Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 69 of 145
Found at i:22981126 original size:68 final size:71
Alignment explanation
Indices: 22980999--22981135 Score: 208
Period size: 68 Copynumber: 2.0 Consensus size: 71
22980989 TGATTAAACT
* * *
22980999 TAATTACTTTAATATTAAATTAATAGAATACTTATGTACAAGATAAATATTAAATTAAATTTAAT
1 TAATCACTTTAATATTAAATTAATAAAATACTTA-GTACAAGATAAATATTAAACTAAATTTAAT
22981064 ATTAGGA
65 ATTAGGA
*
22981071 TAATCACTTTAATATTAAATTAATAAAATA-TTA-T-CAAGATAAGTATTAAACTAAATTTAATA
1 TAATCACTTTAATATTAAATTAATAAAATACTTAGTACAAGATAAATATTAAACTAAATTTAATA
22981133 TTA
66 TTA
22981136 AAAATATTAA
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
68 29 0.48
69 1 0.02
71 3 0.05
72 28 0.46
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (71 bp):
TAATCACTTTAATATTAAATTAATAAAATACTTAGTACAAGATAAATATTAAACTAAATTTAATA
TTAGGA
Found at i:22981152 original size:68 final size:71
Alignment explanation
Indices: 22981008--22981155 Score: 169
Period size: 68 Copynumber: 2.1 Consensus size: 71
22980998 TTAATTACTT
* * **
22981008 TAATATTAAATTAATAGAATACTTATGTACAAGATAAATATTAAATTAAATTTAATATTAGGATA
1 TAATATTAAATTAATAAAATACTTA-GTACAAGATAAATATTAAACTAAATTTAATATTAAAATA
***
22981073 ATCACTT
65 ATCAAAA
*
22981080 TAATATTAAATTAATAAAATA-TTA-T-CAAGATAAGTATTAAACTAAATTTAATATTAAAA-AT
1 TAATATTAAATTAATAAAATACTTAGTACAAGATAAATATTAAACTAAATTTAATATTAAAATA-
*
22981141 ATTAAAA
65 ATCAAAA
22981148 TAATATTA
1 TAATATTA
22981156 TTTTTGAAAT
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
67 1 0.02
68 41 0.62
69 1 0.02
71 3 0.05
72 20 0.30
ACGTcount: A:0.53, C:0.04, G:0.05, T:0.39
Consensus pattern (71 bp):
TAATATTAAATTAATAAAATACTTAGTACAAGATAAATATTAAACTAAATTTAATATTAAAATAA
TCAAAA
Found at i:22983850 original size:3 final size:3
Alignment explanation
Indices: 22983842--22983875 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
22983832 TTTGGAGGTG
22983842 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
22983876 ATAACATGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:22985367 original size:42 final size:42
Alignment explanation
Indices: 22985312--22985393 Score: 128
Period size: 42 Copynumber: 2.0 Consensus size: 42
22985302 AAGGCCATGA
*
22985312 CCTTTAGCGGCGTTTGTGAATTGAGCGCCGCTAAAAGTTAAG
1 CCTTTAGCGGCGTTTGTGAATTAAGCGCCGCTAAAAGTTAAG
** *
22985354 CCTTTAGCGGCGTTTGTGGCTTAAGCGCCGCTAAAGGTTA
1 CCTTTAGCGGCGTTTGTGAATTAAGCGCCGCTAAAAGTTA
22985394 TTATCTTTAG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (42 bp):
CCTTTAGCGGCGTTTGTGAATTAAGCGCCGCTAAAAGTTAAG
Found at i:22985833 original size:15 final size:15
Alignment explanation
Indices: 22985813--22985841 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
22985803 AGGAGGTGGA
22985813 GGAGATAAGGATGGC
1 GGAGATAAGGATGGC
22985828 GGAGATAAGGATGG
1 GGAGATAAGGATGG
22985842 GGCTGCAGCA
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:0.34, C:0.03, G:0.48, T:0.14
Consensus pattern (15 bp):
GGAGATAAGGATGGC
Found at i:22989185 original size:22 final size:22
Alignment explanation
Indices: 22989160--22989203 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
22989150 AACCCAAAAT
22989160 CAAAGCAAAC-AAACTTAAACCC
1 CAAAGCAAACTAAA-TTAAACCC
*
22989182 CAAAGCCAACTAAATTAAACCC
1 CAAAGCAAACTAAATTAAACCC
22989204 ATTACATACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.52, C:0.32, G:0.05, T:0.11
Consensus pattern (22 bp):
CAAAGCAAACTAAATTAAACCC
Found at i:22994773 original size:28 final size:27
Alignment explanation
Indices: 22994729--22994792 Score: 65
Period size: 28 Copynumber: 2.3 Consensus size: 27
22994719 CTGGACTTTG
* * *
22994729 GACATCATTAAAGCATGTAATAAAATTA
1 GACA-CATTAAAACATGCAATAAAATAA
*
22994757 GACACATTAATAACATGCATTAAAATAA
1 GACACATTAA-AACATGCAATAAAATAA
*
22994785 AACACATT
1 GACACATT
22994793 TATCACAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 6 0.20
28 24 0.80
ACGTcount: A:0.52, C:0.14, G:0.08, T:0.27
Consensus pattern (27 bp):
GACACATTAAAACATGCAATAAAATAA
Found at i:22995971 original size:15 final size:15
Alignment explanation
Indices: 22995951--22995979 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
22995941 CCATGTAGTG
22995951 GGATATGATTTATCA
1 GGATATGATTTATCA
22995966 GGATATGATTTATC
1 GGATATGATTTATC
22995980 TCTCTTCCAT
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:0.31, C:0.07, G:0.21, T:0.41
Consensus pattern (15 bp):
GGATATGATTTATCA
Found at i:23008025 original size:50 final size:50
Alignment explanation
Indices: 23007930--23008027 Score: 128
Period size: 50 Copynumber: 2.0 Consensus size: 50
23007920 ACCAGACTGC
* *
23007930 ACAAGTAGAACCTATATAAAACTACTCTTCTTCTATTTTGTATTGATTGT
1 ACAAGTAGAACCTATATAAAACTACTCTCCTTCTATTTTGCATTGATTGT
* *
23007980 ACAAGTAGAATCC-GTATAAAACTTCTCTCCTTCTA-TTTGACATTGATT
1 ACAAGTAGAA-CCTATATAAAACTACTCTCCTTCTATTTTG-CATTGATT
23008028 AGAATAAGGT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
49 4 0.10
50 36 0.86
51 2 0.05
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.40
Consensus pattern (50 bp):
ACAAGTAGAACCTATATAAAACTACTCTCCTTCTATTTTGCATTGATTGT
Found at i:23025768 original size:24 final size:24
Alignment explanation
Indices: 23025740--23025788 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
23025730 ATAATTTGAA
*
23025740 ATTTAAAAGCATTGTATTTACACC
1 ATTTAAAAGCATCGTATTTACACC
*
23025764 ATTTAAAAGTATCGTATTTACACC
1 ATTTAAAAGCATCGTATTTACACC
23025788 A
1 A
23025789 ATTGTATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (24 bp):
ATTTAAAAGCATCGTATTTACACC
Found at i:23028959 original size:60 final size:61
Alignment explanation
Indices: 23028896--23029100 Score: 230
Period size: 59 Copynumber: 3.4 Consensus size: 61
23028886 AAATTTAAAA
23028896 AAAAATCT-AAC-TTTTTTAAATATAAATTATAAAATTCATAAAAACATTAGAAATTTATG
1 AAAAATCTAAACATTTTTTAAATATAAATTATAAAATTCATAAAAACATTAGAAATTTATG
* * * * ***
23028955 AAAAATTTAAACATTTTTTAAA-ATATA-TAAAAAATT-ATATGAAA-ATTTTTAATTGTCAT-
1 AAAAATCTAAACATTTTTTAAATATAAATTATAAAATTCATA-AAAACATTAGAAATT-T-ATG
23029014 AAAATATCT-AAC-TTTTTTAAATATAAATTATAAAATTCATAAAAACATTAGAAATTTATG
1 AAAA-ATCTAAACATTTTTTAAATATAAATTATAAAATTCATAAAAACATTAGAAATTTATG
*
23029074 AAAAATTTAAACATTTTTTAAAATATA
1 AAAAATCTAAACATTTTTT-AAATATA
23029101 TAAAAAATTA
Statistics
Matches: 117, Mismatches: 15, Indels: 25
0.75 0.10 0.16
Matches are distributed among these distances:
58 19 0.16
59 35 0.30
60 31 0.26
61 25 0.21
62 7 0.06
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (61 bp):
AAAAATCTAAACATTTTTTAAATATAAATTATAAAATTCATAAAAACATTAGAAATTTATG
Found at i:23028990 original size:40 final size:39
Alignment explanation
Indices: 23028919--23029137 Score: 119
Period size: 40 Copynumber: 5.5 Consensus size: 39
23028909 TTTTAAATAT
* * *
23028919 AAATTATAAAA-TTCATAAAA-ACATTAGAAATTTATGAA
1 AAATT-TAAAATTTCATAAAATATATAAAAAATTTATGAA
**
23028957 AAATTTAAACATTTTTTAAAATATATAAAAAATTATATG-A
1 AAATTTAAA-ATTTCATAAAATATATAAAAAATT-TATGAA
** * **** *
23028997 AAATTTTTAATTGTCATAAAATATCTAACTTTTTTAAAT-AT
1 AAATTTAAAATT-TCATAAAATATATAAAAAATTT--ATGAA
* * *
23029038 AAATTATAAAA-TTCATAAAA-ACATTAGAAATTTATGAA
1 AAATT-TAAAATTTCATAAAATATATAAAAAATTTATGAA
**
23029076 AAATTTAAACATTTTTTAAAATATATAAAAAATTATATG-A
1 AAATTTAAA-ATTTCATAAAATATATAAAAAATT-TATGAA
**
23029116 AAATTTTTAATTGTCATAAAAT
1 AAATTTAAAATT-TCATAAAAT
23029138 TTTTTAGAAA
Statistics
Matches: 132, Mismatches: 34, Indels: 28
0.68 0.18 0.14
Matches are distributed among these distances:
37 10 0.08
38 13 0.10
39 27 0.20
40 63 0.48
41 16 0.12
42 3 0.02
ACGTcount: A:0.53, C:0.05, G:0.04, T:0.39
Consensus pattern (39 bp):
AAATTTAAAATTTCATAAAATATATAAAAAATTTATGAA
Found at i:23029041 original size:119 final size:119
Alignment explanation
Indices: 23028895--23029137 Score: 477
Period size: 119 Copynumber: 2.0 Consensus size: 119
23028885 TAAATTTAAA
*
23028895 AAAAAATCTAACTTTTTTAAATATAAATTATAAAATTCATAAAAACATTAGAAATTTATGAAAAA
1 AAAATATCTAACTTTTTTAAATATAAATTATAAAATTCATAAAAACATTAGAAATTTATGAAAAA
23028960 TTTAAACATTTTTTAAAATATATAAAAAATTATATGAAAATTTTTAATTGTCAT
66 TTTAAACATTTTTTAAAATATATAAAAAATTATATGAAAATTTTTAATTGTCAT
23029014 AAAATATCTAACTTTTTTAAATATAAATTATAAAATTCATAAAAACATTAGAAATTTATGAAAAA
1 AAAATATCTAACTTTTTTAAATATAAATTATAAAATTCATAAAAACATTAGAAATTTATGAAAAA
23029079 TTTAAACATTTTTTAAAATATATAAAAAATTATATGAAAATTTTTAATTGTCAT
66 TTTAAACATTTTTTAAAATATATAAAAAATTATATGAAAATTTTTAATTGTCAT
23029133 AAAAT
1 AAAAT
23029138 TTTTTAGAAA
Statistics
Matches: 123, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
119 123 1.00
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (119 bp):
AAAATATCTAACTTTTTTAAATATAAATTATAAAATTCATAAAAACATTAGAAATTTATGAAAAA
TTTAAACATTTTTTAAAATATATAAAAAATTATATGAAAATTTTTAATTGTCAT
Found at i:23035240 original size:131 final size:131
Alignment explanation
Indices: 23034996--23035262 Score: 498
Period size: 131 Copynumber: 2.0 Consensus size: 131
23034986 TTCATTTGCT
*
23034996 TTACAAAGAAAATTTCACACTGAACATTCTTTTATTCTTCTAATGGAACTTTGTAAAGAAACTCA
1 TTACCAAGAAAATTTCACACTGAACATTCTTTTATTCTTCTAATGGAACTTTGTAAAGAAACTCA
*
23035061 ATACATAAGTCCAGAAATAGATAATGTTCATCTGAGCTAATCAGAAATAGAAATATATGTGTCAG
66 ATACATAAGTCCAGAAATAGATAATGCTCATCTGAGCTAATCAGAAATAGAAATATATGTGTCAG
23035126 G
131 G
*
23035127 TTACCAAGACAATTTCACACTGAACATTCTTTTATTCTTCTAATGGAACTTTGTAAAGAAACTCA
1 TTACCAAGAAAATTTCACACTGAACATTCTTTTATTCTTCTAATGGAACTTTGTAAAGAAACTCA
*
23035192 ATACATAAGTCCAGAAATAGATAATGCTCATCTGAGCTAATCAGAAATAGAAATATATGTGTTAG
66 ATACATAAGTCCAGAAATAGATAATGCTCATCTGAGCTAATCAGAAATAGAAATATATGTGTCAG
23035257 G
131 G
23035258 TTACC
1 TTACC
23035263 CATCCGGGCT
Statistics
Matches: 132, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
131 132 1.00
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.31
Consensus pattern (131 bp):
TTACCAAGAAAATTTCACACTGAACATTCTTTTATTCTTCTAATGGAACTTTGTAAAGAAACTCA
ATACATAAGTCCAGAAATAGATAATGCTCATCTGAGCTAATCAGAAATAGAAATATATGTGTCAG
G
Found at i:23046998 original size:40 final size:40
Alignment explanation
Indices: 23046949--23047037 Score: 99
Period size: 40 Copynumber: 2.2 Consensus size: 40
23046939 AGCGGCATTT
* *
23046949 TTAGTGGCGTTTGGACAAAAAACG-CGCTAAAAATTGAGCA
1 TTAGCGGCGTTT-GACAAAAAACGCCGCTAAAAATCGAGCA
* ** * *
23046989 TTAGCGGCGTTTTATGAAAAGCGCCGCTAAAGATCGAGCA
1 TTAGCGGCGTTTGACAAAAAACGCCGCTAAAAATCGAGCA
23047029 TTAGCGGCG
1 TTAGCGGCG
23047038 CTTTAAGGAA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
39 7 0.17
40 34 0.83
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.22
Consensus pattern (40 bp):
TTAGCGGCGTTTGACAAAAAACGCCGCTAAAAATCGAGCA
Found at i:23047050 original size:40 final size:39
Alignment explanation
Indices: 23046973--23047075 Score: 125
Period size: 40 Copynumber: 2.6 Consensus size: 39
23046963 ACAAAAAACG
* *
23046973 CGCTAAAAATTGAGCATTAGCGGCGTTTTATGAAAAGCGC
1 CGCTAAAAA-TGAGCATTAGCGGCGCTTTAAGAAAAGCGC
* * *
23047013 CGCTAAAGATCGAGCATTAGCGGCGCTTTAAGGAAAGCGT
1 CGCTAAAAAT-GAGCATTAGCGGCGCTTTAAGAAAAGCGC
* *
23047053 CACTAAAAATGAGTATTAGCGGC
1 CGCTAAAAATGAGCATTAGCGGC
23047076 ATTTTATGAA
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
39 13 0.24
40 41 0.76
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.22
Consensus pattern (39 bp):
CGCTAAAAATGAGCATTAGCGGCGCTTTAAGAAAAGCGC
Found at i:23047210 original size:41 final size:39
Alignment explanation
Indices: 23047136--23047358 Score: 232
Period size: 41 Copynumber: 5.5 Consensus size: 39
23047126 AACCTTTCGG
** * *
23047136 GGCTTTAGCGGCGTTTTTGAAAAAGCACAGCTAATGCTCA
1 GGCTTTAGCGGCGTTTTTG-GGAAGCGCCGCTAATGCTCA
*
23047176 GGACATTAGCGGCGTTTTTGCGGAAGCGCCGCTAATGCTCAA
1 GG-CTTTAGCGGCGTTTTTG-GGAAGCGCCGCTAATGCTC-A
* ** *
23047218 GGCTTTAGCAGCAATTTTGGACAAGCGCCGCTAATG-TGCA
1 GGCTTTAGCGGCGTTTTTGG-GAAGCGCCGCTAATGCT-CA
* *
23047258 GGGCTTTAGCGGCGTTTTTGCGAATGCACCGCTAATGCTCA
1 -GGCTTTAGCGGCGTTTTTGGGAA-GCGCCGCTAATGCTCA
* *
23047299 GGGCTTTAGCGTCGTTTTTGGATAAGCGCCGCTAATGCTCA
1 -GGCTTTAGCGGCGTTTTTGG-GAAGCGCCGCTAATGCTCA
23047340 GGCTTTAGCGGCGTTTTTG
1 GGCTTTAGCGGCGTTTTTG
23047359 AAAAAGTGCC
Statistics
Matches: 153, Mismatches: 22, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
40 25 0.16
41 122 0.80
42 6 0.04
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (39 bp):
GGCTTTAGCGGCGTTTTTGGGAAGCGCCGCTAATGCTCA
Found at i:23047273 original size:82 final size:81
Alignment explanation
Indices: 23047165--23047358 Score: 268
Period size: 82 Copynumber: 2.4 Consensus size: 81
23047155 AAAAAGCACA
* *
23047165 GCTAATGCTCAGGACATTAGCGGCGTTTTTGCGGAA-GCGCCGCTAATGCTCAAGGCTTTAGCAG
1 GCTAATGCTCAGG-CTTTAGCGGCGTTTTTGC-GAATGCACCGCTAATGCTCAAGGCTTTAGC-G
23047229 -CAATTTTGGACAAGCGCC
63 TCAATTTTGGACAAGCGCC
*
23047247 GCTAATG-TGCAGGGCTTTAGCGGCGTTTTTGCGAATGCACCGCTAATGCTCAGGGCTTTAGCGT
1 GCTAATGCT-CA-GGCTTTAGCGGCGTTTTTGCGAATGCACCGCTAATGCTCAAGGCTTTAGCGT
** *
23047311 CGTTTTTGGATAAGCGCC
64 CAATTTTGGACAAGCGCC
23047329 GCTAATGCTCAGGCTTTAGCGGCGTTTTTG
1 GCTAATGCTCAGGCTTTAGCGGCGTTTTTG
23047359 AAAAAGTGCC
Statistics
Matches: 101, Mismatches: 6, Indels: 11
0.86 0.05 0.09
Matches are distributed among these distances:
81 24 0.24
82 74 0.73
83 3 0.03
ACGTcount: A:0.19, C:0.23, G:0.29, T:0.29
Consensus pattern (81 bp):
GCTAATGCTCAGGCTTTAGCGGCGTTTTTGCGAATGCACCGCTAATGCTCAAGGCTTTAGCGTCA
ATTTTGGACAAGCGCC
Found at i:23047698 original size:57 final size:57
Alignment explanation
Indices: 23047632--23047746 Score: 221
Period size: 57 Copynumber: 2.0 Consensus size: 57
23047622 TCATATATAA
23047632 TTGTAAAAGATACAATAGTATTAATTTTAAAATATTTAATTAATTATCATTATAGTT
1 TTGTAAAAGATACAATAGTATTAATTTTAAAATATTTAATTAATTATCATTATAGTT
*
23047689 TTGTAAAAGATACGATAGTATTAATTTTAAAATATTTAATTAATTATCATTATAGTT
1 TTGTAAAAGATACAATAGTATTAATTTTAAAATATTTAATTAATTATCATTATAGTT
23047746 T
1 T
23047747 AGGGTTTAAT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (57 bp):
TTGTAAAAGATACAATAGTATTAATTTTAAAATATTTAATTAATTATCATTATAGTT
Found at i:23047775 original size:14 final size:14
Alignment explanation
Indices: 23047758--23047794 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
23047748 GGGTTTAATA
*
23047758 TATATTGTTTAGGG
1 TATATGGTTTAGGG
*
23047772 TATATGGTTTAGGT
1 TATATGGTTTAGGG
23047786 TATATGGTT
1 TATATGGTT
23047795 AATTTAGGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.22, C:0.00, G:0.27, T:0.51
Consensus pattern (14 bp):
TATATGGTTTAGGG
Found at i:23048733 original size:23 final size:21
Alignment explanation
Indices: 23048691--23048733 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
23048681 CCCTTCCCTC
*
23048691 CAAAACCCAAATTCCTTCAAG
1 CAAAACCCAAACTCCTTCAAG
23048712 CAAAACCCAAACCCTCCTTCAA
1 CAAAACCCAAA--CTCCTTCAA
23048734 ATTATCCTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
23 8 0.42
ACGTcount: A:0.42, C:0.40, G:0.02, T:0.16
Consensus pattern (21 bp):
CAAAACCCAAACTCCTTCAAG
Found at i:23050194 original size:14 final size:14
Alignment explanation
Indices: 23050175--23050204 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
23050165 CATTTTACAC
23050175 AAACGCCGCTAAAG
1 AAACGCCGCTAAAG
23050189 AAACGCCGCTAAAG
1 AAACGCCGCTAAAG
23050203 AA
1 AA
23050205 CATGTTCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.47, C:0.27, G:0.20, T:0.07
Consensus pattern (14 bp):
AAACGCCGCTAAAG
Found at i:23050232 original size:57 final size:57
Alignment explanation
Indices: 23050135--23050245 Score: 188
Period size: 57 Copynumber: 1.9 Consensus size: 57
23050125 TTTTTAAAAG
*
23050135 CGCCACTAAAGAACATGTTCTTTAGCGGCGCATTTTACACAAACGCCGCTAAAGAAA
1 CGCCACTAAAGAACATGTTCTTTAGCGGCGCATTTAACACAAACGCCGCTAAAGAAA
*
23050192 CGCCGCTAAAGAACATGTTCTTTAGCGGCGC-TTCTAACACAAACGCCGCTAAAG
1 CGCCACTAAAGAACATGTTCTTTAGCGGCGCATT-TAACACAAACGCCGCTAAAG
23050246 CTAATGTTCT
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
56 2 0.04
57 49 0.96
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (57 bp):
CGCCACTAAAGAACATGTTCTTTAGCGGCGCATTTAACACAAACGCCGCTAAAGAAA
Found at i:23050253 original size:43 final size:43
Alignment explanation
Indices: 23050189--23050281 Score: 143
Period size: 43 Copynumber: 2.2 Consensus size: 43
23050179 GCCGCTAAAG
23050189 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTCTAACAC
1 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTCTAACAC
* * *
23050232 AAACGCCGCTAAAGCTA-ATGTTCTTTAGCGGCGCTTTTTACAC
1 AAACGCCGCTAAAG-AACATGTTCTTTAGCGGCGCTTCTAACAC
23050275 AAACGCC
1 AAACGCC
23050282 ACTTTTTGTT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
43 45 0.98
44 1 0.02
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTCTAACAC
Found at i:23050708 original size:66 final size:66
Alignment explanation
Indices: 23050631--23050766 Score: 218
Period size: 66 Copynumber: 2.1 Consensus size: 66
23050621 CTCGCTGCAG
* * * *
23050631 CCTCTGCTTCTCTGGATGCCGCATCAGCTTTAAGTTGTCGCTGGAGTTCTTCATATTTCTTTTGA
1 CCTCTGCTTCTCTCGATGCCGCATCAGCTCTAAGTTGTAGCTGGAGTTCTTCATATTTCCTTTGA
23050696 A
66 A
* *
23050697 CCTCTGCTTCTCTCGCTGCCGCATCTGCTCTAAGTTGTAGCTGGAGTTCTTCATATTTCCTTTGA
1 CCTCTGCTTCTCTCGATGCCGCATCAGCTCTAAGTTGTAGCTGGAGTTCTTCATATTTCCTTTGA
23050762 A
66 A
23050763 CCTC
1 CCTC
23050767 AATTGTAGTC
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.14, C:0.28, G:0.18, T:0.40
Consensus pattern (66 bp):
CCTCTGCTTCTCTCGATGCCGCATCAGCTCTAAGTTGTAGCTGGAGTTCTTCATATTTCCTTTGA
A
Found at i:23059616 original size:6 final size:6
Alignment explanation
Indices: 23059605--23059663 Score: 75
Period size: 6 Copynumber: 9.3 Consensus size: 6
23059595 ACACATGTTA
23059605 AATAAC AATAAC AAATAAC AAATAAC AATAAC AATAAC AATGAGA- AATAAC
1 AATAAC AATAAC -AATAAC -AATAAC AATAAC AATAAC AAT-A-AC AATAAC
23059656 AATAAC AA
1 AATAAC AA
23059664 ATAAACAGTT
Statistics
Matches: 49, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
5 1 0.02
6 30 0.61
7 17 0.35
8 1 0.02
ACGTcount: A:0.68, C:0.14, G:0.03, T:0.15
Consensus pattern (6 bp):
AATAAC
Found at i:23059622 original size:13 final size:13
Alignment explanation
Indices: 23059605--23059667 Score: 85
Period size: 13 Copynumber: 4.9 Consensus size: 13
23059595 ACACATGTTA
23059605 AATAAC-AATAAC
1 AATAACAAATAAC
23059617 AAATAACAAATAAC
1 -AATAACAAATAAC
23059631 AATAAC-AATAAC
1 AATAACAAATAAC
* *
23059643 AATGAGAAATAAC
1 AATAACAAATAAC
23059656 AATAACAAATAA
1 AATAACAAATAA
23059668 ACAGTTCTAC
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
12 10 0.23
13 28 0.64
14 6 0.14
ACGTcount: A:0.68, C:0.13, G:0.03, T:0.16
Consensus pattern (13 bp):
AATAACAAATAAC
Found at i:23063225 original size:40 final size:41
Alignment explanation
Indices: 23063083--23063240 Score: 232
Period size: 41 Copynumber: 3.9 Consensus size: 41
23063073 AGGCCTGCGA
* *
23063083 ATTAGCGGCGCAT-CAATAAAAACGCTGCTAAAGCCCAGAAC
1 ATTAGCGGCGCTTAC-ATAAAAACGCCGCTAAAGCCCAGAAC
* *
23063124 ATTAGCGGCGCTTA-ATTAAAAACGCCACTAAATCCCAGAAC
1 ATTAGCGGCGCTTACA-TAAAAACGCCGCTAAAGCCCAGAAC
*
23063165 ATTAGCGGCGCTTACATAAAAACGCCGCGAAAGCCCAGAAC
1 ATTAGCGGCGCTTACATAAAAACGCCGCTAAAGCCCAGAAC
23063206 ATTA-CGGCGCTTACATAAAAACGCCGCTAAAGCCC
1 ATTAGCGGCGCTTACATAAAAACGCCGCTAAAGCCC
23063241 CCGAAAAGTC
Statistics
Matches: 106, Mismatches: 8, Indels: 7
0.88 0.07 0.06
Matches are distributed among these distances:
40 31 0.29
41 74 0.70
42 1 0.01
ACGTcount: A:0.37, C:0.28, G:0.18, T:0.16
Consensus pattern (41 bp):
ATTAGCGGCGCTTACATAAAAACGCCGCTAAAGCCCAGAAC
Found at i:23065450 original size:192 final size:191
Alignment explanation
Indices: 23065117--23065471 Score: 475
Period size: 192 Copynumber: 1.9 Consensus size: 191
23065107 GTAATCTATA
* * * * **
23065117 ATGGGTTTAAGTCATGGTTTTCATTTGGAGCTTTGTGATTAAAACACTATTATTACTTGAATGGA
1 ATGGGTTCAAGTCATGGTTTTCATTTGGAACTTCGTGATTAAAACACAACAATTACTTGAATGGA
* * * * * * *
23065182 AATGCATTTGCATTTGTGTATCCTGCAATGCTTTTTAATTGAACTTTGGGGTTGGAATTGTTATT
66 AATGCACTTGCATTTGTATATCCTGCAAAGCTTTTTAAGTCAACTTTGGAGTTGAAATTGTTATT
*
23065247 AGGAAGTAATTGATG-TTTTTATGTTGATGTTAATGAATACAATAGACTAAGTTGAATTTTTT
131 AGGAAGTAATTGATGATTTTT-T-ATGATGTTAATGAATACAATAGACTAAGTTGAATTTTTT
*
23065309 ATGGGTTCAAGTCATGGTTTTCATTT-GAACTTCGTGATTACAACACAACAATTTACTTGAATGG
1 ATGGGTTCAAGTCATGGTTTTCATTTGGAACTTCGTGATTAAAACACAACAA-TTACTTGAATGG
**
23065373 AAATGCACTTGTGTTT-TCATATCCTGCAAAGCTTCTTT-AGTCAACTTTGGAGTTGAAATTGTT
65 AAATGCACTTGCATTTGT-ATATCCTGCAAAGCTT-TTTAAGTCAACTTTGGAGTTGAAATTGTT
*
23065436 ATTAGGATGTAATTGATGATTTTTTATGATGTTAAT
128 ATTAGGAAGTAATTGATGATTTTTTATGATGTTAAT
23065472 NNNNNNNNNN
Statistics
Matches: 141, Mismatches: 18, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
191 30 0.21
192 103 0.73
193 8 0.06
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.43
Consensus pattern (191 bp):
ATGGGTTCAAGTCATGGTTTTCATTTGGAACTTCGTGATTAAAACACAACAATTACTTGAATGGA
AATGCACTTGCATTTGTATATCCTGCAAAGCTTTTTAAGTCAACTTTGGAGTTGAAATTGTTATT
AGGAAGTAATTGATGATTTTTTATGATGTTAATGAATACAATAGACTAAGTTGAATTTTTT
Found at i:23066442 original size:98 final size:99
Alignment explanation
Indices: 23066330--23066529 Score: 368
Period size: 98 Copynumber: 2.0 Consensus size: 99
23066320 ATTAATTTTT
23066330 TATATTAAATATGTTTGATTTTAATATTTAATATTTAATACTAAAGGTCTTGGTCTATAGCGGCG
1 TATATTAAATATGTTTGATTTTAATATTTAATATTTAATACTAAAGGTCTTGGTCTATAGCGGCG
23066395 TTTGTGGAGAAAGCGCCACTAAAGG-TTGAGCTA
66 TTTGTGGAGAAAGCGCCACTAAAGGCTTGAGCTA
23066428 TATATT-AATAATGTTTGATTTTAATATTTAATATTTAATACTAAAGGTCTTGGTCTATAGCGGC
1 TATATTAAAT-ATGTTTGATTTTAATATTTAATATTTAATACTAAAGGTCTTGGTCTATAGCGGC
23066492 GTTTGTGGAGAAAGCGCCACTAAAGGTCTTGAGCTA
65 GTTTGTGGAGAAAGCGCCACTAAAGG-CTTGAGCTA
23066528 TA
1 TA
23066530 GTGGCGTTTG
Statistics
Matches: 99, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
97 3 0.03
98 86 0.87
100 10 0.10
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (99 bp):
TATATTAAATATGTTTGATTTTAATATTTAATATTTAATACTAAAGGTCTTGGTCTATAGCGGCG
TTTGTGGAGAAAGCGCCACTAAAGGCTTGAGCTA
Found at i:23066529 original size:43 final size:43
Alignment explanation
Indices: 23066468--23066748 Score: 282
Period size: 43 Copynumber: 6.6 Consensus size: 43
23066458 ATATTTAATA
*
23066468 CTAAAGGTCTTG-GTCTATAGCGGCGTTTGTGGAGAAAGCGCCA
1 CTAAAGGTCTTGAG-CTATAGCGGCGTTTGTGGAGAAAGCGCCG
* **
23066511 CTAAAGGTCTTGAGCTATAGTGGCGTTTGTGG-GAAAAGTACCG
1 CTAAAGGTCTTGAGCTATAGCGGCGTTTGTGGAG-AAAGCGCCG
* *
23066554 CTAAAGGTCCTGAGCTATAGCGGCGTTTGTGGAGAAAGCGACG
1 CTAAAGGTCTTGAGCTATAGCGGCGTTTGTGGAGAAAGCGCCG
* ** * * * *
23066597 CTAAAGATCTCAAGCTATAGCGGCGATTGTGTA-AAAACGTCG
1 CTAAAGGTCTTGAGCTATAGCGGCGTTTGTGGAGAAAGCGCCG
** * *
23066639 CTAAAGGTCTTGATTTTTAGCGGCGTTTGTGGAAAAAGCGCCG
1 CTAAAGGTCTTGAGCTATAGCGGCGTTTGTGGAGAAAGCGCCG
* * * *
23066682 CTAAAGGTCCTGACCTATAGCGGCGTTTGTAGGA-AAAACGTCG
1 CTAAAGGTCTTGAGCTATAGCGGCGTTTGT-GGAGAAAGCGCCG
* * **
23066725 CTAAATGTCATGATTTATAGCGGC
1 CTAAAGGTCTTGAGCTATAGCGGC
23066749 ATTTATTTCT
Statistics
Matches: 196, Mismatches: 37, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
42 33 0.17
43 158 0.81
44 5 0.03
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.26
Consensus pattern (43 bp):
CTAAAGGTCTTGAGCTATAGCGGCGTTTGTGGAGAAAGCGCCG
Found at i:23066748 original size:128 final size:129
Alignment explanation
Indices: 23066482--23066729 Score: 338
Period size: 128 Copynumber: 1.9 Consensus size: 129
23066472 AGGTCTTGGT
* * * *
23066482 CTATAGCGGCGTTTGTGGAGAAAGCGCCACTAAAGGTCTTGAGCTATAGTGGCGTTTGTGGGAAA
1 CTATAGCGGCGATTGTGGAGAAAACGCCACTAAAGGTCTTGAGCTATAGCGGCGTTTGTGGAAAA
* * *
23066547 AGTACCGCTAAAGGTCCTGAGCTATAGCGGCGTTTGTGGAGAAAGCGACGCTAAAGATCTCAAG
66 AGCACCGCTAAAGGTCCTGACCTATAGCGGCGTTTGTGGAGAAAACGACGCTAAAGATCTCAAG
* * * ** *
23066611 CTATAGCGGCGATTGTGTA-AAAACGTCGCTAAAGGTCTTGATTTTTAGCGGCGTTTGTGGAAAA
1 CTATAGCGGCGATTGTGGAGAAAACGCCACTAAAGGTCTTGAGCTATAGCGGCGTTTGTGGAAAA
* *
23066675 AGCGCCGCTAAAGGTCCTGACCTATAGCGGCGTTTGTAGGA-AAAACGTCGCTAAA
66 AGCACCGCTAAAGGTCCTGACCTATAGCGGCGTTTGT-GGAGAAAACGACGCTAAA
23066730 TGTCATGATT
Statistics
Matches: 103, Mismatches: 15, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
128 83 0.81
129 20 0.19
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (129 bp):
CTATAGCGGCGATTGTGGAGAAAACGCCACTAAAGGTCTTGAGCTATAGCGGCGTTTGTGGAAAA
AGCACCGCTAAAGGTCCTGACCTATAGCGGCGTTTGTGGAGAAAACGACGCTAAAGATCTCAAG
Found at i:23072785 original size:70 final size:70
Alignment explanation
Indices: 23072667--23074436 Score: 1475
Period size: 70 Copynumber: 25.3 Consensus size: 70
23072657 TATGATCCCT
* ** * * * *
23072667 TCCAAAACAGTTAGCGCAAGCTCAAGCTCCCAGCTAAAAACTTTAGGCTCACAGGTCCAATACCA
1 TCCAAAATAGTTAGCGTGAGCTCAAGCTCCCAGCTAAAATCTTAAGGCTCACAGGTTCAATACCG
***
23072732 CAATA
66 CAGCC
* * * * * **
23072737 TCCAAAACAGTTAGCATGAGCTCAAGCTCCCAACTATAATCTTAAGGCTCACAAGTTCAATATTG
1 TCCAAAATAGTTAGCGTGAGCTCAAGCTCCCAGCTAAAATCTTAAGGCTCACAGGTTCAATACCG
*
23072802 CAACC
66 CAGCC
* * * ** **
23072807 TCCAAAATAGTTAGAGTGAGCTCAAGCTCCAAGTTGAAAA-CTTAAGGCTCGTAGGTTCAATATT
1 TCCAAAATAGTTAGCGTGAGCTCAAGCTCCCAGCT-AAAATCTTAAGGCTCACAGGTTCAATACC
*
23072871 GTAGCC
65 GCAGCC
* * *
23072877 TCCAAAATAGTTAGTGTGAGCTCAAGCTCCCAGCTACAATCTTAAGGCTCACAGGTTCAATATCG
1 TCCAAAATAGTTAGCGTGAGCTCAAGCTCCCAGCTAAAATCTTAAGGCTCACAGGTTCAATACCG
*
23072942 CAACC
66 CAGCC
* * * ***
23072947 T-CAAAAAAGTTAGCAAG-GA-TTCAAGCTCCCAGCTAAAATCTTAAAGCTTGTAGGTTCAATAC
1 TCCAAAATAGTTAGC--GTGAGCTCAAGCTCCCAGCTAAAATCTTAAGGCTCACAGGTTCAATAC
*
23073009 TGCAGCC
64 CGCAGCC
* * ** * *
23073016 TCTAAAATAGTTAGTGCAAGCTCAAGCTCCCAAG-TAAAATTTTAAGGCTTGA-AGGTTCAATAC
1 TCCAAAATAGTTAGCGTGAGCTCAAGCTCCC-AGCTAAAATCTTAAGGC-TCACAGGTTCAATAC
23073079 CGCAGCC
64 CGCAGCC
* * *
23073086 TCCAAAATAGTTAGCATGAGCTCAAGCTCCCAGCTACAATCTTAAGGCTCGA-AGGTTCAATACT
1 TCCAAAATAGTTAGCGTGAGCTCAAGCTCCCAGCTAAAATCTTAAGGCTC-ACAGGTTCAATACC
*
23073150 GTAGCC
65 GCAGCC
* * * * * *
23073156 TCCAAACTAGTTAGCGTGAGCTCAAGCTCCAAGCTGAAAA-CATAAGGCTTGA-AGGTTCAACAT
1 TCCAAAATAGTTAGCGTGAGCTCAAGCTCCCAGCT-AAAATCTTAAGGC-TCACAGGTTCAATAC
***
23073219 TATAGCC
64 CGCAGCC
* * * * **
23073226 TCCAAAAGAGTTAGCGTGAGCTCAAGCTCCCAGCTATAATTTTAAGGCTCGCATATTCAATACCG
1 TCCAAAATAGTTAGCGTGAGCTCAAGCTCCCAGCTAAAATCTTAAGGCTCACAGGTTCAATACCG
23073291 CAGCC
66 CAGCC
* * *** * *
23073296 TCCAAAATAGTTAGCGAGAACTCAAGCTTTTAGCTAAAATCTTAAAGG-TCACAGGTTTAATATC
1 TCCAAAATAGTTAGCGTGAGCTCAAGCTCCCAGCTAAAATCTT-AAGGCTCACAGGTTCAATACC
*
23073360 ACAGCC
65 GCAGCC
* * *
23073366 TCTAAAATAGTTAGCGTGAGCTCAAGCTCCCAAG-TAAAATTTTAAGGCTTGA-AGGTTCAATAC
1 TCCAAAATAGTTAGCGTGAGCTCAAGCTCCC-AGCTAAAATCTTAAGGC-TCACAGGTTCAATAC
23073429 CGCAGCC
64 CGCAGCC
* * * * *
23073436 TCTAAAATAGTTAGTGCGAGCTCAAGCTCCCAGCTACAATCTTAAGGCTCTA-AGGTTCAATACT
1 TCCAAAATAGTTAGCGTGAGCTCAAGCTCCCAGCTAAAATCTTAAGGCTC-ACAGGTTCAATACC
*
23073500 GTAGCC
65 GCAGCC
* * * * *
23073506 TCCAAAATAATTAGCGTGAGCTCAAGCTCCAAGCTGAAAA-CTTAAGGCTTGA-AGGTTCAACAT
1 TCCAAAATAGTTAGCGTGAGCTCAAGCTCCCAGCT-AAAATCTTAAGGC-TCACAGGTTCAATAC
***
23073569 TATAGCC
64 CGCAGCC
* * * * *
23073576 TCCAAAAGAGTTAGCGTGAGCTCAAGCTCCAAGCTGAAAA-CTTAAGGCTTGA-AGGTTCAACAT
1 TCCAAAATAGTTAGCGTGAGCTCAAGCTCCCAGCT-AAAATCTTAAGGC-TCACAGGTTCAATAC
***
23073639 TATAGCC
64 CGCAGCC
* * * *
23073646 TCCAAAAGAGTTAGCGTGAGCTCAAGCTCCCAGCTATAATCTTAAGGCTCGCATGTTCAATACCG
1 TCCAAAATAGTTAGCGTGAGCTCAAGCTCCCAGCTAAAATCTTAAGGCTCACAGGTTCAATACCG
*
23073711 TAGCC
66 CAGCC
* * *** * * ** * * *
23073716 TCCAAAATAGTTAGCGAGAACTCAAGCTTTTAGTTAAAATCTTAAAGCTCACATATTTAATATCA
1 TCCAAAATAGTTAGCGTGAGCTCAAGCTCCCAGCTAAAATCTTAAGGCTCACAGGTTCAATACCG
*
23073781 TAGCC
66 CAGCC
* * * * * *
23073786 TCTAAAATAGTTAGCGCGAGCTCAAGCTCCCAAG-TAAAATTTTAAGGCTTGA-AGGCTCAATGC
1 TCCAAAATAGTTAGCGTGAGCTCAAGCTCCC-AGCTAAAATCTTAAGGC-TCACAGGTTCAATAC
23073849 CGCAGCC
64 CGCAGCC
* * * *
23073856 TCCAAAATAGTTAGCGCGAGTTCAAGCTCCCAGCTACAATCTTAAGGCTCGA-AGGTTCAATACT
1 TCCAAAATAGTTAGCGTGAGCTCAAGCTCCCAGCTAAAATCTTAAGGCTC-ACAGGTTCAATACC
*
23073920 GTAGCC
65 GCAGCC
* * * *
23073926 TCCAAAATAGTTAGCGTGAGCTCAAGCTCCAAGCTGAAAA-CTTAAGGCTTGA-AGGTTCAACAT
1 TCCAAAATAGTTAGCGTGAGCTCAAGCTCCCAGCT-AAAATCTTAAGGC-TCACAGGTTCAATAC
***
23073989 TATAGCC
64 CGCAGCC
* * ** * *
23073996 TCCAAAAGAGTTAGCGTGAGCTCAAGCTCCCAACTATGATCTTAAGGCTCGCATGTTCAATACCG
1 TCCAAAATAGTTAGCGTGAGCTCAAGCTCCCAGCTAAAATCTTAAGGCTCACAGGTTCAATACCG
23074061 CAGCC
66 CAGCC
* ** * ** * *
23074066 TCTAAAATAGTTAGCAAGAACTCAAGCTTTCAGCTAAAATCTTAAAGG-TCACAGGTTTAATATC
1 TCCAAAATAGTTAGCGTGAGCTCAAGCTCCCAGCTAAAATCTT-AAGGCTCACAGGTTCAATACC
*
23074130 ACAGCC
65 GCAGCC
* * * * * *
23074136 TCTAAAATAGTTAGCGCGAGCTCAAGCTACCAGCTAAAATCTTAAGGCTCACAGGTTTAGTACCA
1 TCCAAAATAGTTAGCGTGAGCTCAAGCTCCCAGCTAAAATCTTAAGGCTCACAGGTTCAATACCG
*
23074201 CATCC
66 CAGCC
* * * * * * * * *
23074206 TCCAAAACAGTTAGCGCGAGCTCAAGGTCCCAACTTAAATATTAAGGCTTACAAGTTTAATACC-
1 TCCAAAATAGTTAGCGTGAGCTCAAGCTCCCAGCTAAAATCTTAAGGCTCACAGGTTCAATACCG
* *
23074270 AAACC
66 CAGCC
* * * * * * ** ** * *
23074275 TCTAAAACAGTCATCGAGGGCTCAAGCTCCCAGCTGTAATCTTAAGGCTTGCAAGTTTAATACCG
1 TCCAAAATAGTTAGCGTGAGCTCAAGCTCCCAGCTAAAATCTTAAGGCTCACAGGTTCAATACCG
*
23074340 CAACC
66 CAGCC
* * * * * * * *
23074345 TCCAAAATAGTTAGCGCGAGCTTAAACTCCTAGTTGAAATCTTAAGG-TCCGCAAGTTCAATACC
1 TCCAAAATAGTTAGCGTGAGCTCAAGCTCCCAGCTAAAATCTTAAGGCT-CACAGGTTCAATACC
*
23074409 GCTGCC
65 GCAGCC
*
23074415 TCCAAAATAGTTAACGTGAGCT
1 TCCAAAATAGTTAGCGTGAGCT
23074437 AAAACACCCA
Statistics
Matches: 1395, Mismatches: 268, Indels: 74
0.80 0.15 0.04
Matches are distributed among these distances:
68 1 0.00
69 142 0.10
70 1217 0.87
71 35 0.03
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (70 bp):
TCCAAAATAGTTAGCGTGAGCTCAAGCTCCCAGCTAAAATCTTAAGGCTCACAGGTTCAATACCG
CAGCC
Found at i:23073466 original size:350 final size:349
Alignment explanation
Indices: 23072670--23074427 Score: 1720
Period size: 350 Copynumber: 5.0 Consensus size: 349
23072660 GATCCCTTCC
* * * *
23072670 AAAACAGTTAGCGCA-AGCTCAAGCTCCC-AGCTAAAAACTTT-AGGCTCACAGGTCCAATACCA
1 AAAATAGTTAGCG-AGAACTCAAGCTCCCAAGCT-AAAATTTTAAGGCTCACAGGTTCAATACCA
*** * * ** * * *
23072732 CAATATCCAAAACAGTTAGCATGAGCTCAAGCTCCCAACTATAATCTTAAGGCTCACAAGTTCAA
64 CAGCCTCTAAAATAGTTAGCGCGAGCTCAAGCTCCCAGCTAAAATCTTAAGGCTCA-AGGTTCAA
* * * * * *
23072797 TATTGCAACCTCCAAAATAGTTAGAGTGAGCTCAAGCTCCAAGTTGAAAACTTAAGGCTCGTAGG
128 TACTGCAGCCTCCAAAATAGTTAGCGTGAGCTCAAGCTCCAAGCTGAAAACTTAAGGCTTGAAGG
* * * *
23072862 TTCAATATTGTAGCCTCCAAAATAGTTAGTGTGAGCTCAAGCTCCCAGCTACAATCTTAAGGCTC
193 TTCAATATTATAGCCTCCAAAAGAGTTAGCGTGAGCTCAAGCTCCCAGCTA-AATCTTAAGGCTT
* * * * * *
23072927 ACAGGTTCAATATCGCAACCT-CAAAAAAGTTAGCAAGGATTCAAGCTCCCAGCTAAAATCTTAA
257 GCAGGTTCAATATCGCAGCCTCCAAAAGAGTTAGCGAGAACTCAAGCTCCCAGCTAAAATCTTAA
* * * *
23072991 AGCTTGTAGGTTCAATACTGCAGCCTCT
322 GGCTCGCAGGTTCAATACCGCAGCCTCT
* * * *
23073019 AAAATAGTTAGTGCA-AGCTCAAGCTCCCAAG-TAAAATTTTAAGGCTTGA-AGGTTCAATACCG
1 AAAATAGTTAGCG-AGAACTCAAGCTCCCAAGCTAAAATTTTAAGGC-TCACAGGTTCAATACCA
* ** *
23073081 CAGCCTCCAAAATAGTTAGCATGAGCTCAAGCTCCCAGCTACAATCTTAAGGCTCGAAGGTTCAA
64 CAGCCTCTAAAATAGTTAGCGCGAGCTCAAGCTCCCAGCTAAAATCTTAAGGCTC-AAGGTTCAA
* * *
23073146 TACTGTAGCCTCCAAACTAGTTAGCGTGAGCTCAAGCTCCAAGCTGAAAACATAAGGCTTGAAGG
128 TACTGCAGCCTCCAAAATAGTTAGCGTGAGCTCAAGCTCCAAGCTGAAAACTTAAGGCTTGAAGG
* * *
23073211 TTCAACATTATAGCCTCCAAAAGAGTTAGCGTGAGCTCAAGCTCCCAGCTATAATTTTAAGGCTC
193 TTCAATATTATAGCCTCCAAAAGAGTTAGCGTGAGCTCAAGCTCCCAGCTA-AATCTTAAGGCTT
** * * ***
23073276 GCATATTCAATACCGCAGCCTCCAAAATAGTTAGCGAGAACTCAAGCTTTTAGCTAAAATCTTAA
257 GCAGGTTCAATATCGCAGCCTCCAAAAGAGTTAGCGAGAACTCAAGCTCCCAGCTAAAATCTT-A
* * * *
23073341 AGG-TCACAGGTTTAATATCACAGCCTCT
321 AGGCTCGCAGGTTCAATACCGCAGCCTCT
* * * *
23073369 AAAATAGTTAGCGTGAGCTCAAGCTCCCAAG-TAAAATTTTAAGGCTTGA-AGGTTCAATACCGC
1 AAAATAGTTAGCGAGAACTCAAGCTCCCAAGCTAAAATTTTAAGGC-TCACAGGTTCAATACCAC
* *
23073432 AGCCTCTAAAATAGTTAGTGCGAGCTCAAGCTCCCAGCTACAATCTTAAGGCTCTAAGGTTCAAT
65 AGCCTCTAAAATAGTTAGCGCGAGCTCAAGCTCCCAGCTAAAATCTTAAGGCTC-AAGGTTCAAT
* *
23073497 ACTGTAGCCTCCAAAATAATTAGCGTGAGCTCAAGCTCCAAGCTGAAAACTTAAGGCTTGAAGGT
129 ACTGCAGCCTCCAAAATAGTTAGCGTGAGCTCAAGCTCCAAGCTGAAAACTTAAGGCTTGAAGGT
* * *
23073562 TCAACATTATAGCCTCCAAAAGAGTTAGCGTGAGCTCAAGCTCCAAGCTGAAAACTTAAGGCTTG
194 TCAATATTATAGCCTCCAAAAGAGTTAGCGTGAGCTCAAGCTCCCAGCT-AAATCTTAAGGCTTG
* * *** * * *
23073627 AAGGTTCAACATTATAGCCTCCAAAAGAGTTAGCGTGAGCTCAAGCTCCCAGCTATAATCTTAAG
258 CAGGTTCAATATCGCAGCCTCCAAAAGAGTTAGCGAGAACTCAAGCTCCCAGCTAAAATCTTAAG
* * *
23073692 GCTCGCATGTTCAATACCGTAGCCTCC
323 GCTCGCAGGTTCAATACCGCAGCCTCT
*** * * * ** * * *
23073719 AAAATAGTTAGCGAGAACTCAAGCT-TTTAGTTAAAATCTTAAAGCTCACATATTTAATATCATA
1 AAAATAGTTAGCGAGAACTCAAGCTCCCAAGCTAAAATTTTAAGGCTCACAGGTTCAATACCACA
* * *
23073783 GCCTCTAAAATAGTTAGCGCGAGCTCAAGCTCCCAAG-TAAAATTTTAAGGCTTGAAGGCTCAAT
66 GCCTCTAAAATAGTTAGCGCGAGCTCAAGCTCCC-AGCTAAAATCTTAAGGC-TCAAGGTTCAAT
* * * * * * *
23073847 GCCGCAGCCTCCAAAATAGTTAGCGCGAGTTCAAGCTCCCAGCT-ACAATCTTAAGGCTCGAAGG
129 ACTGCAGCCTCCAAAATAGTTAGCGTGAGCTCAAGCTCCAAGCTGA-AAACTTAAGGCTTGAAGG
* * * * *
23073911 TTCAATACTGTAGCCTCCAAAATAGTTAGCGTGAGCTCAAGCTCCAAGCTGAAAACTTAAGGCTT
193 TTCAATATTATAGCCTCCAAAAGAGTTAGCGTGAGCTCAAGCTCCCAGCT-AAATCTTAAGGCTT
* * *** * * * **
23073976 GAAGGTTCAACATTATAGCCTCCAAAAGAGTTAGCGTGAGCTCAAGCTCCCAACTATGATCTTAA
257 GCAGGTTCAATATCGCAGCCTCCAAAAGAGTTAGCGAGAACTCAAGCTCCCAGCTAAAATCTTAA
*
23074041 GGCTCGCATGTTCAATACCGCAGCCTCT
322 GGCTCGCAGGTTCAATACCGCAGCCTCT
* ** * * *
23074069 AAAATAGTTAGCAAGAACTCAAGCTTTC-AGCTAAAATCTTAAAGG-TCACAGGTTTAATATCAC
1 AAAATAGTTAGCGAGAACTCAAGCTCCCAAGCTAAAAT-TTTAAGGCTCACAGGTTCAATACCAC
* * *
23074132 AGCCTCTAAAATAGTTAGCGCGAGCTCAAGCTACCAGCTAAAATCTTAAGGCTCACAGGTTTAGT
65 AGCCTCTAAAATAGTTAGCGCGAGCTCAAGCTCCCAGCTAAAATCTTAAGGCTCA-AGGTTCAAT
** * * * * *
23074197 ACCACATCCTCCAAAACAGTTAGCGCGAGCTCAAGGTCCCAA-CTTAAATA-TTAAGGCTT-ACA
129 ACTGCAGCCTCCAAAATAGTTAGCGTGAGCTCAAGCT-CCAAGCTGAAA-ACTTAAGGCTTGA-A
* * ** * * * * * * * *
23074259 AGTTTAATACCA-AACCTCTAAAACAGTCATCGAGGGCTCAAGCTCCCAGCTGTAATCTTAAGGC
191 GGTTCAATATTATAGCCTCCAAAAGAGTTAGCGTGAGCTCAAGCTCCCAGCT-AAATCTTAAGGC
* * * * * * * * * * * *
23074323 TTGCAAGTTTAATACCGCAACCTCCAAAATAGTTAGCGCGAGCTTAAACTCCTAGTTGAAATCTT
255 TTGCAGGTTCAATATCGCAGCCTCCAAAAGAGTTAGCGAGAACTCAAGCTCCCAGCTAAAATCTT
* * *
23074388 AAGG-TCCGCAAGTTCAATACCGCTGCCTCC
320 AAGGCT-CGCAGGTTCAATACCGCAGCCTCT
23074418 AAAATAGTTA
1 AAAATAGTTA
23074428 ACGTGAGCTA
Statistics
Matches: 1206, Mismatches: 180, Indels: 46
0.84 0.13 0.03
Matches are distributed among these distances:
348 8 0.01
349 366 0.30
350 816 0.68
351 16 0.01
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.25
Consensus pattern (349 bp):
AAAATAGTTAGCGAGAACTCAAGCTCCCAAGCTAAAATTTTAAGGCTCACAGGTTCAATACCACA
GCCTCTAAAATAGTTAGCGCGAGCTCAAGCTCCCAGCTAAAATCTTAAGGCTCAAGGTTCAATAC
TGCAGCCTCCAAAATAGTTAGCGTGAGCTCAAGCTCCAAGCTGAAAACTTAAGGCTTGAAGGTTC
AATATTATAGCCTCCAAAAGAGTTAGCGTGAGCTCAAGCTCCCAGCTAAATCTTAAGGCTTGCAG
GTTCAATATCGCAGCCTCCAAAAGAGTTAGCGAGAACTCAAGCTCCCAGCTAAAATCTTAAGGCT
CGCAGGTTCAATACCGCAGCCTCT
Found at i:23074619 original size:18 final size:17
Alignment explanation
Indices: 23074598--23074652 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 17
23074588 CAATGCAAGC
23074598 TTGAAATTTTGCTTAAGT
1 TTGAAATTTT-CTTAAGT
*
23074616 TTG-AATGTTTACTTGAGT
1 TTGAAAT-TTT-CTTAAGT
23074634 TTGAAAATTTTCTTAAGT
1 TTG-AAATTTTCTTAAGT
23074652 T
1 T
23074653 CTTAAAGAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
17 3 0.10
18 22 0.71
19 3 0.10
20 3 0.10
ACGTcount: A:0.27, C:0.05, G:0.16, T:0.51
Consensus pattern (17 bp):
TTGAAATTTTCTTAAGT
Found at i:23079569 original size:154 final size:154
Alignment explanation
Indices: 23079284--23079599 Score: 578
Period size: 154 Copynumber: 2.0 Consensus size: 154
23079274 ATGCATATAT
* *
23079284 ATATGTGGCCTTACCATATTTGATGTGTGTTTAATATGATAGAATTATGAAAAGTAAAATGAGGT
1 ATAT-TGGCCTTACCATATTTGATGTGTGTTTAATAGGATAGAATGATGAAAAGTAAAATGAGGT
23079349 TTGAATATACATATATGTATTTGGTCATTTAGGTAAGTTTGGATACTTGGTTGACAAGTTTTTAA
65 TTGAATATACATATATGTATTTGGTCATTTAGGTAAGTTTGGATACTTGGTTGACAAGTTTTTAA
* *
23079414 GTTGTCATTTGAGGTGTCTAAGGGA
130 GTTGCCATTTGAGGTGTCTAAAGGA
23079439 ATATTGGCCTTACCATATTTGATGTGTGTTTAATAGGATAGAATGATGAAAAGTAAAATGAGGTT
1 ATATTGGCCTTACCATATTTGATGTGTGTTTAATAGGATAGAATGATGAAAAGTAAAATGAGGTT
23079504 TGAATATACATATATGTATTTGGTCATTTAGGTAAGTTTGGATACTTGGTTGACAAGTTTTTAAG
66 TGAATATACATATATGTATTTGGTCATTTAGGTAAGTTTGGATACTTGGTTGACAAGTTTTTAAG
*
23079569 TTGCCATTTGAGGTGTCTAAAGGC
131 TTGCCATTTGAGGTGTCTAAAGGA
23079593 ATATTGG
1 ATATTGG
23079600 TTGTATGTTG
Statistics
Matches: 156, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
154 152 0.97
155 4 0.03
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.39
Consensus pattern (154 bp):
ATATTGGCCTTACCATATTTGATGTGTGTTTAATAGGATAGAATGATGAAAAGTAAAATGAGGTT
TGAATATACATATATGTATTTGGTCATTTAGGTAAGTTTGGATACTTGGTTGACAAGTTTTTAAG
TTGCCATTTGAGGTGTCTAAAGGA
Found at i:23089341 original size:16 final size:16
Alignment explanation
Indices: 23089320--23089387 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
23089310 TTTGGTTCGC
23089320 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
23089336 TGTATTGGATTGGAGG
1 TGTATTGGATTAGAGG
23089352 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
23089368 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
23089384 TGTA
1 TGTA
23089388 ATAGCAAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.24, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:23089644 original size:18 final size:17
Alignment explanation
Indices: 23089623--23089657 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
23089613 TTATTATTAA
*
23089623 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
23089641 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
23089658 TCTNNNNNNN
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:23097729 original size:18 final size:18
Alignment explanation
Indices: 23097706--23097741 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
23097696 CGCTTCTGAC
23097706 TGTCGATCTCATTTTCCT
1 TGTCGATCTCATTTTCCT
*
23097724 TGTCGATCTCCTTTTCCT
1 TGTCGATCTCATTTTCCT
23097742 CCAAACCACT
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:0.08, C:0.31, G:0.11, T:0.50
Consensus pattern (18 bp):
TGTCGATCTCATTTTCCT
Found at i:23099491 original size:10 final size:10
Alignment explanation
Indices: 23099474--23099506 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
23099464 TTTTATTTCA
23099474 TTTT-TTTTG
1 TTTTGTTTTG
23099483 TTTTGTTTTG
1 TTTTGTTTTG
23099493 TTTTGTTTTG
1 TTTTGTTTTG
23099503 TTTT
1 TTTT
23099507 TGTGTTTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.17
10 19 0.83
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (10 bp):
TTTTGTTTTG
Found at i:23099496 original size:15 final size:14
Alignment explanation
Indices: 23099474--23099517 Score: 63
Period size: 15 Copynumber: 3.1 Consensus size: 14
23099464 TTTTATTTCA
23099474 TTTTTTTTGTTTTG
1 TTTTTTTTGTTTTG
23099488 TTTTGTTTTGTTTTG
1 TTTT-TTTTGTTTTG
*
23099503 -TTTTTGTGTTTTG
1 TTTTTTTTGTTTTG
23099516 TT
1 TT
23099518 AGTTGTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 9 0.33
14 8 0.30
15 10 0.37
ACGTcount: A:0.00, C:0.00, G:0.18, T:0.82
Consensus pattern (14 bp):
TTTTTTTTGTTTTG
Found at i:23100270 original size:19 final size:18
Alignment explanation
Indices: 23100228--23100272 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
23100218 TTTACTCTAA
*
23100228 AAAAATCAAAAAAATATAG
1 AAAAAT-AAAAAAATAAAG
*
23100247 AAAAATAAAAAATTAAAG
1 AAAAATAAAAAAATAAAG
23100265 ATAAAATA
1 A-AAAATA
23100273 TATATAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.18
Consensus pattern (18 bp):
AAAAATAAAAAAATAAAG
Found at i:23100302 original size:31 final size:28
Alignment explanation
Indices: 23100235--23100302 Score: 66
Period size: 31 Copynumber: 2.3 Consensus size: 28
23100225 TAAAAAAATC
23100235 AAAAAAATATAGAAAAATAAAAAATTAA
1 AAAAAAATATAGAAAAATAAAAAATTAA
* *
23100263 AGATAAAATATATATAAAAA-AGGAAAATTGAA
1 A-A-AAAA-ATATAGAAAAATA-AAAAATT-AA
23100295 AAAAAAAT
1 AAAAAAAT
23100303 TGATTTAGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
28 1 0.03
29 3 0.09
30 9 0.27
31 17 0.52
32 3 0.09
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (28 bp):
AAAAAAATATAGAAAAATAAAAAATTAA
Found at i:23102554 original size:16 final size:16
Alignment explanation
Indices: 23102533--23102565 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
23102523 ATCAGTACTC
23102533 AACATGAAAGAGTTGA
1 AACATGAAAGAGTTGA
23102549 AACATGAAAGAGTTGA
1 AACATGAAAGAGTTGA
23102565 A
1 A
23102566 CTTTTATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.52, C:0.06, G:0.24, T:0.18
Consensus pattern (16 bp):
AACATGAAAGAGTTGA
Found at i:23106096 original size:16 final size:16
Alignment explanation
Indices: 23106059--23106098 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
23106049 TTGATAAAAT
* * *
23106059 TAAAACTAATTGTTAT
1 TAAAATTAATTATTAG
23106075 TAAAATTAATTATTAG
1 TAAAATTAATTATTAG
23106091 TAAAATTA
1 TAAAATTA
23106099 TCAAATTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTATTAG
Found at i:23106117 original size:9 final size:9
Alignment explanation
Indices: 23106105--23106139 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
23106095 ATTATCAAAT
23106105 TATTAATTG
1 TATTAATTG
23106114 TATTAATTG
1 TATTAATTG
23106123 --TTAATTG
1 TATTAATTG
23106130 TATTAATTG
1 TATTAATTG
23106139 T
1 T
23106140 TGTAACAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 7 0.29
9 17 0.71
ACGTcount: A:0.31, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:23106126 original size:16 final size:16
Alignment explanation
Indices: 23106102--23106140 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
23106092 AAAATTATCA
*
23106102 AATTATTAATTGTATT
1 AATTGTTAATTGTATT
23106118 AATTGTTAATTGTATT
1 AATTGTTAATTGTATT
23106134 AATTGTT
1 AATTGTT
23106141 GTAACAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.56
Consensus pattern (16 bp):
AATTGTTAATTGTATT
Found at i:23106170 original size:75 final size:75
Alignment explanation
Indices: 23106086--23106241 Score: 312
Period size: 75 Copynumber: 2.1 Consensus size: 75
23106076 AAAATTAATT
23106086 ATTAGTAAAATTATCAAATTATTAATTGTATTAATTGTTAATTGTATTAATTGTTGTAACAAAAT
1 ATTAGTAAAATTATCAAATTATTAATTGTATTAATTGTTAATTGTATTAATTGTTGTAACAAAAT
23106151 CTAACATTTG
66 CTAACATTTG
23106161 ATTAGTAAAATTATCAAATTATTAATTGTATTAATTGTTAATTGTATTAATTGTTGTAACAAAAT
1 ATTAGTAAAATTATCAAATTATTAATTGTATTAATTGTTAATTGTATTAATTGTTGTAACAAAAT
23106226 CTAACATTTG
66 CTAACATTTG
23106236 ATTAGT
1 ATTAGT
23106242 TTACAATTTT
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 81 1.00
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.46
Consensus pattern (75 bp):
ATTAGTAAAATTATCAAATTATTAATTGTATTAATTGTTAATTGTATTAATTGTTGTAACAAAAT
CTAACATTTG
Found at i:23106192 original size:9 final size:9
Alignment explanation
Indices: 23106180--23106214 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
23106170 ATTATCAAAT
23106180 TATTAATTG
1 TATTAATTG
23106189 TATTAATTG
1 TATTAATTG
23106198 --TTAATTG
1 TATTAATTG
23106205 TATTAATTG
1 TATTAATTG
23106214 T
1 T
23106215 TGTAACAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 7 0.29
9 17 0.71
ACGTcount: A:0.31, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:23106201 original size:16 final size:16
Alignment explanation
Indices: 23106177--23106215 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
23106167 AAAATTATCA
*
23106177 AATTATTAATTGTATT
1 AATTGTTAATTGTATT
23106193 AATTGTTAATTGTATT
1 AATTGTTAATTGTATT
23106209 AATTGTT
1 AATTGTT
23106216 GTAACAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.56
Consensus pattern (16 bp):
AATTGTTAATTGTATT
Found at i:23106684 original size:12 final size:12
Alignment explanation
Indices: 23106651--23106694 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
23106641 TGAAGAAACC
*
23106651 TCATCGTCGCCG
1 TCATCGTCGTCG
* *
23106663 TCGTCATCGTCG
1 TCATCGTCGTCG
23106675 TCATCGTCGTCG
1 TCATCGTCGTCG
23106687 TCATCGTC
1 TCATCGTC
23106695 CTTTTTGCAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.09, C:0.36, G:0.23, T:0.32
Consensus pattern (12 bp):
TCATCGTCGTCG
Found at i:23106694 original size:9 final size:9
Alignment explanation
Indices: 23106661--23106685 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
23106651 TCATCGTCGC
23106661 CGTCGTCAT
1 CGTCGTCAT
23106670 CGTCGTCAT
1 CGTCGTCAT
23106679 CGTCGTC
1 CGTCGTC
23106686 GTCATCGTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.36, G:0.24, T:0.32
Consensus pattern (9 bp):
CGTCGTCAT
Found at i:23109008 original size:92 final size:92
Alignment explanation
Indices: 23108851--23109203 Score: 643
Period size: 92 Copynumber: 3.8 Consensus size: 92
23108841 ATATATACAA
* *
23108851 ATATTTTATTAAATATACAAATATGTTAAAACAAAATGCATACTTGCTGTCTAAATTGTAGCTTA
1 ATATTTTATTAAATATACAAATAGGTTAAAACAAAATGCATACTTGATGTCTAAATTGTAGCTTA
23108916 TATGCATACTTTGATACAAATAGGTTT
66 TATGCATACTTTGATACAAATAGGTTT
23108943 ATATTTTATTAAATATACAAATAGGTTAAAACAAAATGCATACTTGATGTCTAAATTGTAGCTTA
1 ATATTTTATTAAATATACAAATAGGTTAAAACAAAATGCATACTTGATGTCTAAATTGTAGCTTA
23109008 TATGCATACTTTGATACAAATAGGTTT
66 TATGCATACTTTGATACAAATAGGTTT
23109035 ATATTTTATTAAATATACAAATAGGTTAAAACAAAATGCATACTTGATGTCTAAATTGTAGCTTA
1 ATATTTTATTAAATATACAAATAGGTTAAAACAAAATGCATACTTGATGTCTAAATTGTAGCTTA
*
23109100 TATGCATACTTTGATACAAATAAGTTT
66 TATGCATACTTTGATACAAATAGGTTT
* * * *
23109127 ATATTTTATTAAATATAAAAATAGGTTCAAACAAAATGCATACTTGCTGTTTAAATTGTAGCTTA
1 ATATTTTATTAAATATACAAATAGGTTAAAACAAAATGCATACTTGATGTCTAAATTGTAGCTTA
23109192 TATGCATACTTT
66 TATGCATACTTT
23109204 NNNNNNNNNN
Statistics
Matches: 254, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
92 254 1.00
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.39
Consensus pattern (92 bp):
ATATTTTATTAAATATACAAATAGGTTAAAACAAAATGCATACTTGATGTCTAAATTGTAGCTTA
TATGCATACTTTGATACAAATAGGTTT
Found at i:23116400 original size:21 final size:20
Alignment explanation
Indices: 23116353--23116400 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 20
23116343 CATGTACTCC
*
23116353 ATTTTTTTTTAATTCTTATG
1 ATTTTTTTTTAATTATTATG
* * *
23116373 AACTTTTTTATAATTATTTTG
1 -ATTTTTTTTTAATTATTATG
23116394 ATTTTTT
1 ATTTTTT
23116401 CCATTAAAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.23, C:0.04, G:0.04, T:0.69
Consensus pattern (20 bp):
ATTTTTTTTTAATTATTATG
Found at i:23116770 original size:43 final size:42
Alignment explanation
Indices: 23116704--23117052 Score: 376
Period size: 43 Copynumber: 8.2 Consensus size: 42
23116694 TTTTAGAAAT
* * * *
23116704 AAACGCCGTTATAGACCATGACCTTTAGCGGGGCTCTTTCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCT-TTTCCAC
** * *
23116747 AAACGCCGCTATAGATCGGGACCTTTAGCGGCACTTTTGCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCAC
*
23116789 AAACGCCGCTATAGATCAAGACCTTTAGTGGCGCCTTTTCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCG-CTTTTCCAC
* *** *
23116832 AAATGCCGCTATAGATTGGGACCTGTAGCGGCGCTTTTTCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGC-TTTTCCAC
**
23116875 AAACGCCGCTATAGATCGGGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTT-CCAC
* **
23116918 AAACGCTGCTATAGATCAAGATTTTTAGCGGCGCTTTTTCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGC-TTTTCCAC
** * *
23116961 AAACGCCGCTATATCTCAAGACCTTTAGCAGCACTTTTCCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTT-CCAC
* * * * *
23117004 AAACGCCGCTATAGAACAA-ACCTTTATCGACGCTTCTCGCAA
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTC-CAC
23117046 AAACGCC
1 AAACGCC
23117053 ACTAAAAACA
Statistics
Matches: 258, Mismatches: 42, Indels: 13
0.82 0.13 0.04
Matches are distributed among these distances:
41 1 0.00
42 66 0.26
43 187 0.72
44 4 0.02
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (42 bp):
AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCAC
Found at i:23116984 original size:129 final size:128
Alignment explanation
Indices: 23116704--23117018 Score: 423
Period size: 129 Copynumber: 2.5 Consensus size: 128
23116694 TTTTAGAAAT
* * * * *
23116704 AAACGCCGTTATAGACCATGACCTTTAGCGGGGCTCTTTCCACAAACGCCGCTATAGATCGGGAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTATAGATCGGGAC
* *
23116769 CTTTAGCGGCACTTTTGCACAAACGCCGCTATAGATCAAGACCTTTAGTGGCGCCTTTTCCAC
66 CTTTAGCGGCACTTTTCCACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCCTTTTCCAC
* *** *
23116832 AAATGCCGCTATAGATTGGGACCTGTAGCGGCGCTTTTTCCACAAACGCCGCTATAGATCGGGAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTATAGATCGGGAC
* * ** *
23116897 CTTTAGCGGCGCTTTTCCCACAAACGCTGCTATAGATCAAGATTTTTAGCGGCGCTTTTTCCAC
66 CTTTAGCGGCACTTTT-CCACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCCTTTTCCAC
** * * *
23116961 AAACGCCGCTATATCTCAAGACCTTTAGCAGCACTTTTCCCACAAACGCCGCTATAGA
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTATAGA
23117019 ACAAACCTTT
Statistics
Matches: 160, Mismatches: 26, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
128 71 0.44
129 89 0.56
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (128 bp):
AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTATAGATCGGGAC
CTTTAGCGGCACTTTTCCACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCCTTTTCCAC
Found at i:23117547 original size:23 final size:23
Alignment explanation
Indices: 23117521--23117619 Score: 110
Period size: 23 Copynumber: 4.3 Consensus size: 23
23117511 ATAAAACATC
*
23117521 TCAATTTCCAGCAACTAAACACT
1 TCAATTTACAGCAACTAAACACT
*
23117544 TCAATTTGCAGC-ACTTAAACACT
1 TCAATTTACAGCAAC-TAAACACT
* * **
23117567 TCAATTTATAACATTTAAACACT
1 TCAATTTACAGCAACTAAACACT
**
23117590 TCAATTTACAGCATTTAAACACT
1 TCAATTTACAGCAACTAAACACT
23117613 TCAATTT
1 TCAATTT
23117620 GTAAGGCCAA
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
22 2 0.03
23 64 0.97
ACGTcount: A:0.38, C:0.23, G:0.04, T:0.34
Consensus pattern (23 bp):
TCAATTTACAGCAACTAAACACT
Found at i:23117571 original size:46 final size:46
Alignment explanation
Indices: 23117521--23117619 Score: 135
Period size: 46 Copynumber: 2.2 Consensus size: 46
23117511 ATAAAACATC
* * *
23117521 TCAATTTCCAGCAACTAAACACTTCAATTTGCAGCACTTAAACACT
1 TCAATTTACAACAACTAAACACTTCAATTTACAGCACTTAAACACT
* ** *
23117567 TCAATTTATAACATTTAAACACTTCAATTTACAGCATTTAAACACT
1 TCAATTTACAACAACTAAACACTTCAATTTACAGCACTTAAACACT
23117613 TCAATTT
1 TCAATTT
23117620 GTAAGGCCAA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.38, C:0.23, G:0.04, T:0.34
Consensus pattern (46 bp):
TCAATTTACAACAACTAAACACTTCAATTTACAGCACTTAAACACT
Found at i:23118015 original size:29 final size:29
Alignment explanation
Indices: 23117981--23118054 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
23117971 CAACCAAATG
23117981 ATATGCATCCAACAAATTGTTCAAATACC
1 ATATGCATCCAACAAATTGTTCAAATACC
23118010 ATATGCATCCAACAAATTGTTCAAATACC
1 ATATGCATCCAACAAATTGTTCAAATACC
*
23118039 ATATGCATCTAACAAA
1 ATATGCATCCAACAAA
23118055 ATGCAAAAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.43, C:0.23, G:0.07, T:0.27
Consensus pattern (29 bp):
ATATGCATCCAACAAATTGTTCAAATACC
Found at i:23118710 original size:14 final size:15
Alignment explanation
Indices: 23118677--23118713 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
23118667 CATTTATTAT
**
23118677 TTTTTATAAATTTTA
1 TTTTTATAAATTGGA
23118692 TTTTTATAAATTGGA
1 TTTTTATAAATTGGA
23118707 TTTTTAT
1 TTTTTAT
23118714 TAAAAAACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (15 bp):
TTTTTATAAATTGGA
Found at i:23119079 original size:7 final size:7
Alignment explanation
Indices: 23119067--23119160 Score: 53
Period size: 7 Copynumber: 13.1 Consensus size: 7
23119057 ACTAATTAAT
23119067 CTAAACC
1 CTAAACC
23119074 CTAAACC
1 CTAAACC
*
23119081 CTTAACC
1 CTAAACC
***
23119088 CTTTTCC
1 CTAAACC
*
23119095 CTTATACC
1 C-TAAACC
*
23119103 CTAAATC
1 CTAAACC
* *
23119110 ATAAAAC
1 CTAAACC
*
23119117 ATAAACC
1 CTAAACC
23119124 CTAAACC
1 CTAAACC
*
23119131 CTTAACC
1 CTAAACC
***
23119138 CTTTTCC
1 CTAAACC
23119145 CTTAAACC
1 C-TAAACC
23119153 CTAAACC
1 CTAAACC
23119160 C
1 C
23119161 CAACATTTAA
Statistics
Matches: 68, Mismatches: 17, Indels: 4
0.76 0.19 0.04
Matches are distributed among these distances:
7 59 0.87
8 9 0.13
ACGTcount: A:0.35, C:0.38, G:0.00, T:0.27
Consensus pattern (7 bp):
CTAAACC
Found at i:23119199 original size:22 final size:22
Alignment explanation
Indices: 23119168--23119216 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
23119158 CCCCAACATT
*
23119168 TAAA-CCATAAAT-CATAATCCC
1 TAAACCCAT-AATCCATAATCCA
23119189 TAAACCCATAATCCATAATCCA
1 TAAACCCATAATCCATAATCCA
23119211 TAAACC
1 TAAACC
23119217 TTAAGATAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 7 0.28
22 18 0.72
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (22 bp):
TAAACCCATAATCCATAATCCA
Found at i:23119262 original size:14 final size:14
Alignment explanation
Indices: 23119240--23119284 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
23119230 TTCTAAACCT
* *
23119240 TAAATCCTAAATTA
1 TAAACCCTAAACTA
* *
23119254 TATACCCTAAACCA
1 TAAACCCTAAACTA
23119268 TAAACCCTAAACTA
1 TAAACCCTAAACTA
23119282 TAA
1 TAA
23119285 TGATAATTAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (14 bp):
TAAACCCTAAACTA
Found at i:23119347 original size:7 final size:7
Alignment explanation
Indices: 23119331--23119510 Score: 53
Period size: 7 Copynumber: 24.6 Consensus size: 7
23119321 TAGTTAATCC
*
23119331 AAACCCT
1 AAACCAT
23119338 AAACCAT
1 AAACCAT
23119345 AAACC-T
1 AAACCAT
*
23119351 AAACCCT
1 AAACCAT
*
23119358 AAAACCCT
1 -AAACCAT
23119366 AAAACCAT
1 -AAACCAT
*
23119374 AAACCCT
1 AAACCAT
*
23119381 TAACACAT
1 AAAC-CAT
*
23119389 -AACCTCT
1 AAACC-AT
*
23119396 AAACCTT
1 AAACCAT
23119403 AAACCCCAACT
1 AAA--CC-A-T
*
23119414 AACCCAT
1 AAACCAT
*
23119421 AACCCAT
1 AAACCAT
23119428 AAACCCAT
1 AAA-CCAT
*
23119436 AATCCAT
1 AAACCAT
*
23119443 AAACCTT
1 AAACCAT
***
23119450 AAAATGGT
1 -AAACCAT
23119458 AACACC-T
1 AA-ACCAT
*
23119465 AAACCTT
1 AAACCAT
23119472 AAACTC-T
1 AAAC-CAT
23119479 AAACCAT
1 AAACCAT
* *
23119486 ATACCCT
1 AAACCAT
*
23119493 AAACCAA
1 AAACCAT
*
23119500 AAACCAA
1 AAACCAT
23119507 AAAC
1 AAAC
23119511 TATAGTGATA
Statistics
Matches: 135, Mismatches: 23, Indels: 30
0.72 0.12 0.16
Matches are distributed among these distances:
6 11 0.08
7 84 0.62
8 33 0.24
9 4 0.03
11 3 0.02
ACGTcount: A:0.48, C:0.33, G:0.01, T:0.17
Consensus pattern (7 bp):
AAACCAT
Found at i:23119364 original size:8 final size:7
Alignment explanation
Indices: 23119331--23119408 Score: 61
Period size: 7 Copynumber: 10.9 Consensus size: 7
23119321 TAGTTAATCC
23119331 AAACCCT
1 AAACCCT
*
23119338 AAACCAT
1 AAACCCT
23119345 AAA-CCT
1 AAACCCT
23119351 AAACCCT
1 AAACCCT
23119358 AAAACCCT
1 -AAACCCT
*
23119366 AAAACCAT
1 -AAACCCT
23119374 AAACCCT
1 AAACCCT
* *
23119381 TAACAC-
1 AAACCCT
23119387 ATAACCTCT
1 A-AACC-CT
*
23119396 AAACCTT
1 AAACCCT
23119403 AAACCC
1 AAACCC
23119409 CAACTAACCC
Statistics
Matches: 56, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
6 5 0.09
7 31 0.55
8 19 0.34
9 1 0.02
ACGTcount: A:0.47, C:0.36, G:0.00, T:0.17
Consensus pattern (7 bp):
AAACCCT
Found at i:23119392 original size:29 final size:29
Alignment explanation
Indices: 23119331--23119408 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 29
23119321 TAGTTAATCC
*
23119331 AAACCCTAAACCATAAA-CCTAAACCCTA
1 AAACCCTAAACCATAAACCCTAAACACTA
*
23119359 AAACCCTAAAACCATAAACCCTTAACAC-A
1 AAACCCT-AAACCATAAACCCTAAACACTA
* *
23119388 TAACCTCTAAACCTTAAACCC
1 AAACC-CTAAACCATAAACCC
23119409 CAACTAACCC
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
28 7 0.16
29 27 0.63
30 9 0.21
ACGTcount: A:0.47, C:0.36, G:0.00, T:0.17
Consensus pattern (29 bp):
AAACCCTAAACCATAAACCCTAAACACTA
Found at i:23119407 original size:15 final size:14
Alignment explanation
Indices: 23119331--23119504 Score: 103
Period size: 15 Copynumber: 12.4 Consensus size: 14
23119321 TAGTTAATCC
23119331 AAACCCTAAACCAT
1 AAACCCTAAACCAT
*
23119345 AAA-CCTAAACCCT
1 AAACCCTAAACCAT
23119358 AAAACCCTAAAACCAT
1 -AAACCCT-AAACCAT
*
23119374 AAACCCTTAACACAT
1 AAACCCTAAAC-CAT
*
23119389 -AACCTCTAAACCTT
1 AAACC-CTAAACCAT
*
23119403 AAACCC-CAA-C-T
1 AAACCCTAAACCAT
*
23119414 -AACCCATAACCCAT
1 AAACCC-TAAACCAT
*
23119428 AAACCCATAATCCAT
1 AAACCC-TAAACCAT
*
23119443 AAACCTTAAA--AT
1 AAACCCTAAACCAT
* *
23119455 GGTAACACCTAAACCTT
1 --AAAC-CCTAAACCAT
*
23119472 AAACTCTAAACCAT
1 AAACCCTAAACCAT
* *
23119486 ATACCCTAAACCAA
1 AAACCCTAAACCAT
23119500 AAACC
1 AAACC
23119505 AAAAACTATA
Statistics
Matches: 123, Mismatches: 21, Indels: 32
0.70 0.12 0.18
Matches are distributed among these distances:
10 5 0.04
11 1 0.01
12 4 0.03
13 12 0.10
14 46 0.37
15 48 0.39
16 6 0.05
17 1 0.01
ACGTcount: A:0.47, C:0.34, G:0.01, T:0.18
Consensus pattern (14 bp):
AAACCCTAAACCAT
Found at i:23119936 original size:41 final size:41
Alignment explanation
Indices: 23119876--23120094 Score: 294
Period size: 41 Copynumber: 5.3 Consensus size: 41
23119866 CTAAAGCCTT
* *
23119876 CGCTAAAGCCCCGAGCATTAGCGGCGCTTATTGAAAAACGC
1 CGCTAAAGCCCAGAGCATTAGCGGCGCTTTTTGAAAAACGC
* * * *
23119917 CGCTAAAGCCTAGAACATTAGTGGCACTTTTTGAAAAACGC
1 CGCTAAAGCCCAGAGCATTAGCGGCGCTTTTTGAAAAACGC
* * * *
23119958 TGCTAAAGCCTAGAGCATTAGTGGCACTTTTTGAAAAACGC
1 CGCTAAAGCCCAGAGCATTAGCGGCGCTTTTTGAAAAACGC
* * *
23119999 TGCTAAAGCCCAGAGCATTAGCGGCGCTTCTTGAAAAACGT
1 CGCTAAAGCCCAGAGCATTAGCGGCGCTTTTTGAAAAACGC
* * *
23120040 CGCTAAAGCCCAGAGCATCAGCTGCGCTCTTTGAAAAACGC
1 CGCTAAAGCCCAGAGCATTAGCGGCGCTTTTTGAAAAACGC
23120081 CGCTAAAGCCCAGA
1 CGCTAAAGCCCAGA
23120095 AAGCTCAAAA
Statistics
Matches: 159, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 159 1.00
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (41 bp):
CGCTAAAGCCCAGAGCATTAGCGGCGCTTTTTGAAAAACGC
Found at i:23120188 original size:40 final size:40
Alignment explanation
Indices: 23120144--23120253 Score: 132
Period size: 39 Copynumber: 2.8 Consensus size: 40
23120134 GGCACTTCCT
23120144 GAAAAATGCCGCTAATGCTCTATTTTTAGCGGCGTTTTTC
1 GAAAAATGCCGCTAATGCTCTATTTTTAGCGGCGTTTTTC
*** *
23120184 GAAAAGCACCGCTAATGCTCTA-TTTTAGCGGTGTTTTTC
1 GAAAAATGCCGCTAATGCTCTATTTTTAGCGGCGTTTTTC
* * * * *
23120223 TATAACTGTCGCTAATGCTCGATTTTTAGCG
1 GAAAAATGCCGCTAATGCTCTATTTTTAGCG
23120254 ACTTTTTTTG
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
39 31 0.53
40 27 0.47
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (40 bp):
GAAAAATGCCGCTAATGCTCTATTTTTAGCGGCGTTTTTC
Found at i:23121931 original size:17 final size:18
Alignment explanation
Indices: 23121899--23121933 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
23121889 TGAGCGTGCT
23121899 TCTTTTAAAAATAATTTC
1 TCTTTTAAAAATAATTTC
23121917 TCTTTTAAAAA-AATTTC
1 TCTTTTAAAAATAATTTC
23121934 CTGTTAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.40, C:0.11, G:0.00, T:0.49
Consensus pattern (18 bp):
TCTTTTAAAAATAATTTC
Found at i:23125546 original size:28 final size:26
Alignment explanation
Indices: 23125491--23125602 Score: 79
Period size: 28 Copynumber: 4.2 Consensus size: 26
23125481 CATATATCAC
23125491 TAAGCACAAAGTGC-AAAT-A-ACAA
1 TAAGCACAAAGTGCAAAATAATACAA
*
23125514 TAAGCACAGAAGTGCAAAATAATTACGA
1 TAAGCACA-AAGTGCAAAATAA-TACAA
* *
23125542 TAAGCACCAATGTGCAAATTTTACA-ACAA
1 TAAGCA-CAAAGTGCAAA--ATA-ATACAA
* * *
23125571 TAAGCACTGAAGTACAAAATAATACGA
1 TAAGCAC-AAAGTGCAAAATAATACAA
23125598 TAAGC
1 TAAGC
23125603 GCGCTAATTT
Statistics
Matches: 69, Mismatches: 9, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
23 8 0.12
24 6 0.09
25 4 0.06
26 2 0.03
27 10 0.14
28 18 0.26
29 18 0.26
30 2 0.03
31 1 0.01
ACGTcount: A:0.50, C:0.17, G:0.14, T:0.19
Consensus pattern (26 bp):
TAAGCACAAAGTGCAAAATAATACAA
Found at i:23127906 original size:16 final size:16
Alignment explanation
Indices: 23127881--23127911 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23127871 TATTAGAATT
23127881 TTATAAATAATTATAC
1 TTATAAATAATTATAC
*
23127897 TTATATATAATTATA
1 TTATAAATAATTATA
23127912 TGAAAATTTT
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:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (16 bp):
TTATAAATAATTATAC
Found at i:23128065 original size:20 final size:21
Alignment explanation
Indices: 23128037--23128076 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
23128027 AAAACTGCAA
*
23128037 ATAAGTTAA-AGAAGATTATT
1 ATAAATTAATAGAAGATTATT
*
23128057 ATAAATTAATAGAAGTTTAT
1 ATAAATTAATAGAAGATTAT
23128077 AAAACAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (21 bp):
ATAAATTAATAGAAGATTATT
Found at i:23128178 original size:89 final size:89
Alignment explanation
Indices: 23128002--23128174 Score: 321
Period size: 88 Copynumber: 2.0 Consensus size: 89
23127992 TATAAAATTT
* *
23128002 TAGAAATTATTAAAATTTACAAAAAAAAACTGCAAATAAGTTAAAGAAGATTATTATAAATTAAT
1 TAGAAATTATTAAAATTTACAAAAAAAAACTACAAATAAGTTAAAGAAGATTATTATAAAATAAT
23128067 AGAAGTTTATAAAACAAAAATTAA
66 AGAAGTTTATAAAACAAAAATTAA
23128091 TAGAAATTATTAAAATTTAC-AAAAAAAACTACAAATAAGTTAAAGAAGATTATTATAAAATAAT
1 TAGAAATTATTAAAATTTACAAAAAAAAACTACAAATAAGTTAAAGAAGATTATTATAAAATAAT
23128155 AGAAGTTTATAAAACAAAAA
66 AGAAGTTTATAAAACAAAAA
23128175 ATTATTGCAA
Statistics
Matches: 82, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
88 62 0.76
89 20 0.24
ACGTcount: A:0.60, C:0.05, G:0.08, T:0.28
Consensus pattern (89 bp):
TAGAAATTATTAAAATTTACAAAAAAAAACTACAAATAAGTTAAAGAAGATTATTATAAAATAAT
AGAAGTTTATAAAACAAAAATTAA
Found at i:23128793 original size:16 final size:16
Alignment explanation
Indices: 23128746--23128795 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 16
23128736 TTATGAACTT
*
23128746 TTTATATTTTTTTAAT-
1 TTTA-ATTTTTTTATTA
**
23128762 TTTAATTTTGAT-TTA
1 TTTAATTTTTTTATTA
23128777 TTTAATTTTTTTATTA
1 TTTAATTTTTTTATTA
23128793 TTT
1 TTT
23128796 TTTGACATGA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
14 1 0.04
15 16 0.59
16 10 0.37
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (16 bp):
TTTAATTTTTTTATTA
Found at i:23129216 original size:13 final size:14
Alignment explanation
Indices: 23129193--23129221 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
23129183 AATTTATTTT
23129193 TATATAAAAATTAA
1 TATATAAAAATTAA
23129207 TATA-AAAAATTAA
1 TATATAAAAATTAA
23129220 TA
1 TA
23129222 CGGGTCAGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
TATATAAAAATTAA
Found at i:23130146 original size:14 final size:15
Alignment explanation
Indices: 23130129--23130180 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 15
23130119 AAAATGTTTT
23130129 TTAATTATTTAATT-
1 TTAATTATTTAATTA
* *
23130143 TTAAATAGTTAATTA
1 TTAATTATTTAATTA
*
23130158 TTATATTGTTTAAATTA
1 TTA-ATTATTT-AATTA
23130175 TTAATT
1 TTAATT
23130181 TGTATGTTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
14 12 0.40
15 3 0.10
16 7 0.23
17 8 0.27
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (15 bp):
TTAATTATTTAATTA
Found at i:23141972 original size:20 final size:20
Alignment explanation
Indices: 23141949--23141987 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
23141939 ACCTTCGAGG
23141949 AATGTCTCAGAAGTTCGAAA
1 AATGTCTCAGAAGTTCGAAA
*
23141969 AATGTCTTAGAAGTTCGAA
1 AATGTCTCAGAAGTTCGAA
23141988 GCTTTCTGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (20 bp):
AATGTCTCAGAAGTTCGAAA
Found at i:23144439 original size:28 final size:26
Alignment explanation
Indices: 23144395--23144446 Score: 77
Period size: 28 Copynumber: 1.9 Consensus size: 26
23144385 ATATTATTAA
23144395 TATAATATATAAATGTTATAATAAGG
1 TATAATATATAAATGTTATAATAAGG
*
23144421 TATAATATATTATTATGTTATAATAA
1 TATAATATA-TA-AATGTTATAATAA
23144447 ACATTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 9 0.39
27 2 0.09
28 12 0.52
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (26 bp):
TATAATATATAAATGTTATAATAAGG
Found at i:23145464 original size:41 final size:41
Alignment explanation
Indices: 23145348--23145471 Score: 185
Period size: 41 Copynumber: 3.0 Consensus size: 41
23145338 TTAGTGATAT
* * *
23145348 TCAGGCTTTATGCCTAGCAGGCTTTATGTCGGTGAATTATA
1 TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGTATCATA
* * *
23145389 TCAAGCTTTATGCCTAGCAGGCTTCATGCCGGTGTACCATA
1 TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGTATCATA
*
23145430 TCAGGCTTTATGCCTAGCAGGCTTTGTGCCGGTGTATCATA
1 TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGTATCATA
23145471 T
1 T
23145472 TTGGATTTGT
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 73 1.00
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.34
Consensus pattern (41 bp):
TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGTATCATA
Found at i:23150376 original size:22 final size:22
Alignment explanation
Indices: 23150348--23150401 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
23150338 TTCAACTTTC
* *
23150348 TTAATTAAGCTTTAA-TAAATCA
1 TTAATTAAGC-CTAATTAAACCA
23150370 TTAATTAAGCCTAATTAAACCA
1 TTAATTAAGCCTAATTAAACCA
23150392 TTAATTAAGC
1 TTAATTAAGC
23150402 ATAACCTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 3 0.10
22 26 0.90
ACGTcount: A:0.44, C:0.13, G:0.06, T:0.37
Consensus pattern (22 bp):
TTAATTAAGCCTAATTAAACCA
Found at i:23153250 original size:19 final size:18
Alignment explanation
Indices: 23153222--23153257 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
23153212 TTTAGAATGT
*
23153222 AAAAATTAAATTAAAAAC
1 AAAAATTAAAATAAAAAC
23153240 AAAATATTAAAATAAAAA
1 AAAA-ATTAAAATAAAAA
23153258 TTAAAATGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (18 bp):
AAAAATTAAAATAAAAAC
Found at i:23156354 original size:25 final size:25
Alignment explanation
Indices: 23156323--23156374 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
23156313 TATTTAAAAA
*
23156323 ATTAAATATAATA-ATTTATTTTTAT
1 ATTAAATA-AATATAATTATTTTTAT
23156348 ATTAAATAAATATAATTATTTTTAT
1 ATTAAATAAATATAATTATTTTTAT
23156373 AT
1 AT
23156375 ATAATAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 4 0.16
25 21 0.84
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (25 bp):
ATTAAATAAATATAATTATTTTTAT
Found at i:23156380 original size:25 final size:25
Alignment explanation
Indices: 23156323--23156385 Score: 78
Period size: 25 Copynumber: 2.5 Consensus size: 25
23156313 TATTTAAAAA
23156323 ATTAAAT-ATAATAATTTATTTTTAT
1 ATTAAATAAT-ATAATTTATTTTTAT
23156348 ATTAAATAAATATAA-TTATTTTTAT
1 ATTAAAT-AATATAATTTATTTTTAT
23156373 A-TATAATAATATA
1 ATTA-AATAATATA
23156386 GCGTAAAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
24 8 0.23
25 21 0.60
26 4 0.11
27 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (25 bp):
ATTAAATAATATAATTTATTTTTAT
Found at i:23157231 original size:26 final size:26
Alignment explanation
Indices: 23157191--23157240 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
23157181 TCAATTAAAT
* *
23157191 TAGTCATATATGTAGTTATTTTTTAA
1 TAGTCAAATAGGTAGTTATTTTTTAA
*
23157217 TAGTCAAATAGGTAGTTTTTTTTT
1 TAGTCAAATAGGTAGTTATTTTTT
23157241 TTAAAAGATG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.28, C:0.04, G:0.14, T:0.54
Consensus pattern (26 bp):
TAGTCAAATAGGTAGTTATTTTTTAA
Found at i:23162926 original size:30 final size:29
Alignment explanation
Indices: 23162892--23162955 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
23162882 ATTGCAGCAA
* *
23162892 CATGCAAGAAACCATGCAACACAGCTGCAG
1 CATGCAACAAACCA-GCAACACAGCTGAAG
* *
23162922 CATGCAACTAACCAGGAACACAGCTGAAG
1 CATGCAACAAACCAGCAACACAGCTGAAG
23162951 CATGC
1 CATGC
23162956 TAATGTCCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 18 0.60
30 12 0.40
ACGTcount: A:0.39, C:0.30, G:0.20, T:0.11
Consensus pattern (29 bp):
CATGCAACAAACCAGCAACACAGCTGAAG
Found at i:23163920 original size:44 final size:44
Alignment explanation
Indices: 23163866--23163955 Score: 153
Period size: 44 Copynumber: 2.0 Consensus size: 44
23163856 TTTGCCAAAA
23163866 CTTTTAACCAAGTTTAGTTTGAGGTATTCAAAGGCCGAAACTAT
1 CTTTTAACCAAGTTTAGTTTGAGGTATTCAAAGGCCGAAACTAT
* * *
23163910 CTTTTGACCAAGTTTAGTTTGAGGTCTTCAAAGGCCGAAGCTAT
1 CTTTTAACCAAGTTTAGTTTGAGGTATTCAAAGGCCGAAACTAT
23163954 CT
1 CT
23163956 ACCTAAACCA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (44 bp):
CTTTTAACCAAGTTTAGTTTGAGGTATTCAAAGGCCGAAACTAT
Found at i:23167826 original size:41 final size:41
Alignment explanation
Indices: 23167764--23167948 Score: 327
Period size: 41 Copynumber: 4.5 Consensus size: 41
23167754 GACTTTAAGT
*
23167764 CTAGTAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
23167805 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
*
23167846 CTAGTAGGCTAAGTGCCGGTGATCTGAATCAGGTTAT-AAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* *
23167886 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
23167927 CTAGCAGGCTAAGTGCCGGTGA
1 CTAGCAGGCTAAGTGCCGGTGA
23167949 ATATGTTAAA
Statistics
Matches: 138, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
40 38 0.28
41 100 0.72
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:23167924 original size:81 final size:82
Alignment explanation
Indices: 23167764--23167948 Score: 336
Period size: 81 Copynumber: 2.3 Consensus size: 82
23167754 GACTTTAAGT
23167764 CTAGTAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATC
1 CTAGTAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATC
*
23167829 TGAATCAGGTTATAAAC
66 TGAATCAGGCTATAAAC
23167846 CTAGTAGGCTAAGTGCCGGTGATCTGAATCAGGTTAT-AACCTAGCAGGCTAAGTGCCGGTGATC
1 CTAGTAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATC
*
23167910 TGAATCAGGCTATAAGC
66 TGAATCAGGCTATAAAC
*
23167927 CTAGCAGGCTAAGTGCCGGTGA
1 CTAGTAGGCTAAGTGCCGGTGA
23167949 ATATGTTAAA
Statistics
Matches: 100, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
81 63 0.63
82 37 0.37
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (82 bp):
CTAGTAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATC
TGAATCAGGCTATAAAC
Found at i:23174054 original size:95 final size:95
Alignment explanation
Indices: 23173891--23174084 Score: 388
Period size: 95 Copynumber: 2.0 Consensus size: 95
23173881 AAGATACAAT
23173891 GAAAGAGCGTTATCCAAACCTATTCACCGATAAGATTTTTGAGGACGAAAATCCCTAAGGAGGGA
1 GAAAGAGCGTTATCCAAACCTATTCACCGATAAGATTTTTGAGGACGAAAATCCCTAAGGAGGGA
23173956 GAGTTGTAACAACCCGGTTTGACTCGAATC
66 GAGTTGTAACAACCCGGTTTGACTCGAATC
23173986 GAAAGAGCGTTATCCAAACCTATTCACCGATAAGATTTTTGAGGACGAAAATCCCTAAGGAGGGA
1 GAAAGAGCGTTATCCAAACCTATTCACCGATAAGATTTTTGAGGACGAAAATCCCTAAGGAGGGA
23174051 GAGTTGTAACAACCCGGTTTGACTCGAATC
66 GAGTTGTAACAACCCGGTTTGACTCGAATC
23174081 GAAA
1 GAAA
23174085 TAGTGGTTTT
Statistics
Matches: 99, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 99 1.00
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.23
Consensus pattern (95 bp):
GAAAGAGCGTTATCCAAACCTATTCACCGATAAGATTTTTGAGGACGAAAATCCCTAAGGAGGGA
GAGTTGTAACAACCCGGTTTGACTCGAATC
Found at i:23179014 original size:26 final size:26
Alignment explanation
Indices: 23178975--23179035 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
23178965 CCGTTATTTG
*
23178975 GTGGATTCAACACTTAGCAACTACCA
1 GTGGATTCAGCACTTAGCAACTACCA
*
23179001 GTGGATTCAGCACTTAGCAACTACTA
1 GTGGATTCAGCACTTAGCAACTACCA
23179027 GT-GATTCAG
1 GTGGATTCAG
23179036 GGAATCAGGA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
25 7 0.21
26 26 0.79
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (26 bp):
GTGGATTCAGCACTTAGCAACTACCA
Found at i:23179272 original size:76 final size:75
Alignment explanation
Indices: 23179108--23179296 Score: 254
Period size: 76 Copynumber: 2.5 Consensus size: 75
23179098 AAGAAATATG
* * ** * *
23179108 CCACCAATGATTCGGGGAATCAACACTTAGCAACCCC-TTACACAATCGGTTACGGTGGGATCAA
1 CCACCGATGATTTGGGGAATCAACACTTAGCAACCCCTTTACACAATAAGTTACAGTGGAATCAA
23179172 CACTTAGCAA
66 CACTTAGCAA
* * * *
23179182 CCACCGATGATTTGGGGAATCAGCAGTTAGCAACCCCTTTTCACATTTAAGTTACAGTGGAATCA
1 CCACCGATGATTTGGGGAATCAACACTTAGCAACCCCTTTACACA-ATAAGTTACAGTGGAATCA
*
23179247 GCACTTAGCAA
65 ACACTTAGCAA
*
23179258 CCACCGATGTTTTGGGGAATCAACACTTAGCAACCCCTT
1 CCACCGATGATTTGGGGAATCAACACTTAGCAACCCCTT
23179297 GGGGGAATCA
Statistics
Matches: 99, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
74 33 0.33
75 6 0.06
76 60 0.61
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (75 bp):
CCACCGATGATTTGGGGAATCAACACTTAGCAACCCCTTTACACAATAAGTTACAGTGGAATCAA
CACTTAGCAA
Found at i:23181100 original size:125 final size:126
Alignment explanation
Indices: 23180872--23181319 Score: 650
Period size: 125 Copynumber: 3.6 Consensus size: 126
23180862 CCCAAACATG
* * *
23180872 CTACTGTAGCAAAAGCGTGTCCACGAGGGCGCGATTTCATAAATTCTTCTGATAAAGCATCCTG-
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
23180936 TTTGAAGCATTTTTTATACTATTTACTCAGAAACATCAACTCGAAATTATTTTTTCAAGAC
66 TTTGAAGCATTTTTTATACTATTTACTCAGAAACATCAACTCGAAATTATTTTTTCAAGAC
* *
23180997 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCAATTTCAGAAATTCTTCTGATAAAGCATCCTG-
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
* ** * *
23181061 TTTGAAGCATTTTTTATACTATTTGCTCAGAAATGTCAACTCAAAATTATTTTTTCAGGAC
66 TTTGAAGCATTTTTTATACTATTTACTCAGAAACATCAACTCGAAATTATTTTTTCAAGAC
* *
23181122 CTACTGTAGCAAAAGCACGTCCACGTGGGCGCGATTTTAGAAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
* * ** * *
23181187 TTGGAGTGTTTTTTTTTTATACTATTTTCTCAAAAACATCAACTCGAAATTATTTTTTCAAGAC
66 TTTGA-AG--CATTTTTTATACTATTTACTCAGAAACATCAACTCGAAATTATTTTTTCAAGAC
* * * *
23181251 CTACTGTAGCAAAAGCGCGTCCACCTGGGCGCGA-TTCAGAAATTCTTTTGTTAAAGCATCTTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
23181315 TTTGA
66 TTTGA
23181320 TTTTATCTTA
Statistics
Matches: 288, Mismatches: 31, Indels: 5
0.89 0.10 0.02
Matches are distributed among these distances:
125 175 0.61
126 4 0.01
127 1 0.00
128 30 0.10
129 78 0.27
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (126 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
TTTGAAGCATTTTTTATACTATTTACTCAGAAACATCAACTCGAAATTATTTTTTCAAGAC
Found at i:23183003 original size:1 final size:1
Alignment explanation
Indices: 23182999--23183044 Score: 74
Period size: 1 Copynumber: 46.0 Consensus size: 1
23182989 AAGAAATAAC
* *
23182999 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACAAAAACAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
23183045 TGCTCCATTA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.96, C:0.04, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:23183846 original size:18 final size:18
Alignment explanation
Indices: 23183763--23183858 Score: 51
Period size: 18 Copynumber: 5.3 Consensus size: 18
23183753 TTCATATTTT
23183763 AAATT-AAAAA-TA-AAA
1 AAATTCAAAAATTATAAA
*
23183778 AAATTTAAAAATTATAATCTAA
1 AAATTCAAAAATTAT-A---AA
23183800 CAAATTCAAAAATTATAAA
1 -AAATTCAAAAATTATAAA
* * *
23183819 AAA-TAAAAAAATATTTAA
1 AAATTCAAAAATTA-TAAA
23183837 AAATTC-AAAATTA-AAA
1 AAATTCAAAAATTATAAA
23183853 ACAATT
1 A-AATT
23183859 TTTTAAAAAT
Statistics
Matches: 63, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
15 5 0.08
16 8 0.13
17 14 0.22
18 15 0.24
19 4 0.06
22 3 0.05
23 14 0.22
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (18 bp):
AAATTCAAAAATTATAAA
Found at i:23183846 original size:27 final size:29
Alignment explanation
Indices: 23183807--23183868 Score: 67
Period size: 28 Copynumber: 2.2 Consensus size: 29
23183797 TAACAAATTC
*
23183807 AAAAATTATAAAAAATAAAAA-AA-TATTT
1 AAAAATTA-CAAAAATAAAAACAATTATTT
* *
23183835 AAAAATT-CAAAATTAAAAACAATTTTTT
1 AAAAATTACAAAAATAAAAACAATTATTT
23183863 AAAAAT
1 AAAAAT
23183869 CATTTAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 10 0.34
27 2 0.07
28 17 0.59
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (29 bp):
AAAAATTACAAAAATAAAAACAATTATTT
Found at i:23183874 original size:39 final size:38
Alignment explanation
Indices: 23183825--23183907 Score: 105
Period size: 39 Copynumber: 2.2 Consensus size: 38
23183815 TAAAAAATAA
*
23183825 AAAAATATTTAAAAA-TTCAAAATTAAAAACAATTTTTT
1 AAAAATATTTAAAAAGTTCAAAATTAAAAA-AATTATTT
* **
23183863 AAAAATCATTTAAAAAGTTTAAAATTATTAAAATTATTT
1 AAAAAT-ATTTAAAAAGTTCAAAATTAAAAAAATTATTT
23183902 AAAAAT
1 AAAAAT
23183908 TAAAAAAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
38 6 0.15
39 22 0.56
40 11 0.28
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.37
Consensus pattern (38 bp):
AAAAATATTTAAAAAGTTCAAAATTAAAAAAATTATTT
Found at i:23188372 original size:20 final size:20
Alignment explanation
Indices: 23188325--23188373 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
23188315 TTTTCCTTTT
23188325 AATTTTCTTTTATTGCACCAC
1 AATTTTC-TTTATTGCACCAC
* * * *
23188346 AAATTTCTTTCTTGTACTAC
1 AATTTTCTTTATTGCACCAC
23188366 AATTTTCT
1 AATTTTCT
23188374 AACAGAGGAT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.24, C:0.20, G:0.04, T:0.51
Consensus pattern (20 bp):
AATTTTCTTTATTGCACCAC
Found at i:23192080 original size:3 final size:3
Alignment explanation
Indices: 23192072--23192119 Score: 80
Period size: 3 Copynumber: 16.0 Consensus size: 3
23192062 TTGTATTAAG
23192072 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -ATA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA
23192117 TAA
1 TAA
23192120 ATAAAAGTAA
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 1 0.02
3 41 0.95
4 1 0.02
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:23197073 original size:65 final size:65
Alignment explanation
Indices: 23196968--23197113 Score: 166
Period size: 65 Copynumber: 2.2 Consensus size: 65
23196958 GCGGTCGTAC
* * * * * * **
23196968 CACAGCTCTTTGTGAACGTCTTATTATATGATCGGTTGTGATCTTGCATATATAGGGGACACAAA
1 CACAGCTCTTTGTGAGCATCTTATTATACGATCGATTGTGATCCTACATATATAGCAGACACAAA
* * * * *
23197033 TACAGCTCTTTGTGAGCATCTTGTTTTACGATCGATTGTGATCCTACATATGTCGCAGACACAAA
1 CACAGCTCTTTGTGAGCATCTTATTATACGATCGATTGTGATCCTACATATATAGCAGACACAAA
*
23197098 CACAACTCTTTGTGAG
1 CACAGCTCTTTGTGAG
23197114 TGTCCTGATA
Statistics
Matches: 66, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (65 bp):
CACAGCTCTTTGTGAGCATCTTATTATACGATCGATTGTGATCCTACATATATAGCAGACACAAA
Found at i:23201353 original size:5 final size:5
Alignment explanation
Indices: 23201343--23201368 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
23201333 TGAGCATTCG
23201343 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
23201369 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:23201466 original size:5 final size:5
Alignment explanation
Indices: 23201458--23201483 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
23201448 GAGATGGAAT
23201458 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
23201484 ATATTTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:23201483 original size:26 final size:26
Alignment explanation
Indices: 23201432--23201483 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
23201422 TGAAATTTTC
* * *
23201432 TCGAATCGAGTCGAGTGAGATGGAAT
1 TCGAATCGAATCGAATGAGATCGAAT
23201458 TCGAATCGAATCGAATCGA-ATCGAAT
1 TCGAATCGAATCGAAT-GAGATCGAAT
23201484 ATATTTGTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (26 bp):
TCGAATCGAATCGAATGAGATCGAAT
Found at i:23202271 original size:9 final size:9
Alignment explanation
Indices: 23202254--23202284 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
23202244 TCGAGTTGAT
23202254 TCGAATAAC
1 TCGAATAAC
*
23202263 TCGATTAAC
1 TCGAATAAC
23202272 TCGAATAAC
1 TCGAATAAC
23202281 TCGA
1 TCGA
23202285 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:23213533 original size:26 final size:26
Alignment explanation
Indices: 23213503--23213560 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
23213493 TTGGAGCTCT
*
23213503 TGATTAAAAGCTCTTCATGAGCTTCC
1 TGATTAAAAGCTCTTCATGAACTTCC
* **
23213529 TGATTAAAAGTTCTTTGTGAACTTCC
1 TGATTAAAAGCTCTTCATGAACTTCC
23213555 TGATTA
1 TGATTA
23213561 TGCCTCTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.40
Consensus pattern (26 bp):
TGATTAAAAGCTCTTCATGAACTTCC
Found at i:23213645 original size:26 final size:26
Alignment explanation
Indices: 23213609--23213665 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
23213599 TTTCCCAATA
23213609 GGCTCTTTGTGAGCTTCATGATTA-AT
1 GGCTCTTTGTGAGCTTCATG-TTATAT
* *
23213635 GGCTCTTTGTGAGTTTCCTGTTATAT
1 GGCTCTTTGTGAGCTTCATGTTATAT
23213661 GGCTC
1 GGCTC
23213666 GAGAGAGGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 3 0.11
26 25 0.89
ACGTcount: A:0.14, C:0.18, G:0.25, T:0.44
Consensus pattern (26 bp):
GGCTCTTTGTGAGCTTCATGTTATAT
Found at i:23218504 original size:44 final size:43
Alignment explanation
Indices: 23218441--23218590 Score: 131
Period size: 44 Copynumber: 3.4 Consensus size: 43
23218431 TAGGGGTAAG
* * *
23218441 ATATGCTATGCTATGATATGTGATAAGAAAAGTTTCGATATGCA
1 ATATGATATGCTATGATATGTAATAAGAAAAGTTCCGATATG-A
* * * * *
23218485 ATATGATATGCTATGATATGTTACTAAGTATA-CTCCAATATGAA
1 ATATGATATGCTATGATATG-TAATAAGAAAAGTTCCGATATG-A
* * * * * *
23218529 ATTTGATATGATGTGATATGTAATAAGATATGTCCCGATATGA
1 ATATGATATGCTATGATATGTAATAAGAAAAGTTCCGATATGA
23218572 CATATGATATGCTATGATA
1 -ATATGATATGCTATGATA
23218591 CATTCCATTA
Statistics
Matches: 80, Mismatches: 23, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
43 7 0.09
44 66 0.82
45 7 0.09
ACGTcount: A:0.37, C:0.09, G:0.18, T:0.36
Consensus pattern (43 bp):
ATATGATATGCTATGATATGTAATAAGAAAAGTTCCGATATGA
Found at i:23225104 original size:13 final size:13
Alignment explanation
Indices: 23225081--23225125 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
23225071 AAAGTACTTA
23225081 TCAAAAGCACTTTT
1 TCAAAA-CACTTTT
*
23225095 TCACAACACTTTT
1 TCAAAACACTTTT
*
23225108 TAAAAACA-TTTT
1 TCAAAACACTTTT
23225120 TCAAAA
1 TCAAAA
23225126 GTAATGCTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
12 9 0.33
13 13 0.48
14 5 0.19
ACGTcount: A:0.42, C:0.20, G:0.02, T:0.36
Consensus pattern (13 bp):
TCAAAACACTTTT
Found at i:23228305 original size:47 final size:46
Alignment explanation
Indices: 23228236--23228327 Score: 139
Period size: 47 Copynumber: 2.0 Consensus size: 46
23228226 CTGCCAATTA
*
23228236 ATAATATTATGGACAAGCCACCACTTTTGTAGATAAACTACCACTTT
1 ATAATATTATAGACAAGCCACCAC-TTTGTAGATAAACTACCACTTT
* * *
23228283 ATAATATTGTAGACAAGCCACCACTTTGTATATAAACTGCCACTT
1 ATAATATTATAGACAAGCCACCACTTTGTAGATAAACTACCACTT
23228328 CTTGCTCATT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
46 19 0.46
47 22 0.54
ACGTcount: A:0.36, C:0.22, G:0.11, T:0.32
Consensus pattern (46 bp):
ATAATATTATAGACAAGCCACCACTTTGTAGATAAACTACCACTTT
Found at i:23228406 original size:20 final size:21
Alignment explanation
Indices: 23228373--23228413 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
23228363 ATATGGCCAC
*
23228373 AAAAATTTACTTTTTCACTTT
1 AAAAATTTAATTTTTCACTTT
23228394 AAAAA-TTAATTTTTCACTTT
1 AAAAATTTAATTTTTCACTTT
23228414 GGCATGTGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.37, C:0.12, G:0.00, T:0.51
Consensus pattern (21 bp):
AAAAATTTAATTTTTCACTTT
Found at i:23239772 original size:11 final size:10
Alignment explanation
Indices: 23239751--23239789 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
23239741 ATTTTACAAT
*
23239751 ATTTTTAATA
1 ATTTTTTATA
23239761 ATTTCTTTATA
1 ATTT-TTTATA
23239772 ATTTTTTATA
1 ATTTTTTATA
*
23239782 ATGTTTTA
1 ATTTTTTA
23239790 GATAACTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 17 0.65
11 9 0.35
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (10 bp):
ATTTTTTATA
Found at i:23245954 original size:18 final size:18
Alignment explanation
Indices: 23245928--23245966 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
23245918 AGGAATAAGA
23245928 AATTCAATTAGGTTAATT
1 AATTCAATTAGGTTAATT
* *
23245946 AATTTAATTAGTTTAATT
1 AATTCAATTAGGTTAATT
23245964 AAT
1 AAT
23245967 ACTTTAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.49
Consensus pattern (18 bp):
AATTCAATTAGGTTAATT
Found at i:23249805 original size:16 final size:16
Alignment explanation
Indices: 23249784--23249829 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
23249774 AAGGGCTTAT
23249784 ATTTTAATTTGTTTTA
1 ATTTTAATTTGTTTTA
23249800 ATTTTAATTT-TCTTTA
1 ATTTTAATTTGT-TTTA
* *
23249816 TTTTTCATTTGTTT
1 ATTTTAATTTGTTT
23249830 GTTTTCTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 1 0.04
16 24 0.92
17 1 0.04
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.72
Consensus pattern (16 bp):
ATTTTAATTTGTTTTA
Found at i:23251232 original size:18 final size:17
Alignment explanation
Indices: 23251198--23251230 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
23251188 TAACCGTTAG
23251198 CCGAATCGATTTTTTTA
1 CCGAATCGATTTTTTTA
23251215 CCGAATCGATTTTTTT
1 CCGAATCGATTTTTTT
23251231 TAAAAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.18, G:0.12, T:0.48
Consensus pattern (17 bp):
CCGAATCGATTTTTTTA
Found at i:23260035 original size:92 final size:87
Alignment explanation
Indices: 23259885--23260059 Score: 287
Period size: 92 Copynumber: 2.0 Consensus size: 87
23259875 ATAAGAGAAA
*
23259885 AGACACAAGTAAGCTTAATTGAGCTTAGTAAACGGTTAAAATAATAAACTTACCGAATAAGCATA
1 AGACACAAGTAAGCTTAATTGAGCTTAGTAAACGGTTAAAATAATAAACTTACCGAATAAACATA
*
23259950 TCTATTACAGAATACAGAATAG
66 TCTATTACAAAATACAGAATAG
23259972 AGACACAAGTAAGCTTAATTGAGCTTAGTAAGTTCAACGGTTAAAATAATAAACTTACCGAATAA
1 AGACACAAGTAAGCTTAATTGAGCTTAGT-A----AACGGTTAAAATAATAAACTTACCGAATAA
23260037 ACATATCTATTACAAAATACAGA
61 ACATATCTATTACAAAATACAGA
23260060 TAATAAATCA
Statistics
Matches: 81, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
87 29 0.36
88 1 0.01
92 51 0.63
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.26
Consensus pattern (87 bp):
AGACACAAGTAAGCTTAATTGAGCTTAGTAAACGGTTAAAATAATAAACTTACCGAATAAACATA
TCTATTACAAAATACAGAATAG
Found at i:23261808 original size:20 final size:19
Alignment explanation
Indices: 23261748--23261808 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
23261738 GAAAAATTTA
**
23261748 TTTATATTAATTTAGCCATT
1 TTTATATTAATTTA-AAATT
**
23261768 TTTATATTAATTTAATGTT
1 TTTATATTAATTTAAAATT
*
23261787 TTTATTTTTAATTTAAAATT
1 TTTA-TATTAATTTAAAATT
23261807 TT
1 TT
23261809 ACATTCTAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 6 0.18
20 28 0.82
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.62
Consensus pattern (19 bp):
TTTATATTAATTTAAAATT
Found at i:23264660 original size:14 final size:14
Alignment explanation
Indices: 23264633--23264669 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
23264623 ATATTATTTT
23264633 AAAAAATATTTGAAA
1 AAAAAAT-TTTGAAA
*
23264648 AAGAAATTTTGAAA
1 AAAAAATTTTGAAA
23264662 AAAAAATT
1 AAAAAATT
23264670 GAAAATGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
14 14 0.70
15 6 0.30
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (14 bp):
AAAAAATTTTGAAA
Found at i:23264671 original size:26 final size:25
Alignment explanation
Indices: 23264628--23264679 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
23264618 ATTTCATATT
* *
23264628 ATTTTAAAAAATATTTGAAAAAGAA
1 ATTTTAAAAAAAAATTGAAAAAGAA
*
23264653 ATTTTGAAAAAAAAATTGAAAATGAA
1 ATTTT-AAAAAAAAATTGAAAAAGAA
23264679 A
1 A
23264680 GAAAAGAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.29
Consensus pattern (25 bp):
ATTTTAAAAAAAAATTGAAAAAGAA
Found at i:23265188 original size:6 final size:6
Alignment explanation
Indices: 23265177--23265216 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
23265167 TTGTCTTTTA
* *
23265177 TTTATT TTTATT TTTATT TTTATC CTTATT ATTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTTATT -TTTATT TTT
23265217 TCTTCCTTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 24 0.83
7 5 0.17
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTATT
Found at i:23266090 original size:335 final size:336
Alignment explanation
Indices: 23265480--23266152 Score: 1339
Period size: 335 Copynumber: 2.0 Consensus size: 336
23265470 CTTTCCTTTT
23265480 TCCCTTTTCCCTTCGTGCCACTGCGGGTCGAACTTGCTCTTGCTCTCCATGCCACCATAACCCTC
1 TCCCTTTTCCCTTCGTGCCACTGCGGGTCGAACTTGCTCTTGCTCTCCATGCCACCATAACCCTC
23265545 TTTCCCCTTCCCTTTCTTCTTCTGTTCTTCCCCACCACCTCGAATGCCTCTTCCCCCTCTCGTTC
66 TTTCCCCTTCCCTTTCTTCTTCTGTTCTTCCCCACCACCTCGAATGCCTCTTCCCCCTCTCGTTC
23265610 CTTGTCTTTTCACCGCAGTTCGCTACTTACAACCATCCTTCACGTCGCTGACCATAGTCCTTCCC
131 CTTGTCTTTTCACCGCAGTTCGCTACTTACAACCATCCTTCACGTCGCTGACCATAGTCCTTCCC
23265675 TTGCTGGTTATACCTTCGTCTATAGGTCGTCCACCCAAACACCTCCCATTTGTGTCCCCTCTAAT
196 TTGCTGGTTATACCTTCGTCTATAGGTCGTCCACCCAAACACCTCCCATTTGTGTCCCCTCTAAT
23265740 CCCATTTTTGTATTTTAGTTCAATATTATTATATTATTTTATATTTATTATTATTTTTACTATTA
261 CCCATTTTTGTATTTTAGTTCAATATTATTATATTATTTTATATTTATTATTATTTTTACTATTA
23265805 -GTATTTACTC
326 TGTATTTACTC
23265815 TCCCTTTTCCCTTCGTGCCACTGCGGGTCGAACTTGCTCTTGCTCTCCATGCCACCATAACCCTC
1 TCCCTTTTCCCTTCGTGCCACTGCGGGTCGAACTTGCTCTTGCTCTCCATGCCACCATAACCCTC
23265880 TTTCCCCTTCCCTTTCTTCTTCTGTTCTTCCCCACCACCTCGAATGCCTCTTCCCCCTCTCGTTC
66 TTTCCCCTTCCCTTTCTTCTTCTGTTCTTCCCCACCACCTCGAATGCCTCTTCCCCCTCTCGTTC
23265945 CTTGTCTTTTCACCGCAGTTCGCTACTTACAACCATCCTTCACGTCGCTGACCATAGTCCTTCCC
131 CTTGTCTTTTCACCGCAGTTCGCTACTTACAACCATCCTTCACGTCGCTGACCATAGTCCTTCCC
23266010 TTGCTGGTTATACCTTCGTCTATAGGTCGTCCACCCAAACACCTCCCATTTGTGTCCCCTCTAAT
196 TTGCTGGTTATACCTTCGTCTATAGGTCGTCCACCCAAACACCTCCCATTTGTGTCCCCTCTAAT
23266075 CCCATTTTTGTATTTTAGTTCAATATTATTATATTATTTTATATTTATTATTATTTTTACTATTA
261 CCCATTTTTGTATTTTAGTTCAATATTATTATATTATTTTATATTTATTATTATTTTTACTATTA
23266140 TGTATTTACTC
326 TGTATTTACTC
23266151 TC
1 TC
23266153 TTTCATTCTG
Statistics
Matches: 337, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
335 325 0.96
336 12 0.04
ACGTcount: A:0.16, C:0.33, G:0.10, T:0.40
Consensus pattern (336 bp):
TCCCTTTTCCCTTCGTGCCACTGCGGGTCGAACTTGCTCTTGCTCTCCATGCCACCATAACCCTC
TTTCCCCTTCCCTTTCTTCTTCTGTTCTTCCCCACCACCTCGAATGCCTCTTCCCCCTCTCGTTC
CTTGTCTTTTCACCGCAGTTCGCTACTTACAACCATCCTTCACGTCGCTGACCATAGTCCTTCCC
TTGCTGGTTATACCTTCGTCTATAGGTCGTCCACCCAAACACCTCCCATTTGTGTCCCCTCTAAT
CCCATTTTTGTATTTTAGTTCAATATTATTATATTATTTTATATTTATTATTATTTTTACTATTA
TGTATTTACTC
Done.