Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr2
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: 41236440
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2030548 characters in sequence are not A, C, G, or T
File 62 of 106
Found at i:23384138 original size:16 final size:16
Alignment explanation
Indices: 23384114--23384144 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23384104 TAAAAATATA
23384114 AAAAAAATCAAAATCC
1 AAAAAAATCAAAATCC
*
23384130 AAAACAATCAAAATC
1 AAAAAAATCAAAATC
23384145 TAATTTTTGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.19, G:0.00, T:0.13
Consensus pattern (16 bp):
AAAAAAATCAAAATCC
Found at i:23385447 original size:20 final size:20
Alignment explanation
Indices: 23385422--23385462 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
23385412 AGACTTACCT
23385422 TTGAATTATCAGAAATAGGA
1 TTGAATTATCAGAAATAGGA
23385442 TTGAATTATCAGAAATAGGA
1 TTGAATTATCAGAAATAGGA
23385462 T
1 T
23385463 AGATAAGACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.05, G:0.20, T:0.32
Consensus pattern (20 bp):
TTGAATTATCAGAAATAGGA
Found at i:23386699 original size:12 final size:13
Alignment explanation
Indices: 23386674--23386702 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
23386664 AACTATTCAA
23386674 ATTAAATAAAAAT
1 ATTAAATAAAAAT
23386687 ATTAAAT-AAAAT
1 ATTAAATAAAAAT
23386699 ATTA
1 ATTA
23386703 TATTTTCTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
ATTAAATAAAAAT
Found at i:23387637 original size:2 final size:2
Alignment explanation
Indices: 23387594--23387620 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
23387584 AATTCAAACC
23387594 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
23387621 GATAACACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23405214 original size:108 final size:107
Alignment explanation
Indices: 23405096--23405305 Score: 289
Period size: 108 Copynumber: 1.9 Consensus size: 107
23405086 TATAAGAATT
* * * * *
23405096 TTTGAGTAAATTTAAATGAAACCTAAATTAGGTAAGAGTT-AGATAATTTCAAAAGAATGTGTAT
1 TTTGACTAAATTTAAATAAAAACTAAATTAGATAAAAGTTGA-ATAATTTCAAAAGAATGTGTAT
* *
23405160 TTGTAAATTGTGAAAATTGTA-ATTAAATCAACATATTTTACTAA
65 TTGTAAATTGT-AAAAGT-TACACTAAATCAACATATTTTACTAA
* *
23405204 TTTGACTAAATTTAAATAAAAAGTAAATTAGATAAAAGTTGAATAATTTGAAAAGAATGTGTATT
1 TTTGACTAAATTTAAATAAAAACTAAATTAGATAAAAGTTGAATAATTTCAAAAGAATGTGTATT
23405269 TGTAAATTGTAAAAGTTACTACTAAATCAACATATTT
66 TGTAAATTGTAAAAGTTAC-ACTAAATCAACATATTT
23405306 AGTCATTTTG
Statistics
Matches: 90, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
106 2 0.02
107 5 0.06
108 82 0.91
109 1 0.01
ACGTcount: A:0.45, C:0.05, G:0.13, T:0.37
Consensus pattern (107 bp):
TTTGACTAAATTTAAATAAAAACTAAATTAGATAAAAGTTGAATAATTTCAAAAGAATGTGTATT
TGTAAATTGTAAAAGTTACACTAAATCAACATATTTTACTAA
Found at i:23421182 original size:25 final size:25
Alignment explanation
Indices: 23421154--23421205 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
23421144 TAAATAGCTA
23421154 GAGATTGAGCAATTGTGAAAAACTG
1 GAGATTGAGCAATTGTGAAAAACTG
* *
23421179 GAGATTGAGCAATTTTGAAAAGCTG
1 GAGATTGAGCAATTGTGAAAAACTG
23421204 GA
1 GA
23421206 ATGACTTGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.38, C:0.08, G:0.29, T:0.25
Consensus pattern (25 bp):
GAGATTGAGCAATTGTGAAAAACTG
Found at i:23433818 original size:30 final size:30
Alignment explanation
Indices: 23433760--23433818 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
23433750 AAGCTTTTAT
*
23433760 ACTTTTATTTTGAGCCAAATAAGCCCTTAA
1 ACTTTTATTTTGAGCCAAAAAAGCCCTTAA
** *
23433790 ACTTTTATTTTGAGTTAAAAAAGTCCTTA
1 ACTTTTATTTTGAGCCAAAAAAGCCCTTA
23433819 TGAGTAATGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.41
Consensus pattern (30 bp):
ACTTTTATTTTGAGCCAAAAAAGCCCTTAA
Found at i:23433946 original size:17 final size:17
Alignment explanation
Indices: 23433891--23433946 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
23433881 GTATGCTAAA
23433891 ATATCATAATTGATGAT
1 ATATCATAATTGATGAT
* *
23433908 GATGT-ATAA-TGTTGAT
1 -ATATCATAATTGATGAT
*
23433924 AAATCATAATTGATGAT
1 ATATCATAATTGATGAT
23433941 ATATCA
1 ATATCA
23433947 CAACTAAATA
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
15 2 0.07
16 10 0.33
17 15 0.50
18 3 0.10
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.39
Consensus pattern (17 bp):
ATATCATAATTGATGAT
Found at i:23435531 original size:562 final size:562
Alignment explanation
Indices: 23434462--23435589 Score: 2051
Period size: 562 Copynumber: 2.0 Consensus size: 562
23434452 ATATTTACAT
* * *
23434462 TTTCTCAATTGTATGATTTCTTGTTAGTTTTTTATTTTTTAAAGAAATTTTTATTACATTCAGAA
1 TTTCTCAATCGTATGATGTCTTGTTAATTTTTTATTTTTTAAAGAAATTTTTATTACATTCAGAA
*
23434527 ATTCAAAATCCAAAATTCTTCAAAATTTTTTATTTAGACTCTAACTTCAAATATAAAAAATCTTT
66 ATTCAAAATCCAAAATTCTTCAAAATTTTTTATTTAGACTCTAACTTCAAATATAAAAAAACTTT
*
23434592 TAACTGATGAAATAACAATAAAATTTGGAATTAATAAGAAGGTTAACTTAAAATAAAACTTCAAT
131 TAACTGATGAAAAAACAATAAAATTTGGAATTAATAAGAAGGTTAACTTAAAATAAAACTTCAAT
*
23434657 ATGATATTGAGTATTTGGTTTAGTGTGTGTGTGTGTGTATTGTTTTCTAAGTTTTGGTTTTAATT
196 ATGATATTGAGTATTTGGTTTA----G-GTGTGTGTATATTGTTTTCTAAGTTTTGGTTTTAATT
*
23434722 GCATTATCGATATTATATCATTTTCTATTAAGTTTTAAGGATGATAGTTTGGTAAGCCATGGGTT
256 GCATTATCAATATTATATCATTTTCTATTAAGTTTTAAGGATGATAGTTTGGTAAGCCATGGGTT
*
23434787 AGGCATGATAAGACAATTCTCCTTCCTGCAAGTAAAAAAGACATTGTTAGGTAATCCAATAGAAA
321 AGGCATGATAAGACAATTCTCCTTCCTGCAAGTAAAAAAAACATTGTTAGGTAATCCAATAGAAA
23434852 CCCCTTCTATAGGAAAATTAAATTTATAACAATAAGATGTTTCCTTTTCTAAGGACCACCTCTTC
386 CCCCTTCTATAGGAAAATTAAATTTATAACAATAAGATGTTTCCTTTTCTAAGGACCACCTCTTC
23434917 TTCAAGCTCAATATCAAACCAAACCCAGTCAATCAATGAGGAAAACGTTCAATATAAAAATATTA
451 TTCAAGCTCAATATCAAACCAAACCCAGTCAATCAATGAGGAAAACGTTCAATATAAAAATATTA
*
23434982 TTCAAGAAATAGATAATTGGAAAATTTCAAGAGTTCCCCAAAATCAAA
516 TTCAAGAAATAGATAACT-GAAAATTTCAAGAGTTCCCCAAAATCAAA
23435030 TTTCTCAATCGTATGATGTCTTGTTAATTTTTTATTTTTTAAAGAAATTTTTATTACATTCAGAA
1 TTTCTCAATCGTATGATGTCTTGTTAATTTTTTATTTTTTAAAGAAATTTTTATTACATTCAGAA
* *
23435095 ATTCAAAATCCAAAATTCTTCAAATTTTTTTATTTAGACTCTAACTTTAAATATAAAAAAACTTT
66 ATTCAAAATCCAAAATTCTTCAAAATTTTTTATTTAGACTCTAACTTCAAATATAAAAAAACTTT
23435160 TAACTGATGAAAAAACAATAAAATTTGGAATTAATAAGAAGGTTAACTTAAAATAAAACTTCAAT
131 TAACTGATGAAAAAACAATAAAATTTGGAATTAATAAGAAGGTTAACTTAAAATAAAACTTCAAT
23435225 ATGATATTGAGTATTTGGTTTA-GTGTGTGTATATTGTTTTCTAAGTTTTGGTTTTAATTGCATT
196 ATGATATTGAGTATTTGGTTTAGGTGTGTGTATATTGTTTTCTAAGTTTTGGTTTTAATTGCATT
23435289 ATCAATATTATATCATTTTCTATTAAGTTTTAAGGATGATAGTTTGGTAAGCCATGGGTTAGGCA
261 ATCAATATTATATCATTTTCTATTAAGTTTTAAGGATGATAGTTTGGTAAGCCATGGGTTAGGCA
*
23435354 TGATAAGACAATTCTTCTTCCTGCAAGTAAAAAAAACATTGTTAGGTAATCCAATAGAAACCCCT
326 TGATAAGACAATTCTCCTTCCTGCAAGTAAAAAAAACATTGTTAGGTAATCCAATAGAAACCCCT
23435419 TCTATAGGAAAATTAAATTTATAACAATAAGATGTTTCCTTTTCTAAGGACCACCTCTTCTTCAA
391 TCTATAGGAAAATTAAATTTATAACAATAAGATGTTTCCTTTTCTAAGGACCACCTCTTCTTCAA
* * *
23435484 GCTTAATATCAAACCAAACCTAGTCAGTCAATGAGGAAAACGTTCAATATAAAAATATTATTCAA
456 GCTCAATATCAAACCAAACCCAGTCAATCAATGAGGAAAACGTTCAATATAAAAATATTATTCAA
*
23435549 GAAATAGATAACTGAAAATTTCAAGAGTTCCCTAAAATCAA
521 GAAATAGATAACTGAAAATTTCAAGAGTTCCCCAAAATCAA
23435590 TTTATAAGTC
Statistics
Matches: 544, Mismatches: 16, Indels: 7
0.96 0.03 0.01
Matches are distributed among these distances:
561 27 0.05
562 307 0.56
568 210 0.39
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37
Consensus pattern (562 bp):
TTTCTCAATCGTATGATGTCTTGTTAATTTTTTATTTTTTAAAGAAATTTTTATTACATTCAGAA
ATTCAAAATCCAAAATTCTTCAAAATTTTTTATTTAGACTCTAACTTCAAATATAAAAAAACTTT
TAACTGATGAAAAAACAATAAAATTTGGAATTAATAAGAAGGTTAACTTAAAATAAAACTTCAAT
ATGATATTGAGTATTTGGTTTAGGTGTGTGTATATTGTTTTCTAAGTTTTGGTTTTAATTGCATT
ATCAATATTATATCATTTTCTATTAAGTTTTAAGGATGATAGTTTGGTAAGCCATGGGTTAGGCA
TGATAAGACAATTCTCCTTCCTGCAAGTAAAAAAAACATTGTTAGGTAATCCAATAGAAACCCCT
TCTATAGGAAAATTAAATTTATAACAATAAGATGTTTCCTTTTCTAAGGACCACCTCTTCTTCAA
GCTCAATATCAAACCAAACCCAGTCAATCAATGAGGAAAACGTTCAATATAAAAATATTATTCAA
GAAATAGATAACTGAAAATTTCAAGAGTTCCCCAAAATCAAA
Found at i:23437243 original size:22 final size:24
Alignment explanation
Indices: 23437190--23437243 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
23437180 AATTATGTAT
23437190 AAATTACGTATATGTATATATATA
1 AAATTACGTATATGTATATATATA
*
23437214 ATATATTAC-TTTAT-TATATATATA
1 A-A-ATTACGTATATGTATATATATA
23437238 AAATTA
1 AAATTA
23437244 ATGACATAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
22 4 0.15
23 1 0.04
24 12 0.44
25 5 0.19
26 5 0.19
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (24 bp):
AAATTACGTATATGTATATATATA
Found at i:23437546 original size:216 final size:219
Alignment explanation
Indices: 23437182--23437638 Score: 638
Period size: 216 Copynumber: 2.1 Consensus size: 219
23437172 AATATATAAA
** *
23437182 TTATGTATAAATTACGTATATGTATATATATAATATATTACTTTATTATATATATAAAATTAATG
1 TTATGTATAAATTAAATATACGTATATATATAATATATTACTTTATTATATATATAAAATTAATG
*
23437247 ACATAACTTATATGTTATAATATTTTAATATTTATATCAAAGTTCGTATAAATAATAACTAATTA
66 ACACAACTTATATGTTATAATA--TTAATATTTATATCAAAGTTCGTATAAATAATAACTAATTA
* *
23437312 CAAACAATATGTTATAAAAATTAAGGCCATAACTAATGAA-ATTATTAAGTGTAATCATATAACT
129 CAAACAATATGTTATAAAAATTAAGGCCATAACTAAT-AAGATTATTAAGTGTAATAATATAAAT
* *
23437376 AAAGTCTATTATAAGTTACAGTAATGC
193 AAAGTCTACTATAAGTTACAGTAACGC
*
23437403 TTATGTATAAATTAAATATACGTATATATATAATATATTACTTTATTATGTATATATGAAATTAA
1 TTATGTATAAATTAAATATACGTATATATATAATATATTACTTTATTA--TATATATAAAATTAA
** * *
23437468 TGACACAGTTTATATGTTAT-A-A-T-GT-TTTATATCAAAGTTTGTATAAATAATAACTAATTA
64 TGACACAACTTATATGTTATAATATTAATATTTATATCAAAGTTCGTATAAATAATAACTAATTA
* * ** * *
23437528 TAAGCAATATGTTATAAAAATTAAGGTGATAATTAATAAGGTTATTAAGTGTAATAATATAAATA
129 CAAACAATATGTTATAAAAATTAAGGCCATAACTAATAAGATTATTAAGTGTAATAATATAAATA
* *
23437593 AAGTTTACTATAAGTTATAGTAACGC
194 AAGTCTACTATAAGTTACAGTAACGC
23437619 TTATGTATAAATTAAATATA
1 TTATGTATAAATTAAATATA
23437639 TATATAGTAT
Statistics
Matches: 212, Mismatches: 21, Indels: 11
0.87 0.09 0.05
Matches are distributed among these distances:
215 2 0.01
216 130 0.61
217 1 0.00
218 1 0.00
221 46 0.22
222 1 0.00
223 31 0.15
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.40
Consensus pattern (219 bp):
TTATGTATAAATTAAATATACGTATATATATAATATATTACTTTATTATATATATAAAATTAATG
ACACAACTTATATGTTATAATATTAATATTTATATCAAAGTTCGTATAAATAATAACTAATTACA
AACAATATGTTATAAAAATTAAGGCCATAACTAATAAGATTATTAAGTGTAATAATATAAATAAA
GTCTACTATAAGTTACAGTAACGC
Found at i:23438015 original size:83 final size:82
Alignment explanation
Indices: 23437874--23438038 Score: 303
Period size: 83 Copynumber: 2.0 Consensus size: 82
23437864 TATCATTTGT
*
23437874 ATACGTACATATAATAAACTAATATATTTTAAGTATATTATTAATTAAGTTTACAATCAATTCTT
1 ATACGTACATATAATAAACTAATATAATTTAAGTATATTATTAATTAAGTTTACAATCAATTCTT
23437939 CTTAATATATGTAAAAA
66 CTTAATATATGTAAAAA
*
23437956 ATNACGTACATATAATAAATTAATATAATTTAAGTATATTATTAATTAAGTTTACAATCAATTCT
1 AT-ACGTACATATAATAAACTAATATAATTTAAGTATATTATTAATTAAGTTTACAATCAATTCT
23438021 TCTTAATATATGTAAAAA
65 TCTTAATATATGTAAAAA
23438039 TATTATATAT
Statistics
Matches: 80, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
82 2 0.03
83 78 0.98
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.41
Consensus pattern (82 bp):
ATACGTACATATAATAAACTAATATAATTTAAGTATATTATTAATTAAGTTTACAATCAATTCTT
CTTAATATATGTAAAAA
Found at i:23439589 original size:17 final size:18
Alignment explanation
Indices: 23439548--23439589 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
23439538 ATTTTTTATA
*
23439548 ATTAGTTTAATTTTAGTG
1 ATTATTTTAATTTTAGTG
23439566 ATTATTTTAATTTTA-TG
1 ATTATTTTAATTTTAGTG
*
23439583 TTTATTT
1 ATTATTT
23439590 ATTTTAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.26, C:0.00, G:0.10, T:0.64
Consensus pattern (18 bp):
ATTATTTTAATTTTAGTG
Found at i:23446579 original size:16 final size:16
Alignment explanation
Indices: 23446558--23446589 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
23446548 TGTGGCAGGT
23446558 GCCAAATAATAGGTAA
1 GCCAAATAATAGGTAA
*
23446574 GCCAAATAGTAGGTAA
1 GCCAAATAATAGGTAA
23446590 TTTCTTAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.12, G:0.22, T:0.19
Consensus pattern (16 bp):
GCCAAATAATAGGTAA
Found at i:23450206 original size:16 final size:17
Alignment explanation
Indices: 23450176--23450208 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
23450166 AGGTTTATTT
*
23450176 ATTATTATTTGCTTTTA
1 ATTATTATTTACTTTTA
23450193 ATTATT-TTTACTTTTA
1 ATTATTATTTACTTTTA
23450209 GTTTAAGTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.24, C:0.06, G:0.03, T:0.67
Consensus pattern (17 bp):
ATTATTATTTACTTTTA
Found at i:23451533 original size:35 final size:35
Alignment explanation
Indices: 23451487--23451601 Score: 110
Period size: 35 Copynumber: 3.4 Consensus size: 35
23451477 AAGCTTTTAC
*
23451487 AATGGCTTTTCACAGGCTCAGCCACAACCTTTCAT
1 AATGGCTTTTCACAGGCTCAACCACAACCTTTCAT
* ** * * *
23451522 AATGGTTTTTCATGGGATCAACCAAAACC---CAA
1 AATGGCTTTTCACAGGCTCAACCACAACCTTTCAT
* * *
23451554 AATGGCTTTTCAAAGGCTTAACCACAACCTTTAAT
1 AATGGCTTTTCACAGGCTCAACCACAACCTTTCAT
*
23451589 AATGGTTTTTCAC
1 AATGGCTTTTCAC
23451602 GAGATCAACG
Statistics
Matches: 60, Mismatches: 17, Indels: 6
0.72 0.20 0.07
Matches are distributed among these distances:
32 25 0.42
35 35 0.58
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (35 bp):
AATGGCTTTTCACAGGCTCAACCACAACCTTTCAT
Found at i:23451595 original size:67 final size:67
Alignment explanation
Indices: 23451487--23451622 Score: 209
Period size: 67 Copynumber: 2.0 Consensus size: 67
23451477 AAGCTTTTAC
* * * * *
23451487 AATGGCTTTTCACAGGCTCAGCCACAACCTTTCATAATGGTTTTTCATGGGATCAACCAAAACCC
1 AATGGCTTTTCAAAGGCTCAACCACAACCTTTAATAATGGTTTTTCACGAGATCAACCAAAACCC
23451552 AA
66 AA
* *
23451554 AATGGCTTTTCAAAGGCTTAACCACAACCTTTAATAATGGTTTTTCACGAGATCAACGAAAACCC
1 AATGGCTTTTCAAAGGCTCAACCACAACCTTTAATAATGGTTTTTCACGAGATCAACCAAAACCC
23451619 AA
66 AA
23451621 AA
1 AA
23451623 CTAACTTTTC
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
67 62 1.00
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.26
Consensus pattern (67 bp):
AATGGCTTTTCAAAGGCTCAACCACAACCTTTAATAATGGTTTTTCACGAGATCAACCAAAACCC
AA
Found at i:23453840 original size:19 final size:19
Alignment explanation
Indices: 23453795--23453842 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
23453785 TCTAGAGATA
23453795 AGAGAC-AATTATAAAGCT
1 AGAGACTAATTATAAAGCT
* *
23453813 TGATG-CTAATTTTAAAGCT
1 AGA-GACTAATTATAAAGCT
23453832 AGAGACTAATT
1 AGAGACTAATT
23453843 GAGAAAACTT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
18 4 0.17
19 20 0.83
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.31
Consensus pattern (19 bp):
AGAGACTAATTATAAAGCT
Found at i:23456806 original size:37 final size:37
Alignment explanation
Indices: 23456756--23456827 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
23456746 TTGATATATA
23456756 TGTATCGGCTTATGCATTCTCGCTGCAGCGAGAAAAT
1 TGTATCGGCTTATGCATTCTCGCTGCAGCGAGAAAAT
* *
23456793 TGTATCGGCTTATGCATTCTCGCTGTAGTGAGAAA
1 TGTATCGGCTTATGCATTCTCGCTGCAGCGAGAAA
23456828 CATTCTGTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (37 bp):
TGTATCGGCTTATGCATTCTCGCTGCAGCGAGAAAAT
Found at i:23456886 original size:21 final size:21
Alignment explanation
Indices: 23456847--23456888 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
23456837 TTGGCCACTT
* *
23456847 GAATCTCGCTGTAGTGAGAAA
1 GAATCTCGCTGCAGCGAGAAA
*
23456868 GAATCTCGTTGCAGCGAGAAA
1 GAATCTCGCTGCAGCGAGAAA
23456889 CTTTCTATCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (21 bp):
GAATCTCGCTGCAGCGAGAAA
Found at i:23461390 original size:35 final size:35
Alignment explanation
Indices: 23461294--23461407 Score: 117
Period size: 35 Copynumber: 3.3 Consensus size: 35
23461284 TTGCATAGGC
* *
23461294 TCAACCACAACCTTTCACAATGGTTTTTCACGGGA
1 TCAACCAAAACCTTTCACAATGGTTTTTCACAGGA
* * * * * *
23461329 TTAACTAAAACC---CATAATGGCTTTTCAAAGGC
1 TCAACCAAAACCTTTCACAATGGTTTTTCACAGGA
* *
23461361 TCAACCACAACCTTTAACAATGGTTTTTCACAGGA
1 TCAACCAAAACCTTTCACAATGGTTTTTCACAGGA
23461396 TCAACCAAAACC
1 TCAACCAAAACC
23461408 CAAAACTAAC
Statistics
Matches: 59, Mismatches: 17, Indels: 6
0.72 0.21 0.07
Matches are distributed among these distances:
32 24 0.41
35 35 0.59
ACGTcount: A:0.35, C:0.27, G:0.11, T:0.26
Consensus pattern (35 bp):
TCAACCAAAACCTTTCACAATGGTTTTTCACAGGA
Found at i:23463871 original size:38 final size:40
Alignment explanation
Indices: 23463828--23463933 Score: 137
Period size: 40 Copynumber: 2.7 Consensus size: 40
23463818 ATAGTGCCCG
* * *
23463828 TGTGCACGATGTGGAGGGATGTACATGAT-G-GCACTGAT-
1 TGTGCACGATGTGGGGGGATGTACACGATGGTGC-CGGATA
* *
23463866 TGTGCACGATGTGGGGGGATGCACACGATGGTGCCGGCTA
1 TGTGCACGATGTGGGGGGATGTACACGATGGTGCCGGATA
23463906 TGTGCACGATGTGGGGGGATGTACACGA
1 TGTGCACGATGTGGGGGGATGTACACGA
23463934 GCCGGGTGTG
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
38 26 0.44
39 4 0.07
40 29 0.49
ACGTcount: A:0.21, C:0.16, G:0.41, T:0.23
Consensus pattern (40 bp):
TGTGCACGATGTGGGGGGATGTACACGATGGTGCCGGATA
Found at i:23463892 original size:19 final size:19
Alignment explanation
Indices: 23463870--23463933 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
23463860 ACTGATTGTG
*
23463870 CACGATGTGGGGGGATGCA
1 CACGATGTGGGGGGATGTA
* ** *
23463889 CACGATGGTGCCGGCTATGTG
1 CACGAT-GTG-GGGGGATGTA
23463910 CACGATGTGGGGGGATGTA
1 CACGATGTGGGGGGATGTA
23463929 CACGA
1 CACGA
23463934 GCCGGGTGTG
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
19 17 0.50
20 6 0.18
21 11 0.32
ACGTcount: A:0.20, C:0.19, G:0.42, T:0.19
Consensus pattern (19 bp):
CACGATGTGGGGGGATGTA
Found at i:23465960 original size:73 final size:72
Alignment explanation
Indices: 23465810--23465996 Score: 189
Period size: 73 Copynumber: 2.6 Consensus size: 72
23465800 CGAATACTCT
* ** * * *
23465810 TAGTCGAATAACTATGCTTCTTAGTCGATTAAGTAATCTCTGTCTCCGAATCCAATTTTTGGCGG
1 TAGTCGAATAACTATGCTTTTTAGTCGATTAAGTCGTCTCTGTCTCCGAA-CCAATTTCTAGCAG
*
23465875 TAAGCTCT
65 TAAGCTCA
* * **
23465883 TAGTCGACTAACTATGCTTTTTAGTCGATTAAGTCGTCTCTGTTTTTGAA-CATAGTTTCTAGCA
1 TAGTCGAATAACTATGCTTTTTAGTCGATTAAGTCGTCTCTGTCTCCGAACCA-A-TTTCTAGCA
*
23465947 GTAGGCTCA
64 GTAAGCTCA
** *
23465956 TAGTC-AATTAAAAATGCTTTTTAGTCAATTAAGTCGTCTCT
1 TAGTCGAA-TAACTATGCTTTTTAGTCGATTAAGTCGTCTCT
23465997 ATTTCTAAAC
Statistics
Matches: 95, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
71 2 0.02
72 2 0.02
73 91 0.96
ACGTcount: A:0.26, C:0.18, G:0.17, T:0.39
Consensus pattern (72 bp):
TAGTCGAATAACTATGCTTTTTAGTCGATTAAGTCGTCTCTGTCTCCGAACCAATTTCTAGCAGT
AAGCTCA
Found at i:23470434 original size:17 final size:19
Alignment explanation
Indices: 23470393--23470436 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
23470383 GAAAAAAAAA
*
23470393 AGAAGAGAAAGCTGAGCGTG
1 AGAA-AGAAAGCTGAGAGTG
23470413 AGAAAGAAAG-TGAGAG-G
1 AGAAAGAAAGCTGAGAGTG
23470430 AGAAAGA
1 AGAAAGA
23470437 GCTGAGTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 8 0.35
18 5 0.22
19 6 0.26
20 4 0.17
ACGTcount: A:0.50, C:0.05, G:0.39, T:0.07
Consensus pattern (19 bp):
AGAAAGAAAGCTGAGAGTG
Found at i:23470501 original size:22 final size:22
Alignment explanation
Indices: 23470466--23470507 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
23470456 TTTGCTACAA
23470466 ATTTTGGAGGAGGAAAGAACTG
1 ATTTTGGAGGAGGAAAGAACTG
23470488 ATTTT-GAGGAAGGAAAGAAC
1 ATTTTGGAGG-AGGAAAGAAC
23470508 AACTTTGGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.40, C:0.05, G:0.33, T:0.21
Consensus pattern (22 bp):
ATTTTGGAGGAGGAAAGAACTG
Found at i:23470514 original size:21 final size:21
Alignment explanation
Indices: 23470472--23470514 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
23470462 ACAAATTTTG
* *
23470472 GAGGAGGAAAGAACTGATTTT
1 GAGGAGGAAAGAACTAACTTT
23470493 GAGGAAGGAAAGAAC-AACTTT
1 GAGG-AGGAAAGAACTAACTTT
23470514 G
1 G
23470515 GCTGCTGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.42, C:0.07, G:0.33, T:0.19
Consensus pattern (21 bp):
GAGGAGGAAAGAACTAACTTT
Found at i:23470692 original size:33 final size:35
Alignment explanation
Indices: 23470630--23470709 Score: 119
Period size: 33 Copynumber: 2.3 Consensus size: 35
23470620 TGTAGCTTTG
*
23470630 GCTGCTAATTTTTGAAGGGAAAATAGAGCAGCTTA
1 GCTGCTAATTTTTGAAGAGAAAATAGAGCAGCTTA
23470665 GCTGCTAATTTTT-AAGAG-AAATAGAGCAGCTTA
1 GCTGCTAATTTTTGAAGAGAAAATAGAGCAGCTTA
* *
23470698 ACTGCTGATTTT
1 GCTGCTAATTTT
23470710 GATGTGTATA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
33 25 0.60
34 4 0.10
35 13 0.31
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.33
Consensus pattern (35 bp):
GCTGCTAATTTTTGAAGAGAAAATAGAGCAGCTTA
Found at i:23470898 original size:5 final size:5
Alignment explanation
Indices: 23470870--23470948 Score: 104
Period size: 5 Copynumber: 15.2 Consensus size: 5
23470860 TCGACTGGAG
* *
23470870 AGAAA AGGAAG AGAAAA AGAAAA AGAAA AGAAA AGAAA AGAAA AAAAA
1 AGAAA A-GAAA AG-AAA AG-AAA AGAAA AGAAA AGAAA AGAAA AGAAA
*
23470918 AGAAG AGAAA AGAAA AGAAA AGAAA AGAAA A
1 AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA A
23470949 TATATATGTA
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
5 52 0.79
6 14 0.21
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:23470955 original size:2 final size:2
Alignment explanation
Indices: 23470948--23470992 Score: 54
Period size: 2 Copynumber: 22.5 Consensus size: 2
23470938 AGAAAAGAAA
* * * *
23470948 AT AT AT AT GT AT AT AT AT AT AT AT AT AT CT AC AT AT AT AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23470990 AT A
1 AT A
23470993 AATGGACATG
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (2 bp):
AT
Found at i:23471027 original size:25 final size:24
Alignment explanation
Indices: 23470993--23471048 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 24
23470983 TATACATATA
*
23470993 AATGGACATGACCCAATAAGGAAAG
1 AATGGGCATGACCCAATAA-GAAAG
* *
23471018 AATGGGCATGGCCCAATTAGAAAG
1 AATGGGCATGACCCAATAAGAAAG
23471042 AGATGGG
1 A-ATGGG
23471049 AAGAGTCAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 6 0.22
25 21 0.78
ACGTcount: A:0.41, C:0.14, G:0.30, T:0.14
Consensus pattern (24 bp):
AATGGGCATGACCCAATAAGAAAG
Found at i:23472888 original size:21 final size:21
Alignment explanation
Indices: 23472864--23472903 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
23472854 TATCTTGTGA
23472864 TTTTACACTATCCATGCTTTC
1 TTTTACACTATCCATGCTTTC
* * *
23472885 TTTTTCATTTTCCATGCTT
1 TTTTACACTATCCATGCTT
23472904 AGAACTCAAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.15, C:0.25, G:0.05, T:0.55
Consensus pattern (21 bp):
TTTTACACTATCCATGCTTTC
Found at i:23482311 original size:35 final size:35
Alignment explanation
Indices: 23482266--23482412 Score: 231
Period size: 35 Copynumber: 4.2 Consensus size: 35
23482256 CACACACTAT
* *
23482266 ATATCATCGTGTGCACTCCCTACTCGCACATTTCT
1 ATATCATCGTGTGCACTCCCTACTCGCACACTTCA
*
23482301 ATATCATCGTGTGCACTCCTTACTCGCACACTTCA
1 ATATCATCGTGTGCACTCCCTACTCGCACACTTCA
*
23482336 ATATCATCGTGTGCACTCCCTACTTGCACACTTCA
1 ATATCATCGTGTGCACTCCCTACTCGCACACTTCA
* *
23482371 ACATCATTGTGTGCACTCCCTACTCGCACACTTCA
1 ATATCATCGTGTGCACTCCCTACTCGCACACTTCA
*
23482406 ACATCAT
1 ATATCAT
23482413 TATCCACACT
Statistics
Matches: 104, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 104 1.00
ACGTcount: A:0.23, C:0.35, G:0.11, T:0.31
Consensus pattern (35 bp):
ATATCATCGTGTGCACTCCCTACTCGCACACTTCA
Found at i:23483963 original size:17 final size:18
Alignment explanation
Indices: 23483941--23483983 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
23483931 AATAATATTT
23483941 TAAAATTATTTTA-TCAA
1 TAAAATTATTTTATTCAA
23483958 TAAAATATTATTTTATTCAA
1 T-AAA-ATTATTTTATTCAA
23483978 -AAAATT
1 TAAAATT
23483984 TTCACTTGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
17 4 0.17
18 6 0.26
19 9 0.39
20 4 0.17
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (18 bp):
TAAAATTATTTTATTCAA
Found at i:23483969 original size:19 final size:19
Alignment explanation
Indices: 23483945--23483982 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
23483935 ATATTTTAAA
23483945 ATTATTTTA-TCAATAAAAT
1 ATTATTTTATTCAA-AAAAT
23483964 ATTATTTTATTCAAAAAAT
1 ATTATTTTATTCAAAAAAT
23483983 TTTCACTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTATTTTATTCAAAAAAT
Found at i:23484642 original size:73 final size:73
Alignment explanation
Indices: 23484501--23484698 Score: 288
Period size: 73 Copynumber: 2.7 Consensus size: 73
23484491 TAGACAGAAT
* * * * * *
23484501 GCTCTTAGTCGACTAACTATGCTTCTTAGTCAATTAAGTCGTCTCTATCTCTAAATCTAGTTTCT
1 GCTCTTAGTCGACTAACTATGCTTCTTAGTCAATTAAGTCGTCTCTGTTTTTAAACCCAATTTCT
23484566 GGCAGTAA
66 GGCAGTAA
* *
23484574 GCTCTTAGTCGACTAACTATGCTTCTTTGTCAATTAAGTCGTCTCTGTTTTTAAACCCAATTTTT
1 GCTCTTAGTCGACTAACTATGCTTCTTAGTCAATTAAGTCGTCTCTGTTTTTAAACCCAATTTCT
23484639 GGCAGTAA
66 GGCAGTAA
* * * *
23484647 ACTCTTAGTCGACTAACAATGCTTCTTAGTCGATTAAGTCGACTCTGTTTTT
1 GCTCTTAGTCGACTAACTATGCTTCTTAGTCAATTAAGTCGTCTCTGTTTTT
23484699 GAACTAGCCA
Statistics
Matches: 112, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
73 112 1.00
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40
Consensus pattern (73 bp):
GCTCTTAGTCGACTAACTATGCTTCTTAGTCAATTAAGTCGTCTCTGTTTTTAAACCCAATTTCT
GGCAGTAA
Found at i:23488790 original size:21 final size:21
Alignment explanation
Indices: 23488760--23488814 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
23488750 GCAGTTCATG
*
23488760 ACAAAAACTGAT-ACATTTATA
1 ACAAAGACTGATGA-ATTTATA
*
23488781 ACAAAGACTGATGAATTTATG
1 ACAAAGACTGATGAATTTATA
23488802 ACAAAGACTGATG
1 ACAAAGACTGATG
23488815 CTTCCATTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
21 30 0.97
22 1 0.03
ACGTcount: A:0.47, C:0.13, G:0.15, T:0.25
Consensus pattern (21 bp):
ACAAAGACTGATGAATTTATA
Found at i:23504429 original size:19 final size:19
Alignment explanation
Indices: 23504405--23504441 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
23504395 AAGTTATTAG
23504405 CTGACCGAGGGTTCCTCAA
1 CTGACCGAGGGTTCCTCAA
*
23504424 CTGACCGAGGGTTTCTCA
1 CTGACCGAGGGTTCCTCA
23504442 CCAAACCTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.19, C:0.30, G:0.27, T:0.24
Consensus pattern (19 bp):
CTGACCGAGGGTTCCTCAA
Found at i:23505078 original size:19 final size:19
Alignment explanation
Indices: 23505018--23505081 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
23505008 TAACCGACAC
*
23505018 CATCGTGTGCATCCCCCCA
1 CATCGTGTACATCCCCCCA
* ****
23505037 CATCGTGCACAATCAGTGC-
1 CATCGTGTAC-ATCCCCCCA
23505056 CATCGTGTACATCCCCCCA
1 CATCGTGTACATCCCCCCA
23505075 CATCGTG
1 CATCGTG
23505082 CACACGGGCA
Statistics
Matches: 32, Mismatches: 11, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
18 4 0.12
19 24 0.75
20 4 0.12
ACGTcount: A:0.20, C:0.41, G:0.17, T:0.22
Consensus pattern (19 bp):
CATCGTGTACATCCCCCCA
Found at i:23512041 original size:17 final size:17
Alignment explanation
Indices: 23512021--23512061 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
23512011 ATCTATATAC
23512021 TTTATAAATAAAATG-T
1 TTTATAAATAAAATGAT
* *
23512037 GTT-TAAATGAAATGAT
1 TTTATAAATAAAATGAT
23512053 TTTATAAAT
1 TTTATAAAT
23512062 TGTCTTGAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
15 10 0.50
16 5 0.25
17 5 0.25
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (17 bp):
TTTATAAATAAAATGAT
Found at i:23514856 original size:214 final size:215
Alignment explanation
Indices: 23514469--23514890 Score: 794
Period size: 214 Copynumber: 2.0 Consensus size: 215
23514459 ACATGTATCT
*
23514469 TAATAATTTACATTAAGTTTGTCTATACATATCAAAAGGAGACTTGATGTCCAGTGGAGAAACTC
1 TAATAATTTACATTAAGATTGTCTATACATATCAAAAGGAGACTTGATGTCCAGTGGAGAAACTC
*
23514534 GACGAATGTACAGCTACTGAATGCGAAGACATCTACCAACAGTCGAGTCTACAAGGGTACCTTGA
66 GACGAATGTACAACTACTGAATGCGAAGACATCTACCAACAGTCGAGTCTACAAGGGTACCTTGA
23514599 CCTAGTTACCAACGGCCTCGTGATCTGAAAACATTAAGTTGAAAACGGTGAGTATAAA-CCCAGT
131 CCTAGTTACCAACGGCCTCGTGATCTGAAAACATTAAGTTGAAAACGGTGAGTATAAACCCCAGT
23514663 GAGTGTACAAGGANGATCTTC
196 GAGTGTACAAGGA-GATCTTC
23514684 TAATAATTTACATTAA-ATTGTCTATACATATCAAAAGGAGACTTGATGTCCAGTGGAGAAACTC
1 TAATAATTTACATTAAGATTGTCTATACATATCAAAAGGAGACTTGATGTCCAGTGGAGAAACTC
*
23514748 GACGAATGTACAACTACTGAATGGGAAGACATCTACCAACAGTCGAGTCTACAAGGGTACCTTGA
66 GACGAATGTACAACTACTGAATGCGAAGACATCTACCAACAGTCGAGTCTACAAGGGTACCTTGA
23514813 CCTAGTTACCAACGGCCTCGTGATCTGAAAACATTAAGTTGAAAACGGTGAGTATAAACCCCAGT
131 CCTAGTTACCAACGGCCTCGTGATCTGAAAACATTAAGTTGAAAACGGTGAGTATAAACCCCAGT
23514878 GAGTGTACAAGGA
196 GAGTGTACAAGGA
23514891 AGGGAACAAG
Statistics
Matches: 203, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
214 168 0.83
215 35 0.17
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (215 bp):
TAATAATTTACATTAAGATTGTCTATACATATCAAAAGGAGACTTGATGTCCAGTGGAGAAACTC
GACGAATGTACAACTACTGAATGCGAAGACATCTACCAACAGTCGAGTCTACAAGGGTACCTTGA
CCTAGTTACCAACGGCCTCGTGATCTGAAAACATTAAGTTGAAAACGGTGAGTATAAACCCCAGT
GAGTGTACAAGGAGATCTTC
Found at i:23515714 original size:21 final size:20
Alignment explanation
Indices: 23515682--23515724 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
23515672 TAAAAATATG
23515682 CATACATACATAAATAACACC
1 CATACATACAT-AATAACACC
*
23515703 CATATCAT-CATAATCACACC
1 CATA-CATACATAATAACACC
23515723 CA
1 CA
23515725 GCTCATGTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 10 0.50
21 7 0.35
22 3 0.15
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.21
Consensus pattern (20 bp):
CATACATACATAATAACACC
Found at i:23515816 original size:38 final size:40
Alignment explanation
Indices: 23515727--23515832 Score: 144
Period size: 38 Copynumber: 2.7 Consensus size: 40
23515717 CACACCCAGC
* ** *
23515727 TCATGTACATCCCCCCATATTATGCACATAGTCGGTGCCA
1 TCATGTACATCCCCCCACATCGTGCACATAGTCAGTGCCA
* *
23515767 TCACGTGCATCCCCCCACATCGTGCACA-A-TCAGTGCCA
1 TCATGTACATCCCCCCACATCGTGCACATAGTCAGTGCCA
23515805 TCATGTACATCCCCCCACATCGTGCACA
1 TCATGTACATCCCCCCACATCGTGCACA
23515833 CGGGCACTAT
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
38 34 0.59
39 1 0.02
40 23 0.40
ACGTcount: A:0.25, C:0.39, G:0.14, T:0.23
Consensus pattern (40 bp):
TCATGTACATCCCCCCACATCGTGCACATAGTCAGTGCCA
Found at i:23520059 original size:13 final size:14
Alignment explanation
Indices: 23520033--23520075 Score: 61
Period size: 13 Copynumber: 3.1 Consensus size: 14
23520023 CTTCTATTTA
23520033 TTTATATATTTTTTT
1 TTTAT-TATTTTTTT
23520048 TTTATT-TTTTTTT
1 TTTATTATTTTTTT
*
23520061 ATTATTATTTTTTT
1 TTTATTATTTTTTT
23520075 T
1 T
23520076 AAGAAATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 12 0.48
14 8 0.32
15 5 0.20
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTATTATTTTTTT
Found at i:23520068 original size:16 final size:14
Alignment explanation
Indices: 23520041--23520075 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 14
23520031 TATTTATATA
23520041 TTTTTTTTTTATTT
1 TTTTTTTTTTATTT
23520055 TTTTTTATTATTATTT
1 TTTTTT-TT-TTATTT
23520071 TTTTT
1 TTTTT
23520076 AAGAAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.32
15 2 0.11
16 11 0.58
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (14 bp):
TTTTTTTTTTATTT
Found at i:23520076 original size:15 final size:15
Alignment explanation
Indices: 23520029--23520076 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
23520019 ATTTCTTCTA
23520029 TTTATTTATATATTTTT
1 TTTA-TTAT-TATTTTT
23520046 TTT-TTA-T-TTTTT
1 TTTATTATTATTTTT
23520058 TTTATTATTATTTTT
1 TTTATTATTATTTTT
23520073 TTTA
1 TTTA
23520077 AGAAATATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
12 8 0.29
13 4 0.14
14 1 0.04
15 12 0.43
17 3 0.11
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTATTATTATTTTT
Found at i:23525882 original size:15 final size:15
Alignment explanation
Indices: 23525833--23525883 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
23525823 TTTAAAGATC
*
23525833 AAAGATTTTGATTTT
1 AAAGTTTTTGATTTT
* * *
23525848 AAAGCTTTGGATTTC
1 AAAGTTTTTGATTTT
23525863 AAAGTTTTTGATTTT
1 AAAGTTTTTGATTTT
23525878 AAAGTT
1 AAAGTT
23525884 GTTTTAAGAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.31, C:0.04, G:0.16, T:0.49
Consensus pattern (15 bp):
AAAGTTTTTGATTTT
Found at i:23525928 original size:5 final size:5
Alignment explanation
Indices: 23525918--23525957 Score: 55
Period size: 5 Copynumber: 8.2 Consensus size: 5
23525908 TGCGTGGCCC
* *
23525918 AAGTT AAGTT AAGTT AAG-T AAGTC AAGTT AAGTT AGGTT A
1 AAGTT AAGTT AAGTT AAGTT AAGTT AAGTT AAGTT AAGTT A
23525958 TATCGAGTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
4 4 0.13
5 27 0.87
ACGTcount: A:0.40, C:0.03, G:0.23, T:0.35
Consensus pattern (5 bp):
AAGTT
Found at i:23528385 original size:28 final size:29
Alignment explanation
Indices: 23528344--23528403 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
23528334 GTCTATGGGC
*
23528344 AATTTTTCAGTTTT-TGGGGCAAAAATGT
1 AATTTTTCAGTTTTAGGGGGCAAAAATGT
* * *
23528372 AATTTTTGATTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAGTTTTA-GGGGGCAAAAATGT
23528402 AA
1 AA
23528404 ATATCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.40
Consensus pattern (29 bp):
AATTTTTCAGTTTTAGGGGGCAAAAATGT
Found at i:23531739 original size:2 final size:2
Alignment explanation
Indices: 23531732--23531760 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
23531722 AAGATGATTG
23531732 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
23531761 CACATGTATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23532139 original size:60 final size:60
Alignment explanation
Indices: 23532013--23532148 Score: 159
Period size: 60 Copynumber: 2.3 Consensus size: 60
23532003 CACTGTAGCT
* * ** *
23532013 TCTCACTGTAGCGAAATTCATTCTCGCTGCAGCGAAAAACTTTCTATTTTTGGGTCACAA
1 TCTCGCTGTAGCGAAATTCATTCTCGCTGCAGCGAAAAACTTTATATTTTTGGACCAAAA
* * *
23532073 TTTCGCTGTAGCGAAATTTATTCTCGCTGCAGC-AAGAAACTTTATGTTTTAT-GACCAAAA
1 TCTCGCTGTAGCGAAATTCATTCTCGCTGCAGCGAA-AAACTTTATATTTT-TGGACCAAAA
*
23532133 TCTCGCTGCAGCGAAA
1 TCTCGCTGTAGCGAAA
23532149 AACTTTCTGT
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
59 2 0.03
60 61 0.95
61 1 0.02
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (60 bp):
TCTCGCTGTAGCGAAATTCATTCTCGCTGCAGCGAAAAACTTTATATTTTTGGACCAAAA
Found at i:23533585 original size:37 final size:37
Alignment explanation
Indices: 23533544--23533690 Score: 206
Period size: 37 Copynumber: 4.0 Consensus size: 37
23533534 ATGATGTTGA
*
23533544 AGTGTGCGAGTAGGGAGTGCACACATGATGATGATAG
1 AGTGTACGAGTAGGGAGTGCACACATGATGATGATAG
* * *
23533581 AGTGTGCGAGAAGAGAGTGCACACATGATGATGATAG
1 AGTGTACGAGTAGGGAGTGCACACATGATGATGATAG
* *
23533618 AGTGTACGATTAGGGAGTGCACACATGATGATG-TTG
1 AGTGTACGAGTAGGGAGTGCACACATGATGATGATAG
* *
23533654 AAGTGTACGAGTAGGAAGTTCACACATGATGATGATA
1 -AGTGTACGAGTAGGGAGTGCACACATGATGATGATA
23533691 TTGCATTGAG
Statistics
Matches: 97, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
36 2 0.02
37 94 0.97
38 1 0.01
ACGTcount: A:0.33, C:0.11, G:0.33, T:0.23
Consensus pattern (37 bp):
AGTGTACGAGTAGGGAGTGCACACATGATGATGATAG
Found at i:23538478 original size:2 final size:2
Alignment explanation
Indices: 23538471--23538505 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
23538461 CAGAAGATGC
23538471 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
23538506 TCAAGGGGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:23540003 original size:21 final size:20
Alignment explanation
Indices: 23539974--23540012 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
23539964 TTTTGATAAA
*
23539974 GTGCTCTTAGTTGACTAACT
1 GTGCTCTTAGTCGACTAACT
23539994 GTGCTTCTTAGTCGACTAA
1 GTGC-TCTTAGTCGACTAA
23540013 GTCTTTTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (20 bp):
GTGCTCTTAGTCGACTAACT
Found at i:23540073 original size:74 final size:74
Alignment explanation
Indices: 23539979--23540247 Score: 335
Period size: 74 Copynumber: 3.6 Consensus size: 74
23539969 ATAAAGTGCT
* ** * * ***
23539979 CTTAGTTGACTAACTGTGCTTCTTAGTCGACTAAGTCTTTTCTATCTTT-TAATCCCAGTTTCT-
1 CTTAGTCGACTAACCATGCTTCTTGGTCGACTAAGTCTTTTCTAT-TTTCTGATTGAAGTTTCTA
*
23540042 GACAGTGAGCA
65 G-TAGTGAGCA
* * * *
23540053 CTTAGTCAACTAACCATGCTTCTTGGTCAACTAAGTCTTCTCAATTTTCTGATTGAAGTTTCTAG
1 CTTAGTCGACTAACCATGCTTCTTGGTCGACTAAGTCTTTTCTATTTTCTGATTGAAGTTTCTAG
23540118 TAGTGAGCA
66 TAGTGAGCA
* * *
23540127 CTTAGTCGACTAACCATGCTTCTTGGTCGACTAAGTTTTTTCTGTTTTCTGATTGAAGTTTTTAG
1 CTTAGTCGACTAACCATGCTTCTTGGTCGACTAAGTCTTTTCTATTTTCTGATTGAAGTTTCTAG
23540192 TAGTGAGCA
66 TAGTGAGCA
* * *
23540201 CTTAGTTGACTAACCACGCTTTTTGGTCGACTAAGTCTTTTCTATTT
1 CTTAGTCGACTAACCATGCTTCTTGGTCGACTAAGTCTTTTCTATTT
23540248 CTAGATAGAC
Statistics
Matches: 168, Mismatches: 25, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
73 3 0.02
74 164 0.98
75 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.41
Consensus pattern (74 bp):
CTTAGTCGACTAACCATGCTTCTTGGTCGACTAAGTCTTTTCTATTTTCTGATTGAAGTTTCTAG
TAGTGAGCA
Found at i:23546073 original size:62 final size:61
Alignment explanation
Indices: 23545876--23546149 Score: 244
Period size: 62 Copynumber: 4.4 Consensus size: 61
23545866 TAATTTTCAC
* * * * *
23545876 CGCAGTGAGAAACTTTCTACCTTACGAGCTACTGTTCTCTCCACAGCCAAATTGATTTTCGT
1 CGCAGAGAGAAACTTTCTGCCTTAGGAGTTACTGTTCTCGCCACAGCCAAATTGATTTTC-T
* * * * * * *
23545938 CGCGGTGAAAAACTTTCTACCTTAGGAGTTACTATCCTCGCCACAGCCAAATTGATTTTCG
1 CGCAGAGAGAAACTTTCTGCCTTAGGAGTTACTGTTCTCGCCACAGCCAAATTGATTTTCT
* * **
23545999 C-CACGACAAGAAACTTTCTGCCTTAGGAGTTATTGTTCTCGCCGTAGCCAAATTGATTTTCT
1 CGCA-GA-GAGAAACTTTCTGCCTTAGGAGTTACTGTTCTCGCCACAGCCAAATTGATTTTCT
** * * * *
23546061 CTGCAGAGAGAAACTTTCTGCCATGGGGAGTCACTGTTCTCACCTCAGCCAAATTTGATTCTCAT
1 C-GCAGAGAGAAACTTTCTGCC-TTAGGAGTTACTGTTCTCGCCACAGCCAAA-TTGATTTTC-T
** * *
23546126 ATCAGAAAGAAACTTTCTGTCTTA
1 CGCAGAGAGAAACTTTCTGCCTTA
23546150 TTTGGAAATC
Statistics
Matches: 171, Mismatches: 34, Indels: 13
0.78 0.16 0.06
Matches are distributed among these distances:
60 1 0.01
61 2 0.01
62 114 0.67
63 26 0.15
64 27 0.16
65 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (61 bp):
CGCAGAGAGAAACTTTCTGCCTTAGGAGTTACTGTTCTCGCCACAGCCAAATTGATTTTCT
Found at i:23548872 original size:54 final size:54
Alignment explanation
Indices: 23548790--23548894 Score: 192
Period size: 54 Copynumber: 1.9 Consensus size: 54
23548780 ATTGGCAGAC
* *
23548790 TTGTAGGTAGAGCCTTCATTTTGAGTGCCAGAACTTCCAATATGAGGGGCAAAA
1 TTGTAGGTAGAGCCATCATTTTGAGTGCCAAAACTTCCAATATGAGGGGCAAAA
23548844 TTGTAGGTAGAGCCATCATTTTGAGTGCCAAAACTTCCAATATGAGGGGCA
1 TTGTAGGTAGAGCCATCATTTTGAGTGCCAAAACTTCCAATATGAGGGGCA
23548895 GACTTCTTTG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.28
Consensus pattern (54 bp):
TTGTAGGTAGAGCCATCATTTTGAGTGCCAAAACTTCCAATATGAGGGGCAAAA
Found at i:23568069 original size:74 final size:74
Alignment explanation
Indices: 23567984--23568239 Score: 325
Period size: 74 Copynumber: 3.5 Consensus size: 74
23567974 AGAGAGTGCT
* * * * * * ** *
23567984 CTTAGTTGACTAACCGTACTTCTTAGTCGACTAAGTCTTTTCTATCTTCTAATCCCAA-TTTTTG
1 CTTAGTCGACTAACCATACTTCTTGGTCGACTAAGTCTTCTCTGTTTTCTAAT-TGAAGTTTCTG
23568048 GCAGTGAGCA
65 GCAGTGAGCA
* *
23568058 CTTAGTCGACTAACCATACTTCTTGGTCGACTAAGTCTTCTCTGTTTTCTGATTGAAGTTTCTGA
1 CTTAGTCGACTAACCATACTTCTTGGTCGACTAAGTCTTCTCTGTTTTCTAATTGAAGTTTCTGG
23568123 CAGTGAGCA
66 CAGTGAGCA
* * * *
23568132 CTAAATCGACTAACCATGCTTCTTGGTCGACTAAGTCTTCTCTGTTTTCTTATTGAAGTTTCTGG
1 CTTAGTCGACTAACCATACTTCTTGGTCGACTAAGTCTTCTCTGTTTTCTAATTGAAGTTTCTGG
23568197 CAGTGAGCA
66 CAGTGAGCA
* * * *
23568206 CTTAGTCAACTAACTATGCTTCTTGGTCAACTAA
1 CTTAGTCGACTAACCATACTTCTTGGTCGACTAA
23568240 ACCTTTTTTA
Statistics
Matches: 160, Mismatches: 21, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
73 2 0.01
74 158 0.99
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (74 bp):
CTTAGTCGACTAACCATACTTCTTGGTCGACTAAGTCTTCTCTGTTTTCTAATTGAAGTTTCTGG
CAGTGAGCA
Found at i:23569693 original size:28 final size:28
Alignment explanation
Indices: 23569634--23569782 Score: 110
Period size: 28 Copynumber: 5.3 Consensus size: 28
23569624 AAGCATTAAA
* *
23569634 GTGTAACAAAAAT-TTTTTGAACATGAC
1 GTGTAACAAAAATATTTTTCAACATGGC
* *
23569661 ATGTAACAACAATATTTTTCAACATGGC
1 GTGTAACAAAAATATTTTTCAACATGGC
* *
23569689 GTGTAACAATAACATTTTTTTCAACATGGT
1 GTGTAACAA-AA-ATATTTTTCAACATGGC
* * **
23569719 GTGT----AATATGTTTTTGTACATGGC
1 GTGTAACAAAAATATTTTTCAACATGGC
* *
23569743 GTATAACAATAATATTTTTTTTCAACATGGC
1 GTGTAACAA-AA-A-TATTTTTCAACATGGC
23569774 GTGTAACAA
1 GTGTAACAA
23569783 CCTTTTTTAA
Statistics
Matches: 93, Mismatches: 19, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
24 16 0.17
25 1 0.01
26 1 0.01
27 11 0.12
28 21 0.23
29 2 0.02
30 20 0.22
31 21 0.23
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.38
Consensus pattern (28 bp):
GTGTAACAAAAATATTTTTCAACATGGC
Found at i:23569831 original size:81 final size:81
Alignment explanation
Indices: 23569647--23570022 Score: 399
Period size: 81 Copynumber: 4.7 Consensus size: 81
23569637 TAACAAAAAT
* * *
23569647 TTTTTGAACATGACATGTAACAACAATA---TTTTTCAACATGGCGTGTAACAATAACATTTTTT
1 TTTTTGTACATGGCATGTAACAACAATATTTTTTTTCAACATGGCGTGTAAC---AAC-CTTTTT
**
23569709 TCAA-CATGGTGTGTAATATG
62 T-AACCATGACGTGTAATATG
* * *
23569729 TTTTTGTACATGGCGTATAACAATAATATTTTTTTTCAACATGGCGTGTAACAACCTTTTTTAAC
1 TTTTTGTACATGGCATGTAACAACAATATTTTTTTTCAACATGGCGTGTAACAACCTTTTTTAAC
* *
23569794 CATGACGTATAACATG
66 CATGACGTGTAATATG
** * *
23569810 TTTTTGTACATAACATGTAACAGCAATATTTTTTTTTCAACATGGTGTGTAACAACC-TTTTTAA
1 TTTTTGTACATGGCATGTAACAACAATA-TTTTTTTTCAACATGGCGTGTAACAACCTTTTTTAA
*
23569874 CCATGGCGTGTAATATG
65 CCATGACGTGTAATATG
* * * *
23569891 TTTTTGTACATAGCGTATAACAACAATATTTTCTTTT-GACATGGCGTGTAACAACCTTTTTTAA
1 TTTTTGTACATGGCATGTAACAACAATATTTT-TTTTCAACATGGCGTGTAACAACCTTTTTTAA
*
23569955 CCATGACGTGTAATATA
65 CCATGACGTGTAATATG
* * * * * *
23569972 TTTTTGTTCATGGTATGTAACTATAACA--TTTTTTCAACATGGCATGTAACA
1 TTTTTGTACATGGCATGTAACAACAATATTTTTTTTCAACATGGCGTGTAACA
23570023 TCGTGTAATC
Statistics
Matches: 248, Mismatches: 38, Indels: 19
0.81 0.12 0.06
Matches are distributed among these distances:
78 4 0.02
79 16 0.06
80 23 0.09
81 131 0.53
82 53 0.21
85 21 0.08
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (81 bp):
TTTTTGTACATGGCATGTAACAACAATATTTTTTTTCAACATGGCGTGTAACAACCTTTTTTAAC
CATGACGTGTAATATG
Found at i:23592324 original size:19 final size:19
Alignment explanation
Indices: 23592297--23592333 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
23592287 TTAAATTATC
*
23592297 AACTAGCCAAGGGTTTCTT
1 AACTAGCCAAAGGTTTCTT
*
23592316 AACTGGCCAAAGGTTTCT
1 AACTAGCCAAAGGTTTCT
23592334 CATCAAAACC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (19 bp):
AACTAGCCAAAGGTTTCTT
Found at i:23592874 original size:37 final size:37
Alignment explanation
Indices: 23592824--23592945 Score: 174
Period size: 37 Copynumber: 3.3 Consensus size: 37
23592814 ATACATACAT
23592824 CATCATCATCATGTGTGCACTCCCTACTCACACACTC
1 CATCATCATCATGTGTGCACTCCCTACTCACACACTC
* * * *
23592861 CATCATCTTCATGTGTGCATTCCTTACTCGCACACTC
1 CATCATCATCATGTGTGCACTCCCTACTCACACACTC
*
23592898 AATCATCATCATGTGTGCACTCCCTACTCACACAC-C
1 CATCATCATCATGTGTGCACTCCCTACTCACACACTC
*
23592934 TCAACATCATCA
1 -CATCATCATCA
23592946 CCCAACATCA
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
36 1 0.01
37 72 0.99
ACGTcount: A:0.25, C:0.38, G:0.08, T:0.29
Consensus pattern (37 bp):
CATCATCATCATGTGTGCACTCCCTACTCACACACTC
Found at i:23604345 original size:67 final size:61
Alignment explanation
Indices: 23604246--23604373 Score: 177
Period size: 67 Copynumber: 2.0 Consensus size: 61
23604236 TGCACCAAAT
*
23604246 AAAAAAAAAAAAAAAAGAAGACCAAAGACAAAATTTTTTACTTTATAATTAGGATGATCATTATG
1 AAAAAAAAAAAAAAAAAAAGACCAAAGACAAAATTTTTT-C--TATAATT-GGATGATCATTATG
23604311 NAAAAAATAAAAAAAAAAAAAGAGCCAAAG-CAAAATTTTTTCTATAATTGGATGATCATTATG
1 -AAAAAA-AAAAAAAAAAAAAGA-CCAAAGACAAAATTTTTTCTATAATTGGATGATCATTATG
23604374 CCTAAATCTT
Statistics
Matches: 59, Mismatches: 1, Indels: 7
0.88 0.01 0.10
Matches are distributed among these distances:
63 14 0.24
64 7 0.12
66 7 0.12
67 25 0.42
68 6 0.10
ACGTcount: A:0.55, C:0.08, G:0.11, T:0.26
Consensus pattern (61 bp):
AAAAAAAAAAAAAAAAAAAGACCAAAGACAAAATTTTTTCTATAATTGGATGATCATTATG
Found at i:23613426 original size:42 final size:42
Alignment explanation
Indices: 23613379--23613503 Score: 205
Period size: 42 Copynumber: 3.0 Consensus size: 42
23613369 CATCTCATAT
* *
23613379 GCAACGGCTTATGTGCACTCCCACTCGCACATAGCCAGGTCA
1 GCAACGGCTTATGTGCACTCCTACTCGCACATAGCCGGGTCA
* *
23613421 GCAACGACTTATGTGCACTCCTATTCGCACATAGCCGGGTCA
1 GCAACGGCTTATGTGCACTCCTACTCGCACATAGCCGGGTCA
*
23613463 GCAACGGCTTATGTGCACTCCTACTCGAACATAGCCGGGTC
1 GCAACGGCTTATGTGCACTCCTACTCGCACATAGCCGGGTC
23613504 CACATCAACA
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 76 1.00
ACGTcount: A:0.23, C:0.33, G:0.22, T:0.22
Consensus pattern (42 bp):
GCAACGGCTTATGTGCACTCCTACTCGCACATAGCCGGGTCA
Found at i:23617667 original size:22 final size:23
Alignment explanation
Indices: 23617637--23617683 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
23617627 ATATAGAGTT
23617637 ATTTGAGCTTAATT-TTGATAATA
1 ATTTGAGCTTAATTCTTG-TAATA
*
23617660 ATTT-AGCTTAGTTCTTGTAATA
1 ATTTGAGCTTAATTCTTGTAATA
23617682 AT
1 AT
23617684 GCATAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.32, C:0.06, G:0.13, T:0.49
Consensus pattern (23 bp):
ATTTGAGCTTAATTCTTGTAATA
Found at i:23618510 original size:112 final size:111
Alignment explanation
Indices: 23618313--23618535 Score: 428
Period size: 112 Copynumber: 2.0 Consensus size: 111
23618303 GGAGATCAAG
23618313 ATACAATTCTTGGGTTTTTCTATCTTTTGGTTATTTTCTTATTTTTCTTAGTTTAATTTGAATGT
1 ATACAATTCTTGGGTTTTTCTATCTTTTGGTTATTTTCTTATTTTTCTTAGTTTAATTTGAATGT
23618378 TTAAACTTTATTCAATGATGATGTGTGACTTGATGGGGAACTAAGT
66 TTAAACTTTATTCAATGATGATGTGTGACTTGATGGGGAACTAAGT
*
23618424 NATACAATTCTTGGGTTTTTCTATCTTTTTGTTATTTTCTTATTTTTCTTAGTTTAATTTGAATG
1 -ATACAATTCTTGGGTTTTTCTATCTTTTGGTTATTTTCTTATTTTTCTTAGTTTAATTTGAATG
23618489 TTTAAACTTTATTCAATGATGATGTGTGACTTGATGGGGAACTAAGT
65 TTTAAACTTTATTCAATGATGATGTGTGACTTGATGGGGAACTAAGT
23618536 TTTTAATCTA
Statistics
Matches: 110, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
112 110 1.00
ACGTcount: A:0.23, C:0.09, G:0.17, T:0.51
Consensus pattern (111 bp):
ATACAATTCTTGGGTTTTTCTATCTTTTGGTTATTTTCTTATTTTTCTTAGTTTAATTTGAATGT
TTAAACTTTATTCAATGATGATGTGTGACTTGATGGGGAACTAAGT
Found at i:23619106 original size:21 final size:21
Alignment explanation
Indices: 23619080--23619136 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
23619070 AAAGCTGATA
*
23619080 TATTAGTTTTAATTATTAGTT
1 TATTAGTTTTAATTATTACTT
* *
23619101 TATTAGTTTCAATT-TTTCTT
1 TATTAGTTTTAATTATTACTT
*
23619121 T-TTAATTTTAATTATT
1 TATTAGTTTTAATTATT
23619137 TAGATAAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 10 0.33
20 7 0.23
21 13 0.43
ACGTcount: A:0.26, C:0.04, G:0.05, T:0.65
Consensus pattern (21 bp):
TATTAGTTTTAATTATTACTT
Found at i:23623362 original size:19 final size:19
Alignment explanation
Indices: 23623338--23623379 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
23623328 GGTGGTAAGG
23623338 TGAAAATAGCATGGGAGCA
1 TGAAAATAGCATGGGAGCA
* *
23623357 TGAAAATGGCATGGGGGCA
1 TGAAAATAGCATGGGAGCA
23623376 TGAA
1 TGAA
23623380 GGAGAAGAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.36, T:0.17
Consensus pattern (19 bp):
TGAAAATAGCATGGGAGCA
Found at i:23625754 original size:24 final size:25
Alignment explanation
Indices: 23625721--23625776 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
23625711 ATGAACTCTT
23625721 CCCATCTCTTT-CTAATTGGGCCATG
1 CCCAT-TCTTTCCTAATTGGGCCATG
* *
23625746 CCCATTCTTTCCTTATTGGGTCATG
1 CCCATTCTTTCCTAATTGGGCCATG
*
23625771 TCCATT
1 CCCATT
23625777 TATATGCATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 5 0.19
25 22 0.81
ACGTcount: A:0.14, C:0.30, G:0.14, T:0.41
Consensus pattern (25 bp):
CCCATTCTTTCCTAATTGGGCCATG
Found at i:23625837 original size:5 final size:5
Alignment explanation
Indices: 23625829--23625869 Score: 55
Period size: 5 Copynumber: 8.0 Consensus size: 5
23625819 TATATATTTG
* *
23625829 CTTTT CTTTT CTTTTT CTCTT CTTTT CTTTT TTTTT CTTTT
1 CTTTT CTTTT C-TTTT CTTTT CTTTT CTTTT CTTTT CTTTT
23625870 TCTCTTCCTC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
5 26 0.84
6 5 0.16
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
CTTTT
Found at i:23625952 original size:61 final size:60
Alignment explanation
Indices: 23625885--23626007 Score: 237
Period size: 61 Copynumber: 2.0 Consensus size: 60
23625875 TCCTCTTCTC
23625885 TCTAGCCGACCAACAGCTTCTTGCTTATCTTTCTTTTTCCTTTCTCACGTACAAGAGCTG
1 TCTAGCCGACCAACAGCTTCTTGCTTATCTTTCTTTTTCCTTTCTCACGTACAAGAGCTG
23625945 TNCTAGCCGACCAACAGCTTCTTGCTTATCTTTCTTTTTCCTTTCTCACGTACAAGAGCTG
1 T-CTAGCCGACCAACAGCTTCTTGCTTATCTTTCTTTTTCCTTTCTCACGTACAAGAGCTG
23626006 TC
1 TC
23626008 CATAATTTTT
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
60 2 0.03
61 60 0.97
ACGTcount: A:0.18, C:0.30, G:0.13, T:0.38
Consensus pattern (60 bp):
TCTAGCCGACCAACAGCTTCTTGCTTATCTTTCTTTTTCCTTTCTCACGTACAAGAGCTG
Found at i:23634233 original size:20 final size:20
Alignment explanation
Indices: 23634208--23634250 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
23634198 TTCTTTGACG
*
23634208 TTTTTCCCTTTTTTTTTCTT
1 TTTTTCCCTTTTTTGTTCTT
**
23634228 TTTTTCTGTTTTTTGTTCTT
1 TTTTTCCCTTTTTTGTTCTT
23634248 TTT
1 TTT
23634251 CCTTTTACGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.00, C:0.14, G:0.05, T:0.81
Consensus pattern (20 bp):
TTTTTCCCTTTTTTGTTCTT
Found at i:23642146 original size:19 final size:19
Alignment explanation
Indices: 23642122--23642163 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
23642112 GGTGGTAAGG
23642122 TGAAAATAGCATGGGAGCA
1 TGAAAATAGCATGGGAGCA
* * *
23642141 TGAAAATGGCTTGGGGGCA
1 TGAAAATAGCATGGGAGCA
23642160 TGAA
1 TGAA
23642164 GGAAAAGAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.10, G:0.36, T:0.19
Consensus pattern (19 bp):
TGAAAATAGCATGGGAGCA
Found at i:23646412 original size:2 final size:2
Alignment explanation
Indices: 23646405--23646431 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
23646395 TATTGCATAA
23646405 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
23646432 CATACATAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23646689 original size:2 final size:2
Alignment explanation
Indices: 23646677--23646728 Score: 59
Period size: 2 Copynumber: 25.5 Consensus size: 2
23646667 CTATCAATGC
* * * *
23646677 AT AT CAT AT AT AT AT TT AG AT AT AT AT TT AG AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23646720 AT AT AT AT A
1 AT AT AT AT A
23646729 CATCAACATA
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
2 39 0.95
3 2 0.05
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23646701 original size:12 final size:12
Alignment explanation
Indices: 23646684--23646727 Score: 70
Period size: 12 Copynumber: 3.7 Consensus size: 12
23646674 TGCATATCAT
23646684 ATATATATTTAG
1 ATATATATTTAG
23646696 ATATATATTTAG
1 ATATATATTTAG
* *
23646708 ATATATATATAT
1 ATATATATTTAG
23646720 ATATATAT
1 ATATATAT
23646728 ACATCAACAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (12 bp):
ATATATATTTAG
Found at i:23654025 original size:30 final size:31
Alignment explanation
Indices: 23653991--23654060 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
23653981 GGAATTAATA
* *
23653991 TTGTTTTGACTTGAGACTTTGGACTG-ACAT
1 TTGTTTTGACTTCAGACCTTGGACTGAACAT
* * *
23654021 TTGTTTAGACTTCAGTCCTTGGATTGAACAT
1 TTGTTTTGACTTCAGACCTTGGACTGAACAT
*
23654052 TGGTTTTGA
1 TTGTTTTGA
23654061 TAACTCGATG
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
30 21 0.66
31 11 0.34
ACGTcount: A:0.20, C:0.13, G:0.23, T:0.44
Consensus pattern (31 bp):
TTGTTTTGACTTCAGACCTTGGACTGAACAT
Found at i:23662485 original size:37 final size:37
Alignment explanation
Indices: 23662444--23662595 Score: 243
Period size: 37 Copynumber: 4.1 Consensus size: 37
23662434 CATATGCATT
23662444 CATCATCATGTGTGCACTCCCTACTCGTACATTTCAA
1 CATCATCATGTGTGCACTCCCTACTCGTACATTTCAA
*
23662481 CATCATCATGTGTGCACTCCCTACTTGTACATTTCAA
1 CATCATCATGTGTGCACTCCCTACTCGTACATTTCAA
*
23662518 CATCATCATGTGTGCACTCCCTACTCGTACA-CTCTAA
1 CATCATCATGTGTGCACTCCCTACTCGTACATTTC-AA
* * *
23662555 CATCATCGTGTGTGCACTCCCTACTCGCACACTTCAA
1 CATCATCATGTGTGCACTCCCTACTCGTACATTTCAA
23662592 CATC
1 CATC
23662596 CCCACACAAC
Statistics
Matches: 107, Mismatches: 6, Indels: 4
0.91 0.05 0.03
Matches are distributed among these distances:
36 2 0.02
37 103 0.96
38 2 0.02
ACGTcount: A:0.24, C:0.34, G:0.11, T:0.31
Consensus pattern (37 bp):
CATCATCATGTGTGCACTCCCTACTCGTACATTTCAA
Found at i:23676225 original size:42 final size:42
Alignment explanation
Indices: 23676166--23676288 Score: 201
Period size: 42 Copynumber: 2.9 Consensus size: 42
23676156 GTTGATTTGA
23676166 ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTG
1 ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTG
* * *
23676208 ACCCGACTATGTGCGAGTAGGAGTGTATATAAGCCGTTGCTG
1 ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTG
* *
23676250 ACCCGGCTATGTGTGAGTGGGAGTGCACATAAGCCGTTG
1 ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTG
23676289 TTGCCCCCAT
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.33, T:0.24
Consensus pattern (42 bp):
ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTG
Found at i:23676584 original size:26 final size:26
Alignment explanation
Indices: 23676523--23676584 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
23676513 TTGCATATGA
*
23676523 GATGATGATAATGGGATGATGTGCAT
1 GATGATGATGATGGGATGATGTGCAT
*
23676549 GATGATGATGATGGGATGGTGTGCAT
1 GATGATGATGATGGGATGATGTGCAT
*
23676575 GTTGATGATG
1 GATGATGATG
23676585 GGTATATGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.26, C:0.03, G:0.39, T:0.32
Consensus pattern (26 bp):
GATGATGATGATGGGATGATGTGCAT
Found at i:23677714 original size:2 final size:2
Alignment explanation
Indices: 23677709--23677739 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
23677699 ATGTGCACAC
23677709 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
23677740 CACTGTCCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23677827 original size:43 final size:42
Alignment explanation
Indices: 23677758--23677878 Score: 161
Period size: 43 Copynumber: 2.9 Consensus size: 42
23677748 CATCGTCATC
*
23677758 GGCTTATGCGCACTCCTACTCACACATAGCCGGGTCAGCATT
1 GGCTTATGCGCACTCCTACTCGCACATAGCCGGGTCAGCATT
* * * *
23677800 GGCTTATGCGCATTTCCTACTCGCACATAGCTGAGTCATCATT
1 GGCTTATGCGCA-CTCCTACTCGCACATAGCCGGGTCAGCATT
** *
23677843 GGAGTATGCGCACTCCTACTCGCACATAGTCGGGTC
1 GGCTTATGCGCACTCCTACTCGCACATAGCCGGGTC
23677879 CACATGAACA
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
42 32 0.48
43 35 0.52
ACGTcount: A:0.21, C:0.31, G:0.22, T:0.26
Consensus pattern (42 bp):
GGCTTATGCGCACTCCTACTCGCACATAGCCGGGTCAGCATT
Found at i:23685256 original size:42 final size:42
Alignment explanation
Indices: 23685136--23685257 Score: 156
Period size: 42 Copynumber: 2.9 Consensus size: 42
23685126 ACATGGCTGG
* * * * *
23685136 GTCAGCATCGGCTTATGCGCACTCCTACTTGCACATAGTCGG
1 GTCATCATCGGCGTATGCGCACTCCTACTCGCACATAGCCGA
* * *
23685178 GTCATCATCGGCTTATGCGCACTCTTACTCGCACATAGCCTA
1 GTCATCATCGGCGTATGCGCACTCCTACTCGCACATAGCCGA
23685220 GTCATCAAT-GGCGTATGCGCACTCCTACTCGCACATAG
1 GTCATC-ATCGGCGTATGCGCACTCCTACTCGCACATAG
23685258 ACGGGTCCAC
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
42 69 0.97
43 2 0.03
ACGTcount: A:0.21, C:0.32, G:0.20, T:0.26
Consensus pattern (42 bp):
GTCATCATCGGCGTATGCGCACTCCTACTCGCACATAGCCGA
Found at i:23689650 original size:61 final size:61
Alignment explanation
Indices: 23689555--23689671 Score: 189
Period size: 61 Copynumber: 1.9 Consensus size: 61
23689545 TGCTTATGTA
*
23689555 CATCATCACCGACATGTGCACTGCCCACTCCGCACATGCACGCTTGTAATTATCACGACAG
1 CATCATCACCGACATGTGCACTGCCCACTCCGCACATGCACGCTTGCAATTATCACGACAG
* * * *
23689616 CATCATTACCGGCATGTGCACTGCCCACTCCGCACATGCACGGTTGCATTTATCAC
1 CATCATCACCGACATGTGCACTGCCCACTCCGCACATGCACGCTTGCAATTATCAC
23689672 ACAATGGTTC
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
61 51 1.00
ACGTcount: A:0.24, C:0.36, G:0.17, T:0.23
Consensus pattern (61 bp):
CATCATCACCGACATGTGCACTGCCCACTCCGCACATGCACGCTTGCAATTATCACGACAG
Found at i:23716170 original size:37 final size:36
Alignment explanation
Indices: 23716129--23716243 Score: 176
Period size: 37 Copynumber: 3.1 Consensus size: 36
23716119 CATATGCATT
23716129 CATCATCATGTGTGCACTCCCTACTCGCACATTTCAA
1 CATCATCATGTGTGCACTCCCTACTCGCACA-TTCAA
* *
23716166 CATCATCATGTGTGCACTCCCTACTTGCACACTCTAA
1 CATCATCATGTGTGCACTCCCTACTCGCACATTC-AA
*
23716203 CATCATCATGTGTGCACTCCCTACTCGTACACTTCAA
1 CATCATCATGTGTGCACTCCCTACTCGCACA-TTCAA
23716240 CATC
1 CATC
23716244 CCCACACAAC
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
36 2 0.03
37 67 0.94
38 2 0.03
ACGTcount: A:0.24, C:0.36, G:0.10, T:0.30
Consensus pattern (36 bp):
CATCATCATGTGTGCACTCCCTACTCGCACATTCAA
Found at i:23719335 original size:16 final size:16
Alignment explanation
Indices: 23719314--23719344 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23719304 TTCTATGTTT
*
23719314 GTAGGGATGGTGGTAA
1 GTAGGGATGATGGTAA
23719330 GTAGGGATGATGGTA
1 GTAGGGATGATGGTA
23719345 TTAGTCCCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.00, G:0.48, T:0.26
Consensus pattern (16 bp):
GTAGGGATGATGGTAA
Found at i:23723378 original size:20 final size:20
Alignment explanation
Indices: 23723334--23723371 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
23723324 ATAGTCTCCA
*
23723334 ATTACTCAATTTCTAAAATC
1 ATTATTCAATTTCTAAAATC
23723354 ATTATTCAATTTC-AAAAT
1 ATTATTCAATTTCTAAAAT
23723372 GATTTATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42
Consensus pattern (20 bp):
ATTATTCAATTTCTAAAATC
Found at i:23727055 original size:21 final size:21
Alignment explanation
Indices: 23727031--23727070 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
23727021 CTTATTTTGT
*
23727031 CACTTTTTCCTGGAATTTTCA
1 CACTTTTCCCTGGAATTTTCA
*
23727052 CACTTTTCCCTTGAATTTT
1 CACTTTTCCCTGGAATTTT
23727071 TCCACCTAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.25, G:0.07, T:0.50
Consensus pattern (21 bp):
CACTTTTCCCTGGAATTTTCA
Found at i:23728102 original size:43 final size:43
Alignment explanation
Indices: 23728037--23728122 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
23728027 GTCCATCTTG
* *
23728037 CATGTCTTAATCACGCTTTAGATTACATTCCCTTGACATCCTT
1 CATGTCTTAATCACACTATAGATTACATTCCCTTGACATCCTT
23728080 CATGTCTTAATCACACTATAGATTACATTCCCTTGACATCCTT
1 CATGTCTTAATCACACTATAGATTACATTCCCTTGACATCCTT
23728123 TCTTTGACTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.26, C:0.28, G:0.08, T:0.38
Consensus pattern (43 bp):
CATGTCTTAATCACACTATAGATTACATTCCCTTGACATCCTT
Found at i:23746902 original size:68 final size:67
Alignment explanation
Indices: 23746771--23746950 Score: 193
Period size: 68 Copynumber: 2.7 Consensus size: 67
23746761 ACGTTTAATA
* * * *
23746771 TAATGAATGCTATAAGATTAAGTATATGATGTAATTCCATATACCATATGAGATGATTAAGTATG
1 TAATGAATACTATAAGACTAAGTATATGATGTAATTCCATATACCATACGAGATAATTAAGTATG
23746836 CT
66 CT
* *
23746838 TAATGTATACTATAAGACTATA-TATATGATGTAAATTCCATATACCATACGAGGTAATTAAGTA
1 TAATGAATACTATAAGACTA-AGTATATGATGT-AATTCCATATACCATACGAGATAATTAAGTA
*
23746902 TGCA
64 TGCT
* * * * * *
23746906 TGATAAATGCCATGAGA-TAATGTACATGATGTATATTCCATATAC
1 TAATGAATACTATAAGACTAA-GTATATGATGTA-ATTCCATATAC
23746951 TACATGAGAT
Statistics
Matches: 94, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
66 1 0.01
67 30 0.32
68 63 0.67
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.34
Consensus pattern (67 bp):
TAATGAATACTATAAGACTAAGTATATGATGTAATTCCATATACCATACGAGATAATTAAGTATG
CT
Found at i:23747564 original size:20 final size:20
Alignment explanation
Indices: 23747541--23747590 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
23747531 ATATACAAAG
23747541 GTATCGATACAATCAAGAAT
1 GTATCGATACAATCAAGAAT
23747561 GTATCGATACAATCAAGAAT
1 GTATCGATACAATCAAGAAT
23747581 GTATCGATAC
1 GTATCGATAC
23747591 TTTTGGTGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (20 bp):
GTATCGATACAATCAAGAAT
Found at i:23751374 original size:61 final size:61
Alignment explanation
Indices: 23751277--23751501 Score: 324
Period size: 61 Copynumber: 3.7 Consensus size: 61
23751267 AGCCTATGTA
* * ** * *
23751277 CATCATCACTGGCATGTGCACTACCCACTCTGCACATGCACAGTTGTAATTATCACGACAT
1 CATCATTACCGGCATGTGCACTACCCACTCCACACATGCACGGTTGTAATTATCACGACAG
*
23751338 CATCATTACCGGCATGTGCACTACCCACTCCACACATGCATGGTTGTAATTATCACGACAG
1 CATCATTACCGGCATGTGCACTACCCACTCCACACATGCACGGTTGTAATTATCACGACAG
* * *
23751399 CATCATTACCGGCATGTGTACTGCCCACTCCGCACATGCACGGTTGTAATTATCACGACAG
1 CATCATTACCGGCATGTGCACTACCCACTCCACACATGCACGGTTGTAATTATCACGACAG
* * * *
23751460 CATCATTACCGGCATGCGCATTGCCCACTCCACACCTGCACG
1 CATCATTACCGGCATGTGCACTACCCACTCCACACATGCACG
23751502 ATTGCATTTG
Statistics
Matches: 148, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
61 148 1.00
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.24
Consensus pattern (61 bp):
CATCATTACCGGCATGTGCACTACCCACTCCACACATGCACGGTTGTAATTATCACGACAG
Found at i:23754679 original size:35 final size:35
Alignment explanation
Indices: 23754640--23754708 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 35
23754630 GCTTTAGCTG
*
23754640 CTGATTTTGAAGGTTCAAAGATGCGGTTTTGGCTA
1 CTGATTTTGAAGGCTCAAAGATGCGGTTTTGGCTA
* *
23754675 CTGATTTTGAAGGCTGAAAGGTGCGGTTTTGGCT
1 CTGATTTTGAAGGCTCAAAGATGCGGTTTTGGCT
23754709 GCTAATCTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.20, C:0.12, G:0.32, T:0.36
Consensus pattern (35 bp):
CTGATTTTGAAGGCTCAAAGATGCGGTTTTGGCTA
Found at i:23754791 original size:35 final size:34
Alignment explanation
Indices: 23754725--23754831 Score: 108
Period size: 34 Copynumber: 3.1 Consensus size: 34
23754715 CTTTGAATCA
* * *
23754725 TTGGTTACCGAGTTTTGAGGGAGGAA-GGAGCAGC
1 TTGGTTACTGATTTTTGAGGGA-GAATAGAGCAGC
23754759 TTGGTTACTGATTTTTGGAGGGAGAATAGAGCAGC
1 TTGGTTACTGATTTTT-GAGGGAGAATAGAGCAGC
* * * * * *
23754794 TTAGCTGCTAATTTTTGAGGAAAAATAGAGCAGC
1 TTGGTTACTGATTTTTGAGGGAGAATAGAGCAGC
23754828 TTGG
1 TTGG
23754832 CTGTTGATTT
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
34 36 0.59
35 25 0.41
ACGTcount: A:0.27, C:0.10, G:0.34, T:0.29
Consensus pattern (34 bp):
TTGGTTACTGATTTTTGAGGGAGAATAGAGCAGC
Found at i:23754842 original size:34 final size:35
Alignment explanation
Indices: 23754752--23754842 Score: 112
Period size: 34 Copynumber: 2.6 Consensus size: 35
23754742 AGGGAGGAAG
* * * *
23754752 GAGCAGCTTGGTTACTGATTTTTGGAGGGAGAATA
1 GAGCAGCTTGGCTGCTGATTTTTGGAGGAAAAATA
* *
23754787 GAGCAGCTTAGCTGCTAATTTTT-GAGGAAAAATA
1 GAGCAGCTTGGCTGCTGATTTTTGGAGGAAAAATA
*
23754821 GAGCAGCTTGGCTGTTGATTTT
1 GAGCAGCTTGGCTGCTGATTTT
23754843 GATATTAATA
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
34 28 0.60
35 19 0.40
ACGTcount: A:0.26, C:0.11, G:0.30, T:0.33
Consensus pattern (35 bp):
GAGCAGCTTGGCTGCTGATTTTTGGAGGAAAAATA
Found at i:23755107 original size:25 final size:24
Alignment explanation
Indices: 23755051--23755109 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 24
23755041 ATATGTGCAT
* *
23755051 AAAAATGGACATGGCCCAATAATG
1 AAAAATGGGCATGGCCCAATAAGG
*
23755075 AAAGAATGGGCATGGCCCAATTAGG
1 AAA-AATGGGCATGGCCCAATAAGG
23755100 AAGAAATGGG
1 AA-AAATGGG
23755110 AAGAGCCCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 3 0.10
25 26 0.87
26 1 0.03
ACGTcount: A:0.42, C:0.14, G:0.29, T:0.15
Consensus pattern (24 bp):
AAAAATGGGCATGGCCCAATAAGG
Found at i:23758101 original size:30 final size:28
Alignment explanation
Indices: 23758067--23758126 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
23758057 TTTTTGAAAT
* *
23758067 TTACACTTTTGCCCCCATAAAAGTGAAAAA
1 TTACACTTTTG--CCCAAAAAACTGAAAAA
*
23758097 TTACATTTTTGCCCAAAAAACTGAAAAA
1 TTACACTTTTGCCCAAAAAACTGAAAAA
23758125 TT
1 TT
23758127 GCCCATAGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 17 0.63
30 10 0.37
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (28 bp):
TTACACTTTTGCCCAAAAAACTGAAAAA
Found at i:23768059 original size:40 final size:39
Alignment explanation
Indices: 23768015--23768117 Score: 143
Period size: 40 Copynumber: 2.6 Consensus size: 39
23768005 ACCCAGCTCA
*
23768015 TGCATCTCCTCACATCGTGCACATACCCGAAGTCATCGTG
1 TGCATC-CCCCACATCGTGCACATACCCGAAGTCATCGTG
** *
23768055 TGCATCCCCCTACATCGTGCACATAGTCGGAGTCATCGTG
1 TGCATCCCCC-ACATCGTGCACATACCCGAAGTCATCGTG
23768095 TGCATCCCCCCACATCGTGCACA
1 TGCAT-CCCCCACATCGTGCACA
23768118 GTTGATGCCA
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
39 3 0.05
40 49 0.86
41 5 0.09
ACGTcount: A:0.21, C:0.37, G:0.18, T:0.23
Consensus pattern (39 bp):
TGCATCCCCCACATCGTGCACATACCCGAAGTCATCGTG
Found at i:23768139 original size:38 final size:38
Alignment explanation
Indices: 23768048--23768191 Score: 182
Period size: 38 Copynumber: 3.7 Consensus size: 38
23768038 TACCCGAAGT
* * * *
23768048 CATCGTGTGCATCCCCCTACATCGTGCACATAGTCGGA-GT
1 CATCGTGTGCATCCCCCCACATCATGCAC--AGT-TGATGC
*
23768088 CATCGTGTGCATCCCCCCACATCGTGCACAGTTGATGC
1 CATCGTGTGCATCCCCCCACATCATGCACAGTTGATGC
* *
23768126 CATCGTGTGCATCCCCCCGCATCATGCACAGTTAATGC
1 CATCGTGTGCATCCCCCCACATCATGCACAGTTGATGC
*
23768164 CATCATGTGCATCCCCCCACATCATGCA
1 CATCGTGTGCATCCCCCCACATCATGCA
23768192 TACGAGCAGT
Statistics
Matches: 95, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
37 2 0.02
38 65 0.68
40 28 0.29
ACGTcount: A:0.21, C:0.37, G:0.19, T:0.24
Consensus pattern (38 bp):
CATCGTGTGCATCCCCCCACATCATGCACAGTTGATGC
Found at i:23775041 original size:2 final size:2
Alignment explanation
Indices: 23775034--23775063 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
23775024 ATGATGATTG
*
23775034 AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23775064 GGTATATGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:23775553 original size:19 final size:19
Alignment explanation
Indices: 23775510--23775553 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
23775500 GGAGGTTTGG
23775510 TGAGAAACCCTCGGCCAGT
1 TGAGAAACCCTCGGCCAGT
** **
23775529 CAAGAAACCCTCGGTTAGT
1 TGAGAAACCCTCGGCCAGT
23775548 TGAGAA
1 TGAGAA
23775554 TTTAAATCAA
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.18
Consensus pattern (19 bp):
TGAGAAACCCTCGGCCAGT
Found at i:23778493 original size:18 final size:19
Alignment explanation
Indices: 23778454--23778501 Score: 71
Period size: 18 Copynumber: 2.6 Consensus size: 19
23778444 TTAATATTTT
23778454 AATATTATTTTATTCATAA
1 AATATTATTTTATTCATAA
* *
23778473 AATAATATTTTATT-TTAA
1 AATATTATTTTATTCATAA
23778491 AATATTATTTT
1 AATATTATTTT
23778502 CACTCGTAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 13 0.50
19 13 0.50
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
AATATTATTTTATTCATAA
Found at i:23783093 original size:35 final size:35
Alignment explanation
Indices: 23783048--23783152 Score: 210
Period size: 35 Copynumber: 3.0 Consensus size: 35
23783038 AAATTAACAC
23783048 AATAATCATAGTTTTATGAATTAATTTAATTAATT
1 AATAATCATAGTTTTATGAATTAATTTAATTAATT
23783083 AATAATCATAGTTTTATGAATTAATTTAATTAATT
1 AATAATCATAGTTTTATGAATTAATTTAATTAATT
23783118 AATAATCATAGTTTTATGAATTAATTTAATTAATT
1 AATAATCATAGTTTTATGAATTAATTTAATTAATT
23783153 GTATGGGTTT
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 70 1.00
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.49
Consensus pattern (35 bp):
AATAATCATAGTTTTATGAATTAATTTAATTAATT
Found at i:23784033 original size:37 final size:37
Alignment explanation
Indices: 23783967--23784103 Score: 141
Period size: 37 Copynumber: 3.7 Consensus size: 37
23783957 AAATTCACTA
* * * * * *
23783967 CCTTTTTAGGATCAAGGACAAACTTTACAACCAAATT
1 CCTTTTAAGAATCAAGCACAACCTCTACAACCAAATG
*
23784004 CCTTTTAAGAATTAAGCACAACCTCTACAACCAAATG
1 CCTTTTAAGAATCAAGCACAACCTCTACAACCAAATG
* * * *
23784041 CCTTCTAA-AGATCAAGAACAACCTTTACAATCAAATG
1 CCTTTTAAGA-ATCAAGCACAACCTCTACAACCAAATG
* *
23784078 CCTTTTAAGGATCAAGCACCACCTCT
1 CCTTTTAAGAATCAAGCACAACCTCT
23784104 CTACCTTTTG
Statistics
Matches: 81, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
36 1 0.01
37 80 0.99
ACGTcount: A:0.38, C:0.26, G:0.09, T:0.26
Consensus pattern (37 bp):
CCTTTTAAGAATCAAGCACAACCTCTACAACCAAATG
Found at i:23788951 original size:29 final size:30
Alignment explanation
Indices: 23788885--23788958 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 30
23788875 TATAATGTGC
*
23788885 TAGCTATTATGGATATTCAATATACCTTACT
1 TAGCTACTATGGATATT-AATATACCTTACT
* * * *
23788916 TAACTACTATGGATATT-GTATATCTTATT
1 TAGCTACTATGGATATTAATATACCTTACT
*
23788945 TAGCTACTGTGGAT
1 TAGCTACTATGGAT
23788959 GTTATAAAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
29 21 0.58
31 15 0.42
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.43
Consensus pattern (30 bp):
TAGCTACTATGGATATTAATATACCTTACT
Found at i:23789643 original size:30 final size:31
Alignment explanation
Indices: 23789609--23789688 Score: 94
Period size: 31 Copynumber: 2.6 Consensus size: 31
23789599 AGAGGTGAAG
*
23789609 TTGTAA-TTATGAACAAG-TTGAAGGATCAAA
1 TTGTAATTTATGAA-AAGTTTGAAGGACCAAA
*
23789639 TTGTAATTTATGAAATGTTTGAAGGACCAAA
1 TTGTAATTTATGAAAAGTTTGAAGGACCAAA
**
23789670 TTGTAA-AAATGAAAAGTTT
1 TTGTAATTTATGAAAAGTTT
23789689 AGAGGGGTAA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
30 18 0.42
31 25 0.58
ACGTcount: A:0.42, C:0.05, G:0.19, T:0.34
Consensus pattern (31 bp):
TTGTAATTTATGAAAAGTTTGAAGGACCAAA
Found at i:23792361 original size:32 final size:32
Alignment explanation
Indices: 23792325--23792437 Score: 102
Period size: 32 Copynumber: 3.4 Consensus size: 32
23792315 TTTACCGGGA
*
23792325 TCAACCAAAACCTAAAGTTGTTTTTCAAAGGC
1 TCAACCAAAACCTAAAGTAGTTTTTCAAAGGC
* * **
23792357 TCAACCACAACCTTTCACAA-TAGCTTTTCACGGGC
1 TCAACCAAAACC--T-A-AAGTAGTTTTTCAAAGGC
* * *
23792392 TCAATCAAAACCCAAAGTGGTTTTTCAAAGGC
1 TCAACCAAAACCTAAAGTAGTTTTTCAAAGGC
*
23792424 TCAACCACAACCTA
1 TCAACCAAAACCTA
23792438 CAACAATGGT
Statistics
Matches: 61, Mismatches: 15, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
31 2 0.03
32 34 0.56
34 1 0.02
35 22 0.36
36 2 0.03
ACGTcount: A:0.35, C:0.28, G:0.12, T:0.25
Consensus pattern (32 bp):
TCAACCAAAACCTAAAGTAGTTTTTCAAAGGC
Found at i:23792409 original size:67 final size:67
Alignment explanation
Indices: 23792298--23792473 Score: 214
Period size: 67 Copynumber: 2.6 Consensus size: 67
23792288 GCTTAGCCAA
* * * *
23792298 AACCTTTCACAATGGTTTTTACCGGGATCAACCAAAACCTAAAGTTGTTTTTCAAAGGCTCAACC
1 AACCTTTCACAATGCTTTTCACCGGGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACC
23792363 AC
66 AC
* *
23792365 AACCTTTCACAATAGCTTTTCA-CGGGCTCAATCAAAACCCAAAGTGGTTTTTCAAAGGCTCAAC
1 AACCTTTCACAAT-GCTTTTCACCGGGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAAC
23792429 CAC
65 CAC
* * * *
23792432 AACC-TACAACAATGGTTTTTCA-CAGGATCAACCAAAATCCAA
1 AACCTTTC-ACAAT-GCTTTTCACCGGGATCAACCAAAACCCAA
23792474 CACCTAACTT
Statistics
Matches: 94, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
66 2 0.02
67 86 0.91
68 6 0.06
ACGTcount: A:0.35, C:0.27, G:0.12, T:0.26
Consensus pattern (67 bp):
AACCTTTCACAATGCTTTTCACCGGGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACC
AC
Found at i:23792450 original size:35 final size:34
Alignment explanation
Indices: 23792344--23792465 Score: 115
Period size: 35 Copynumber: 3.6 Consensus size: 34
23792334 ACCTAAAGTT
*
23792344 GTTTTTCAAAGGCTCAACCACAACCTTTC-ACAATA
1 GTTTTTCAAAGGCTCAACCACAACC--TCAACAATG
* ** * * *
23792379 GCTTTTCACGGGCTCAATCAAAACC-CAA-AGTG
1 GTTTTTCAAAGGCTCAACCACAACCTCAACAATG
23792411 GTTTTTCAAAGGCTCAACCACAACCTACAACAATG
1 GTTTTTCAAAGGCTCAACCACAACCT-CAACAATG
* *
23792446 GTTTTTCACAGGATCAACCA
1 GTTTTTCAAAGGCTCAACCA
23792466 AAATCCAACA
Statistics
Matches: 68, Mismatches: 15, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
32 23 0.34
33 1 0.01
34 3 0.04
35 41 0.60
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.25
Consensus pattern (34 bp):
GTTTTTCAAAGGCTCAACCACAACCTCAACAATG
Found at i:23797071 original size:60 final size:60
Alignment explanation
Indices: 23796955--23797073 Score: 141
Period size: 60 Copynumber: 2.0 Consensus size: 60
23796945 AGGTTTTTCG
* * * *
23796955 CTGCAGCGAGATTCAATCTCGCTGCAACAAAATTGTGATCCAGAAACATAATGTTTCTCA
1 CTGCAGCGAGATTCAATCTCGCTGCAACAAAATTGTAACCCAGAAACAGAAAGTTTCTCA
* * * * *
23797015 CTGCAGCGAGATTGAATCTCGCTGTAGA-GAAATTGTAACCCATAAATAGAAAGTTTCTC
1 CTGCAGCGAGATTCAATCTCGCTGCA-ACAAAATTGTAACCCAGAAACAGAAAGTTTCTC
23797074 GATGCAGTGA
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
60 48 0.98
61 1 0.02
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (60 bp):
CTGCAGCGAGATTCAATCTCGCTGCAACAAAATTGTAACCCAGAAACAGAAAGTTTCTCA
Found at i:23797080 original size:60 final size:60
Alignment explanation
Indices: 23796938--23797080 Score: 137
Period size: 60 Copynumber: 2.4 Consensus size: 60
23796928 TAGGAGACAA
* * * * * *
23796938 AAACATAAGGTTTTTCGCTGCAGCGAGATTCAATCTCGCTGCAACAAAATTGTGATCCAG
1 AAACAGAAAGTTTCTCGATGCAGCGAGATTCAATCTCGCTGCAACAAAATTGTAACCCAG
* * * * * *
23796998 AAACATAATGTTTCTC-ACTGCAGCGAGATTGAATCTCGCTGTAGA-GAAATTGTAACCCAT
1 AAACAGAAAGTTTCTCGA-TGCAGCGAGATTCAATCTCGCTGCA-ACAAAATTGTAACCCAG
*
23797058 AAATAGAAAGTTTCTCGATGCAG
1 AAACAGAAAGTTTCTCGATGCAG
23797081 TGAAAATGAA
Statistics
Matches: 68, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
60 66 0.97
61 2 0.03
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.27
Consensus pattern (60 bp):
AAACAGAAAGTTTCTCGATGCAGCGAGATTCAATCTCGCTGCAACAAAATTGTAACCCAG
Found at i:23803781 original size:39 final size:39
Alignment explanation
Indices: 23803725--23803809 Score: 127
Period size: 39 Copynumber: 2.2 Consensus size: 39
23803715 CGAGATTGAA
* *
23803725 TCTCGCTGAAGCGAAATTG-AGACCTAGAAACAGAATGTT
1 TCTCGCTGAAGCAAAATTGTA-ACCTAGAAACAGAAAGTT
*
23803764 TCTCGCTGCAGCAAAATTGTAACCTAGAAACAGAAAGTT
1 TCTCGCTGAAGCAAAATTGTAACCTAGAAACAGAAAGTT
23803803 TCTCGCT
1 TCTCGCT
23803810 ACAACGAGAA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
39 41 0.98
40 1 0.02
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (39 bp):
TCTCGCTGAAGCAAAATTGTAACCTAGAAACAGAAAGTT
Found at i:23803933 original size:21 final size:21
Alignment explanation
Indices: 23803907--23803963 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
23803897 CAAGATTTTC
23803907 TCGCTGCAGCGAGAATGATTT
1 TCGCTGCAGCGAGAATGATTT
*
23803928 TCGCTGCAGTGAGAATGATTT
1 TCGCTGCAGCGAGAATGATTT
23803949 TCGCTGCAGCGAGAA
1 TCGCTGCAGCGAGAA
23803964 ATAGGGCACC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (21 bp):
TCGCTGCAGCGAGAATGATTT
Found at i:23804257 original size:43 final size:43
Alignment explanation
Indices: 23804210--23804324 Score: 158
Period size: 43 Copynumber: 2.7 Consensus size: 43
23804200 CAACTCATGT
* * *
23804210 GCACTCCCTACTCGCACATGGCTGAGTCATCATCGGGTTATGC
1 GCACTCCCTACTTGCACATAGCTGAGTCATCATCGGCTTATGC
* * * *
23804253 GCACTCCCTACTTGCACATAACTGGGTCATCCTCGTCTTATGC
1 GCACTCCCTACTTGCACATAGCTGAGTCATCATCGGCTTATGC
*
23804296 GCACTCCCTACTTGCACATAGCCGAGTCA
1 GCACTCCCTACTTGCACATAGCTGAGTCA
23804325 ATATAATTAC
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 62 1.00
ACGTcount: A:0.20, C:0.35, G:0.19, T:0.26
Consensus pattern (43 bp):
GCACTCCCTACTTGCACATAGCTGAGTCATCATCGGCTTATGC
Found at i:23805629 original size:2 final size:2
Alignment explanation
Indices: 23805622--23805654 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
23805612 NNNNNNNNNN
23805622 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
23805655 GTGTGTGTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23805659 original size:2 final size:2
Alignment explanation
Indices: 23805654--23805680 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
23805644 TATATATATA
23805654 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
23805681 TATAGAAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:23808739 original size:28 final size:28
Alignment explanation
Indices: 23808707--23808764 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
23808697 ACAACCTTTC
* *
23808707 ACAATGGTTTTTCACGGGCTCAACTAAA
1 ACAATGGTTTTTCACGGGATCAACCAAA
*
23808735 ACAATGGTTTTTCATGGGATCAACCAAA
1 ACAATGGTTTTTCACGGGATCAACCAAA
23808763 AC
1 AC
23808765 CTAACACCTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (28 bp):
ACAATGGTTTTTCACGGGATCAACCAAA
Found at i:23809667 original size:25 final size:25
Alignment explanation
Indices: 23809633--23809691 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
23809623 AGCCAACAAT
* * * *
23809633 TATACATGGCAAGGGCACGGGTTGT
1 TATACGTGGCAAGGCCACGAGTTGA
*
23809658 TATATGTGGCAAGGCCACGAGTTGA
1 TATACGTGGCAAGGCCACGAGTTGA
23809683 TATACGTGG
1 TATACGTGG
23809692 TTACGACCAC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.25, C:0.15, G:0.34, T:0.25
Consensus pattern (25 bp):
TATACGTGGCAAGGCCACGAGTTGA
Found at i:23812609 original size:14 final size:15
Alignment explanation
Indices: 23812590--23812618 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
23812580 GGGAAAATTC
23812590 TTGAGAT-AGCTACA
1 TTGAGATAAGCTACA
23812604 TTGAGATAAGCTACA
1 TTGAGATAAGCTACA
23812619 ATGTGAAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.28
Consensus pattern (15 bp):
TTGAGATAAGCTACA
Found at i:23813527 original size:3 final size:3
Alignment explanation
Indices: 23813519--23813543 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
23813509 CTTCTAGCAG
23813519 CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT C
23813544 CCATCTCACG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Done.