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 33 of 106
Found at i:12715816 original size:24 final size:24
Alignment explanation
Indices: 12715784--12715831 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
12715774 CCAACATTCC
*
12715784 GTTACCATTTCTGATAGCATCCTT
1 GTTAACATTTCTGATAGCATCCTT
12715808 GTTAACATTTCTGATAGCATCCTT
1 GTTAACATTTCTGATAGCATCCTT
12715832 TAACTCTTTT
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:0.23, C:0.23, G:0.12, T:0.42
Consensus pattern (24 bp):
GTTAACATTTCTGATAGCATCCTT
Found at i:12722945 original size:15 final size:14
Alignment explanation
Indices: 12722895--12722941 Score: 67
Period size: 15 Copynumber: 3.2 Consensus size: 14
12722885 TTCTTAAAAC
12722895 AACTTTAAAATCGAA
1 AACTTTAAAATC-AA
12722910 AACTTTAAAATCCAA
1 AACTTTAAAAT-CAA
*
12722925 AGCTTTAAAATCAA
1 AACTTTAAAATCAA
12722939 AAC
1 AAC
12722942 CTTTGATCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 5 0.17
15 23 0.79
16 1 0.03
ACGTcount: A:0.53, C:0.17, G:0.04, T:0.26
Consensus pattern (14 bp):
AACTTTAAAATCAA
Found at i:12724158 original size:13 final size:13
Alignment explanation
Indices: 12724140--12724164 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12724130 TTTCAGAAAA
12724140 TTTATAAAATCAT
1 TTTATAAAATCAT
12724153 TTTATAAAATCA
1 TTTATAAAATCA
12724165 CAATTTCTCC
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:12732976 original size:2 final size:2
Alignment explanation
Indices: 12732964--12733017 Score: 99
Period size: 2 Copynumber: 27.0 Consensus size: 2
12732954 TAAAGAATTA
*
12732964 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12733006 AT AT AT AT AT AT
1 AT AT AT AT AT AT
12733018 GTATGTGTGT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12734118 original size:21 final size:21
Alignment explanation
Indices: 12734094--12734133 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
12734084 AAGTTTCTCG
*
12734094 CTACAATGAGAATGAATTTCA
1 CTACAACGAGAATGAATTTCA
*
12734115 CTACAGCGAGAATGAATTT
1 CTACAACGAGAATGAATTT
12734134 TGCTGCAGCG
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:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (21 bp):
CTACAACGAGAATGAATTTCA
Found at i:12734142 original size:21 final size:21
Alignment explanation
Indices: 12734101--12734147 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
12734091 TCGCTACAAT
12734101 GAGAATGAATTTCACTACAGC
1 GAGAATGAATTTCACTACAGC
** *
12734122 GAGAATGAATTTTGCTGCAGC
1 GAGAATGAATTTCACTACAGC
12734143 GAGAA
1 GAGAA
12734148 GCTACAGTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.23
Consensus pattern (21 bp):
GAGAATGAATTTCACTACAGC
Found at i:12734498 original size:23 final size:23
Alignment explanation
Indices: 12734468--12734527 Score: 93
Period size: 23 Copynumber: 2.6 Consensus size: 23
12734458 TACGTATATA
* * *
12734468 CCCATCATCATTATGCATACCAT
1 CCCATCATCATCATACACACCAT
12734491 CCCATCATCATCATACACACCAT
1 CCCATCATCATCATACACACCAT
12734514 CCCATCATCATCAT
1 CCCATCATCATCAT
12734528 CACCAGCTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.32, C:0.40, G:0.02, T:0.27
Consensus pattern (23 bp):
CCCATCATCATCATACACACCAT
Found at i:12734585 original size:43 final size:43
Alignment explanation
Indices: 12734524--12734655 Score: 160
Period size: 43 Copynumber: 3.1 Consensus size: 43
12734514 CCCATCATCA
* ** *
12734524 TCATCACCAGCTCATGCGCACTCCCTACTCGCACATGGCTGGG
1 TCATCACCAGCTTATGCGCACTCCCTACTCGCACATAACCGGG
*
12734567 TCATCACCAGGTTATGCGCACTCCCTACTCGCACATAACCGGG
1 TCATCACCAGCTTATGCGCACTCCCTACTCGCACATAACCGGG
* * *
12734610 TCATC-CTC-GACTTATGCGTACTCCCTACTCGCACATAGCCGAG
1 TCATCAC-CAG-CTTATGCGCACTCCCTACTCGCACATAACCGGG
12734653 TCA
1 TCA
12734656 ATATAATTAC
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
42 2 0.03
43 76 0.97
ACGTcount: A:0.21, C:0.38, G:0.18, T:0.23
Consensus pattern (43 bp):
TCATCACCAGCTTATGCGCACTCCCTACTCGCACATAACCGGG
Found at i:12738826 original size:19 final size:20
Alignment explanation
Indices: 12738799--12738839 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
12738789 TTATCTAAAC
*
12738799 AATTAAAATTAA-AAAGTAA
1 AATTAAAATTAATAAACTAA
*
12738818 AATTTAAATTAATAAACTAA
1 AATTAAAATTAATAAACTAA
12738838 AA
1 AA
12738840 ACTAAAACTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.29
Consensus pattern (20 bp):
AATTAAAATTAATAAACTAA
Found at i:12741810 original size:28 final size:27
Alignment explanation
Indices: 12741770--12741826 Score: 78
Period size: 28 Copynumber: 2.1 Consensus size: 27
12741760 AATGTCCTGG
** *
12741770 TGGTGGAAAATTACTGTTTTGCCCCTA
1 TGGTGGAAAATTACCATTTTACCCCTA
12741797 TGGTGGTAAAATTACCATTTTACCCCTA
1 TGGTGG-AAAATTACCATTTTACCCCTA
12741825 TG
1 TG
12741827 CTCTAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 6 0.23
28 20 0.77
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (27 bp):
TGGTGGAAAATTACCATTTTACCCCTA
Found at i:12743257 original size:3 final size:3
Alignment explanation
Indices: 12743249--12743286 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
12743239 ATATAGTTAT
* *
12743249 TAC TAC TAC TGC TAC TAT TAC TAC TAC TAC TAC TAC TA
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
12743287 GAGATAAAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.29, G:0.03, T:0.37
Consensus pattern (3 bp):
TAC
Found at i:12743269 original size:18 final size:18
Alignment explanation
Indices: 12743246--12743283 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
12743236 TAAATATAGT
*
12743246 TATTACTACTACTGCTAC
1 TATTACTACTACTACTAC
12743264 TATTACTACTACTACTAC
1 TATTACTACTACTACTAC
12743282 TA
1 TA
12743284 CTAGAGATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.26, G:0.03, T:0.39
Consensus pattern (18 bp):
TATTACTACTACTACTAC
Found at i:12746151 original size:42 final size:42
Alignment explanation
Indices: 12746084--12746178 Score: 145
Period size: 42 Copynumber: 2.3 Consensus size: 42
12746074 TATTGATTTG
12746084 GACCCAGCTATGTGGGAGTAAGAGTGCACATAAGCCGTTACT
1 GACCCAGCTATGTGGGAGTAAGAGTGCACATAAGCCGTTACT
* * * *
12746126 GACCTAGCTATGTGTGAGTAGGAGTGCACATAAGCCGTTGCT
1 GACCCAGCTATGTGGGAGTAAGAGTGCACATAAGCCGTTACT
*
12746168 GACCCGGCTAT
1 GACCCAGCTAT
12746179 ATGTGCATAA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.23
Consensus pattern (42 bp):
GACCCAGCTATGTGGGAGTAAGAGTGCACATAAGCCGTTACT
Found at i:12749522 original size:10 final size:10
Alignment explanation
Indices: 12749501--12749531 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
12749491 AAATAATAAT
12749501 AAATAAAA-A
1 AAATAAAAGA
12749510 AAATAAAAGA
1 AAATAAAAGA
12749520 AAATAAAAGA
1 AAATAAAAGA
12749530 AA
1 AA
12749532 GTAAGTTAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.84, C:0.00, G:0.06, T:0.10
Consensus pattern (10 bp):
AAATAAAAGA
Found at i:12753551 original size:12 final size:12
Alignment explanation
Indices: 12753534--12753558 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12753524 AAATCCTTAC
12753534 TACTTACCTCTT
1 TACTTACCTCTT
12753546 TACTTACCTCTT
1 TACTTACCTCTT
12753558 T
1 T
12753559 TCCATCGCGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.32, G:0.00, T:0.52
Consensus pattern (12 bp):
TACTTACCTCTT
Found at i:12755568 original size:42 final size:42
Alignment explanation
Indices: 12755522--12755675 Score: 175
Period size: 42 Copynumber: 3.7 Consensus size: 42
12755512 CAGCTCATAT
* * * *
12755522 GCACTCCTACTAACACATGGCTGGGTCAGCATCAGCTTATGC
1 GCACTCCTACTCACACATAGCAGGGTCAGCATCGGCTTATGC
** * * *
12755564 GCACTTTTTCTCGCACATAGTC-GGGTCAGCATCGGCTAATGC
1 GCACTCCTACTCACACATAG-CAGGGTCAGCATCGGCTTATGC
** *
12755606 GCACTCCCCCTCGCACATAGCAGGGTCAGCATCGGCTTATGC
1 GCACTCCTACTCACACATAGCAGGGTCAGCATCGGCTTATGC
*
12755648 ACACTCCTACTCACACATAGCAGGGTCA
1 GCACTCCTACTCACACATAGCAGGGTCA
12755676 ATATCATTAC
Statistics
Matches: 93, Mismatches: 17, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
41 1 0.01
42 91 0.98
43 1 0.01
ACGTcount: A:0.23, C:0.33, G:0.21, T:0.23
Consensus pattern (42 bp):
GCACTCCTACTCACACATAGCAGGGTCAGCATCGGCTTATGC
Found at i:12755709 original size:2 final size:2
Alignment explanation
Indices: 12755702--12755744 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
12755692 TTATTCGTAT
12755702 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
12755744 A
1 A
12755745 TATATATATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:12755749 original size:2 final size:2
Alignment explanation
Indices: 12755744--12755796 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
12755734 ACACACACAC
12755744 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12755786 AT AT AT AT AT A
1 AT AT AT AT AT A
12755797 AACACAGTAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:12763684 original size:42 final size:42
Alignment explanation
Indices: 12763607--12763736 Score: 147
Period size: 42 Copynumber: 3.1 Consensus size: 42
12763597 ACATGGCTAG
* * * ** *
12763607 GTCAGCATC-GACTTATGCGCACTTCTACTCACACATAGTTGG
1 GTCAGCATCAG-CTTATGCACACTCCTACTCGCACATAGCCGA
*
12763649 GTCAGCATCAGCTTATGCACACTCC-CCTTCGCACATAGCCGA
1 GTCAGCATCAGCTTATGCACACTCCTAC-TCGCACATAGCCGA
* *
12763691 GTCAGCATTAGCTTATGCACACTCCTACTCGCACATAGCCGG
1 GTCAGCATCAGCTTATGCACACTCCTACTCGCACATAGCCGA
12763733 GTCA
1 GTCA
12763737 ATATCATTAC
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
41 1 0.01
42 72 0.96
43 2 0.03
ACGTcount: A:0.24, C:0.33, G:0.18, T:0.25
Consensus pattern (42 bp):
GTCAGCATCAGCTTATGCACACTCCTACTCGCACATAGCCGA
Found at i:12776914 original size:20 final size:20
Alignment explanation
Indices: 12776889--12776929 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
12776879 TATCTATTCA
12776889 AACAAATATATTTAAAACTT
1 AACAAATATATTTAAAACTT
* * *
12776909 AACAAATTTCTTTAATACTT
1 AACAAATATATTTAAAACTT
12776929 A
1 A
12776930 GTAGAAAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.39
Consensus pattern (20 bp):
AACAAATATATTTAAAACTT
Found at i:12778880 original size:19 final size:19
Alignment explanation
Indices: 12778840--12778881 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
12778830 CATAAATATG
* *
12778840 TACATTGGATATGAGAAGA
1 TACATTAGATATAAGAAGA
12778859 TACATTAGATATAATGAA-A
1 TACATTAGATATAA-GAAGA
12778878 TACA
1 TACA
12778882 ATGTATATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.48, C:0.07, G:0.17, T:0.29
Consensus pattern (19 bp):
TACATTAGATATAAGAAGA
Found at i:12780940 original size:43 final size:43
Alignment explanation
Indices: 12780868--12780983 Score: 117
Period size: 43 Copynumber: 2.7 Consensus size: 43
12780858 CCAGCTCATG
* * ** *
12780868 CGCACTCCCTACTCGCACATGGCTAGGTCATCAC-CGGGTTACC
1 CGCACTCCATACTCGCACATAGCCGGGTCATC-CTCGGCTTACC
* **
12780911 CGCACTCCATACTCGCACATAACCGGGTCATCCTCGGCTTATG
1 CGCACTCCATACTCGCACATAGCCGGGTCATCCTCGGCTTACC
* * *
12780954 CGCACTCCGTACTCGAACATAGCCGAGTCA
1 CGCACTCCATACTCGCACATAGCCGGGTCA
12780984 ATATAATTAC
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 1 0.02
43 59 0.98
ACGTcount: A:0.22, C:0.38, G:0.20, T:0.21
Consensus pattern (43 bp):
CGCACTCCATACTCGCACATAGCCGGGTCATCCTCGGCTTACC
Found at i:12794921 original size:19 final size:19
Alignment explanation
Indices: 12794894--12794931 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
12794884 CCATTTGACT
12794894 TATTAGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
*
12794913 TATTGGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
12794932 GTTAAGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTAGAGTATGATTTGAG
Found at i:12816627 original size:2 final size:2
Alignment explanation
Indices: 12816620--12816663 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
12816610 CCAGGGCCTT
12816620 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
12816662 TC
1 TC
12816664 CTGCACTTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:12819820 original size:21 final size:21
Alignment explanation
Indices: 12819796--12819840 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
12819786 CTCGAGTTTA
12819796 TCTTCAAGTTTTAGATTTCTT
1 TCTTCAAGTTTTAGATTTCTT
* * **
12819817 TCTTCCATTTTTCTATTTCTT
1 TCTTCAAGTTTTAGATTTCTT
12819838 TCT
1 TCT
12819841 GCTTGTTCAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.13, C:0.20, G:0.04, T:0.62
Consensus pattern (21 bp):
TCTTCAAGTTTTAGATTTCTT
Found at i:12826941 original size:31 final size:31
Alignment explanation
Indices: 12826903--12826965 Score: 101
Period size: 31 Copynumber: 2.0 Consensus size: 31
12826893 TTCCTTTAAT
12826903 TGATTAAGGCTTTTCTTT-CTTCAACTTAAAC
1 TGATTAAGGCTTTT-TTTCCTTCAACTTAAAC
*
12826934 TGATTAAGGCTTTTTTTCCTTTAACTTAAAC
1 TGATTAAGGCTTTTTTTCCTTCAACTTAAAC
12826965 T
1 T
12826966 AATTGAGATG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 3 0.10
31 27 0.90
ACGTcount: A:0.25, C:0.17, G:0.10, T:0.48
Consensus pattern (31 bp):
TGATTAAGGCTTTTTTTCCTTCAACTTAAAC
Found at i:12828112 original size:63 final size:63
Alignment explanation
Indices: 12828012--12828171 Score: 205
Period size: 63 Copynumber: 2.5 Consensus size: 63
12828002 TAAATATTAA
* * * *
12828012 AGATTTCAAAATTTGTGTGAGTT-TAAGGGTTTAGTATAGTTATTTAGTTTAGAGAGGAGAAAG
1 AGATTTCAAAA-TTGTATAAGTTAAAAGGGTTTAGTATAATTATTTAGTTTAGAGAGGAGAAAG
* * * *
12828075 GGATTTCAAAATTGTATAAGTTAAAAGGGTTTAGTATAATTATTTGGTTTGGAGAGTAGAAAG
1 AGATTTCAAAATTGTATAAGTTAAAAGGGTTTAGTATAATTATTTAGTTTAGAGAGGAGAAAG
* * *
12828138 AGATTTCAAATTTGTACAAGTTAAAAAGGTTTAG
1 AGATTTCAAAATTGTATAAGTTAAAAGGGTTTAG
12828172 GATTCTTCTT
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
62 9 0.11
63 75 0.89
ACGTcount: A:0.36, C:0.03, G:0.24, T:0.37
Consensus pattern (63 bp):
AGATTTCAAAATTGTATAAGTTAAAAGGGTTTAGTATAATTATTTAGTTTAGAGAGGAGAAAG
Found at i:12828184 original size:63 final size:63
Alignment explanation
Indices: 12828039--12828195 Score: 197
Period size: 63 Copynumber: 2.5 Consensus size: 63
12828029 TGAGTTTAAG
* * * * * * * *
12828039 GGTTTAGTATAGTTATTTAGTTTAGAGAGGAGAAAGGGATTTCAAAATTGTATAAGTTAAAAG
1 GGTTTAGGATAATTATTTGGTTTGGAGAGTAGAAAGAGATTTCAAAATTGTACAAGTTAAAAA
* *
12828102 GGTTTAGTATAATTATTTGGTTTGGAGAGTAGAAAGAGATTTCAAATTTGTACAAGTTAAAAA
1 GGTTTAGGATAATTATTTGGTTTGGAGAGTAGAAAGAGATTTCAAAATTGTACAAGTTAAAAA
** *
12828165 GGTTTAGGATTCTTCTTTGGTTTGGAGAGTA
1 GGTTTAGGATAATTATTTGGTTTGGAGAGTA
12828196 AAAAATTGTT
Statistics
Matches: 82, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
63 82 1.00
ACGTcount: A:0.34, C:0.03, G:0.25, T:0.38
Consensus pattern (63 bp):
GGTTTAGGATAATTATTTGGTTTGGAGAGTAGAAAGAGATTTCAAAATTGTACAAGTTAAAAA
Found at i:12843859 original size:17 final size:18
Alignment explanation
Indices: 12843839--12843907 Score: 63
Period size: 17 Copynumber: 3.8 Consensus size: 18
12843829 AGCAACTAAT
12843839 TAAATT-ATTAAATTTAG
1 TAAATTAATTAAATTTAG
*
12843856 TAAAATT--TTAAAATTAG
1 T-AAATTAATTAAATTTAG
*
12843873 TTAAATTAATTAAAGTTTTAT
1 -TAAATTAATTAAA--TTTAG
12843894 TAAATTAATTAAAT
1 TAAATTAATTAAAT
12843908 AATTTAACTA
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
17 15 0.35
18 7 0.16
19 5 0.12
20 13 0.30
21 3 0.07
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.46
Consensus pattern (18 bp):
TAAATTAATTAAATTTAG
Found at i:12843911 original size:117 final size:115
Alignment explanation
Indices: 12843710--12844251 Score: 462
Period size: 117 Copynumber: 4.7 Consensus size: 115
12843700 ATTTTAGTTC
* * * * * *
12843710 TTAAGCAATTAATTAAATTAGTAATATTATTTAATTTAAAAAATATTTGAATTAATTAAGCTGTG
1 TTAAGCAATTAATTAAATTAGTAATATTA-TAAATTTTAAAATTATTTAAATTAATTAAG-TTTT
*** *
12843775 AGGGAATTAATTATATAATTTAACTAATTAAAAAGAATAATGTATTT-GTAA
64 ATTAAATTAATTAAATAATTTAACTAATTAAAAAGAATAATGTATTTAGTAA
* * *
12843826 TTAAGCAACTAATTAAATTATTAA-ATTTAGTAAAATTTTAAAATTAGTTAAATTAATTAAAGTT
1 TTAAGCAATTAATTAAATTAGTAATA-TTA-T-AAATTTTAAAATTATTTAAATTAATT-AAGTT
*
12843890 TTATTAAATTAATTAAATAATTTAACTAATCAAATGAA-AA-AATGT-TTTAGTAA
62 TTATTAAATTAATTAAATAATTTAACTAATTAAA--AAGAATAATGTATTTAGTAA
* * *
12843943 TTAAGCAATTAATTAAATTAGTAATATTATTTAATTTATAAAA-TATTCAAATTAATTAAGGTTT
1 TTAAGCAATTAATTAAATTAGTAATATTA-TAAATTT-TAAAATTATTTAAATTAATTAAGTTTT
* * * ** * * *
12844007 AATGAGTTAATTAAATAATTTAGTTAATTAAGTATG--TAATGTGTTGTAAGTAA
64 ATTAAATTAATTAAATAATTTAACTAATTAA-AAAGAATAATGTATT-T-AGTAA
* * * * * * *
12844060 TTAAGTAATTAATTAAATCATTAATATTATATATTTT--ATTTATTTCAATTAATTAAGGTTTGA
1 TTAAGCAATTAATTAAATTAGTAATATTATAAATTTTAAAATTATTTAAATTAATTAA-GTTTTA
*** * * * *
12844123 GGGAATTAATTACATAATTTAAATAATAAAAAAGAATCATGTA-TTAGTAA
65 TTAAATTAATTAAATAATTTAACTAATTAAAAAGAATAATGTATTTAGTAA
* * *
12844173 TTAATCAATTAATTAAATTAGTAA-ATT-TAATTAATTTAAAATTATTTAAATTAATTAAGATCT
1 TTAAGCAATTAATTAAATTAGTAATATTATAA--ATTTTAAAATTATTTAAATTAATTAAG-TTT
12844236 TATTAAATTAATTAAA
63 TATTAAATTAATTAAA
12844252 AATATTATAT
Statistics
Matches: 338, Mismatches: 65, Indels: 47
0.75 0.14 0.10
Matches are distributed among these distances:
111 2 0.01
112 3 0.01
113 30 0.09
114 24 0.07
115 93 0.28
116 57 0.17
117 121 0.36
118 6 0.02
119 2 0.01
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (115 bp):
TTAAGCAATTAATTAAATTAGTAATATTATAAATTTTAAAATTATTTAAATTAATTAAGTTTTAT
TAAATTAATTAAATAATTTAACTAATTAAAAAGAATAATGTATTTAGTAA
Found at i:12844226 original size:20 final size:21
Alignment explanation
Indices: 12844197--12844254 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 21
12844187 AAATTAGTAA
12844197 ATTT-AATTAATTTAAAAT-T
1 ATTTAAATTAATTTAAAATCT
*
12844216 ATTTAAATTAA-TTAAGATCT
1 ATTTAAATTAATTTAAAATCT
*
12844236 -TATTAAATTAATTAAAAAT
1 AT-TTAAATTAATTTAAAAT
12844255 ATTATATATT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
19 11 0.34
20 16 0.50
21 5 0.16
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (21 bp):
ATTTAAATTAATTTAAAATCT
Found at i:12844249 original size:9 final size:9
Alignment explanation
Indices: 12844179--12844251 Score: 55
Period size: 9 Copynumber: 8.2 Consensus size: 9
12844169 GTAATTAATC
12844179 AATTAATTA
1 AATTAATTA
*
12844188 AATT-AGTA
1 AATTAATTA
12844196 AATTTAATT-
1 AA-TTAATTA
*
12844205 AATT--TAA
1 AATTAATTA
*
12844212 AATTATTTA
1 AATTAATTA
12844221 AATTAATTA
1 AATTAATTA
*
12844230 AGATCTTATTA
1 A-AT-TAATTA
12844241 AATTAATTA
1 AATTAATTA
12844250 AA
1 AA
12844252 AATATTATAT
Statistics
Matches: 50, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
6 1 0.02
7 4 0.08
8 7 0.14
9 26 0.52
10 6 0.12
11 6 0.12
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (9 bp):
AATTAATTA
Found at i:12852625 original size:37 final size:37
Alignment explanation
Indices: 12852575--12852693 Score: 175
Period size: 37 Copynumber: 3.2 Consensus size: 37
12852565 TGTTGGGTGG
* * *
12852575 TGATGTTGAAGTGTGAGAGTAGGGAGTGCACACATGA
1 TGATGATGGAGTGTGCGAGTAGGGAGTGCACACATGA
12852612 TGATGATGGAGTGTGCGAGTAGGGAGTGCACACATGA
1 TGATGATGGAGTGTGCGAGTAGGGAGTGCACACATGA
* * * *
12852649 TGATAATAGAGTGTGCGAGTAAGGAGTGCACATATGA
1 TGATGATGGAGTGTGCGAGTAGGGAGTGCACACATGA
12852686 TGATGATG
1 TGATGATG
12852694 TATGTATATG
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 73 1.00
ACGTcount: A:0.30, C:0.08, G:0.37, T:0.24
Consensus pattern (37 bp):
TGATGATGGAGTGTGCGAGTAGGGAGTGCACACATGA
Found at i:12860188 original size:41 final size:41
Alignment explanation
Indices: 12860115--12860252 Score: 107
Period size: 41 Copynumber: 3.2 Consensus size: 41
12860105 CAACATCATA
* * * *
12860115 ACATCATCTAGAATCATCCAC-GAACGGCACATACATACCTC
1 ACATCATCCAGAATCATCTACAG-ATGGAACATACATACCTC
* * *
12860156 ACATCATTCAGAATCATTTACAGATGGAACATATATATCTCATATC
1 ACATCATCCAGAATCATCTACAGATGGAACATACATA-C-C---TC
* *
12860202 ATATCATCATCCAGAATCATCTACGGATGGAACATACATATCTC
1 --A-CATCATCCAGAATCATCTACAGATGGAACATACATACCTC
12860246 ACATCAT
1 ACATCAT
12860253 ATCATCGTCT
Statistics
Matches: 76, Mismatches: 12, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
41 34 0.45
42 3 0.04
43 1 0.01
44 2 0.03
46 2 0.03
47 1 0.01
48 1 0.01
49 32 0.42
ACGTcount: A:0.38, C:0.26, G:0.09, T:0.27
Consensus pattern (41 bp):
ACATCATCCAGAATCATCTACAGATGGAACATACATACCTC
Found at i:12860210 original size:49 final size:51
Alignment explanation
Indices: 12860157--12860335 Score: 214
Period size: 49 Copynumber: 3.7 Consensus size: 51
12860147 ACATACCTCA
* *
12860157 CATCATTCAG-AATCATTTACAG-ATGGAACATATATATCTCATATCATAT
1 CATCATTCAGAAATCATCTACAGAATGGAACATACATATCTCATATCATAT
* * *
12860206 CATCATCCAG-AATCATCTAC-GGATGGAACATACATATCTCACATCATAT
1 CATCATTCAGAAATCATCTACAGAATGGAACATACATATCTCATATCATAT
* * *
12860255 CATC-GTCTGAAACCATC--CATGAATGGAACATACATATCTCATATCATAT
1 CATCATTCAGAAATCATCTACA-GAATGGAACATACATATCTCATATCATAT
12860304 CATCATTC-GAAATCATCTAC-GAATGGAACATA
1 CATCATTCAGAAATCATCTACAGAATGGAACATA
12860336 TTCCTCAACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
47 1 0.01
48 3 0.03
49 104 0.94
50 2 0.02
51 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.29
Consensus pattern (51 bp):
CATCATTCAGAAATCATCTACAGAATGGAACATACATATCTCATATCATAT
Found at i:12860241 original size:90 final size:93
Alignment explanation
Indices: 12860109--12860335 Score: 241
Period size: 98 Copynumber: 2.4 Consensus size: 93
12860099 CATAATCAAC
* * * * * *
12860109 ATCATAACATCATCTAGAATCATCCACGAACGGCACATACATACCTCACATCAT-TCA-G-AATC
1 ATCATATCATCATCCAGAATCATCTACGAATGGAACATACATACCTCACATCATATCATGAAACC
*
12860171 ATTTACA-G-ATGGAACATATATATCTCAT
66 A--TACATGAATGGAACATACATATCTCAT
* *
12860199 ATCATATCATCATCCAGAATCATCTACGGATGGAACATACATATCTCACATCATATCATCGTCTG
1 ATCATATCATCATCCAGAATCATCTACGAATGGAACATACATACCTCACATCATATCA-----TG
*
12860264 AAACCATCCATGAATGGAACATACATATCTCAT
61 AAACCATACATGAATGGAACATACATATCTCAT
*
12860297 ATCATATCATCATTC-GAAATCATCTACGAATGGAACATA
1 ATCATATCATCATCCAG-AATCATCTACGAATGGAACATA
12860336 TTCCTCAACA
Statistics
Matches: 114, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
90 47 0.41
91 3 0.03
96 3 0.03
97 3 0.03
98 58 0.51
ACGTcount: A:0.38, C:0.25, G:0.10, T:0.27
Consensus pattern (93 bp):
ATCATATCATCATCCAGAATCATCTACGAATGGAACATACATACCTCACATCATATCATGAAACC
ATACATGAATGGAACATACATATCTCAT
Found at i:12862527 original size:2 final size:2
Alignment explanation
Indices: 12862522--12862570 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
12862512 CATATATGTT
12862522 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12862564 TA TA TA T
1 TA TA TA T
12862571 TTGGATGTAG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:12864577 original size:71 final size:71
Alignment explanation
Indices: 12864457--12864620 Score: 240
Period size: 71 Copynumber: 2.3 Consensus size: 71
12864447 TTTAAGACGT
* * *
12864457 TATTATTTTGAAAGAAATAAAAGGTGGATATTCAAACCATGTTAGTTTGAGGCTTTTAGGTCACA
1 TATTATTTTGAAGGAAATAAAAGGTGGATATTCAAACCATGTTAGTTTGAGCCGTTTAGGTCACA
*
12864522 ATGTCA
66 ATGCCA
* * *
12864528 TATTATTTTGAAGGAAATAAAAGGTGGATTTTGAAACCATG-TCGTTTTGAGCCGTTTAGGTCAC
1 TATTATTTTGAAGGAAATAAAAGGTGGATATTCAAACCATGTTAG-TTTGAGCCGTTTAGGTCAC
*
12864592 AATGCCT
65 AATGCCA
12864599 TATTATTTTGAAGGAAATAAAA
1 TATTATTTTGAAGGAAATAAAA
12864621 AGATGTCATT
Statistics
Matches: 84, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
70 2 0.02
71 82 0.98
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.35
Consensus pattern (71 bp):
TATTATTTTGAAGGAAATAAAAGGTGGATATTCAAACCATGTTAGTTTGAGCCGTTTAGGTCACA
ATGCCA
Found at i:12865301 original size:34 final size:33
Alignment explanation
Indices: 12865258--12865321 Score: 101
Period size: 34 Copynumber: 1.9 Consensus size: 33
12865248 TGATAGGAAG
12865258 CATGTGAGAAGCACACGTAGGCAGTTGAAAAAGC
1 CATGTGAGAAGCACACGTAGGCAGTT-AAAAAGC
* *
12865292 CATGTGAGAAGCACATGTATGCAGTTAAAA
1 CATGTGAGAAGCACACGTAGGCAGTTAAAA
12865322 GACTCTACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 4 0.14
34 24 0.86
ACGTcount: A:0.39, C:0.16, G:0.27, T:0.19
Consensus pattern (33 bp):
CATGTGAGAAGCACACGTAGGCAGTTAAAAAGC
Found at i:12866115 original size:19 final size:19
Alignment explanation
Indices: 12866091--12866128 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
12866081 CCATTTAACT
*
12866091 TATTGGAGTATGATTTGAG
1 TATTGGAGTATAATTTGAG
12866110 TATTGGAGTATAATTTGAG
1 TATTGGAGTATAATTTGAG
12866129 CATTTGGCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATAATTTGAG
Found at i:12867504 original size:16 final size:16
Alignment explanation
Indices: 12867483--12867517 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
12867473 ATAAAATATT
*
12867483 ATGTTTTCTAATTAAA
1 ATGTTTTCTAATAAAA
*
12867499 ATGTTTTTTAATAAAA
1 ATGTTTTCTAATAAAA
12867515 ATG
1 ATG
12867518 AGATTTATAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.40, C:0.03, G:0.09, T:0.49
Consensus pattern (16 bp):
ATGTTTTCTAATAAAA
Found at i:12871621 original size:28 final size:28
Alignment explanation
Indices: 12871586--12871665 Score: 117
Period size: 28 Copynumber: 2.9 Consensus size: 28
12871576 TGTCCTGGTG
* *
12871586 GTGG-AAAATTATAATTTTGCCCCTGAA
1 GTGGCAAAATTACAATTTTACCCCTGAA
*
12871613 GTGGCAAAATTACCATTTTACCCCTGAA
1 GTGGCAAAATTACAATTTTACCCCTGAA
*
12871641 GTGGCAAAATTACCATTTTACCCCT
1 GTGGCAAAATTACAATTTTACCCCT
12871666 ATACTCCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
27 4 0.08
28 45 0.92
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (28 bp):
GTGGCAAAATTACAATTTTACCCCTGAA
Found at i:12882809 original size:13 final size:13
Alignment explanation
Indices: 12882791--12882823 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
12882781 GGGAAGAGAG
12882791 AAGAAAAAATA-AA
1 AAGAAAAAA-AGAA
12882804 AAGAAAAAAAGAA
1 AAGAAAAAAAGAA
12882817 AAGAAAA
1 AAGAAAA
12882824 CTAGTGGTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 1 0.05
13 18 0.95
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (13 bp):
AAGAAAAAAAGAA
Found at i:12894752 original size:14 final size:14
Alignment explanation
Indices: 12894717--12894746 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
12894707 ACTTTCCTTG
12894717 AAAATTTTCAACGA
1 AAAATTTTCAACGA
*
12894731 AAAATTTTTAACGA
1 AAAATTTTCAACGA
12894745 AA
1 AA
12894747 TTTTTTGTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.53, C:0.10, G:0.07, T:0.30
Consensus pattern (14 bp):
AAAATTTTCAACGA
Found at i:12895058 original size:3 final size:3
Alignment explanation
Indices: 12895050--12895083 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
12895040 TTTTTGTCAT
12895050 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
12895084 TTTGGTTATC
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:12897537 original size:42 final size:42
Alignment explanation
Indices: 12897490--12897586 Score: 158
Period size: 42 Copynumber: 2.3 Consensus size: 42
12897480 GTAACACGAT
* * *
12897490 ACGACACGATTAACACGTTTATTAAACGTGTTAATATAAGAC
1 ACGACACGATTAACACGTTTATTAAACATGTCAATACAAGAC
*
12897532 ACGACACAATTAACACGTTTATTAAACATGTCAATACAAGAC
1 ACGACACGATTAACACGTTTATTAAACATGTCAATACAAGAC
12897574 ACGACACGATTAA
1 ACGACACGATTAA
12897587 TGACACGTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.43, C:0.20, G:0.12, T:0.25
Consensus pattern (42 bp):
ACGACACGATTAACACGTTTATTAAACATGTCAATACAAGAC
Found at i:12897603 original size:9 final size:9
Alignment explanation
Indices: 12897589--12897625 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
12897579 ACGATTAATG
12897589 ACACGTTTA
1 ACACGTTTA
12897598 ACACGTTTA
1 ACACGTTTA
*
12897607 ACCCGTTTA
1 ACACGTTTA
*
12897616 ACACGATTA
1 ACACGTTTA
12897625 A
1 A
12897626 ATAAAAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.35, C:0.24, G:0.11, T:0.30
Consensus pattern (9 bp):
ACACGTTTA
Found at i:12901103 original size:18 final size:18
Alignment explanation
Indices: 12901080--12901115 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
12901070 ATTGAAGAAG
*
12901080 AGAAGAAAGATTTGGTGA
1 AGAAGAAAGATCTGGTGA
12901098 AGAAGAAAGATCTGGTGA
1 AGAAGAAAGATCTGGTGA
12901116 TTTGGTGGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.44, C:0.03, G:0.33, T:0.19
Consensus pattern (18 bp):
AGAAGAAAGATCTGGTGA
Found at i:12901154 original size:32 final size:32
Alignment explanation
Indices: 12901118--12901196 Score: 104
Period size: 32 Copynumber: 2.5 Consensus size: 32
12901108 TCTGGTGATT
12901118 TGGTGGTCTGGTGGTGCCGTCGTGCCGTGGTC
1 TGGTGGTCTGGTGGTGCCGTCGTGCCGTGGTC
* * * * *
12901150 TGGTGGTCTGGCGGTGCTGTGGTGCTGTGGTT
1 TGGTGGTCTGGTGGTGCCGTCGTGCCGTGGTC
*
12901182 TGGTGGTCGGGTGGT
1 TGGTGGTCTGGTGGT
12901197 AATGGCTTCC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.00, C:0.15, G:0.51, T:0.34
Consensus pattern (32 bp):
TGGTGGTCTGGTGGTGCCGTCGTGCCGTGGTC
Found at i:12908239 original size:20 final size:20
Alignment explanation
Indices: 12908214--12908257 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
12908204 GTCGGCGAAA
12908214 TTTTTGTTTTGCTCTTTTT-T
1 TTTTTGTTTTGCT-TTTTTCT
*
12908234 TTTTTGTTTTGGTTTTTTCT
1 TTTTTGTTTTGCTTTTTTCT
12908254 TTTT
1 TTTT
12908258 AATATCTGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.00, C:0.07, G:0.11, T:0.82
Consensus pattern (20 bp):
TTTTTGTTTTGCTTTTTTCT
Found at i:12918434 original size:12 final size:13
Alignment explanation
Indices: 12918407--12918431 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12918397 TTGGGAAGAG
12918407 AAAAATAAAATTT
1 AAAAATAAAATTT
12918420 AAAAATAAAATT
1 AAAAATAAAATT
12918432 AAATAGAACA
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AAAAATAAAATTT
Found at i:12924296 original size:24 final size:21
Alignment explanation
Indices: 12924236--12924310 Score: 71
Period size: 24 Copynumber: 3.3 Consensus size: 21
12924226 TACTATTGCC
*
12924236 AAAAAATGAAATAAAAAATAA
1 AAAAAATAAAATAAAAAATAA
12924257 AAAAAACTAAGGAATAAAAAATAA
1 AAAAAA-TAA--AATAAAAAATAA
12924281 ATACCAAAATAAAATAAAAAA-AA
1 A-A--AAAATAAAATAAAAAATAA
12924304 GAAAAAA
1 -AAAAAA
12924311 GGAACAAAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 14
0.75 0.02 0.23
Matches are distributed among these distances:
21 10 0.22
22 2 0.04
23 3 0.07
24 23 0.50
25 1 0.02
26 3 0.07
27 4 0.09
ACGTcount: A:0.79, C:0.04, G:0.05, T:0.12
Consensus pattern (21 bp):
AAAAAATAAAATAAAAAATAA
Found at i:12925968 original size:30 final size:30
Alignment explanation
Indices: 12925934--12926019 Score: 120
Period size: 30 Copynumber: 2.9 Consensus size: 30
12925924 TTCACTATTA
* *
12925934 TTGTCAATTATACCTCTATTGAAAAGGTAG
1 TTGTCAATTATACCTCCATTGAAAAGGAAG
*
12925964 TTGTCGATTATACCTCCATTGAAAAGGAAG
1 TTGTCAATTATACCTCCATTGAAAAGGAAG
*
12925994 TTGT-AAGTTATACCTCCATTAAAAAG
1 TTGTCAA-TTATACCTCCATTGAAAAG
12926020 TATTGTGGTT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
29 1 0.02
30 49 0.98
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (30 bp):
TTGTCAATTATACCTCCATTGAAAAGGAAG
Found at i:12928829 original size:14 final size:14
Alignment explanation
Indices: 12928810--12928840 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
12928800 CATTATGTTT
12928810 ATACACACACACAC
1 ATACACACACACAC
*
12928824 ATACACACACATAC
1 ATACACACACACAC
12928838 ATA
1 ATA
12928841 TCAATTCTCT
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:0.52, C:0.35, G:0.00, T:0.13
Consensus pattern (14 bp):
ATACACACACACAC
Found at i:12928876 original size:109 final size:109
Alignment explanation
Indices: 12928710--12928916 Score: 333
Period size: 109 Copynumber: 1.9 Consensus size: 109
12928700 TACACGCATG
* *
12928710 CACACACACACACACACACATCTCAATTCTCTAGCCTAGACATTCTCATCTATGCATACACACAA
1 CACACACACACACACACACATATCAATTCTCTAGCCTAGACATTCTCATCTAAGCATACACACAA
* *
12928775 CATTTAAGTACTATGGCAACACATACATTATGTTTATACACACA
66 CACTTAAGTACCATGGCAACACATACATTATGTTTATACACACA
* * *
12928819 CACACATACACACACATACATATCAATTCTCTAGCCTAGGCATTCTCATCTAAGCATACACACAA
1 CACACACACACACACACACATATCAATTCTCTAGCCTAGACATTCTCATCTAAGCATACACACAA
* *
12928884 CACTTAAGTACCATGGCAGCGCATACATTATGT
66 CACTTAAGTACCATGGCAACACATACATTATGT
12928917 GAAATGCATC
Statistics
Matches: 89, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
109 89 1.00
ACGTcount: A:0.37, C:0.30, G:0.08, T:0.25
Consensus pattern (109 bp):
CACACACACACACACACACATATCAATTCTCTAGCCTAGACATTCTCATCTAAGCATACACACAA
CACTTAAGTACCATGGCAACACATACATTATGTTTATACACACA
Found at i:12943482 original size:26 final size:26
Alignment explanation
Indices: 12943433--12943488 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
12943423 TCCTCTAATG
* * * *
12943433 TCTGAATGGTCCTTTTAGATTGTCCT
1 TCTGAATGGTCCTCTCAGACTGTCCA
12943459 TCTGAATGGTCCTCTCAGACTGTCCA
1 TCTGAATGGTCCTCTCAGACTGTCCA
12943485 TCTG
1 TCTG
12943489 TTTGTGGGTG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.16, C:0.25, G:0.20, T:0.39
Consensus pattern (26 bp):
TCTGAATGGTCCTCTCAGACTGTCCA
Found at i:12947251 original size:34 final size:34
Alignment explanation
Indices: 12947213--12947299 Score: 95
Period size: 34 Copynumber: 2.6 Consensus size: 34
12947203 GGTTAAGCTT
* *
12947213 GGTAAAAATCATTGCATGGGTTGTGCTTGGTGTC
1 GGTAAAAAGCATTGCATGGATTGTGCTTGGTGTC
* * *
12947247 GGTAAAAGGCATTGTATGGATTGTGCTTGGTCT-
1 GGTAAAAAGCATTGCATGGATTGTGCTTGGTGTC
* *
12947280 GAGTAAAAGGCATTGTATGG
1 G-GTAAAAAGCATTGCATGG
12947300 GTTCCATTTG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
33 1 0.02
34 46 0.98
ACGTcount: A:0.24, C:0.09, G:0.33, T:0.33
Consensus pattern (34 bp):
GGTAAAAAGCATTGCATGGATTGTGCTTGGTGTC
Found at i:12948750 original size:20 final size:20
Alignment explanation
Indices: 12948725--12948770 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
12948715 ACTTGGCCTC
12948725 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
*
12948745 ATTTGACTTATTGGAGTATG
1 ATTTGACTTATTGGAGTATA
12948765 ATTTGA
1 ATTTGA
12948771 GGTTTAGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.28, C:0.04, G:0.22, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:12952422 original size:28 final size:28
Alignment explanation
Indices: 12952382--12952438 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
12952372 AATTGAACTG
12952382 AAGAAAAATTCATCAAGTTCAAGCTCTA
1 AAGAAAAATTCATCAAGTTCAAGCTCTA
*
12952410 AAGAAAAATTCATCAAGTTCACGCTCTA
1 AAGAAAAATTCATCAAGTTCAAGCTCTA
12952438 A
1 A
12952439 TCTTGCCTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.46, C:0.19, G:0.11, T:0.25
Consensus pattern (28 bp):
AAGAAAAATTCATCAAGTTCAAGCTCTA
Found at i:12957575 original size:26 final size:26
Alignment explanation
Indices: 12957546--12957604 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
12957536 ATTTTCTAGT
* *
12957546 TTTCCTTTGT-TTTTCTCTTTTCTTCC
1 TTTCCTTTCTATTTTCTCTCTTCTT-C
* *
12957572 TTTCCTCTCTATTTTCTCTCTTGTTC
1 TTTCCTTTCTATTTTCTCTCTTCTTC
12957598 TTTCCTT
1 TTTCCTT
12957605 ATGATCGGCC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 15 0.56
27 12 0.44
ACGTcount: A:0.02, C:0.29, G:0.03, T:0.66
Consensus pattern (26 bp):
TTTCCTTTCTATTTTCTCTCTTCTTC
Found at i:12959855 original size:19 final size:19
Alignment explanation
Indices: 12959831--12959873 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
12959821 CGGAAAGGCA
*
12959831 TTCTCAACTAGACGAGGGT
1 TTCTCAACTAGACGAGGAT
* *
12959850 TTCTCAACTGGTCGAGGAT
1 TTCTCAACTAGACGAGGAT
12959869 TTCTC
1 TTCTC
12959874 TCTAAAACCC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.33
Consensus pattern (19 bp):
TTCTCAACTAGACGAGGAT
Found at i:12960438 original size:43 final size:43
Alignment explanation
Indices: 12960377--12960503 Score: 193
Period size: 43 Copynumber: 3.0 Consensus size: 43
12960367 CATCCCACCA
* * *
12960377 CATCAGCTCATGTGCACTCTCTACTCGCACATAGTTGGGTTAT
1 CATCAGCTCATGTGCACTCCCTACTCGCACATAGCTGGGTCAT
12960420 CATCAGCTCATGTGCACTCCCTACTCGCACATAGCTGGGTCAT
1 CATCAGCTCATGTGCACTCCCTACTCGCACATAGCTGGGTCAT
* * *
12960463 CATCTGCTCATGTGCACTCCC-ACACACACATAGCTGGGTCA
1 CATCAGCTCATGTGCACTCCCTACTCGCACATAGCTGGGTCA
12960504 CCATTATCAC
Statistics
Matches: 78, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
42 18 0.23
43 60 0.77
ACGTcount: A:0.22, C:0.33, G:0.18, T:0.27
Consensus pattern (43 bp):
CATCAGCTCATGTGCACTCCCTACTCGCACATAGCTGGGTCAT
Found at i:12962138 original size:10 final size:10
Alignment explanation
Indices: 12962119--12962188 Score: 50
Period size: 10 Copynumber: 6.4 Consensus size: 10
12962109 TATTGCTTGG
*
12962119 TTGATAATGC
1 TTGATGATGC
12962129 TTGATGATGC
1 TTGATGATGC
*
12962139 TTAATGATCATGC
1 -T--TGATGATGC
*
12962152 TTGATTATGC
1 TTGATGATGC
*
12962162 TTAATGACTATGC
1 TTGATG---ATGC
12962175 TTGATGATGC
1 TTGATGATGC
12962185 TTGA
1 TTGA
12962189 AAATGATTAG
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
10 29 0.60
11 1 0.02
12 1 0.02
13 17 0.35
ACGTcount: A:0.26, C:0.11, G:0.21, T:0.41
Consensus pattern (10 bp):
TTGATGATGC
Found at i:12962151 original size:23 final size:23
Alignment explanation
Indices: 12962120--12962186 Score: 100
Period size: 23 Copynumber: 2.9 Consensus size: 23
12962110 ATTGCTTGGT
*
12962120 TGATAATGCTTGATGATGCTTAA
1 TGATCATGCTTGATGATGCTTAA
*
12962143 TGATCATGCTTGATTATGCTTAA
1 TGATCATGCTTGATGATGCTTAA
12962166 TGA-CTATGCTTGATGATGCTT
1 TGATC-ATGCTTGATGATGCTT
12962187 GAAAATGATT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
22 1 0.03
23 39 0.98
ACGTcount: A:0.25, C:0.12, G:0.21, T:0.42
Consensus pattern (23 bp):
TGATCATGCTTGATGATGCTTAA
Found at i:12964606 original size:34 final size:34
Alignment explanation
Indices: 12964568--12964634 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
12964558 GTATAAGTTG
*
12964568 TGCTTGCTCCAT-GTAAAAGGCATTTTATGGGTTA
1 TGCTTGCT-CATGGTAAAAGGCATTATATGGGTTA
*
12964602 TGCTTGCTCTTGGTAAAAGGCATTATATGGGTT
1 TGCTTGCTCATGGTAAAAGGCATTATATGGGTT
12964635 CCATTTGATC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 2 0.07
34 28 0.93
ACGTcount: A:0.22, C:0.13, G:0.25, T:0.39
Consensus pattern (34 bp):
TGCTTGCTCATGGTAAAAGGCATTATATGGGTTA
Found at i:12964647 original size:34 final size:32
Alignment explanation
Indices: 12964579--12964652 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 32
12964569 GCTTGCTCCA
* *
12964579 TGTAAAAGGCATTTTATGGGTTATGCTTGCTCT
1 TGTAAAAGGCATTATATGGGTTAT-CTTGATCT
12964612 TGGTAAAAGGCATTATATGGGTTCCAT-TTGATCT
1 T-GTAAAAGGCATTATATGGGTT--ATCTTGATCT
12964646 TGTAAAA
1 TGTAAAA
12964653 TAACGTTGTA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
33 7 0.19
34 27 0.75
36 2 0.06
ACGTcount: A:0.27, C:0.11, G:0.23, T:0.39
Consensus pattern (32 bp):
TGTAAAAGGCATTATATGGGTTATCTTGATCT
Found at i:12966516 original size:41 final size:41
Alignment explanation
Indices: 12966459--12966538 Score: 106
Period size: 41 Copynumber: 2.0 Consensus size: 41
12966449 TGGCTGCAGT
* * *
12966459 GAGAACAGTGACTCCCAAGGCAAAAAGTTTCTCGCTACAAC
1 GAGAACAATGACTCCCAAGACAAAAAGTTTCTCACTACAAC
* * *
12966500 GAGAACAATGATTCCCAAGATAGAAAGTTTCTCACTACA
1 GAGAACAATGACTCCCAAGACAAAAAGTTTCTCACTACA
12966539 GCAAAAATCA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.20
Consensus pattern (41 bp):
GAGAACAATGACTCCCAAGACAAAAAGTTTCTCACTACAAC
Found at i:12966894 original size:36 final size:35
Alignment explanation
Indices: 12966847--12966979 Score: 135
Period size: 36 Copynumber: 3.7 Consensus size: 35
12966837 TCACCCTAGC
*
12966847 TCATGTGCACTCCCACACCGCACATAGCTAATACCG
1 TCATGTGCACTCCCACATCGCACATAGC-AATACCG
* * *
12966883 TCATGTGCACTCCTACATCGCACAT-GACAAATATCA
1 TCATGTGCACTCCCACATCGCACATAG-C-AATACCG
* *
12966919 TCATGTGCACTCCCACATCGCACCTCA-CCATCACCG
1 TCATGTGCACTCCCACATCGCACAT-AGCAAT-ACCG
* *
12966955 TCATGTGCACTTCCACATCGAACAT
1 TCATGTGCACTCCCACATCGCACAT
12966980 GCATGGTTGT
Statistics
Matches: 80, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
35 3 0.04
36 77 0.96
ACGTcount: A:0.28, C:0.38, G:0.12, T:0.23
Consensus pattern (35 bp):
TCATGTGCACTCCCACATCGCACATAGCAATACCG
Found at i:12966964 original size:72 final size:72
Alignment explanation
Indices: 12966847--12966980 Score: 184
Period size: 72 Copynumber: 1.9 Consensus size: 72
12966837 TCACCCTAGC
*
12966847 TCATGTGCACTCCCACACCGCACATAGCTAATACCGTCATGTGCAC-TCCTACATCGCACATGAC
1 TCATGTGCACTCCCACACCGCACATAGCTAATACCGTCATGTGCACTTCC-ACATCGAACATGAC
12966911 AAATATCA
65 AAATATCA
* * *
12966919 TCATGTGCACTCCCACATCGCACCTCA-C-CATCACCGTCATGTGCACTTCCACATCGAACATG
1 TCATGTGCACTCCCACACCGCACAT-AGCTAAT-ACCGTCATGTGCACTTCCACATCGAACATG
12966981 CATGGTTGTA
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
71 2 0.04
72 49 0.89
73 4 0.07
ACGTcount: A:0.28, C:0.37, G:0.13, T:0.22
Consensus pattern (72 bp):
TCATGTGCACTCCCACACCGCACATAGCTAATACCGTCATGTGCACTTCCACATCGAACATGACA
AATATCA
Found at i:12978281 original size:21 final size:21
Alignment explanation
Indices: 12978242--12978286 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
12978232 AAGAAGAAGA
*
12978242 AGAAGAAAGTGCTGTAAAGTG
1 AGAAGAAAGTGCAGTAAAGTG
12978263 AGAAGAAAGTGCCAG-AAAGTG
1 AGAAGAAAGTG-CAGTAAAGTG
12978284 AGA
1 AGA
12978287 TATTCCTAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.47, C:0.07, G:0.33, T:0.13
Consensus pattern (21 bp):
AGAAGAAAGTGCAGTAAAGTG
Found at i:12978505 original size:9 final size:9
Alignment explanation
Indices: 12978491--12978541 Score: 52
Period size: 9 Copynumber: 5.6 Consensus size: 9
12978481 ATTGTGGAAA
12978491 TTATTATTT
1 TTATTATTT
12978500 TTATTATTT
1 TTATTATTT
*
12978509 TCATT-TATT
1 TTATTAT-TT
12978518 TTATTA-TT
1 TTATTATTT
12978526 TTATATATTAT
1 TTAT-TATT-T
12978537 TTATT
1 TTATT
12978542 TATTCATTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
8 7 0.20
9 21 0.60
10 2 0.06
11 5 0.14
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (9 bp):
TTATTATTT
Found at i:12978518 original size:19 final size:18
Alignment explanation
Indices: 12978494--12978541 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 18
12978484 GTGGAAATTA
12978494 TTATTTTTATTATTTTCAT
1 TTATTTTTATTATTTT-AT
12978513 TTA-TTTTATTATTTTAT
1 TTATTTTTATTATTTTAT
*
12978530 ATATTATTTATT
1 TTATT-TTTATT
12978542 TATTCATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 4 0.15
18 13 0.50
19 9 0.35
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (18 bp):
TTATTTTTATTATTTTAT
Found at i:12978543 original size:15 final size:13
Alignment explanation
Indices: 12978490--12978551 Score: 58
Period size: 13 Copynumber: 4.6 Consensus size: 13
12978480 TATTGTGGAA
12978490 ATTATTATT-TTT
1 ATTATTATTATTT
12978502 ATTATT-TTCATTT
1 ATTATTATT-ATTT
12978515 ATT-TTATTATTTT
1 ATTATTATTA-TTT
12978528 ATATATTATTTATTT
1 AT-TATTA-TTATTT
12978543 ATTCATTAT
1 ATT-ATTAT
12978552 GGATACTTAG
Statistics
Matches: 42, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
11 2 0.05
12 9 0.21
13 13 0.31
14 3 0.07
15 12 0.29
16 3 0.07
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.69
Consensus pattern (13 bp):
ATTATTATTATTT
Found at i:12978550 original size:27 final size:27
Alignment explanation
Indices: 12978493--12978551 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
12978483 TGTGGAAATT
*
12978493 ATTATTTTTATTATTTTCATTTATTTT
1 ATTATTTTTATTATTTTCATTTATTTC
*
12978520 ATTA-TTTTATATATTATTTATTTA-TTC
1 ATTATTTTTAT-TATT-TTCATTTATTTC
12978547 ATTAT
1 ATTAT
12978552 GGATACTTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
26 6 0.22
27 14 0.52
28 7 0.26
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.69
Consensus pattern (27 bp):
ATTATTTTTATTATTTTCATTTATTTC
Found at i:12984671 original size:62 final size:62
Alignment explanation
Indices: 12984585--12984756 Score: 220
Period size: 62 Copynumber: 2.8 Consensus size: 62
12984575 CCAAGTATGC
* * * *
12984585 AAGTTTCTCGTTGCAA-TGAGAATCAATTTGGCTGTAGCTAGAACAGTGACTCCCAAGACAGA
1 AAGTTTCTCGTTG-AAGCGAAAATCAATTTGGCTGCAGCAAGAACAGTGACTCCCAAGACAGA
* * *
12984647 AAGTTTCTCGTTGTAGCGAAAATCAATTTGGCTGCAGCAAGAACACTGATTCCCAAGACAGA
1 AAGTTTCTCGTTGAAGCGAAAATCAATTTGGCTGCAGCAAGAACAGTGACTCCCAAGACAGA
* ** * *
12984709 AAGTTTTTCACTGAAGCGAAAATCAATTTAGCTGCAGCGAGAACAGTG
1 AAGTTTCTCGTTGAAGCGAAAATCAATTTGGCTGCAGCAAGAACAGTG
12984757 CAAATGAGGT
Statistics
Matches: 95, Mismatches: 14, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
61 1 0.01
62 94 0.99
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (62 bp):
AAGTTTCTCGTTGAAGCGAAAATCAATTTGGCTGCAGCAAGAACAGTGACTCCCAAGACAGA
Found at i:12984897 original size:2 final size:2
Alignment explanation
Indices: 12984892--12984926 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
12984882 ATTTATATGA
12984892 AT AT 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 AT AT A
12984927 CTACTACTAT
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:12985098 original size:36 final size:36
Alignment explanation
Indices: 12985047--12985179 Score: 198
Period size: 36 Copynumber: 3.7 Consensus size: 36
12985037 TCACCCCAGC
12985047 TCATGTGCACTCCCACACCGCACATAGCTAATACCG
1 TCATGTGCACTCCCACACCGCACATAGCTAATACCG
*
12985083 TCATGTGCACCCCCACACCGCACATAGCTAATACCG
1 TCATGTGCACTCCCACACCGCACATAGCTAATACCG
* *
12985119 TCATGTGCACTCCCACACCGCACCTCA-C-CATCACCG
1 TCATGTGCACTCCCACACCGCACAT-AGCTAAT-ACCG
*
12985155 TCATGTGCACTCCCATACCGCACAT
1 TCATGTGCACTCCCACACCGCACAT
12985180 GCAGGGCTGT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
35 2 0.02
36 86 0.97
37 1 0.01
ACGTcount: A:0.26, C:0.43, G:0.13, T:0.19
Consensus pattern (36 bp):
TCATGTGCACTCCCACACCGCACATAGCTAATACCG
Found at i:12986137 original size:21 final size:21
Alignment explanation
Indices: 12986113--12986152 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
12986103 AAAGAGGGAA
* *
12986113 AAATTTTTTTTAAGAGTTTTC
1 AAATTATTTTGAAGAGTTTTC
12986134 AAATTATTTTGAAGAGTTT
1 AAATTATTTTGAAGAGTTT
12986153 CTCTCTCTAA
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:0.33, C:0.03, G:0.12, T:0.53
Consensus pattern (21 bp):
AAATTATTTTGAAGAGTTTTC
Found at i:12986362 original size:21 final size:21
Alignment explanation
Indices: 12986336--12986376 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
12986326 GAGGAGAAGA
*
12986336 AGAAAGTGCTGGAAAGTGAGG
1 AGAAAGTGCTAGAAAGTGAGG
12986357 AGAAAGTGCTAGAAAGTGAG
1 AGAAAGTGCTAGAAAGTGAG
12986377 ATATTTATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.05, G:0.39, T:0.15
Consensus pattern (21 bp):
AGAAAGTGCTAGAAAGTGAGG
Found at i:12986592 original size:3 final size:3
Alignment explanation
Indices: 12986584--12986643 Score: 54
Period size: 3 Copynumber: 19.7 Consensus size: 3
12986574 TATTGTGAAA
*
12986584 ATT ATT ATT ATT ATT ATT ATT -TT ATT -TC ATT ATT A-T ATAT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT
12986627 ATTT ATTT ATT CATT AT
1 A-TT A-TT ATT -ATT AT
12986644 GCCTACTTAG
Statistics
Matches: 49, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
2 5 0.10
3 31 0.63
4 13 0.27
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:12986615 original size:25 final size:24
Alignment explanation
Indices: 12986585--12986643 Score: 77
Period size: 24 Copynumber: 2.4 Consensus size: 24
12986575 ATTGTGAAAA
12986585 TTATTATTATTAT-TATTATTTTAT
1 TTATTATTATTATATATTA-TTTAT
12986609 TTCATTATTA-TATATATTATTTAT
1 TT-ATTATTATTATATATTATTTAT
12986633 TTATTCATTAT
1 TTATT-ATTAT
12986644 GCCTACTTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
23 3 0.10
24 16 0.52
25 12 0.39
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (24 bp):
TTATTATTATTATATATTATTTAT
Found at i:12986615 original size:28 final size:27
Alignment explanation
Indices: 12986584--12986643 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 27
12986574 TATTGTGAAA
12986584 ATTATTAT-TATTATTA-TTATTTTATTTC
1 ATTATTATATA-TATTATTTA-TTTA-TTC
12986612 ATTATTATATATATTATTTATTTATTC
1 ATTATTATATATATTATTTATTTATTC
12986639 ATTAT
1 ATTAT
12986644 GCCTACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
27 8 0.27
28 17 0.57
29 5 0.17
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (27 bp):
ATTATTATATATATTATTTATTTATTC
Found at i:12988603 original size:33 final size:33
Alignment explanation
Indices: 12988560--12988623 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
12988550 TTTAATTATG
* *
12988560 TATATTTAGATTCAAATATAGATTAAATTGGAT
1 TATATCTAGATTCAAATATAGATCAAATTGGAT
*
12988593 TATATCTAGATTTAAATATAGATCAAATTGG
1 TATATCTAGATTCAAATATAGATCAAATTGG
12988624 TTTAAAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.42, C:0.05, G:0.12, T:0.41
Consensus pattern (33 bp):
TATATCTAGATTCAAATATAGATCAAATTGGAT
Found at i:12989158 original size:99 final size:100
Alignment explanation
Indices: 12989033--12989229 Score: 279
Period size: 99 Copynumber: 2.0 Consensus size: 100
12989023 CGTTGCATGC
* * *
12989033 CATGTTGAAAAAAAAAAAGTTATTACACACCATGTTTAAGGTGTTTAACTCCAAAAGTTTATGTT
1 CATGTTG-AAAAAAAAAAGTTATTACACACCATGTTTAAAGTGTTTAACTCCAAAAGTTTATATC
* *
12989098 CTAGTGAAATATAAAGATAAAGACCAAGTTACACGA
65 CTAATGAAATACAAAGATAAAGACCAAGTTACACGA
* ** *
12989134 CATGTTG-AAAAAAAAAGTTTTTACAGGCCATGTTTAAAGTGTTTAACTCCAAGAGTTTATATCC
1 CATGTTGAAAAAAAAAAGTTATTACACACCATGTTTAAAGTGTTTAACTCCAAAAGTTTATATCC
* *
12989198 TAATGAAATACAAAGATAGAGATCAAGTTACA
66 TAATGAAATACAAAGATAAAGACCAAGTTACA
12989230 TGCTATATTT
Statistics
Matches: 85, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
99 78 0.92
101 7 0.08
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.29
Consensus pattern (100 bp):
CATGTTGAAAAAAAAAAGTTATTACACACCATGTTTAAAGTGTTTAACTCCAAAAGTTTATATCC
TAATGAAATACAAAGATAAAGACCAAGTTACACGA
Found at i:12989465 original size:86 final size:86
Alignment explanation
Indices: 12989317--12989478 Score: 209
Period size: 86 Copynumber: 1.9 Consensus size: 86
12989307 ATTACATGCC
* * *
12989317 ATGTTTAAAATGTTTAACTCTAAGAGTTCATATCTTAGTAAAATACAAAGATAAAGACCAAGTTA
1 ATGTTTAAAATGTTTAACTCTAAGAATTCACATCCTAGTAAAATACAAAGATAAAGACCAAGTTA
12989382 CACCCCATGTTGTTGCACACT
66 CACCCCATGTTGTTGCACACT
** * * * *
12989403 ATGTTTAAGGTGTTTAACT-TCAAGAATTTACATCCTAGTGAAATACAAAGATAGAGATCAAGTT
1 ATGTTTAAAATGTTTAACTCT-AAGAATTCACATCCTAGTAAAATACAAAGATAAAGACCAAGTT
**
12989467 ACATGCCATGTT
65 ACACCCCATGTT
12989479 TAAACATGTC
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
85 1 0.02
86 63 0.98
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (86 bp):
ATGTTTAAAATGTTTAACTCTAAGAATTCACATCCTAGTAAAATACAAAGATAAAGACCAAGTTA
CACCCCATGTTGTTGCACACT
Found at i:12997420 original size:15 final size:15
Alignment explanation
Indices: 12997402--12997450 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
12997392 ACAAATAAAT
12997402 AAAATAATAATAATA
1 AAAATAATAATAATA
12997417 AAAATAAATAA-AATA
1 AAAAT-AATAATAATA
* *
12997432 AATATTA-AATAA-A
1 AAAATAATAATAATA
12997445 AAAATA
1 AAAATA
12997451 CAAAAATACC
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
13 7 0.25
14 3 0.11
15 13 0.46
16 5 0.18
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
AAAATAATAATAATA
Found at i:12997423 original size:24 final size:26
Alignment explanation
Indices: 12997394--12997446 Score: 83
Period size: 24 Copynumber: 2.1 Consensus size: 26
12997384 TATTTACTAC
12997394 AAATAAATAAAAT-AATAAT-AATAA
1 AAATAAATAAAATAAATAATAAATAA
*
12997418 AAATAAATAAAATAAATATTAAATAA
1 AAATAAATAAAATAAATAATAAATAA
12997444 AAA
1 AAA
12997447 AATACAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 13 0.50
25 5 0.19
26 8 0.31
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (26 bp):
AAATAAATAAAATAAATAATAAATAA
Found at i:12997440 original size:16 final size:16
Alignment explanation
Indices: 12997394--12997450 Score: 64
Period size: 16 Copynumber: 3.6 Consensus size: 16
12997384 TATTTACTAC
*
12997394 AAATAAATAAAATAATA
1 AAATAAATAATA-AATA
12997411 ATAATAAA-AATAAATA
1 A-AATAAATAATAAATA
*
12997427 AAATAAATATTAAATA
1 AAATAAATAATAAATA
12997443 AAA-AAATA
1 AAATAAATA
12997451 CAAAAATACC
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
15 11 0.31
16 15 0.42
17 4 0.11
18 6 0.17
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (16 bp):
AAATAAATAATAAATA
Found at i:12998042 original size:9 final size:8
Alignment explanation
Indices: 12998016--12998041 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
12998006 TAATAATAAT
12998016 AATAAAAA
1 AATAAAAA
12998024 AATAAAAA
1 AATAAAAA
12998032 AATAAAAA
1 AATAAAAA
12998040 AA
1 AA
12998042 AGAAATAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AATAAAAA
Found at i:13010400 original size:38 final size:37
Alignment explanation
Indices: 13010252--13010578 Score: 348
Period size: 37 Copynumber: 8.7 Consensus size: 37
13010242 AAAGAGAGAA
* *
13010252 AAAGTCTCGTTACCTCAGCTTTGAGGAGTTCATTTTT
1 AAAGTCTCGTTGCCTCAGTTTTGAGGAGTTCATTTTT
* * *
13010289 AAAGTCTCGTTGCCTCAGATTTAAGGAGTTCATTTTA
1 AAAGTCTCGTTGCCTCAGTTTTGAGGAGTTCATTTTT
*
13010326 AAAGTCTTGTTGCCTCAGTTTTGAGGAGTTCATTTTT
1 AAAGTCTCGTTGCCTCAGTTTTGAGGAGTTCATTTTT
*
13010363 AAAGTCTCGTTGCCTCAGTTTTGAGGGGTTCATTTTTT
1 AAAGTCTCGTTGCCTCAGTTTTGAGGAGTTCA-TTTTT
* * * * * * * *
13010401 AAAGTTTCATGGCCTCAATTTTAAGGAGTTTACTCTT
1 AAAGTCTCGTTGCCTCAGTTTTGAGGAGTTCATTTTT
* * * ** *
13010438 AAAGTTTCATTGCCTCAATTTTGAGGAGAACAATTTTA
1 AAAGTCTCGTTGCCTCAGTTTTGAGGAGTTC-ATTTTT
* * * *
13010476 AAAGTTTTGTCGCCTCAGCTTTGAGGAGTTCATTTTT
1 AAAGTCTCGTTGCCTCAGTTTTGAGGAGTTCATTTTT
* *
13010513 AAAAGCCTCGTTGCCTCAATTTTGAGGAGTTCATTTTT
1 -AAAGTCTCGTTGCCTCAGTTTTGAGGAGTTCATTTTT
* **
13010551 AGAAGTTTCGTTGCCTCAACTTTGAGGA
1 A-AAGTCTCGTTGCCTCAGTTTTGAGGA
13010579 ATTTCATTAA
Statistics
Matches: 242, Mismatches: 44, Indels: 7
0.83 0.15 0.02
Matches are distributed among these distances:
37 131 0.54
38 111 0.46
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (37 bp):
AAAGTCTCGTTGCCTCAGTTTTGAGGAGTTCATTTTT
Found at i:13010451 original size:75 final size:74
Alignment explanation
Indices: 13010275--13010549 Score: 255
Period size: 75 Copynumber: 3.7 Consensus size: 74
13010265 CTCAGCTTTG
* * * * * *
13010275 AGGAGTTCATTTTTAAAGTCTCGTTGCCTCAGATTTAAGGAGTTCATTTTAAAAGTCTTGTTGCC
1 AGGAGTTCACTCTTAAAGTCTCGTTGCCTCAGTTTTGAGGAGTTCATTTTAAAAGTCTTATGGCC
* *
13010340 TCAGTTTTG
66 TCAATTTTA
* * * *
13010349 AGGAGTTCATTTTTAAAGTCTCGTTGCCTCAGTTTTGAGGGGTTCATTTTTTAAAGT-TTCATGG
1 AGGAGTTCACTCTTAAAGTCTCGTTGCCTCAGTTTTGAGGAGTTCA-TTTTAAAAGTCTT-ATGG
13010413 CCTCAATTTTA
64 CCTCAATTTTA
* * * * ** * * *
13010424 AGGAGTTTACTCTTAAAGTTTCATTGCCTCAATTTTGAGGAGAACAATTTTAAAAGTTTTGTCGC
1 AGGAGTTCACTCTTAAAGTCTCGTTGCCTCAGTTTTGAGGAGTTC-ATTTTAAAAGTCTTATGGC
** *
13010489 CTCAGCTTTG
65 CTCAATTTTA
* * * *
13010499 AGGAGTTCATTTTTAAAAGCCTCGTTGCCTCAATTTTGAGGAGTTCATTTT
1 AGGAGTTCACTCTT-AAAGTCTCGTTGCCTCAGTTTTGAGGAGTTCATTTT
13010550 TAGAAGTTTC
Statistics
Matches: 165, Mismatches: 31, Indels: 9
0.80 0.15 0.04
Matches are distributed among these distances:
74 45 0.27
75 91 0.55
76 29 0.18
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.41
Consensus pattern (74 bp):
AGGAGTTCACTCTTAAAGTCTCGTTGCCTCAGTTTTGAGGAGTTCATTTTAAAAGTCTTATGGCC
TCAATTTTA
Found at i:13012048 original size:9 final size:9
Alignment explanation
Indices: 13012034--13012078 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
13012024 TATTTACTAC
13012034 AAATAAATA
1 AAATAAATA
13012043 AAAT-AAT-
1 AAATAAATA
13012050 -AAT-AATAA
1 AAATAAAT-A
13012058 AAATAAATA
1 AAATAAATA
13012067 AAATAAATA
1 AAATAAATA
13012076 AAA
1 AAA
13012079 AATACAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
6 6 0.19
8 3 0.09
9 20 0.62
10 3 0.09
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (9 bp):
AAATAAATA
Found at i:13012060 original size:15 final size:15
Alignment explanation
Indices: 13012034--13012073 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
13012024 TATTTACTAC
13012034 AAAT-AAAT-AAAAT
1 AAATAAAATAAAAAT
13012047 -AATAATAATAAAAAT
1 AAATAA-AATAAAAAT
13012062 AAATAAAATAAA
1 AAATAAAATAAA
13012074 TAAAAAATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
12 3 0.13
13 1 0.04
14 3 0.13
15 11 0.48
16 5 0.22
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AAATAAAATAAAAAT
Found at i:13012067 original size:19 final size:20
Alignment explanation
Indices: 13012038--13012079 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 20
13012028 TACTACAAAT
13012038 AAATAAAATAATAAT-AATAA
1 AAATAAAATAA-AATAAATAA
13012058 AAAT-AAATAAAATAAATAA
1 AAATAAAATAAAATAAATAA
13012077 AAA
1 AAA
13012080 ATACAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 3 0.14
19 14 0.67
20 4 0.19
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (20 bp):
AAATAAAATAAAATAAATAA
Found at i:13012303 original size:11 final size:11
Alignment explanation
Indices: 13012287--13012413 Score: 51
Period size: 10 Copynumber: 12.0 Consensus size: 11
13012277 TATTCAATAA
13012287 AAATAATAAAT
1 AAATAATAAAT
*
13012298 AAATAA-CAAT
1 AAATAATAAAT
*
13012308 AGATAA-AAA-
1 AAATAATAAAT
*
13012317 AAA-GAT-AA-
1 AAATAATAAAT
13012325 AAATAATAAAT
1 AAATAATAAAT
*
13012336 AAA-AATAATT
1 AAATAATAAAT
*
13012346 CATATATATATAAT
1 -AAATA-ATA-AAT
13012360 AAAATAATAAAT
1 -AAATAATAAAT
**
13012372 TTATAA-AAAT
1 AAATAATAAAT
13012382 ACAAT-ATAAAT
1 A-AATAATAAAT
*
13012393 AACA-ATTAAAT
1 AA-ATAATAAAT
13012404 -AATAATAAAT
1 AAATAATAAAT
13012414 GATAAAAAAA
Statistics
Matches: 86, Mismatches: 17, Indels: 27
0.66 0.13 0.21
Matches are distributed among these distances:
8 6 0.07
9 5 0.06
10 31 0.36
11 28 0.33
12 4 0.05
13 6 0.07
14 6 0.07
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.28
Consensus pattern (11 bp):
AAATAATAAAT
Found at i:13012308 original size:17 final size:17
Alignment explanation
Indices: 13012282--13012441 Score: 73
Period size: 17 Copynumber: 9.2 Consensus size: 17
13012272 AAAGTTATTC
13012282 AATAAAAATAATAAATA
1 AATAAAAATAATAAATA
* *
13012299 AATAACAATAGATAAAAAAA
1 AATAAAAATA-AT--AAATA
13012319 AGATAAAAATAATAAATA
1 A-ATAAAAATAATAAATA
* *
13012337 AA-AATAATTCATATATATA
1 AATAA-AAAT-A-ATAAATA
*
13012356 TAAT-AAAATAATAAATT
1 -AATAAAAATAATAAATA
* *
13012373 TATAAAAATACA-ATATA
1 AATAAAAATA-ATAAATA
*
13012390 AATAACAAT--TAAAT-
1 AATAAAAATAATAAATA
* *
13012404 AATAATAAATGATAAAAA
1 AATAA-AAATAATAAATA
*
13012422 AATAGATAATAATAAA-A
1 AATA-AAAATAATAAATA
13012439 AAT
1 AAT
13012442 CTAAAACAAC
Statistics
Matches: 107, Mismatches: 19, Indels: 34
0.67 0.12 0.21
Matches are distributed among these distances:
14 5 0.05
15 6 0.06
16 4 0.04
17 42 0.39
18 22 0.21
19 10 0.09
20 10 0.09
21 8 0.07
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.26
Consensus pattern (17 bp):
AATAAAAATAATAAATA
Found at i:13012389 original size:36 final size:36
Alignment explanation
Indices: 13012286--13012394 Score: 89
Period size: 38 Copynumber: 3.0 Consensus size: 36
13012276 TTATTCAATA
* * * *
13012286 AAAATAATAAATAAATAACAATAGATA-AAAAAAAGAT
1 AAAATAATAAATAAA-AATAATACATATATAAATA-AT
* *
13012323 AAAAATAATAAATAAAAATAATTCATATATATATAAT
1 -AAAATAATAAATAAAAATAATACATATATAAATAAT
*
13012360 AAAATAATAAATTTATAAA-AATACA-ATATAAATAA
1 AAAATAATAAA--TAAAAATAATACATATATAAATAA
13012395 CAATTAAATA
Statistics
Matches: 59, Mismatches: 9, Indels: 8
0.78 0.12 0.11
Matches are distributed among these distances:
36 20 0.34
37 15 0.25
38 24 0.41
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.27
Consensus pattern (36 bp):
AAAATAATAAATAAAAATAATACATATATAAATAAT
Found at i:13012643 original size:8 final size:8
Alignment explanation
Indices: 13012631--13012682 Score: 50
Period size: 8 Copynumber: 6.2 Consensus size: 8
13012621 TAATAATAAT
13012631 AATAAAAA
1 AATAAAAA
*
13012639 TATAAAAA
1 AATAAAAA
13012647 AATAAAAA
1 AATAAAAA
13012655 AATAAGAAA
1 AATAA-AAA
* * *
13012664 TAGTATAAT
1 -AATAAAAA
13012673 AATAAAAA
1 AATAAAAA
13012681 AA
1 AA
13012683 AAGAAAATTT
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
8 26 0.76
9 5 0.15
10 3 0.09
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (8 bp):
AATAAAAA
Found at i:13014590 original size:28 final size:28
Alignment explanation
Indices: 13014545--13014857 Score: 277
Period size: 28 Copynumber: 11.5 Consensus size: 28
13014535 AATTATGGCG
*
13014545 TGACATGTAACAAC----TTTTTCATCA
1 TGACATGTAACAACTAAATTTTTCAACA
* *
13014569 TGACGTGTAACAACTAAATTTTTCAAGA
1 TGACATGTAACAACTAAATTTTTCAACA
* ** *
13014597 AGGTATGTAACAACTAAA-TCTTCAACA
1 TGACATGTAACAACTAAATTTTTCAACA
* *
13014624 TGACTTGTAACAACTACATTTTTCAACA
1 TGACATGTAACAACTAAATTTTTCAACA
* *
13014652 TCACATGTAACAACTACATTTTTCAACA
1 TGACATGTAACAACTAAATTTTTCAACA
** *
13014680 TGATGTATAACAACTAAATTTTT-AACA
1 TGACATGTAACAACTAAATTTTTCAACA
*** *
13014707 TGGTGTGTAACAATTAAA-TTTTCAACA
1 TGACATGTAACAACTAAATTTTTCAACA
* *
13014734 TGGCATGTAACAACTACATTTTTCAACA
1 TGACATGTAACAACTAAATTTTTCAACA
* * *
13014762 TGAC-TAATAACAATTAAA-TTTTCAATA
1 TGACAT-GTAACAACTAAATTTTTCAACA
* * *
13014789 TGACATGTGACAATTACATTTTTCAACA
1 TGACATGTAACAACTAAATTTTTCAACA
***
13014817 TGGTGTGTAACAACTAAATTTTGT-AACA
1 TGACATGTAACAACTAAATTTT-TCAACA
13014845 TGACATGTAACAA
1 TGACATGTAACAA
13014858 TTACTTTTCA
Statistics
Matches: 231, Mismatches: 47, Indels: 18
0.78 0.16 0.06
Matches are distributed among these distances:
24 13 0.06
26 4 0.02
27 79 0.34
28 134 0.58
29 1 0.00
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.34
Consensus pattern (28 bp):
TGACATGTAACAACTAAATTTTTCAACA
Found at i:13014633 original size:55 final size:55
Alignment explanation
Indices: 13014549--13014869 Score: 323
Period size: 55 Copynumber: 5.9 Consensus size: 55
13014539 ATGGCGTGAC
* * * * *
13014549 ATGTAACAACT---TTTTCATCATGACGTGTAACAACTAAATTTTTCAAGAAGGT
1 ATGTAACAACTAAATTTTCAACATGACATGTAACAACTACATTTTTCAACATGGT
* * ***
13014601 ATGTAACAACTAAATCTTCAACATGACTTGTAACAACTACATTTTTCAACATCAC
1 ATGTAACAACTAAATTTTCAACATGACATGTAACAACTACATTTTTCAACATGGT
* ** * *
13014656 ATGTAACAACTACATTTTTCAACATGATGTATAACAACTAAATTTTT-AACATGGT
1 ATGTAACAACTA-AATTTTCAACATGACATGTAACAACTACATTTTTCAACATGGT
* * * *
13014711 GTGTAACAATTAAATTTTCAACATGGCATGTAACAACTACATTTTTCAACATGACT
1 ATGTAACAACTAAATTTTCAACATGACATGTAACAACTACATTTTTCAACATG-GT
* * * * *
13014767 A-ATAACAATTAAATTTTCAATATGACATGTGACAATTACATTTTTCAACATGGT
1 ATGTAACAACTAAATTTTCAACATGACATGTAACAACTACATTTTTCAACATGGT
* * *
13014821 GTGTAACAACTAAATTTTGTAACATGACATGTAACAATTAC--TTTTCAAC
1 ATGTAACAACTAAATTTT-CAACATGACATGTAACAACTACATTTTTCAAC
13014870 GTGATTTGCT
Statistics
Matches: 221, Mismatches: 40, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
52 11 0.05
54 37 0.17
55 125 0.57
56 48 0.22
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.35
Consensus pattern (55 bp):
ATGTAACAACTAAATTTTCAACATGACATGTAACAACTACATTTTTCAACATGGT
Found at i:13014860 original size:83 final size:83
Alignment explanation
Indices: 13014545--13014857 Score: 307
Period size: 83 Copynumber: 3.8 Consensus size: 83
13014535 AATTATGGCG
* * * * ** *
13014545 TGACATGTAAC-A--AC-TTTTTCATCATGACGTGTAACAACTAAATTTTTCAAGAAGGTATGTA
1 TGACATGTAACAATTACATTTTTCAACATGACATGTAACAACTAAATTTTTCAACATGACATATA
*
13014606 ACAACTAAATCTTCAACA
66 ACAACTAAATTTTCAACA
* * * * **
13014624 TGACTTGTAACAACTACATTTTTCAACATCACATGTAACAACTACATTTTTCAACATGATGTATA
1 TGACATGTAACAATTACATTTTTCAACATGACATGTAACAACTAAATTTTTCAACATGACATATA
*
13014689 ACAACTAAATTTTTAACA
66 ACAACTAAATTTTCAACA
*** * * *
13014707 TGGTGTGTAACAATTA-AATTTTCAACATGGCATGTAACAACTACATTTTTCAACATGAC-TAAT
1 TGACATGTAACAATTACATTTTTCAACATGACATGTAACAACTAAATTTTTCAACATGACAT-AT
* *
13014770 AACAATTAAATTTTCAATA
65 AACAACTAAATTTTCAACA
* *** *
13014789 TGACATGTGACAATTACATTTTTCAACATGGTGTGTAACAACTAAATTTTGT-AACATGACATGT
1 TGACATGTAACAATTACATTTTTCAACATGACATGTAACAACTAAATTTT-TCAACATGACATAT
13014853 AACAA
65 AACAA
13014858 TTACTTTTCA
Statistics
Matches: 194, Mismatches: 32, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
79 10 0.05
80 1 0.01
81 1 0.01
82 71 0.37
83 109 0.56
84 2 0.01
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.34
Consensus pattern (83 bp):
TGACATGTAACAATTACATTTTTCAACATGACATGTAACAACTAAATTTTTCAACATGACATATA
ACAACTAAATTTTCAACA
Found at i:13024771 original size:15 final size:15
Alignment explanation
Indices: 13024751--13024779 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
13024741 GTGACAGGCA
13024751 TTACGTGACTGAATG
1 TTACGTGACTGAATG
13024766 TTACGTGACTGAAT
1 TTACGTGACTGAAT
13024780 ATTTGTTGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34
Consensus pattern (15 bp):
TTACGTGACTGAATG
Found at i:13034066 original size:43 final size:43
Alignment explanation
Indices: 13033948--13034069 Score: 138
Period size: 43 Copynumber: 2.8 Consensus size: 43
13033938 GGACTCGGCT
* **
13033948 ATGTGCGAGTAGAGAGTGCGCATAAGCCGATGATGACCCGATT
1 ATGTGCGAGTAGAGAGTGCGCATAAGCCGGTGATGACCCGACC
* * *
13033991 ATGTGGGAGTAGTGAGTGCGCATAAACCGGTGATGACCC-AGCC
1 ATGTGCGAGTAGAGAGTGCGCATAAGCCGGTGATGACCCGA-CC
* * * *
13034034 ATGTGCGAGTAGGGAGTACGCATGAGCTGGTGATGA
1 ATGTGCGAGTAGAGAGTGCGCATAAGCCGGTGATGA
13034070 TGGGATGGTG
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 1 0.02
43 65 0.98
ACGTcount: A:0.26, C:0.17, G:0.36, T:0.20
Consensus pattern (43 bp):
ATGTGCGAGTAGAGAGTGCGCATAAGCCGGTGATGACCCGACC
Found at i:13034092 original size:23 final size:23
Alignment explanation
Indices: 13034064--13034120 Score: 96
Period size: 23 Copynumber: 2.5 Consensus size: 23
13034054 CATGAGCTGG
*
13034064 TGATGATGGGATGGTGTGCATAA
1 TGATGATGGGAGGGTGTGCATAA
*
13034087 TGATGATGGGAGGGTGTGCATGA
1 TGATGATGGGAGGGTGTGCATAA
13034110 TGATGATGGGA
1 TGATGATGGGA
13034121 ATATGTATGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.25, C:0.04, G:0.44, T:0.28
Consensus pattern (23 bp):
TGATGATGGGAGGGTGTGCATAA
Found at i:13037003 original size:16 final size:15
Alignment explanation
Indices: 13036984--13037023 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
13036974 AACCAATTTT
*
13036984 TAAAACTACTAAAAAC
1 TAAAACAACT-AAAAC
13037000 TAAAACAACTAAAAC
1 TAAAACAACTAAAAC
13037015 TAATAACAA
1 TAA-AACAA
13037024 AAATCGTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.65, C:0.17, G:0.00, T:0.17
Consensus pattern (15 bp):
TAAAACAACTAAAAC
Found at i:13039248 original size:35 final size:35
Alignment explanation
Indices: 13039205--13039321 Score: 153
Period size: 35 Copynumber: 3.3 Consensus size: 35
13039195 CGTGCACAGG
* *
13039205 CAATATCATCATGTGCACTCCCTACTCGCACATTT
1 CAATATCATCATGTGCACTCCCTACTTGCACACTT
* * *
13039240 CTATATCATCGTGTGCACTCCCTACTTGCACACTC
1 CAATATCATCATGTGCACTCCCTACTTGCACACTT
* ** *
13039275 CAATATCATCGTGTGCACTTTCTGCTTGCACACTT
1 CAATATCATCATGTGCACTCCCTACTTGCACACTT
13039310 CAATATCATCAT
1 CAATATCATCAT
13039322 CCACACTTCC
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 71 1.00
ACGTcount: A:0.24, C:0.32, G:0.10, T:0.33
Consensus pattern (35 bp):
CAATATCATCATGTGCACTCCCTACTTGCACACTT
Found at i:13040199 original size:20 final size:20
Alignment explanation
Indices: 13040174--13040212 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
13040164 GAAGAAGAAT
13040174 AAGCTGCTGGAAAAATGAGG
1 AAGCTGCTGGAAAAATGAGG
* *
13040194 AAGCTGTTGGAGAAATGAG
1 AAGCTGCTGGAAAAATGAG
13040213 ATATTTATGC
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:0.38, C:0.08, G:0.36, T:0.18
Consensus pattern (20 bp):
AAGCTGCTGGAAAAATGAGG
Found at i:13046395 original size:35 final size:35
Alignment explanation
Indices: 13046345--13046422 Score: 102
Period size: 35 Copynumber: 2.2 Consensus size: 35
13046335 CGCGCACAGG
* * *
13046345 CAATATCATCATGTGCACTTCCTACTCACACATTT
1 CAATATCACCATGTGCACTCCCTACTCACACACTT
* * *
13046380 CTATATCACCGTGTGCACTCCCTACTCGCACACTT
1 CAATATCACCATGTGCACTCCCTACTCACACACTT
13046415 CAATATCA
1 CAATATCA
13046423 TCATCCACAC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.27, C:0.35, G:0.08, T:0.31
Consensus pattern (35 bp):
CAATATCACCATGTGCACTCCCTACTCACACACTT
Found at i:13047300 original size:20 final size:20
Alignment explanation
Indices: 13047275--13047314 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
13047265 GGAAGAAGAA
13047275 GAAGCTACTGGAAAAATGAG
1 GAAGCTACTGGAAAAATGAG
* *
13047295 GAAGCTGCTGGAGAAATGAG
1 GAAGCTACTGGAAAAATGAG
13047315 ATATTTATGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.40, C:0.10, G:0.35, T:0.15
Consensus pattern (20 bp):
GAAGCTACTGGAAAAATGAG
Found at i:13051054 original size:28 final size:28
Alignment explanation
Indices: 13051021--13051086 Score: 77
Period size: 24 Copynumber: 2.4 Consensus size: 28
13051011 CGGTCATTTC
*
13051021 AAAAATTTTAAAATATATTTTATTTTT-T
1 AAAAATTTTAAAATA-ATTTTATTTTTAA
13051049 AAAAATTTT---ATAATTTTATTTTTACA
1 AAAAATTTTAAAATAATTTTATTTTTA-A
13051075 AAAAATTTTAAA
1 AAAAATTTTAAA
13051087 TTTTTAAAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
24 11 0.34
25 3 0.09
26 9 0.28
28 9 0.28
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (28 bp):
AAAAATTTTAAAATAATTTTATTTTTAA
Found at i:13051065 original size:18 final size:19
Alignment explanation
Indices: 13051026--13051110 Score: 57
Period size: 20 Copynumber: 4.2 Consensus size: 19
13051016 ATTTCAAAAA
*
13051026 TTTTAAAATATATTTTATT
1 TTTTAAAATATATTTTAAT
13051045 TTTTAAAAATTTTATAATTTT-AT
1 TTTT-AAAA---TAT-ATTTTAAT
*
13051068 TTTTACAAA-AAATTTTAAAT
1 TTTTA-AAATATATTTT-AAT
* *
13051088 TTTTAAAACATATTTTTAT
1 TTTTAAAATATATTTTAAT
13051107 TTTT
1 TTTT
13051111 TTGAAATTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 18
0.71 0.05 0.24
Matches are distributed among these distances:
18 5 0.09
19 14 0.26
20 17 0.32
22 1 0.02
23 11 0.21
24 5 0.09
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTTAAAATATATTTTAAT
Found at i:13051141 original size:62 final size:62
Alignment explanation
Indices: 13051016--13051209 Score: 225
Period size: 63 Copynumber: 3.1 Consensus size: 62
13051006 GGCCCCGGTC
* * * * *
13051016 ATTTCAAAAATTTTAAAATATA-TTTTATTTTTTAAAAATTTTATAATTTTATTTTTACAAAAA
1 ATTTTAAAATTTTTAAAACATATTTTTATTTTTT-TAAATTTTATAATTTTA-TCTTACAAAAA
13051079 ATTTT-AAATTTTTAAAACATATTTTTATTTTTTTGAAATTTTATAATTTTATCTTA-ATAAAA
1 ATTTTAAAATTTTTAAAACATATTTTTATTTTTTT-AAATTTTATAATTTTATCTTACA-AAAA
** * *
13051141 ATTTTAAAATTTTTTTAACATATTTTTAATTTTTTAAATTTTTATAATTTTATCTCTAC-AATA
1 ATTTTAAAATTTTTAAAACATATTTTTATTTTTTTAAA-TTTTATAATTTTATCT-TACAAAAA
13051204 ATTTTA
1 ATTTTA
13051210 TAACATATCA
Statistics
Matches: 115, Mismatches: 9, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
61 1 0.01
62 30 0.26
63 82 0.71
64 2 0.02
ACGTcount: A:0.39, C:0.04, G:0.01, T:0.56
Consensus pattern (62 bp):
ATTTTAAAATTTTTAAAACATATTTTTATTTTTTTAAATTTTATAATTTTATCTTACAAAAA
Found at i:13051188 original size:18 final size:19
Alignment explanation
Indices: 13051151--13051191 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
13051141 ATTTTAAAAT
13051151 TTTTTTAACATATTTTTAA
1 TTTTTTAACATATTTTTAA
13051170 TTTTTTAA-AT-TTTTATAA
1 TTTTTTAACATATTTT-TAA
13051188 TTTT
1 TTTT
13051192 ATCTCTACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.19
18 9 0.43
19 8 0.38
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTTTTAACATATTTTTAA
Found at i:13051881 original size:19 final size:19
Alignment explanation
Indices: 13051857--13051895 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
13051847 GTTAGAAGAA
13051857 AATTTTGAAATAAAATAAT
1 AATTTTGAAATAAAATAAT
* * *
13051876 AATTTTTAGATTAAATAAT
1 AATTTTGAAATAAAATAAT
13051895 A
1 A
13051896 TTAAAATAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (19 bp):
AATTTTGAAATAAAATAAT
Found at i:13053968 original size:2 final size:2
Alignment explanation
Indices: 13053961--13054011 Score: 84
Period size: 2 Copynumber: 25.5 Consensus size: 2
13053951 ATGGCTTTGA
* *
13053961 AT AT AT AT AC AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13054003 AT AT AT AT A
1 AT AT AT AT A
13054012 AGCTTTATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:13060064 original size:53 final size:54
Alignment explanation
Indices: 13060006--13060146 Score: 158
Period size: 53 Copynumber: 2.6 Consensus size: 54
13059996 ATGAAAAACC
* **
13060006 ATGAATGTCCATTCCCTAAAATGAATGTGACAAATGAGCTACTAAT-AAAAATT
1 ATGAATGTCCATTCCCTAAAGTGAATGTGACAAACAAGCTACTAATAAAAAATT
* * * * * *
13060059 ATGAATATTCATTTCCTGAAGTAAATGCGACAAACAAGCTACTAATAAAAAATT
1 ATGAATGTCCATTCCCTAAAGTGAATGTGACAAACAAGCTACTAATAAAAAATT
* *
13060113 ATAAATCCGTCTATTCCCTAAAGTGAATGTGACA
1 ATGAAT--GTCCATTCCCTAAAGTGAATGTGACA
13060147 TCATTTAATA
Statistics
Matches: 68, Mismatches: 17, Indels: 3
0.77 0.19 0.03
Matches are distributed among these distances:
53 37 0.54
54 12 0.18
56 19 0.28
ACGTcount: A:0.43, C:0.16, G:0.13, T:0.28
Consensus pattern (54 bp):
ATGAATGTCCATTCCCTAAAGTGAATGTGACAAACAAGCTACTAATAAAAAATT
Found at i:13060287 original size:26 final size:26
Alignment explanation
Indices: 13060255--13060340 Score: 86
Period size: 26 Copynumber: 3.3 Consensus size: 26
13060245 TATTTTAATT
*
13060255 ATAATTTTACCACCAGAAGTGGATGA
1 ATAATTTTACCACTAGAAGTGGATGA
* * * ** *
13060281 ATAATTTTATCATTTGAA-TTTAAGA
1 ATAATTTTACCACTAGAAGTGGATGA
13060306 ATAATTTTACCACTAGAAGTGGAT-A
1 ATAATTTTACCACTAGAAGTGGATGA
13060331 GATAATTTTA
1 -ATAATTTTA
13060341 TCATCAAAAG
Statistics
Matches: 45, Mismatches: 13, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
25 20 0.44
26 25 0.56
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.37
Consensus pattern (26 bp):
ATAATTTTACCACTAGAAGTGGATGA
Found at i:13068454 original size:34 final size:35
Alignment explanation
Indices: 13068390--13068460 Score: 117
Period size: 34 Copynumber: 2.1 Consensus size: 35
13068380 AAAGTTATGC
*
13068390 CTGATCTTGCAAAAGGCATGTTGTAGAGGTTACAT
1 CTGATCTTGCAAAAGGCATGTTGTAAAGGTTACAT
*
13068425 CTGATCTTGCAAAA-GTATGTTGTAAAGGTTACAT
1 CTGATCTTGCAAAAGGCATGTTGTAAAGGTTACAT
13068459 CT
1 CT
13068461 AACCTTGTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
34 20 0.59
35 14 0.41
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.34
Consensus pattern (35 bp):
CTGATCTTGCAAAAGGCATGTTGTAAAGGTTACAT
Found at i:13081075 original size:13 final size:13
Alignment explanation
Indices: 13081057--13081084 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
13081047 CCGGCCAACT
13081057 TTTGATTTAAATC
1 TTTGATTTAAATC
13081070 TTTGATTTAAATC
1 TTTGATTTAAATC
13081083 TT
1 TT
13081085 AGCTGACTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.57
Consensus pattern (13 bp):
TTTGATTTAAATC
Found at i:13088165 original size:2 final size:2
Alignment explanation
Indices: 13088155--13088184 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
13088145 ACATATTTAC
*
13088155 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13088185 GTACCCATCA
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:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Done.