0.72 0.18 0.10
Matches are distributed among these distances:
27 92 0.79
28 7 0.06
29 17 0.15
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (27 bp):
AAATACCCTTAGTTTGCAAAATTACTG
Found at i:43011530 original size:27 final size:27
Alignment explanation
Indices: 43011500--43011591 Score: 132
Period size: 27 Copynumber: 3.4 Consensus size: 27
43011490 ACCCCTATTA
*
43011500 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
*
43011527 GGTAAAGTGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
43011554 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
43011581 GGTAAAATGAC
1 GGTAAAATGAC
43011592 GAATATGCCC
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
27 59 0.98
28 1 0.02
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:43012472 original size:25 final size:25
Alignment explanation
Indices: 43012393--43012490 Score: 110
Period size: 26 Copynumber: 3.9 Consensus size: 25
43012383 GAGGAAGTGC
*
43012393 AAAAGGGCTTATGCCCCAGTTCACCG
1 AAAAGGGCTTATACCCCAGTT-ACCG
* **
43012419 AAAAGGGCTTATACCCTAGTTTATTG
1 AAAAGGGCTTATACCCCAG-TTACCG
43012445 AAAAGGGCTT-TACCCCAGCTTACCG
1 AAAAGGGCTTATACCCCAG-TTACCG
*
43012470 AAAAGGGCTT-TCCCCCAGTTA
1 AAAAGGGCTTATACCCCAGTTA
43012491 TTAAAGAGGC
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
24 3 0.05
25 28 0.45
26 29 0.47
27 2 0.03
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTATACCCCAGTTACCG
Found at i:43012692 original size:42 final size:42
Alignment explanation
Indices: 43012633--43012725 Score: 159
Period size: 42 Copynumber: 2.2 Consensus size: 42
43012623 GTAGTCTCCC
*
43012633 GAAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATT
1 GAAATGGGCTTGCATACATTCATTGATATTTCATGTGATATT
* *
43012675 GAAATGGGCTTGCATACATTTATTGATATTTCATGTGTTATT
1 GAAATGGGCTTGCATACATTCATTGATATTTCATGTGATATT
43012717 GAAATGGGC
1 GAAATGGGC
43012726 CTATGGGCCA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.27, C:0.11, G:0.23, T:0.40
Consensus pattern (42 bp):
GAAATGGGCTTGCATACATTCATTGATATTTCATGTGATATT
Found at i:43016045 original size:18 final size:18
Alignment explanation
Indices: 43016022--43016063 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
43016012 TAAAAATGAG
*
43016022 AGAAAAGAATAAAGA-TCA
1 AGAAAACAA-AAAGAGTCA
*
43016040 AGAAAACAAAAAGAGTGA
1 AGAAAACAAAAAGAGTCA
43016058 AGAAAA
1 AGAAAA
43016064 AAAGAGTGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.69, C:0.05, G:0.19, T:0.07
Consensus pattern (18 bp):
AGAAAACAAAAAGAGTCA
Found at i:43018195 original size:24 final size:24
Alignment explanation
Indices: 43018167--43018226 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
43018157 AACCGAATTT
* * *
43018167 GCACACATAGTG-CTTATTACACTC
1 GCACACATAGTGCCATAGTAAAC-C
43018191 GCACACATAGTGCCATAGTAAACC
1 GCACACATAGTGCCATAGTAAACC
43018215 GCACACATAGTG
1 GCACACATAGTG
43018227 TATTGGATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
24 25 0.78
25 7 0.22
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (24 bp):
GCACACATAGTGCCATAGTAAACC
Found at i:43021154 original size:18 final size:18
Alignment explanation
Indices: 43021131--43021172 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
43021121 AATGAATTGT
43021131 ATTAAATTGCTTGATGTG
1 ATTAAATTGCTTGATGTG
43021149 ATTAAATTGCTTGATGTG
1 ATTAAATTGCTTGATGTG
43021167 ATTAAA
1 ATTAAA
43021173 AATGCATATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.43
Consensus pattern (18 bp):
ATTAAATTGCTTGATGTG
Found at i:43022364 original size:47 final size:47
Alignment explanation
Indices: 43022311--43022723 Score: 727
Period size: 47 Copynumber: 8.7 Consensus size: 47
43022301 TTAGGATTCT
43022311 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
43022358 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
43022407 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
43022454 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
43022501 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
43022548 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
43022595 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
43022642 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
43022689 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
43022724 TCCCGAAGGG
Statistics
Matches: 352, Mismatches: 12, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
47 306 0.87
49 46 0.13
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:43046043 original size:42 final size:43
Alignment explanation
Indices: 43045931--43046058 Score: 152
Period size: 43 Copynumber: 3.0 Consensus size: 43
43045921 AGTTCGTACA
*
43045931 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACATGAAATCAAATATCG
* * * *
43045974 ATGCCACTGTCCCAGATAG-GGTCTTACACGAAATCATATAT-G
1 ATGCCAATGTCCCAGA-CGTGGTCTTACATGAAATCAAATATCG
* * * *
43046016 ATGCTAATGTCCTAGACGTGGTATTACATGAAATCACATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACATGAAATCAAATATCG
43046059 GAATCCTATG
Statistics
Matches: 70, Mismatches: 12, Indels: 6
0.80 0.14 0.07
Matches are distributed among these distances:
41 1 0.01
42 33 0.47
43 35 0.50
44 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGGTCTTACATGAAATCAAATATCG
Found at i:43061808 original size:20 final size:20
Alignment explanation
Indices: 43061783--43061832 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
43061773 TGGAGCAGGA
* *
43061783 ATATCGTTACCTTAGGAAAT
1 ATATCGATACCTTAAGAAAT
*
43061803 ATATCGATACGTTAAGAAAT
1 ATATCGATACCTTAAGAAAT
*
43061823 GTATCGATAC
1 ATATCGATAC
43061833 TGGATCGATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (20 bp):
ATATCGATACCTTAAGAAAT
Found at i:43065201 original size:21 final size:20
Alignment explanation
Indices: 43065146--43065208 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 20
43065136 TTTAAATTTT
*
43065146 AAAAATTATTAAGAAATATAA
1 AAAAATTA-TAAAAAATATAA
* *
43065167 AAATA-TAAACAAAAATCATAA
1 AAAAATTATA-AAAAAT-ATAA
*
43065188 AAAAATTATAAAAAATTTAA
1 AAAAATTATAAAAAATATAA
43065208 A
1 A
43065209 TGTTAAATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
19 1 0.03
20 11 0.33
21 18 0.55
22 3 0.09
ACGTcount: A:0.70, C:0.03, G:0.02, T:0.25
Consensus pattern (20 bp):
AAAAATTATAAAAAATATAA
Found at i:43065351 original size:20 final size:20
Alignment explanation
Indices: 43065322--43065359 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
43065312 TTATTTTTTA
*
43065322 ATAAAATTTTTATAAATTAT
1 ATAAAATTTTAATAAATTAT
*
43065342 ATAAATTTTTAATAAATT
1 ATAAAATTTTAATAAATT
43065360 TTGTTTATAA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATAAAATTTTAATAAATTAT
Found at i:43065749 original size:15 final size:15
Alignment explanation
Indices: 43065731--43065760 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
43065721 TTATTAGCAT
*
43065731 ACTATATATTTAGAA
1 ACTATATATATAGAA
43065746 ACTATATATATAGAA
1 ACTATATATATAGAA
43065761 TACCTCGACT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.37
Consensus pattern (15 bp):
ACTATATATATAGAA
Found at i:43071953 original size:14 final size:14
Alignment explanation
Indices: 43071934--43071964 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
43071924 AATATGAAAG
43071934 ACTTGTAAATAAAT
1 ACTTGTAAATAAAT
43071948 ACTTGTAAATAAAT
1 ACTTGTAAATAAAT
43071962 ACT
1 ACT
43071965 AATAATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.35
Consensus pattern (14 bp):
ACTTGTAAATAAAT
Found at i:43072312 original size:18 final size:18
Alignment explanation
Indices: 43072291--43072330 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
43072281 TTTCTTAATA
43072291 ATCAATTTTTATATTTTT
1 ATCAATTTTTATATTTTT
*
43072309 ATCAATTTTTTTATTTTT
1 ATCAATTTTTATATTTTT
43072327 ATCA
1 ATCA
43072331 TATGGATAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (18 bp):
ATCAATTTTTATATTTTT
Found at i:43073562 original size:24 final size:24
Alignment explanation
Indices: 43073535--43073587 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
43073525 ATTAGTAAGT
*
43073535 TAAATAAACTATACTAATAAATGC
1 TAAATAAACTATACTAATAAATAC
* *
43073559 TAAATATATTATACTAATAAATAC
1 TAAATAAACTATACTAATAAATAC
43073583 TAAAT
1 TAAAT
43073588 CTTCTAGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.34
Consensus pattern (24 bp):
TAAATAAACTATACTAATAAATAC
Found at i:43074452 original size:20 final size:20
Alignment explanation
Indices: 43074427--43074464 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
43074417 ACAATCTCCC
43074427 AAATAA-TACAAATACAATAA
1 AAATAATTA-AAATACAATAA
43074447 AAATAATTAAAATACAAT
1 AAATAATTAAAATACAAT
43074465 CCAAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (20 bp):
AAATAATTAAAATACAATAA
Found at i:43074659 original size:23 final size:24
Alignment explanation
Indices: 43074617--43074663 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
43074607 ATAAATGATA
43074617 TTTTTAATCATTTTAAATTTATATT
1 TTTTTAATCA-TTTAAATTTATATT
*
43074642 TTTTTAATCA-TTACATTTATAT
1 TTTTTAATCATTTAAATTTATAT
43074664 GTGAAATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 11 0.52
25 10 0.48
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (24 bp):
TTTTTAATCATTTAAATTTATATT
Found at i:43084388 original size:21 final size:21
Alignment explanation
Indices: 43084345--43084386 Score: 77
Period size: 20 Copynumber: 2.0 Consensus size: 21
43084335 GTTTACTTTT
43084345 ATTACTTAAAGAAATAAAAAA
1 ATTACTTAAAGAAATAAAAAA
43084366 ATTACTT-AAGAAATAAAAAA
1 ATTACTTAAAGAAATAAAAAA
43084386 A
1 A
43084387 ATAGTTCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.24
Consensus pattern (21 bp):
ATTACTTAAAGAAATAAAAAA
Found at i:43086810 original size:48 final size:47
Alignment explanation
Indices: 43086657--43086981 Score: 264
Period size: 48 Copynumber: 6.8 Consensus size: 47
43086647 GGTGACATGT
* * * * *
43086657 GAGCCAGTGTAAGACCATGTCTGGGATATGGCTTCAGCCA-TAATATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATC-GGCATTGA-ATGA
* * * * * ** *
43086705 GAGCCT-GTGTTAGACCATGTTTGGAACATGACATTGATAATGTAATGA
1 GAG-CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTG-AATGA
* *
43086753 GAGGC-AGTGTAAGACCATGTCTGGGATATGGCATCGGCATTGATATGT
1 GA-GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA-ATGA
* *
43086801 GCGCTAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCACATTG--TGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG---CATTGAATGA
* * *
43086849 GAGCTAGTGTAAGACCATTTCTGGGACATGGTATCGGCATTGAGACGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA-ATGA
* * * * * *
43086897 GAGCTAGTGTAAGACCATGTTTGGGACATGGCATCAGCCTAGGCATGT
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-TGAATGA
* *
43086945 GAGCCAATGTAAGACCATGTCTGGGACATGGCATCGG
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG
43086982 TAAATTCACC
Statistics
Matches: 220, Mismatches: 43, Indels: 28
0.76 0.15 0.10
Matches are distributed among these distances:
45 5 0.02
47 5 0.02
48 201 0.91
49 4 0.02
51 5 0.02
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.25
Consensus pattern (47 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAATGA
Found at i:43100493 original size:16 final size:16
Alignment explanation
Indices: 43100472--43100503 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
43100462 AGAAGGTTCC
43100472 ATCTGTGATAGTCTCA
1 ATCTGTGATAGTCTCA
43100488 ATCTGTGATAGTCTCA
1 ATCTGTGATAGTCTCA
43100504 TTGTGTACCC
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:0.25, C:0.19, G:0.19, T:0.38
Consensus pattern (16 bp):
ATCTGTGATAGTCTCA
Found at i:43101471 original size:26 final size:26
Alignment explanation
Indices: 43101441--43101494 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
43101431 TTTTGATAAA
43101441 AACCGAGCCACTTTGGTGATTAATGT
1 AACCGAGCCACTTTGGTGATTAATGT
*
43101467 AACCGAGCCACTTTGGTGGTTAATGT
1 AACCGAGCCACTTTGGTGATTAATGT
43101493 AA
1 AA
43101495 TCTTCCAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.30
Consensus pattern (26 bp):
AACCGAGCCACTTTGGTGATTAATGT
Found at i:43110866 original size:49 final size:49
Alignment explanation
Indices: 43110741--43111304 Score: 1001
Period size: 49 Copynumber: 11.6 Consensus size: 49
43110731 CCCTTCGGGA
* * * *
43110741 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGTCATTCGGC
* * * * *
43110788 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGTCATTCGGC
43110835 CTTATCACATATATATACACTTTCACATTCATCACATTGGTCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGTCATTCGGC
43110884 CTTATCACATATATATACACTTTCACATTCATCACATTGGTCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGTCATTCGGC
43110933 CTTATCACATATATATACACTTTCACATTCATCACATTGGTCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGTCATTCGGC
43110982 CTTATCACATATATATACACTTTCACATTCATCACATTGGTCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGTCATTCGGC
43111031 CTTATCACATATATATACACTTTCACATTCATCACATTGGTCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGTCATTCGGC
43111080 CTTATCACATATATATACACTTTCACATTCATCACATTGGTCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGTCATTCGGC
43111129 CTTATCACATATATATACACTTTCACATTCATCACATTGGTCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGTCATTCGGC
*
43111178 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGTCATTCGGC
*
43111227 CTTACCACATATATATACACTTTCACATTCATCACATTGGTCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGTCATTCGGC
43111276 CTTATCACATATATATACACTTTCACATT
1 CTTATCACATATATATACACTTTCACATT
43111305 TATTCAAATA
Statistics
Matches: 497, Mismatches: 16, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
46 1 0.00
47 43 0.09
49 453 0.91
ACGTcount: A:0.28, C:0.28, G:0.08, T:0.36
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGTCATTCGGC
Found at i:43114227 original size:27 final size:27
Alignment explanation
Indices: 43114190--43114244 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
43114180 AATACAAATT
*
43114190 CCCTACGCAGGTAATAGAAGCCGATCC
1 CCCTACACAGGTAATAGAAGCCGATCC
43114217 CCCTACACAGGTAATAGAAGCCGATCC
1 CCCTACACAGGTAATAGAAGCCGATCC
43114244 C
1 C
43114245 TACAAATCAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.31, C:0.35, G:0.20, T:0.15
Consensus pattern (27 bp):
CCCTACACAGGTAATAGAAGCCGATCC
Found at i:43117665 original size:43 final size:42
Alignment explanation
Indices: 43117630--43117768 Score: 156
Period size: 42 Copynumber: 3.2 Consensus size: 42
43117620 TCTTACGTGT
*
43117630 AATCAAATATGAATGCCACTATCCCAGAAAGGGTCTTACACGA
1 AATCAAATATG-ATGCCAATATCCCAGAAAGGGTCTTACACGA
* * *
43117673 AATCAAATATGATGCCAATGTCCCAGACATGGTCTTACACGTA
1 AATCAAATATGATGCCAATATCCCAGAAAGGGTCTTACACG-A
* *
43117716 AATCTCAAAT-TGATGCCAATATCCCAG-ATGTGGTCTTACACAA
1 AA--TCAAATATGATGCCAATATCCCAGAAAG-GGTCTTACACGA
*
43117759 AATCACATAT
1 AATCAAATAT
43117769 CGGAATCCTA
Statistics
Matches: 81, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
41 5 0.06
42 27 0.33
43 17 0.21
44 26 0.32
45 6 0.07
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.25
Consensus pattern (42 bp):
AATCAAATATGATGCCAATATCCCAGAAAGGGTCTTACACGA
Found at i:43117741 original size:44 final size:42
Alignment explanation
Indices: 43117630--43117768 Score: 163
Period size: 44 Copynumber: 3.2 Consensus size: 42
43117620 TCTTACGTGT
* *
43117630 AATCAAATATGAATGCCACTATCCCAGAAAGGGTCTTACACGA
1 AATCAAATATG-ATGCCAATATCCCAGAAATGGTCTTACACGA
* *
43117673 AATCAAATATGATGCCAATGTCCCAGACATGGTCTTACACGTA
1 AATCAAATATGATGCCAATATCCCAGAAATGGTCTTACACG-A
** *
43117716 AATCTCAAAT-TGATGCCAATATCCCAGATGTGGTCTTACACAA
1 AA--TCAAATATGATGCCAATATCCCAGAAATGGTCTTACACGA
*
43117759 AATCACATAT
1 AATCAAATAT
43117769 CGGAATCCTA
Statistics
Matches: 83, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
41 5 0.06
42 27 0.33
43 17 0.20
44 28 0.34
45 6 0.07
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.25
Consensus pattern (42 bp):
AATCAAATATGATGCCAATATCCCAGAAATGGTCTTACACGA
Found at i:43117753 original size:86 final size:85
Alignment explanation
Indices: 43117599--43117768 Score: 202
Period size: 86 Copynumber: 2.0 Consensus size: 85
43117589 AACTCGTACA
* ** *
43117599 ATGCCAACGTCCCAAACGTGGTCTTACGTGTAATCAAATATGAATGCCACTATCCCAGAAAGGGT
1 ATGCCAACGTCCCAAACATGGTCTTACACGTAATCAAATATGAATGCCAATATCCCAGAAAGGGT
*
43117664 CTTACACGAAATCAAATATG
66 CTTACACAAAATCAAATATG
* * *
43117684 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCTCAAAT-TG-ATGCCAATATCCCAG-ATG
1 ATGCCAACGTCCCAAACATGGTCTTACACGT-AA--TCAAATATGAATGCCAATATCCCAGAAAG
*
43117746 TGGTCTTACACAAAATCACATAT
63 -GGTCTTACACAAAATCAAATAT
43117769 CGGAATCCTA
Statistics
Matches: 72, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
85 28 0.39
86 36 0.50
87 2 0.03
88 6 0.08
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.25
Consensus pattern (85 bp):
ATGCCAACGTCCCAAACATGGTCTTACACGTAATCAAATATGAATGCCAATATCCCAGAAAGGGT
CTTACACAAAATCAAATATG
Found at i:43122243 original size:24 final size:24
Alignment explanation
Indices: 43122216--43122263 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
43122206 TACCTAAAGG
43122216 GTTCGATACTCTAATCACAAATTC
1 GTTCGATACTCTAATCACAAATTC
*
43122240 GTTCGATACTCTAATTACAAATTC
1 GTTCGATACTCTAATCACAAATTC
43122264 AGTAGACTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.33, C:0.23, G:0.08, T:0.35
Consensus pattern (24 bp):
GTTCGATACTCTAATCACAAATTC
Found at i:43125393 original size:43 final size:43
Alignment explanation
Indices: 43125345--43125516 Score: 125
Period size: 43 Copynumber: 4.0 Consensus size: 43
43125335 AGCTCGTACA
* * * *
43125345 ATGCCAACGTCCCAGACGTGGCCTTACATGTAATCAAATATCG
1 ATGCCAACATCCCAGACATGGTCTTACACGTAATCAAATATCG
* * * * * *
43125388 ATGCC-ACTATCCCAGACAAGGTCATATAGGAAATCAATTAT-G
1 ATGCCAAC-ATCCCAGACATGGTCTTACACGTAATCAAATATCG
* * *
43125430 ATGCCAATACCCCAGACATGGTCTTACACGTAAATCTCAA-ATCG
1 ATGCCAACATCCCAGACATGGTCTTACACGT-AATC-AAATATCG
* ** ** *
43125474 ATGCCAACGTCCCAGATGTGGTCTTACACAAAATCACATATCG
1 ATGCCAACATCCCAGACATGGTCTTACACGTAATCAAATATCG
43125517 GAATCCCATG
Statistics
Matches: 96, Mismatches: 27, Indels: 12
0.71 0.20 0.09
Matches are distributed among these distances:
42 26 0.27
43 44 0.46
44 26 0.27
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.23
Consensus pattern (43 bp):
ATGCCAACATCCCAGACATGGTCTTACACGTAATCAAATATCG
Found at i:43128406 original size:20 final size:20
Alignment explanation
Indices: 43128381--43128422 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
43128371 GGCGTTATAG
43128381 AAGATAGAATGTGGATCCTA
1 AAGATAGAATGTGGATCCTA
*
43128401 AAGATAGAATGTGGATCTTA
1 AAGATAGAATGTGGATCCTA
43128421 AA
1 AA
43128423 CCTATCCCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.43, C:0.07, G:0.24, T:0.26
Consensus pattern (20 bp):
AAGATAGAATGTGGATCCTA
Found at i:43129411 original size:106 final size:107
Alignment explanation
Indices: 43129211--43129414 Score: 329
Period size: 106 Copynumber: 1.9 Consensus size: 107
43129201 GCAACCAGCC
* * * *
43129211 CCGCCTAGAGCAATGAGGTTCTTTTGTTGGAACTTTCAAGGGCTTGGGAAACCCTATGATAGTTC
1 CCGCCTAGAGCAATGAGGTTCTTTTGTTGGAACTGTCAAGAGATTGGGAAACCCTACGATAGTTC
43129276 ATGAGCTCAAGCAACCCCTTATTGCTACTAACCTGCCAGCTA
66 ATGAGCTCAAGCAACCCCTTATTGCTACTAACCTGCCAGCTA
* * *
43129318 CCGCCTAGAGCAATGAGGTTTTTTTGTTGGAACTGTCAAGAGATTGGG-AACCTTGCGATAGTTC
1 CCGCCTAGAGCAATGAGGTTCTTTTGTTGGAACTGTCAAGAGATTGGGAAACCCTACGATAGTTC
*
43129382 ATGAGCTCAAGCAACTCCTTATTGCTACTAACC
66 ATGAGCTCAAGCAACCCCTTATTGCTACTAACC
43129415 CAAATATTAT
Statistics
Matches: 89, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
106 45 0.51
107 44 0.49
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (107 bp):
CCGCCTAGAGCAATGAGGTTCTTTTGTTGGAACTGTCAAGAGATTGGGAAACCCTACGATAGTTC
ATGAGCTCAAGCAACCCCTTATTGCTACTAACCTGCCAGCTA
Found at i:43136924 original size:17 final size:17
Alignment explanation
Indices: 43136902--43136935 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
43136892 TCTTCCAATG
43136902 TGATACTTTTAGAAACA
1 TGATACTTTTAGAAACA
43136919 TGATACTTTTAGAAACA
1 TGATACTTTTAGAAACA
43136936 CCGTATCACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (17 bp):
TGATACTTTTAGAAACA
Found at i:43142992 original size:13 final size:13
Alignment explanation
Indices: 43142974--43142998 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43142964 GAATTGATAT
43142974 GTGTGAAAATTTC
1 GTGTGAAAATTTC
43142987 GTGTGAAAATTT
1 GTGTGAAAATTT
43142999 TATTGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:43144189 original size:44 final size:42
Alignment explanation
Indices: 43144107--43144263 Score: 152
Period size: 43 Copynumber: 3.7 Consensus size: 42
43144097 TAGGATTCCG
** *
43144107 ATATGTGATTTCATGTAAGACCATGTCTAAGACGTTGGCATC
1 ATATGTGATTTCATGTAAGACCATGTCTGGGACATTGGCATC
* * *
43144149 AATTTGTGATTTACGTGTAAGACCATGTTTGGGACATTGGCATC
1 -ATATGTGATTT-CATGTAAGACCATGTCTGGGACATTGGCATC
* * * * * * *
43144193 GTATATGAGTTCGTGTAAGACCTTGTCTGGGATAGTGGCATC
1 ATATGTGATTTCATGTAAGACCATGTCTGGGACATTGGCATC
* *
43144235 GATATGTGATTACATGTAAGACCACGTCT
1 -ATATGTGATTTCATGTAAGACCATGTCT
43144264 AGAACGTTGG
Statistics
Matches: 91, Mismatches: 21, Indels: 4
0.78 0.18 0.03
Matches are distributed among these distances:
42 27 0.30
43 38 0.42
44 26 0.29
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (42 bp):
ATATGTGATTTCATGTAAGACCATGTCTGGGACATTGGCATC
Found at i:43144224 original size:42 final size:41
Alignment explanation
Indices: 43144162--43144263 Score: 114
Period size: 42 Copynumber: 2.4 Consensus size: 41
43144152 TTGTGATTTA
* *
43144162 CGTGTAAGACCATGTTTGGGACATTGGCATCGTATATGAGTT
1 CGTGTAAGACCATGTCTGGGACAGTGGCATCG-ATATGAGTT
* * *
43144204 CGTGTAAGACCTTGTCTGGGATAGTGGCATCGATATGTGATT
1 CGTGTAAGACCATGTCTGGGACAGTGGCATCGATATGAG-TT
* *
43144246 ACATGTAAGACCACGTCT
1 -CGTGTAAGACCATGTCT
43144264 AGAACGTTGG
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
41 6 0.12
42 30 0.60
43 14 0.28
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (41 bp):
CGTGTAAGACCATGTCTGGGACAGTGGCATCGATATGAGTT
Found at i:43149837 original size:11 final size:11
Alignment explanation
Indices: 43149829--43149853 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
43149819 TTCAAAAAGA
43149829 ATTATAAAAAT
1 ATTATAAAAAT
43149840 ATTATAAAAAT
1 ATTATAAAAAT
43149851 ATT
1 ATT
43149854 TTGTTTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
ATTATAAAAAT
Found at i:43149925 original size:26 final size:28
Alignment explanation
Indices: 43149895--43149949 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
43149885 TTTTTAAAAA
43149895 AATTA-TAAAA-ATTTAAAATAATTTTT
1 AATTATTAAAAGATTTAAAATAATTTTT
* * *
43149921 AATTATTAAAAGGTTTTATATAATTTTT
1 AATTATTAAAAGATTTAAAATAATTTTT
43149949 A
1 A
43149950 TAATTTAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 5 0.21
27 5 0.21
28 14 0.58
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (28 bp):
AATTATTAAAAGATTTAAAATAATTTTT
Found at i:43149956 original size:18 final size:18
Alignment explanation
Indices: 43149935--43149975 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
43149925 ATTAAAAGGT
*
43149935 TTTATATAATTTTTATAA
1 TTTATATAATTTTTAAAA
* *
43149953 TTTAAATTATTTTTAAAA
1 TTTATATAATTTTTAAAA
43149971 TTTAT
1 TTTAT
43149976 TCTATAATGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTATATAATTTTTAAAA
Found at i:43152819 original size:27 final size:27
Alignment explanation
Indices: 43152789--43152851 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
43152779 TCCAAGGACT
* * *
43152789 CAAACTTCCCTAACAACCAATACTTTC
1 CAAACTTCCCCAACAACCAAAACTTCC
43152816 CAAACTTCCCCAACAACCAAAACTTCC
1 CAAACTTCCCCAACAACCAAAACTTCC
*
43152843 CTAACTTCC
1 CAAACTTCC
43152852 AGAACTAAGC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.37, C:0.41, G:0.00, T:0.22
Consensus pattern (27 bp):
CAAACTTCCCCAACAACCAAAACTTCC
Found at i:43162441 original size:14 final size:14
Alignment explanation
Indices: 43162422--43162448 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
43162412 AACCGTCCAA
43162422 TTCATTCATACCAT
1 TTCATTCATACCAT
43162436 TTCATTCATACCA
1 TTCATTCATACCA
43162449 CTCTTACCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.30, G:0.00, T:0.41
Consensus pattern (14 bp):
TTCATTCATACCAT
Found at i:43165579 original size:29 final size:29
Alignment explanation
Indices: 43165544--43165617 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
43165534 GTTGTGAGAT
* *
43165544 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
* *
43165573 TGGCACTAAGTGTACGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
43165602 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
43165618 TGGTTGATTC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 5 0.13
29 34 0.87
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:43173701 original size:29 final size:29
Alignment explanation
Indices: 43173666--43173739 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
43173656 GTTGTGAGAT
* *
43173666 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
43173695 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
43173724 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
43173740 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:43174502 original size:29 final size:29
Alignment explanation
Indices: 43174467--43174540 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
43174457 GTTGTGAGAT
* *
43174467 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
43174496 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
43174525 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
43174541 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:43175042 original size:801 final size:801
Alignment explanation
Indices: 43173501--43175103 Score: 3143
Period size: 801 Copynumber: 2.0 Consensus size: 801
43173491 GTATTGATTT
43173501 AAATGATCGTAATACCTATGCAATTGTGTTTAATGAGATGAAATGTATACAAATGTATATGTATG
1 AAATGATCGTAATACCTATGCAATTGTGTTTAATGAGATGAAATGTATACAAATGTATATGTATG
43173566 TAGAGATGAAATTGTCAAATGTAAAAAGGAAGTGAAGCGTATAGAGTGGCTGGTTTTCGGCACTA
66 TAGAGATGAAATTGTCAAATGTAAAAAGGAAGTGAAGCGTATAGAGTGGCTGGTTTTCGGCACTA
*
43173631 AGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTGGCACTAAGTGTGCGGGCTTGAAATGCAT
131 AGTGTGCGGGCAATAAGTGTTCACAGTTGTGAGATTGGCACTAAGTGTGCGGGCTTGAAATGCAT
43173696 GGCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTAT
196 GGCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTAT
43173761 GTGTGCGAACCCACTATATATATATTTTCTATCAATTATTTATATTAAGGGTGCGACCTTACCGA
261 GTGTGCGAACCCACTATATATATATTTTCTATCAATTATTTATATTAAGGGTGCGACCTTACCGA
43173826 GTCGATTTCGGACAGCGGAAAGGGTAAGTACCTTGAGTTCATGGCTAATAGGTGCTATGTTTATA
326 GTCGATTTCGGACAGCGGAAAGGGTAAGTACCTTGAGTTCATGGCTAATAGGTGCTATGTTTATA
43173891 TTTGGAGTTGAGCGTGGTAAGTTTTGAACCTATGTGATGATTATAATTGAAGTCACGTACATAAG
391 TTTGGAGTTGAGCGTGGTAAGTTTTGAACCTATGTGATGATTATAATTGAAGTCACGTACATAAG
43173956 GTTCATCGTGGAATAGGTGAAAGTTCGTTTAGTTATATGATTGCAACGAAAATAAAATGATGTAT
456 GTTCATCGTGGAATAGGTGAAAGTTCGTTTAGTTATATGATTGCAACGAAAATAAAATGATGTAT
43174021 GGAAATGCCTCAATTATTCTATTGAATAGCGTATGAAATGTCAATGTAGGACTTGGAATGAGATT
521 GGAAATGCCTCAATTATTCTATTGAATAGCGTATGAAATGTCAATGTAGGACTTGGAATGAGATT
*
43174086 GAATTGTAAGGTCTAAGAAACTATGGCATAGTTCGGTATGGATGGAGTACTTAGCCTCATTTCGT
586 GAATCGTAAGGTCTAAGAAACTATGGCATAGTTCGGTATGGATGGAGTACTTAGCCTCATTTCGT
43174151 TGTTTCCTCTTGTGAAAATTTTATTAATGGATGGTAGTGTAATGCTTATGACTTACTGAGTTATA
651 TGTTTCCTCTTGTGAAAATTTTATTAATGGATGGTAGTGTAATGCTTATGACTTACTGAGTTATA
43174216 TACTCATTCGGTGTTTGCTTGTCACCTATTTTAGGTTTCTTGGACTAGACTTTTTGCGTACTCGG
716 TACTCATTCGGTGTTTGCTTGTCACCTATTTTAGGTTTCTTGGACTAGACTTTTTGCGTACTCGG
43174281 GACCGTCATCGAAGTCATCAC
781 GACCGTCATCGAAGTCATCAC
43174302 AAATGATCGTAATACCTATGCAATTGTGTTTAATGAGATGAAATGTATACAAATGTATATGTATG
1 AAATGATCGTAATACCTATGCAATTGTGTTTAATGAGATGAAATGTATACAAATGTATATGTATG
* *
43174367 TAGAGATGAAATTGTCGAATGTAAAAAGGAAGTGAAGCGTATAGAGTGGCTGGTTTTCGGTACTA
66 TAGAGATGAAATTGTCAAATGTAAAAAGGAAGTGAAGCGTATAGAGTGGCTGGTTTTCGGCACTA
43174432 AGTGTGCGGGCAATAAGTGTTCACAGTTGTGAGATTGGCACTAAGTGTGCGGGCTTGAAATGCAT
131 AGTGTGCGGGCAATAAGTGTTCACAGTTGTGAGATTGGCACTAAGTGTGCGGGCTTGAAATGCAT
43174497 GGCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTAT
196 GGCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTAT
43174562 GTGTGCGAACCCACTATATATATATTTTCTATCAATTATTTATATTAAGGGTGCGACCTTACCGA
261 GTGTGCGAACCCACTATATATATATTTTCTATCAATTATTTATATTAAGGGTGCGACCTTACCGA
43174627 GTCGATTTCGGACAGCGGAAAGGGTAAGTACCTTGAGTTCATGGCTAATAGGTGCTATGTTTATA
326 GTCGATTTCGGACAGCGGAAAGGGTAAGTACCTTGAGTTCATGGCTAATAGGTGCTATGTTTATA
43174692 TTTGGAGTTGAGCGTGGTAAGTTTTGAACCTATGTGATGATTATAATTGAAGTCACGTACATAAG
391 TTTGGAGTTGAGCGTGGTAAGTTTTGAACCTATGTGATGATTATAATTGAAGTCACGTACATAAG
*
43174757 GTTCATCGTGGAATAGGTGAAAGTTCGTTTAGTTATATGATTGTAACGAAAATAAAATGATGTAT
456 GTTCATCGTGGAATAGGTGAAAGTTCGTTTAGTTATATGATTGCAACGAAAATAAAATGATGTAT
43174822 GGAAATGCCTCAATTATTCTATTGAATAGCGTATGAAATGTCAATGTAGGACTTGGAATGAGATT
521 GGAAATGCCTCAATTATTCTATTGAATAGCGTATGAAATGTCAATGTAGGACTTGGAATGAGATT
*
43174887 GAATCGTAAGGTCTAAGAAACTATGGCGTAGTTCGGTATGGATGGAGTACTTAGCCTCATTTCGT
586 GAATCGTAAGGTCTAAGAAACTATGGCATAGTTCGGTATGGATGGAGTACTTAGCCTCATTTCGT
43174952 TGTTTCCTCTTGTGAAAATTTTATTAATGGATGGTAGTGTAATGCTTATGACTTACTGAGTTATA
651 TGTTTCCTCTTGTGAAAATTTTATTAATGGATGGTAGTGTAATGCTTATGACTTACTGAGTTATA
*
43175017 TACTCATTCGGTGTTTGCTTGTCACCTATTTTAGGTTTCTTGGACTCGACTTTTTGCGTACTCGG
716 TACTCATTCGGTGTTTGCTTGTCACCTATTTTAGGTTTCTTGGACTAGACTTTTTGCGTACTCGG
43175082 GACCGTCATCGAAGTCATCAC
781 GACCGTCATCGAAGTCATCAC
43175103 A
1 A
43175104 CCGGCTAGCA
Statistics
Matches: 795, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
801 795 1.00
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.34
Consensus pattern (801 bp):
AAATGATCGTAATACCTATGCAATTGTGTTTAATGAGATGAAATGTATACAAATGTATATGTATG
TAGAGATGAAATTGTCAAATGTAAAAAGGAAGTGAAGCGTATAGAGTGGCTGGTTTTCGGCACTA
AGTGTGCGGGCAATAAGTGTTCACAGTTGTGAGATTGGCACTAAGTGTGCGGGCTTGAAATGCAT
GGCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTAT
GTGTGCGAACCCACTATATATATATTTTCTATCAATTATTTATATTAAGGGTGCGACCTTACCGA
GTCGATTTCGGACAGCGGAAAGGGTAAGTACCTTGAGTTCATGGCTAATAGGTGCTATGTTTATA
TTTGGAGTTGAGCGTGGTAAGTTTTGAACCTATGTGATGATTATAATTGAAGTCACGTACATAAG
GTTCATCGTGGAATAGGTGAAAGTTCGTTTAGTTATATGATTGCAACGAAAATAAAATGATGTAT
GGAAATGCCTCAATTATTCTATTGAATAGCGTATGAAATGTCAATGTAGGACTTGGAATGAGATT
GAATCGTAAGGTCTAAGAAACTATGGCATAGTTCGGTATGGATGGAGTACTTAGCCTCATTTCGT
TGTTTCCTCTTGTGAAAATTTTATTAATGGATGGTAGTGTAATGCTTATGACTTACTGAGTTATA
TACTCATTCGGTGTTTGCTTGTCACCTATTTTAGGTTTCTTGGACTAGACTTTTTGCGTACTCGG
GACCGTCATCGAAGTCATCAC
Found at i:43176579 original size:14 final size:12
Alignment explanation
Indices: 43176560--43176607 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
43176550 AATAGAATCA
43176560 GAATTAAGTTATGT
1 GAATTAA-TTAT-T
*
43176574 GAATTATTTTATT
1 GAATTA-ATTATT
43176587 GAATTAATTATT
1 GAATTAATTATT
*
43176599 AAATTAATT
1 GAATTAATT
43176608 TTAAAATAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
12 13 0.43
13 7 0.23
14 10 0.33
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (12 bp):
GAATTAATTATT
Found at i:43176603 original size:12 final size:12
Alignment explanation
Indices: 43176582--43176619 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
43176572 GTGAATTATT
*
43176582 TTATTGAATTAA
1 TTATTAAATTAA
43176594 TTATTAAATTAA
1 TTATTAAATTAA
*
43176606 TT-TTAAAATAA
1 TTATTAAATTAA
43176617 TTA
1 TTA
43176620 ATTTTGGAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 10 0.43
12 13 0.57
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (12 bp):
TTATTAAATTAA
Found at i:43178340 original size:3 final size:3
Alignment explanation
Indices: 43178332--43178365 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
43178322 AAAATATGAT
43178332 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
43178366 GTATGTGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:43181249 original size:17 final size:18
Alignment explanation
Indices: 43181215--43181284 Score: 79
Period size: 18 Copynumber: 3.8 Consensus size: 18
43181205 TTTTTTAATG
43181215 AATTTTTAAATATTTTTT
1 AATTTTTAAATATTTTTT
*
43181233 AATTTTT-AATTTATTTTT
1 AATTTTTAAATAT-TTTTT
* *
43181251 ATTTTTTAAATATTTTAT
1 AATTTTTAAATATTTTTT
*
43181269 AAATTTTAAATCATTT
1 AATTTTTAAAT-ATTT
43181285 ATTGACTTGA
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
17 4 0.09
18 31 0.72
19 8 0.19
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.64
Consensus pattern (18 bp):
AATTTTTAAATATTTTTT
Found at i:43183623 original size:19 final size:18
Alignment explanation
Indices: 43183587--43183625 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
43183577 AAATTCAAAG
43183587 AAATATATAAAAATATAT
1 AAATATATAAAAATATAT
43183605 AAATATTATCAAAAA-ATAT
1 AAATA-TAT-AAAAATATAT
43183624 AA
1 AA
43183626 TAATAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.26
19 9 0.47
20 5 0.26
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (18 bp):
AAATATATAAAAATATAT
Found at i:43184127 original size:33 final size:31
Alignment explanation
Indices: 43184085--43184148 Score: 76
Period size: 33 Copynumber: 2.0 Consensus size: 31
43184075 TAATATTAGT
43184085 ATAAAATTTA-AATTTATTATTATATTTTTTTG
1 ATAAAATTTAGAATTT-TTA-TATATTTTTTTG
*
43184117 ATAAATATTTATGTATTTTTATATATTTTTTT
1 ATAAA-ATTTA-GAATTTTTATATATTTTTTT
43184149 TAATTTTTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
32 5 0.18
33 16 0.57
34 3 0.11
35 4 0.14
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (31 bp):
ATAAAATTTAGAATTTTTATATATTTTTTTG
Found at i:43190782 original size:21 final size:20
Alignment explanation
Indices: 43190758--43190808 Score: 70
Period size: 18 Copynumber: 2.6 Consensus size: 20
43190748 ATATGGGTTA
*
43190758 AATTTGATGTGTTGTTGGTAT
1 AATTT-ATGTATTGTTGGTAT
43190779 AATTTA--TATTGTTGGTAT
1 AATTTATGTATTGTTGGTAT
43190797 AATTTATGTATT
1 AATTTATGTATT
43190809 ATCAATAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 17 0.63
20 5 0.19
21 5 0.19
ACGTcount: A:0.25, C:0.00, G:0.20, T:0.55
Consensus pattern (20 bp):
AATTTATGTATTGTTGGTAT
Found at i:43190957 original size:43 final size:43
Alignment explanation
Indices: 43190909--43190993 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
43190899 CTACAATTAG
* *
43190909 TTTGTTTTATTTTTTGGTGATGTATCATCATTTGATTCAATAC
1 TTTGTTTTATTTTTTGGTGATGTATCACCATTTAATTCAATAC
*
43190952 TTTGTTTTATTTTTTGTTGATGTATCACCATTTAATTCAATA
1 TTTGTTTTATTTTTTGGTGATGTATCACCATTTAATTCAATA
43190994 GTAATGTATA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.22, C:0.09, G:0.12, T:0.56
Consensus pattern (43 bp):
TTTGTTTTATTTTTTGGTGATGTATCACCATTTAATTCAATAC
Found at i:43195513 original size:9 final size:9
Alignment explanation
Indices: 43195499--43195523 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
43195489 TTTTATTCAA
43195499 AAATAAAAC
1 AAATAAAAC
43195508 AAATAAAAC
1 AAATAAAAC
43195517 AAATAAA
1 AAATAAA
43195524 GTAAAATACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.80, C:0.08, G:0.00, T:0.12
Consensus pattern (9 bp):
AAATAAAAC
Found at i:43196529 original size:26 final size:26
Alignment explanation
Indices: 43196493--43196545 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
43196483 ATGCCAAGAA
43196493 TGAGCCTGATGGATCAATGGCTAAGC
1 TGAGCCTGATGGATCAATGGCTAAGC
43196519 TGAGCCTGATGGATCAATGGCTAAGC
1 TGAGCCTGATGGATCAATGGCTAAGC
43196545 T
1 T
43196546 TCTGCATACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (26 bp):
TGAGCCTGATGGATCAATGGCTAAGC
Found at i:43216810 original size:29 final size:28
Alignment explanation
Indices: 43216765--43216820 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
43216755 TCATTTTCGC
* *
43216765 TTATATCAATTGTCAAAAACGTTATTTAA
1 TTATATCAATTG-CCAAAACATTATTTAA
43216794 TTATAT-AATTTGCCAAAACATTATTTA
1 TTATATCAA-TTGCCAAAACATTATTTA
43216821 CAATAGGAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 15 0.62
29 9 0.38
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.43
Consensus pattern (28 bp):
TTATATCAATTGCCAAAACATTATTTAA
Found at i:43217733 original size:17 final size:18
Alignment explanation
Indices: 43217701--43217735 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
43217691 GGGCTTACAT
43217701 GCTCGTGTGAGCCCACAC
1 GCTCGTGTGAGCCCACAC
43217719 GCTCGTGTG-GCCCACAC
1 GCTCGTGTGAGCCCACAC
43217736 ACCCAGATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.14, C:0.40, G:0.29, T:0.17
Consensus pattern (18 bp):
GCTCGTGTGAGCCCACAC
Found at i:43218173 original size:22 final size:23
Alignment explanation
Indices: 43218132--43218174 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
43218122 TACCCCAACA
*
43218132 ACAATTCAAAACAAGCGTTCATC
1 ACAATTCAAAACAAGAGTTCATC
*
43218155 ACAA-TCAAAACACGAGTTCA
1 ACAATTCAAAACAAGAGTTCA
43218175 ACATCAATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.47, C:0.26, G:0.09, T:0.19
Consensus pattern (23 bp):
ACAATTCAAAACAAGAGTTCATC
Found at i:43223132 original size:24 final size:24
Alignment explanation
Indices: 43223100--43223151 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
43223090 CCAAGGAGAA
43223100 AGAGGAATTACTCCAAGTATTAAG
1 AGAGGAATTACTCCAAGTATTAAG
43223124 AGAGGAATTACTCCAAGTATTAAG
1 AGAGGAATTACTCCAAGTATTAAG
43223148 AGAG
1 AGAG
43223152 CATAAAAGCG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.23
Consensus pattern (24 bp):
AGAGGAATTACTCCAAGTATTAAG
Found at i:43228047 original size:80 final size:80
Alignment explanation
Indices: 43227910--43228207 Score: 408
Period size: 80 Copynumber: 3.7 Consensus size: 80
43227900 CGGATGATAA
* * * *
43227910 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC-AAATTTCGGGCTAAGTCCCGAAGGCA-TT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCCCGAAGGCATTT
**
43227973 GTTGCGAGTTACTAATT
65 G-TGCGAACTACTAATT
*
43227990 CCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
43228055 TGCGAACTACTAATT
66 TGCGAACTACTAATT
*
43228070 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
*
43228135 TCCGAACTACT-ATAT
66 TGCGAACTACTAAT-T
* * * *
43228150 CCGGGCTAAGTCCCGAAGGCATTCGAGCGAG-TAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
43228208 TACTTGGTTT
Statistics
Matches: 199, Mismatches: 15, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
79 18 0.09
80 176 0.88
81 5 0.03
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAACTACTAATT
Found at i:43228123 original size:120 final size:120
Alignment explanation
Indices: 43227910--43228172 Score: 413
Period size: 120 Copynumber: 2.2 Consensus size: 120
43227900 CGGATGATAA
* * *
43227910 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACAAATTTCGGGCTAAGTCCCGAAGGCATTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAACTGACAAATTCCGGGCTAAGTCCCGAAGGCATTGT
* **
43227975 TGCGAGTTACTAATTCCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
66 TGCGAGTTACTAATTCCGAGCTAAGTCCCGAAGGCATTTGTCCGAACTACTATAT
*
43228030 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACT-ACTAATTCCGGGCTAAGTCCCGAAGGCATT-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-AACTGACAAATTCCGGGCTAAGTCCCGAAGGCATTG
* *
43228093 TGTGCGAGTTACTATTTCCGGGCTAAGTCCCGAAGGCATTTGTCCGAACTACTATAT
65 T-TGCGAGTTACTAATTCCGAGCTAAGTCCCGAAGGCATTTGTCCGAACTACTATAT
43228150 CCGGGCTAAGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
43228173 CGAGCGAGTA
Statistics
Matches: 132, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
119 1 0.01
120 129 0.98
121 2 0.02
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (120 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAACTGACAAATTCCGGGCTAAGTCCCGAAGGCATTGT
TGCGAGTTACTAATTCCGAGCTAAGTCCCGAAGGCATTTGTCCGAACTACTATAT
Found at i:43228188 original size:40 final size:39
Alignment explanation
Indices: 43227910--43228207 Score: 354
Period size: 40 Copynumber: 7.5 Consensus size: 39
43227900 CGGATGATAA
* *
43227910 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC-AAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATA-T
*
43227950 TCGGGCTAAGTCCCGAAGGCA-TTGTTGCGAGTTACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTG-TGCGAG-TACTATA-T
*
43227990 CCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
*
43228030 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTACTATA-T
*
43228070 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
* *
43228110 CCGGGCTAAGTCCCGAAGGCATTTGTCCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTACTATAT
* *
43228150 CCGGGCTAAGTCCCGAAGGCATTCGAGCGAGTAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTATAT
* *
43228190 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
43228208 TACTTGGTTT
Statistics
Matches: 230, Mismatches: 17, Indels: 23
0.85 0.06 0.09
Matches are distributed among these distances:
39 22 0.10
40 200 0.87
41 8 0.03
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAT
Found at i:43228193 original size:120 final size:120
Alignment explanation
Indices: 43227910--43228207 Score: 408
Period size: 120 Copynumber: 2.5 Consensus size: 120
43227900 CGGATGATAA
* * *
43227910 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT-GACAAATTTCGGGCTAAGTCCCGAAGGCATTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAG-CTAATTCCGGGCTAAGTCCCGAAGGCATTG
* **
43227974 TTGCGAGTTACTAATTCCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
65 TTGCGAGTTACTAATTCCGAGCTAAGTCCCGAAGGCATTTGTCCGAACTACTATAT
*
43228030 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTA-CTAATTCCGGGCTAAGTCCCGAAGGCATT-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTAGCTAATTCCGGGCTAAGTCCCGAAGGCATTG
* *
43228093 TGTGCGAGTTACTATTTCCGGGCTAAGTCCCGAAGGCATTTGTCCGAACTACTATAT
65 T-TGCGAGTTACTAATTCCGAGCTAAGTCCCGAAGGCATTTGTCCGAACTACTATAT
* * * *
43228150 CCGGGCTAAGTCCCGAAGGCATTCGAGCGAGTAGCT-ATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTAAT-TCCGGGCTAAGTCCCGAAGG
43228208 TACTTGGTTT
Statistics
Matches: 159, Mismatches: 14, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
119 20 0.13
120 137 0.86
121 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.26
Consensus pattern (120 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTAATTCCGGGCTAAGTCCCGAAGGCATTGT
TGCGAGTTACTAATTCCGAGCTAAGTCCCGAAGGCATTTGTCCGAACTACTATAT
Found at i:43235843 original size:21 final size:21
Alignment explanation
Indices: 43235819--43235889 Score: 63
Period size: 21 Copynumber: 3.2 Consensus size: 21
43235809 CTACTTGAAT
43235819 TATATGTTGAGTTAATTAGTC
1 TATATGTTGAGTTAATTAGTC
* * *
43235840 TATACGTATGAGATTCTACTTGAAT-
1 TATATGT-TGAG--T-TAATT-AGTC
43235865 TATATGTTGAGTTAATTAGTC
1 TATATGTTGAGTTAATTAGTC
43235886 TATA
1 TATA
43235890 CGTATGATGT
Statistics
Matches: 38, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
20 2 0.05
21 14 0.37
22 5 0.13
24 5 0.13
25 10 0.26
26 2 0.05
ACGTcount: A:0.31, C:0.07, G:0.17, T:0.45
Consensus pattern (21 bp):
TATATGTTGAGTTAATTAGTC
Found at i:43235872 original size:46 final size:46
Alignment explanation
Indices: 43235805--43235896 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
43235795 GTGATATAAT
43235805 GATTCTACTTGAATTATATGTTGAGTTAATTAGTCTATACGTATGA
1 GATTCTACTTGAATTATATGTTGAGTTAATTAGTCTATACGTATGA
43235851 GATTCTACTTGAATTATATGTTGAGTTAATTAGTCTATACGTATGA
1 GATTCTACTTGAATTATATGTTGAGTTAATTAGTCTATACGTATGA
43235897 TGTGTAGCCG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.30, C:0.09, G:0.17, T:0.43
Consensus pattern (46 bp):
GATTCTACTTGAATTATATGTTGAGTTAATTAGTCTATACGTATGA
Found at i:43235895 original size:25 final size:25
Alignment explanation
Indices: 43235821--43235895 Score: 61
Period size: 25 Copynumber: 3.2 Consensus size: 25
43235811 ACTTGAATTA
43235821 TATGTTGAGTTAATTAGTCTATACG
1 TATGTTGAGTTAATTAGTCTATACG
* * * **
43235846 TATG-AGATTCTACTT-GAAT-TA--
1 TATGTTGAGT-TAATTAGTCTATACG
43235867 TATGTTGAGTTAATTAGTCTATACG
1 TATGTTGAGTTAATTAGTCTATACG
43235892 TATG
1 TATG
43235896 ATGTGTAGCC
Statistics
Matches: 34, Mismatches: 10, Indels: 12
0.61 0.18 0.21
Matches are distributed among these distances:
21 8 0.24
22 5 0.15
23 4 0.12
24 5 0.15
25 12 0.35
ACGTcount: A:0.29, C:0.08, G:0.19, T:0.44
Consensus pattern (25 bp):
TATGTTGAGTTAATTAGTCTATACG
Found at i:43236136 original size:40 final size:40
Alignment explanation
Indices: 43236081--43236296 Score: 305
Period size: 40 Copynumber: 5.4 Consensus size: 40
43236071 GATGATAACG
* *
43236081 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
43236121 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
43236161 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* **
43236201 GAGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
43236241 GGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
* *
43236281 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
43236297 TACTTGGTTT
Statistics
Matches: 164, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
39 16 0.10
40 147 0.90
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:43236413 original size:61 final size:61
Alignment explanation
Indices: 43236318--43236437 Score: 222
Period size: 61 Copynumber: 2.0 Consensus size: 61
43236308 GGAATGAGCG
43236318 ATCTTGCTGTAATAATTTCAATTAATATACTCGTAAAATCCCACGATGAGGTATGTTTCAT
1 ATCTTGCTGTAATAATTTCAATTAATATACTCGTAAAATCCCACGATGAGGTATGTTTCAT
* *
43236379 ATCTTGCTGTAATAATTTCAATTAATATGCTCGTAAAATCCTACGATGAGGTATGTTTC
1 ATCTTGCTGTAATAATTTCAATTAATATACTCGTAAAATCCCACGATGAGGTATGTTTC
43236438 GTATATGCAT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 57 1.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (61 bp):
ATCTTGCTGTAATAATTTCAATTAATATACTCGTAAAATCCCACGATGAGGTATGTTTCAT
Done.