Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 95 of 344
Found at i:31747099 original size:115 final size:115
Alignment explanation
Indices: 31746833--31747091 Score: 410
Period size: 115 Copynumber: 2.3 Consensus size: 115
31746823 TATTGTATTA
* * * *
31746833 CAGGATTACCAGTCCAGGCTAAATCCTTTATGTAACGTATGCTCAGAAGAACTAAATTAGTATTA
1 CAGGATTACCCGTTCGGGCTAAATCCTTTATGTAATGTATGCTCAGAAGAACTAAATTAGTATTA
* * * *
31746898 CTAGTCTAGGTTAAATCCTAATTGTAACATATACTCAAGAGGAATTATAC
66 CTAGTCCAAGCTAAATCCTAATTGTAACATATACTCAAGAGAAATTATAC
*
31746948 CAGGATTACCCGTTCGGGCTAAATCCTTTATGTAATGTATGCTCAGAAGAACTCAATTAGTATTA
1 CAGGATTACCCGTTCGGGCTAAATCCTTTATGTAATGTATGCTCAGAAGAACTAAATTAGTATTA
* * *
31747013 CTAGTCCAAGCTAAATCCTAATTGTAACATATGCTCGAGAGAAATTATAT
66 CTAGTCCAAGCTAAATCCTAATTGTAACATATACTCAAGAGAAATTATAC
31747063 CAGGATTACCCGTTCGGGCTAAATCCTTT
1 CAGGATTACCCGTTCGGGCTAAATCCTTT
31747092 CTATAATGAG
Statistics
Matches: 132, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
115 132 1.00
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.31
Consensus pattern (115 bp):
CAGGATTACCCGTTCGGGCTAAATCCTTTATGTAATGTATGCTCAGAAGAACTAAATTAGTATTA
CTAGTCCAAGCTAAATCCTAATTGTAACATATACTCAAGAGAAATTATAC
Found at i:31747942 original size:31 final size:31
Alignment explanation
Indices: 31747907--31747970 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
31747897 GACAAGGAAA
*
31747907 CTTACCCAATTAAGCCTTGAAAGTTTCTTCT
1 CTTACCCAATTAAACCTTGAAAGTTTCTTCT
*
31747938 CTTACCCAATTAAACCTTGAAATTTTCTTCT
1 CTTACCCAATTAAACCTTGAAAGTTTCTTCT
31747969 CT
1 CT
31747971 CTCTCCTAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.27, C:0.27, G:0.06, T:0.41
Consensus pattern (31 bp):
CTTACCCAATTAAACCTTGAAAGTTTCTTCT
Found at i:31752120 original size:21 final size:22
Alignment explanation
Indices: 31752086--31752128 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
31752076 ATGTTTAATC
31752086 ATATTGAAAATTATAATATTTT
1 ATATTGAAAATTATAATATTTT
*
31752108 ATATT-AATATTATAATATTTT
1 ATATTGAAAATTATAATATTTT
31752129 TTAAAAGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (22 bp):
ATATTGAAAATTATAATATTTT
Found at i:31765653 original size:26 final size:26
Alignment explanation
Indices: 31765573--31765654 Score: 121
Period size: 26 Copynumber: 3.2 Consensus size: 26
31765563 TGAAATTCCC
*
31765573 ATCATAGAACATTTACTTAACCCATT
1 ATCATAGAACATTTACCTAACCCATT
*
31765599 ATAAT-GAAACATTTACCTAACCCATT
1 ATCATAG-AACATTTACCTAACCCATT
*
31765625 ATCATAGAACATTTACCTAATCCATT
1 ATCATAGAACATTTACCTAACCCATT
31765651 ATCA
1 ATCA
31765655 ATTTGTACCA
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
25 1 0.02
26 48 0.96
27 1 0.02
ACGTcount: A:0.40, C:0.23, G:0.04, T:0.33
Consensus pattern (26 bp):
ATCATAGAACATTTACCTAACCCATT
Found at i:31769611 original size:24 final size:24
Alignment explanation
Indices: 31769579--31769637 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
31769569 AGGACACACA
* *
31769579 TAAACCTCCACGATACTCAGGTGG
1 TAAACCTCCACGACACTCAGGAGG
* *
31769603 TAAACCTCCAAGACACTCGGGAGG
1 TAAACCTCCACGACACTCAGGAGG
31769627 TAAACCTCCAC
1 TAAACCTCCAC
31769638 ATGTTGAGGG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.32, C:0.32, G:0.19, T:0.17
Consensus pattern (24 bp):
TAAACCTCCACGACACTCAGGAGG
Found at i:31769832 original size:23 final size:24
Alignment explanation
Indices: 31769780--31769838 Score: 93
Period size: 24 Copynumber: 2.5 Consensus size: 24
31769770 AGGGCACACA
31769780 TAAACCTCCACAACACTCAGGTGG
1 TAAACCTCCACAACACTCAGGTGG
* *
31769804 TAAACCTCCACGACATTCAGG-GG
1 TAAACCTCCACAACACTCAGGTGG
31769827 TAAACCTCCACA
1 TAAACCTCCACA
31769839 TGTTGAAGGA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
23 13 0.41
24 19 0.59
ACGTcount: A:0.34, C:0.34, G:0.15, T:0.17
Consensus pattern (24 bp):
TAAACCTCCACAACACTCAGGTGG
Found at i:31769982 original size:24 final size:24
Alignment explanation
Indices: 31769950--31770009 Score: 93
Period size: 24 Copynumber: 2.5 Consensus size: 24
31769940 AGGGCACACA
*
31769950 TAAACCTCCACAACAATCAGGTGG
1 TAAACCTCCACAACAATCAGGGGG
* *
31769974 TAAACCTCCACGACATTCAGGGGG
1 TAAACCTCCACAACAATCAGGGGG
31769998 TAAACCTCCACA
1 TAAACCTCCACA
31770010 TGTTGAAGGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.35, C:0.32, G:0.17, T:0.17
Consensus pattern (24 bp):
TAAACCTCCACAACAATCAGGGGG
Found at i:31770079 original size:171 final size:171
Alignment explanation
Indices: 31769678--31770270 Score: 852
Period size: 171 Copynumber: 3.4 Consensus size: 171
31769668 CCATGAAGCC
* * * *
31769678 ATTCCCTGGTGACAAACCATCTAAGGGTAATGAAAAGGGAGCACCTCATGAACCTAAACCTCCTC
1 ATTCCCTGGTGACAAACCATCCAAGGGTAAGGGAAAGGGAGCACCTCATGAACCCAAACCTCCTC
*
31769743 ATAGACACTTATTGAGTGTGGAAGTTGAGGGCACACATAAACCTCCACAACACTCAGGTGGTAAA
66 ATAGACACCTATTGAGTGTGGAAGTTGAGGGCACACATAAACCTCCACAACACTCAGGTGGTAAA
31769808 CCTCCACGACATTCA-GGGGTAAACCTCCACATGTTGAAGG
131 CCTCCACGACATTCAGGGGGTAAACCTCCACATGTTGAAGG
*
31769848 ATTCCCTGGTGACAAACCATCCAAGGGTAAGGGAAAGGGGGCACCTCATGAACCCAAACCTCCTC
1 ATTCCCTGGTGACAAACCATCCAAGGGTAAGGGAAAGGGAGCACCTCATGAACCCAAACCTCCTC
* *
31769913 ACAGACACCTATTGAGTGTGGAAGTTGAGGGCACACATAAACCTCCACAACAATCAGGTGGTAAA
66 ATAGACACCTATTGAGTGTGGAAGTTGAGGGCACACATAAACCTCCACAACACTCAGGTGGTAAA
31769978 CCTCCACGACATTCAGGGGGTAAACCTCCACATGTTGAAGG
131 CCTCCACGACATTCAGGGGGTAAACCTCCACATGTTGAAGG
31770019 ATTCCCTGGTGACAAACCATCCAAGGGTAAGGGAAAGGGAGCACCTCATGAACCCAAACCTCCTC
1 ATTCCCTGGTGACAAACCATCCAAGGGTAAGGGAAAGGGAGCACCTCATGAACCCAAACCTCCTC
* * * * *
31770084 ATAGACACCTATTGAATGTCGAAGTTGAGGACACACATAAGCCTCCACAACACTCAGGGGGTAAA
66 ATAGACACCTATTGAGTGTGGAAGTTGAGGGCACACATAAACCTCCACAACACTCAGGTGGTAAA
* * ** * * * **
31770149 CCTCCACATGTTGAAGGATTCCCCGACGGTAAGCCACC-CATG--AAACC
131 CCTCCAC-----G-A-CATT--CAGGGGGTAAACCTCCACATGTTGAAGG
* * *
31770196 ATTCCCCGGTGACAAACCATCCAAGGGTAAGGGAAAGGGAGTACCTCATGAACCTAAACCTCCTC
1 ATTCCCTGGTGACAAACCATCCAAGGGTAAGGGAAAGGGAGCACCTCATGAACCCAAACCTCCTC
31770261 ATAGACACCT
66 ATAGACACCT
31770271 CTTAAGTGAG
Statistics
Matches: 385, Mismatches: 28, Indels: 13
0.90 0.07 0.03
Matches are distributed among these distances:
170 137 0.36
171 154 0.40
176 1 0.00
177 75 0.19
178 3 0.01
179 4 0.01
180 11 0.03
ACGTcount: A:0.33, C:0.27, G:0.22, T:0.18
Consensus pattern (171 bp):
ATTCCCTGGTGACAAACCATCCAAGGGTAAGGGAAAGGGAGCACCTCATGAACCCAAACCTCCTC
ATAGACACCTATTGAGTGTGGAAGTTGAGGGCACACATAAACCTCCACAACACTCAGGTGGTAAA
CCTCCACGACATTCAGGGGGTAAACCTCCACATGTTGAAGG
Found at i:31771494 original size:18 final size:19
Alignment explanation
Indices: 31771464--31771504 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
31771454 ATTTAAAATT
* *
31771464 ATAAAATTTAAAAGTTGAA
1 ATAAAATTTAAAAATTAAA
31771483 ATAAAA-TTAAAAATTAAA
1 ATAAAATTTAAAAATTAAA
31771501 ATAA
1 ATAA
31771505 TTATAATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (19 bp):
ATAAAATTTAAAAATTAAA
Found at i:31774497 original size:17 final size:18
Alignment explanation
Indices: 31774465--31774516 Score: 70
Period size: 18 Copynumber: 2.8 Consensus size: 18
31774455 TTCTTCTCCC
31774465 TCTTCTTTTCTCTTTTCT
1 TCTTCTTTTCTCTTTTCT
31774483 TCTTCTTTT-TCTTTTCT
1 TCTTCTTTTCTCTTTTCT
31774500 TCATTCCTTCTTCTCTT
1 TC-TT-CTT-TTCTCTT
31774517 GTCATCGCAC
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
17 10 0.33
18 11 0.37
19 3 0.10
20 2 0.07
21 4 0.13
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.69
Consensus pattern (18 bp):
TCTTCTTTTCTCTTTTCT
Found at i:31777115 original size:31 final size:30
Alignment explanation
Indices: 31777080--31777184 Score: 88
Period size: 31 Copynumber: 3.4 Consensus size: 30
31777070 TACTCACATT
31777080 AATATTAAATTAATAAAATACTATAAAGATA
1 AATATTAAATTAATAAAATACTAT-AAGATA
* * * * *
31777111 AATATTAAATCAA-AATTAATA-TCTCACATT
1 AATATTAAATTAATAA--AATACTATAAGATA
* *
31777141 AATATTAAATTAGTAAAATACAATCAAGATA
1 AATATTAAATTAATAAAATACTAT-AAGATA
*
31777172 ACTATTAAATTAA
1 AATATTAAATTAA
31777185 ATTAAATATT
Statistics
Matches: 55, Mismatches: 14, Indels: 10
0.70 0.18 0.13
Matches are distributed among these distances:
29 4 0.07
30 17 0.31
31 30 0.55
32 4 0.07
ACGTcount: A:0.56, C:0.08, G:0.03, T:0.33
Consensus pattern (30 bp):
AATATTAAATTAATAAAATACTATAAGATA
Found at i:31777193 original size:61 final size:61
Alignment explanation
Indices: 31777072--31777189 Score: 184
Period size: 61 Copynumber: 2.0 Consensus size: 61
31777062 ATTGAAATTA
*
31777072 CTCACATTAATATTAAATTAATAAAATACTATAAAGATAAATATTAAATCAAAATTAATAT
1 CTCACATTAATATTAAATTAATAAAATACAATAAAGATAAATATTAAATCAAAATTAATAT
* * * *
31777133 CTCACATTAATATTAAATTAGTAAAATACAATCAAGATAACTATTAAAT-TAAATTAA
1 CTCACATTAATATTAAATTAATAAAATACAATAAAGATAAATATTAAATCAAAATTAA
31777190 ATATTAAATT
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
60 7 0.13
61 45 0.87
ACGTcount: A:0.54, C:0.09, G:0.03, T:0.34
Consensus pattern (61 bp):
CTCACATTAATATTAAATTAATAAAATACAATAAAGATAAATATTAAATCAAAATTAATAT
Found at i:31783525 original size:15 final size:16
Alignment explanation
Indices: 31783492--31783525 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
31783482 TTATGTGTTT
31783492 AAAATGTTTAAGTTAA
1 AAAATGTTTAAGTTAA
31783508 AAAATGTTTAAGTTAA
1 AAAATGTTTAAGTTAA
31783524 AA
1 AA
31783526 GGTTAATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.12, T:0.35
Consensus pattern (16 bp):
AAAATGTTTAAGTTAA
Found at i:31787778 original size:44 final size:46
Alignment explanation
Indices: 31787714--31787834 Score: 120
Period size: 47 Copynumber: 2.7 Consensus size: 46
31787704 AAGTGCTGAT
* ** * *
31787714 GCATGTCCCATACATTTCTTACACTAGCACGAACCTT-A-GCAGAG
1 GCATGTCCCAGACACGTCTTACACTAGCACCAACATTGAGGCAGAG
* * * * *
31787758 GCATGTCCCAGACACGTCTTACACCAGTTACCATCATTGAGGCCGAT
1 GCATGTCCCAGACACGTCTTACACTAG-CACCAACATTGAGGCAGAG
*
31787805 GCATGTCCTAGACACGTCTTACACTAGCAC
1 GCATGTCCCAGACACGTCTTACACTAGCAC
31787835 TCATCTCTAC
Statistics
Matches: 61, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
44 23 0.38
45 6 0.10
46 3 0.05
47 29 0.48
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.24
Consensus pattern (46 bp):
GCATGTCCCAGACACGTCTTACACTAGCACCAACATTGAGGCAGAG
Found at i:31787857 original size:47 final size:47
Alignment explanation
Indices: 31787758--31787877 Score: 122
Period size: 47 Copynumber: 2.5 Consensus size: 47
31787748 CTTAGCAGAG
* * * *
31787758 GCATGTCCCAGACACGTCTTACACCAGTTACCATCATTGAGGCCGAT
1 GCATGTCCTAGACACGTCTTACACTAGTCACCATCATTGACGCCGAT
31787805 GCATGTCCTAGACACGTCTTACACTAG-CACTCATC-TCT-ACGCCGAT
1 GCATGTCCTAGACACGTCTTACACTAGTCAC-CATCAT-TGACGCCGAT
*
31787851 GCCATGT-CTCAGACATGGTCTTACACT
1 G-CATGTCCT-AGACA-CGTCTTACACT
31787878 GGCTATTGTA
Statistics
Matches: 63, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
46 13 0.21
47 40 0.63
48 10 0.16
ACGTcount: A:0.24, C:0.33, G:0.17, T:0.26
Consensus pattern (47 bp):
GCATGTCCTAGACACGTCTTACACTAGTCACCATCATTGACGCCGAT
Found at i:31787903 original size:94 final size:94
Alignment explanation
Indices: 31787802--31787975 Score: 278
Period size: 94 Copynumber: 1.9 Consensus size: 94
31787792 CATTGAGGCC
* * *
31787802 GATGCATGTCCTAGACACGTCTTACACTAGCACTCATCTCTACG-CCGATGCCATGTCTCAGACA
1 GATGCATGTCCCAGACACGTCTTACACTAGCACTCATCTC-AAGACCGATGCCATGTCCCAGACA
31787866 TGGTCTTACACTGGCTATTGTAATGTGGCT
65 TGGTCTTACACTGGCTATTGTAATGTGGCT
* * *
31787896 GATGCATGTCCCAGACACGTCTTACACTAGCCCTCGTCTCAAGACCGATGCTATGTCCCAGACAT
1 GATGCATGTCCCAGACACGTCTTACACTAGCACTCATCTCAAGACCGATGCCATGTCCCAGACAT
31787961 GGTCTTACACTGGCT
66 GGTCTTACACTGGCT
31787976 CTCACATAAC
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
93 2 0.03
94 71 0.97
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (94 bp):
GATGCATGTCCCAGACACGTCTTACACTAGCACTCATCTCAAGACCGATGCCATGTCCCAGACAT
GGTCTTACACTGGCTATTGTAATGTGGCT
Found at i:31787954 original size:47 final size:46
Alignment explanation
Indices: 31787799--31787971 Score: 145
Period size: 47 Copynumber: 3.7 Consensus size: 46
31787789 CATCATTGAG
* * *
31787799 GCCGATGCATGTCCTAGACA-CGTCTTACACTAGCACTCATCTCTAC
1 GCCGATGCATGTCCCAGACATCGTCTTACACTAGCACTCGTCTC-AA
* * * * * ***
31787845 GCCGATGCCATGTCTCAGACATGGTCTTACACTGGCTA-TTGTAATGTG
1 GCCGATG-CATGTCCCAGACATCGTCTTACACTAGC-ACTCGT-CTCAA
* *
31787893 GCTGATGCATGTCCCAGACA-CGTCTTACACTAGCCCTCGTCTCAA
1 GCCGATGCATGTCCCAGACATCGTCTTACACTAGCACTCGTCTCAA
*
31787938 GACCGATGCTATGTCCCAGACATGGTCTTACACT
1 G-CCGATGC-ATGTCCCAGACATCGTCTTACACT
31787972 GGCTCTCACA
Statistics
Matches: 97, Mismatches: 22, Indels: 14
0.73 0.17 0.11
Matches are distributed among these distances:
45 2 0.02
46 28 0.29
47 35 0.36
48 30 0.31
49 2 0.02
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATCGTCTTACACTAGCACTCGTCTCAA
Found at i:31794782 original size:47 final size:47
Alignment explanation
Indices: 31794719--31794839 Score: 224
Period size: 47 Copynumber: 2.6 Consensus size: 47
31794709 CCCTTCGGGA
* *
31794719 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31794766 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31794813 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
31794840 TATTCAAATA
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.30, C:0.29, G:0.07, T:0.35
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:31797602 original size:30 final size:30
Alignment explanation
Indices: 31797568--31797628 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
31797558 ATGGAGTAGA
* *
31797568 CCATGTGTC-ACAGAAGGCCTTGACACATGC
1 CCATGTGTCTAC-CAAGGCCTAGACACATGC
31797598 CCATGTGTCTACCAAGGCCTAGACACATGC
1 CCATGTGTCTACCAAGGCCTAGACACATGC
31797628 C
1 C
31797629 TGTGTCGACA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 26 0.93
31 2 0.07
ACGTcount: A:0.26, C:0.33, G:0.21, T:0.20
Consensus pattern (30 bp):
CCATGTGTCTACCAAGGCCTAGACACATGC
Found at i:31801246 original size:27 final size:27
Alignment explanation
Indices: 31801186--31801247 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
31801176 TTACCATTCC
* * *
31801186 TTCAGAGTTCGCCACATATATTGTTCG
1 TTCAGATTTCACCACATATACTGTTCG
* *
31801213 TTCAGATTTCACCATATATACTGTTCT
1 TTCAGATTTCACCACATATACTGTTCG
31801240 TTCAGATT
1 TTCAGATT
31801248 GGCGGAAATA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.42
Consensus pattern (27 bp):
TTCAGATTTCACCACATATACTGTTCG
Found at i:31804366 original size:4 final size:4
Alignment explanation
Indices: 31804357--31804381 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
31804347 AAATCTGTTG
31804357 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
31804382 GAGATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:31805956 original size:18 final size:18
Alignment explanation
Indices: 31805934--31805975 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
31805924 TTATTTAATT
31805934 AAAAAATTTA-AAAAGGA
1 AAAAAATTTATAAAAGGA
* *
31805951 AGAAAATTTATAAAATGA
1 AAAAAATTTATAAAAGGA
31805969 AAAAAAT
1 AAAAAAT
31805976 ATACAAACAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.69, C:0.00, G:0.10, T:0.21
Consensus pattern (18 bp):
AAAAAATTTATAAAAGGA
Found at i:31815850 original size:77 final size:78
Alignment explanation
Indices: 31815718--31815903 Score: 284
Period size: 77 Copynumber: 2.3 Consensus size: 78
31815708 GGTATACATC
* **
31815718 TTTCAACAAATCATTTCAAAAAACAAACAAAATATGTTATACTAACAAAATGATCCTATAGTTGT
1 TTTCAACAAATCATTTC---CAA-AAACAAAATATGTTATACTAACAAAATGATCCTATAGCAGT
*
31815783 AAGATGTTAACCAACCA
62 AAAATGTTAACCAACCA
*
31815800 TTTCAACAAATCATTTCCAAAAA-AAAATATGTTATGCTAACAAAATGATCCTATAGCAGTAAAA
1 TTTCAACAAATCATTTCCAAAAACAAAATATGTTATACTAACAAAATGATCCTATAGCAGTAAAA
31815864 TGTTAACCAACCA
66 TGTTAACCAACCA
31815877 TTTCAACAAATCATTTCCAAAAACAAA
1 TTTCAACAAATCATTTCCAAAAACAAA
31815904 CAAAATATGT
Statistics
Matches: 98, Mismatches: 5, Indels: 6
0.90 0.05 0.06
Matches are distributed among these distances:
77 73 0.74
78 6 0.06
79 2 0.02
82 17 0.17
ACGTcount: A:0.48, C:0.18, G:0.06, T:0.27
Consensus pattern (78 bp):
TTTCAACAAATCATTTCCAAAAACAAAATATGTTATACTAACAAAATGATCCTATAGCAGTAAAA
TGTTAACCAACCA
Found at i:31828736 original size:76 final size:76
Alignment explanation
Indices: 31828620--31828764 Score: 168
Period size: 76 Copynumber: 1.9 Consensus size: 76
31828610 AATGCAAGTC
* * *** *
31828620 TTAAATGATGCTAATGTATTAATGCAAAGCATTGGCTAAAGACACATTCAATAAACAAGAA-ATA
1 TTAAAAGATGCTAATGTATTAATGCAAAACATTAAATAAAGACACATTCAACAAACAA-AACATA
31828684 TAATGCACATTT
65 TAATGCACATTT
* ** *
31828696 TTAAAAGATG-TAGATGTATTAATGCAAAATATTAAATAAAGATGCATTTAACAAACAAAACATA
1 TTAAAAGATGCTA-ATGTATTAATGCAAAACATTAAATAAAGACACATTCAACAAACAAAACATA
31828760 TAATG
65 TAATG
31828765 AAGCAGATCA
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
75 4 0.07
76 53 0.93
ACGTcount: A:0.48, C:0.10, G:0.12, T:0.29
Consensus pattern (76 bp):
TTAAAAGATGCTAATGTATTAATGCAAAACATTAAATAAAGACACATTCAACAAACAAAACATAT
AATGCACATTT
Found at i:31829319 original size:42 final size:42
Alignment explanation
Indices: 31829267--31829356 Score: 126
Period size: 42 Copynumber: 2.1 Consensus size: 42
31829257 CCCTCACCTA
* * * *
31829267 AACCTTCACCACCTCCTTCACCCTTACCACCTTTACTGCCAAC
1 AACC-TCACCACCTCCCTCACCATCACCACATTTACTGCCAAC
*
31829310 AACCTCACCACCTCCCTCACCATCACCACATTTATTGCCAAC
1 AACCTCACCACCTCCCTCACCATCACCACATTTACTGCCAAC
31829352 AACCT
1 AACCT
31829357 TAGCACCCTC
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 38 0.90
43 4 0.10
ACGTcount: A:0.27, C:0.48, G:0.02, T:0.23
Consensus pattern (42 bp):
AACCTCACCACCTCCCTCACCATCACCACATTTACTGCCAAC
Found at i:31837701 original size:29 final size:29
Alignment explanation
Indices: 31837666--31837727 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 29
31837656 CCTGGCCATG
*
31837666 TGGTTGGCCGTGTACGAGACACGGCCGTA
1 TGGTTGGCCATGTACGAGACACGGCCGTA
* *
31837695 TGGTTGGCCATGTACGAGATACGGCCGTG
1 TGGTTGGCCATGTACGAGACACGGCCGTA
31837724 TGGT
1 TGGT
31837728 CGACAAAGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.16, C:0.21, G:0.39, T:0.24
Consensus pattern (29 bp):
TGGTTGGCCATGTACGAGACACGGCCGTA
Found at i:31848202 original size:21 final size:21
Alignment explanation
Indices: 31848172--31848275 Score: 72
Period size: 21 Copynumber: 4.9 Consensus size: 21
31848162 ATGTAGTTAT
* *
31848172 TAAAAAATATATATAATATAA
1 TAAAATATATACATAATATAA
*
31848193 TAAAATATATGA-ATAATAGGATA
1 TAAAATATAT-ACATAATA-TA-A
31848216 TAAAAATATATACATAATAT-A
1 T-AAAATATATACATAATATAA
* *
31848237 TAAAAAAATATAC-T-ATTTAA
1 T-AAAATATATACATAATATAA
*
31848257 AAAAATAATATACATAATA
1 TAAAAT-ATATACATAATA
31848276 GTATAGTAAG
Statistics
Matches: 66, Mismatches: 8, Indels: 17
0.73 0.09 0.19
Matches are distributed among these distances:
19 7 0.11
20 8 0.12
21 29 0.44
22 4 0.06
23 3 0.05
24 15 0.23
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (21 bp):
TAAAATATATACATAATATAA
Found at i:31848223 original size:24 final size:23
Alignment explanation
Indices: 31848173--31848248 Score: 72
Period size: 24 Copynumber: 3.4 Consensus size: 23
31848163 TGTAGTTATT
31848173 AAAAAATATAT--ATAAT--ATA
1 AAAAAATATATACATAATAGATA
*
31848192 ATAAAATATATGA-ATAATAGGATA
1 AAAAAATATAT-ACATAATA-GATA
* *
31848216 TAAAAATATATACATAATATATA
1 AAAAAATATATACATAATAGATA
31848239 AAAAAATATA
1 AAAAAATATA
31848249 CTATTTAAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
19 10 0.22
21 5 0.11
23 13 0.28
24 18 0.39
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.30
Consensus pattern (23 bp):
AAAAAATATATACATAATAGATA
Found at i:31848361 original size:3 final size:3
Alignment explanation
Indices: 31848353--31848512 Score: 50
Period size: 3 Copynumber: 52.0 Consensus size: 3
31848343 TGATAAAAAT
* *
31848353 ATA ATA ATA GTGA A-A ATA ATA A-A TATA ATA ATA GA-A ATG ATA ATA
1 ATA ATA ATA AT-A ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA
* * *
31848398 CTA CATA AAA AGTA TATA TATA CATA TATA ATA A-A ATA TATA CTA ATA
1 ATA -ATA ATA A-TA -ATA -ATA -ATA -ATA ATA ATA ATA -ATA ATA ATA
* * * *
31848446 TTA ATA ATGA AT- ATA AT- ATT ATA ATA CTA ATA ATA ACA AT- ATA
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
31848489 A-A ATTA A-A ATA ACTA AAA ATA ATA
1 ATA A-TA ATA ATA A-TA ATA ATA ATA
31848513 CCATATGTAA
Statistics
Matches: 117, Mismatches: 21, Indels: 38
0.66 0.12 0.22
Matches are distributed among these distances:
2 16 0.14
3 71 0.61
4 29 0.25
5 1 0.01
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:31848395 original size:24 final size:25
Alignment explanation
Indices: 31848341--31848397 Score: 77
Period size: 24 Copynumber: 2.4 Consensus size: 25
31848331 TACGTATAAC
31848341 AATGATAA-AAATATAATAATAGTGA
1 AATGATAATAAATATAATAATAG-GA
31848366 AA--ATAATAAATATAATAATA-GA
1 AATGATAATAAATATAATAATAGGA
31848388 AATGATAATA
1 AATGATAATA
31848398 CTACATAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
22 4 0.14
23 4 0.14
24 19 0.66
25 2 0.07
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.28
Consensus pattern (25 bp):
AATGATAATAAATATAATAATAGGA
Found at i:31848420 original size:22 final size:24
Alignment explanation
Indices: 31848395--31848439 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
31848385 AGAAATGATA
*
31848395 ATAC-TACATAA-AAAGTATATAT
1 ATACATACATAATAAAATATATAT
*
31848417 ATACATATATAATAAAATATATA
1 ATACATACATAATAAAATATATA
31848440 CTAATATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 4 0.21
23 6 0.32
24 9 0.47
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.33
Consensus pattern (24 bp):
ATACATACATAATAAAATATATAT
Found at i:31848439 original size:26 final size:25
Alignment explanation
Indices: 31848402--31848488 Score: 67
Period size: 28 Copynumber: 3.4 Consensus size: 25
31848392 ATAATACTAC
31848402 ATAAAA-AGTATATATATACATATATA
1 ATAAAATA-TATATATATACATA-ATA
31848428 ATAAAATATATACTAATATTA-ATAATGA
1 ATAAAATATATA-T-ATA-TACATAAT-A
*
31848456 ATATAATAT-TATA-ATAC-TAATA
1 ATAAAATATATATATATACATAATA
31848478 ATAACAATATA
1 ATAA-AATATA
31848489 AAATTAAAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 18
0.72 0.03 0.25
Matches are distributed among these distances:
22 4 0.08
23 11 0.22
24 1 0.02
25 1 0.02
26 11 0.22
27 6 0.12
28 15 0.29
29 2 0.04
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (25 bp):
ATAAAATATATATATATACATAATA
Found at i:31848446 original size:20 final size:21
Alignment explanation
Indices: 31848413--31848452 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
31848403 TAAAAAGTAT
31848413 ATATATACATATA-TAATAAA
1 ATATATACATATATTAATAAA
31848433 ATATATAC-TAATATTAATAA
1 ATATATACAT-ATATTAATAA
31848453 TGAATATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 1 0.06
20 11 0.61
21 6 0.33
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (21 bp):
ATATATACATATATTAATAAA
Found at i:31848486 original size:23 final size:23
Alignment explanation
Indices: 31848392--31848487 Score: 56
Period size: 26 Copynumber: 4.0 Consensus size: 23
31848382 AATAGAAATG
*
31848392 ATAATACTACATAA-AAAGTA-T
1 ATAATACTACATAATAAAATATT
*
31848413 ATATATACATATATAATAAAATATAT
1 ATA-ATAC-TACATAATAAAATAT-T
*
31848439 ACTAATATTA-ATAATGAATATAATATT
1 A-TAATACTACATAAT--A-A-AATATT
31848466 ATAATACTA-ATAATAACAATAT
1 ATAATACTACATAATAA-AATAT
31848488 AAAATTAAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 18
0.72 0.06 0.22
Matches are distributed among these distances:
21 3 0.05
22 4 0.07
23 12 0.20
24 11 0.18
25 2 0.03
26 18 0.30
27 5 0.08
28 5 0.08
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.35
Consensus pattern (23 bp):
ATAATACTACATAATAAAATATT
Found at i:31848486 original size:28 final size:29
Alignment explanation
Indices: 31848455--31848510 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
31848445 ATTAATAATG
* * *
31848455 AATATAATATTATAAT-ACTAATAATAAC
1 AATATAAAATTAAAATAACTAAAAATAAC
31848483 AATATAAAATTAAAATAACTAAAAATAA
1 AATATAAAATTAAAATAACTAAAAATAA
31848511 TACCATATGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 14 0.58
29 10 0.42
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.30
Consensus pattern (29 bp):
AATATAAAATTAAAATAACTAAAAATAAC
Found at i:31849255 original size:20 final size:21
Alignment explanation
Indices: 31849221--31849275 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
31849211 ATTTATCTAT
**
31849221 ATATGAATGAAAAAA-TTGAGA
1 ATATGAAAAAAAAAATTTGA-A
31849242 ATATGAAAAAAAAAATTTGAA
1 ATATGAAAAAAAAAATTTGAA
31849263 ATATGAAAAAAAA
1 ATATGAAAAAAAA
31849276 TAAAATGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
21 27 0.87
22 4 0.13
ACGTcount: A:0.65, C:0.00, G:0.13, T:0.22
Consensus pattern (21 bp):
ATATGAAAAAAAAAATTTGAA
Found at i:31849284 original size:22 final size:21
Alignment explanation
Indices: 31849230--31849285 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
31849220 TATATGAATG
*
31849230 AAAAAATTGAGAATATGAAAAA
1 AAAAAAATGA-AATATGAAAAA
**
31849252 AAAAATTTGAAATATGAAAAA
1 AAAAAAATGAAATATGAAAAA
31849273 AAATAAAATGAAA
1 AAA-AAAATGAAA
31849286 ATCACCTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 14 0.47
22 16 0.53
ACGTcount: A:0.70, C:0.00, G:0.11, T:0.20
Consensus pattern (21 bp):
AAAAAAATGAAATATGAAAAA
Found at i:31850409 original size:79 final size:80
Alignment explanation
Indices: 31850314--31850708 Score: 302
Period size: 79 Copynumber: 5.0 Consensus size: 80
31850304 ATGAGTTGAG
* *
31850314 TTTTTGGAAAACAGAAACAAAAAATACCTCAGTGTGTGACCCGAGGCTCAACTCACCTCTCGCAA
1 TTTTTGAAAAACAGAAACAAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAA
31850379 T-TGAGTTGATTTTT
66 TATGAGTTGATTTTT
* *
31850393 TTTTTGAAAAATAGAAACTAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAA
1 TTTTTGAAAAACAGAAACAAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAA
31850458 TATGAGTTGATTTTT
66 TATGAGTTGATTTTT
**** * * * * *
31850473 TTGAAAAACATAAACTGAAAAACAGAATTTGAAAATACCTCA--GTGTGTCCTGATGATCAACTC
1 TT-TTTGA-A-AAAC--AGAAAC--AA----AAAATACCTCAGCGTGTGACCCGAGGCTCAACTC
31850536 ACCTCTCGCAATATGAGTTGA----T
55 ACCTCTCGCAATATGAGTTGATTTTT
* * * *** * * *
31850558 TTTTTGAAAATCCGACATTGAAAATACCTCAGC--GTG-CCCTAAGGCTCAACTCACCTTTAGCA
1 TTTTTGAAAAACAGAAACAAAAAATACCTCAGCGTGTGACCC-GAGGCTCAACTCACCTCTCGCA
*
31850620 ATATGAGTT-A----A
65 ATATGAGTTGATTTTT
* *** * *
31850631 TTTTTGATAAACAGAAATTGAAATTACCTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAA
1 TTTTTGAAAAACAGAAACAAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAA
31850694 TATGAGTTGATTTTT
66 TATGAGTTGATTTTT
31850709 GAAAACAAAA
Statistics
Matches: 251, Mismatches: 43, Indels: 45
0.74 0.13 0.13
Matches are distributed among these distances:
73 59 0.24
74 43 0.17
75 2 0.01
79 62 0.25
80 17 0.07
81 1 0.00
82 4 0.02
83 4 0.02
84 1 0.00
85 8 0.03
87 1 0.00
89 38 0.15
91 11 0.04
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (80 bp):
TTTTTGAAAAACAGAAACAAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAA
TATGAGTTGATTTTT
Found at i:31850609 original size:74 final size:72
Alignment explanation
Indices: 31850491--31850720 Score: 316
Period size: 73 Copynumber: 3.2 Consensus size: 72
31850481 CATAAACTGA
* * * *
31850491 AAAACAGAATTTGAAAATACCTCAGTGTGTCCTGATGATCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
31850556 ATTTTTTG
66 A-TTTTTG
* * * * * *
31850564 AAAATCCGACATTGAAAATACCTCAGCGTGCCCTAAGGCTCAACTCACCTTTAGCAATATGAGTT
1 AAAA-CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
31850629 AATTTTTG
65 GATTTTTG
*
31850637 ATAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 A-AAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
31850702 GATTTTTG
65 GATTTTTG
*
31850710 AAAACAAAAAT
1 AAAACAGAAAT
31850721 AAAAACATCA
Statistics
Matches: 135, Mismatches: 20, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
72 9 0.07
73 72 0.53
74 54 0.40
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.30
Consensus pattern (72 bp):
AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTG
Found at i:31863299 original size:21 final size:21
Alignment explanation
Indices: 31863266--31863338 Score: 78
Period size: 24 Copynumber: 3.4 Consensus size: 21
31863256 GTAGTTATTA
31863266 AAAATATAT-ATAATATA-AT
1 AAAATATATAATAATATATAT
*
31863285 AAAATATATGAATAATAGGATAT
1 AAAATATAT-AATAATA-TATAT
*
31863308 AAAAATATATACATAATATATAA
1 -AAAATATATA-ATAATATATAT
31863331 AAAATATA
1 AAAATATA
31863339 CTATTAAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
19 9 0.20
21 6 0.13
22 9 0.20
23 6 0.13
24 15 0.33
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (21 bp):
AAAATATATAATAATATATAT
Found at i:31863547 original size:24 final size:24
Alignment explanation
Indices: 31863495--31863549 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
31863485 GTATAACAAT
*
31863495 GATAAAAAAAATAATAATAGTGAAA
1 GATAATAAAAATAATAATAG-GAAA
*
31863520 -ATAATAAATATAATAATA-GAAA
1 GATAATAAAAATAATAATAGGAAA
31863542 CGATAATA
1 -GATAATA
31863550 CTATATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 4 0.15
24 22 0.85
ACGTcount: A:0.65, C:0.02, G:0.09, T:0.24
Consensus pattern (24 bp):
GATAATAAAAATAATAATAGGAAA
Found at i:31863572 original size:22 final size:24
Alignment explanation
Indices: 31863547--31863591 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
31863537 AGAAACGATA
*
31863547 ATAC-TATATAA-AAAGTATATAT
1 ATACATATATAATAAAATATATAT
31863569 ATACATATATAATAAAATATATA
1 ATACATATATAATAAAATATATA
31863592 CTAATATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 4 0.20
23 7 0.35
24 9 0.45
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (24 bp):
ATACATATATAATAAAATATATAT
Found at i:31863591 original size:26 final size:25
Alignment explanation
Indices: 31863554--31863639 Score: 65
Period size: 28 Copynumber: 3.4 Consensus size: 25
31863544 ATAATACTAT
31863554 ATAAAA-AGTATATATATACATATATA
1 ATAAAATA-TATATATATACATA-ATA
31863580 ATAAAATATATACTAATATTA-ATAATGA
1 ATAAAATATATA-T-ATA-TACATAAT-A
*
31863608 ATATAATAT-TATA-ATAC-TAATA
1 ATAAAATATATATATATACATAATA
31863630 ATAACAATAT
1 ATAA-AATAT
31863640 GAAATTAAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 17
0.73 0.03 0.24
Matches are distributed among these distances:
22 4 0.08
23 11 0.22
24 1 0.02
25 1 0.02
26 11 0.22
27 6 0.12
28 15 0.29
29 2 0.04
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (25 bp):
ATAAAATATATATATATACATAATA
Found at i:31863598 original size:20 final size:21
Alignment explanation
Indices: 31863565--31863604 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
31863555 TAAAAAGTAT
31863565 ATATATACATATA-TAATAAA
1 ATATATACATATATTAATAAA
31863585 ATATATAC-TAATATTAATAA
1 ATATATACAT-ATATTAATAA
31863605 TGAATATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 1 0.06
20 11 0.61
21 6 0.33
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (21 bp):
ATATATACATATATTAATAAA
Found at i:31863638 original size:23 final size:23
Alignment explanation
Indices: 31863544--31863639 Score: 72
Period size: 23 Copynumber: 4.0 Consensus size: 23
31863534 AATAGAAACG
*
31863544 ATAATACTATATAA-AAAGTA-T
1 ATAATACTATATAATAAAATATT
31863565 ATATATACATATATAATAAAATATAT
1 ATA-ATAC-TATATAATAAAATAT-T
* *
31863591 ACTAATATTAATAATGAATATAATATT
1 A-TAATACT-AT-AT-AATAAAATATT
31863618 ATAATACTA-ATAATAACAATAT
1 ATAATACTATATAATAA-AATAT
31863640 GAAATTAAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 18
0.72 0.06 0.22
Matches are distributed among these distances:
21 3 0.05
22 8 0.13
23 14 0.23
24 5 0.08
25 2 0.03
26 13 0.22
27 6 0.10
28 9 0.15
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.36
Consensus pattern (23 bp):
ATAATACTATATAATAAAATATT
Found at i:31863638 original size:28 final size:29
Alignment explanation
Indices: 31863607--31863662 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
31863597 ATTAATAATG
* *
31863607 AATAT-AATATTATAAT-ACTAATAATAAC
1 AATATGAA-ATTAAAATAACTAAAAATAAC
31863635 AATATGAAATTAAAATAACTAAAAATAA
1 AATATGAAATTAAAATAACTAAAAATAA
31863663 TACCATATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 12 0.50
29 12 0.50
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.30
Consensus pattern (29 bp):
AATATGAAATTAAAATAACTAAAAATAAC
Found at i:31863753 original size:18 final size:18
Alignment explanation
Indices: 31863724--31863769 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
31863714 ACATAAAAAA
*
31863724 AATAATAGTATT-GATAAT
1 AATAATAATATTAGA-AAT
*
31863742 ATTAATAATATTAGAAAT
1 AATAATAATATTAGAAAT
31863760 AATAATAATA
1 AATAATAATA
31863770 ATACTTAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 22 0.92
19 2 0.08
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (18 bp):
AATAATAATATTAGAAAT
Found at i:31866134 original size:46 final size:46
Alignment explanation
Indices: 31866081--31866256 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 46
31866071 TATTTGGGCA
31866081 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* ** * *
31866127 TCCGAACTCGTTGAGTTGAGTTCGAGTT-GGTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * **
31866172 CATCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACA
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
31866220 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
31866257 GCGGTTTACA
Statistics
Matches: 104, Mismatches: 17, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.59
47 25 0.24
48 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:31866236 original size:93 final size:93
Alignment explanation
Indices: 31866077--31866247 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
31866067 GGGATATTTG
* *** *
31866077 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACACCCGAACTCATTGAG
*
31866142 TTGAGTTCGAGTTGGTGAGATGTAACTA
66 TTGAGTCCGAGTTGGTGAGATGTAACTA
* *
31866170 GGCATCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACACCCGAGCTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACACCCGAACTCATTGAG
31866235 TTGAGTCCGAGTT
66 TTGAGTCCGAGTT
31866248 CACTTATGGG
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACACCCGAACTCATTGAG
TTGAGTCCGAGTTGGTGAGATGTAACTA
Found at i:31870806 original size:29 final size:30
Alignment explanation
Indices: 31870755--31870815 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 30
31870745 ACTTATTTTA
31870755 TTGTTAATTTTGTTATTATTTTAAAGGAAT
1 TTGTTAATTTTGTTATTATTTTAAAGGAAT
* *
31870785 TTGTTAATTTT-TTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGAAT
31870814 TT
1 TT
31870816 ACTTATTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 18 0.62
30 11 0.38
ACGTcount: A:0.26, C:0.02, G:0.13, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGAAT
Found at i:31874597 original size:46 final size:46
Alignment explanation
Indices: 31874517--31874605 Score: 135
Period size: 46 Copynumber: 1.9 Consensus size: 46
31874507 TTTTATAACA
* *
31874517 TATACTAATTTGATATCTGAATTAAATGCACTTAATAATATTATTT
1 TATACTAATTTGATATCCGAATTAAATGCACTTAAGAATATTATTT
*
31874563 TATACTAATTTGATATCCGAATTAAATTG-GCTTAAGAATATTA
1 TATACTAATTTGATATCCGAATTAAA-TGCACTTAAGAATATTA
31874606 GTTTCAAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
46 37 0.95
47 2 0.05
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.43
Consensus pattern (46 bp):
TATACTAATTTGATATCCGAATTAAATGCACTTAAGAATATTATTT
Found at i:31877804 original size:48 final size:48
Alignment explanation
Indices: 31877752--31877893 Score: 178
Period size: 48 Copynumber: 3.0 Consensus size: 48
31877742 GCCTCCTGTG
** *
31877752 CATGAACTTCCAAAGAAGCCTCCAACGTATAAACCTACGCCATCAATC
1 CATGAACTTCCAAAGAAGCCTCCAACGTATAAACCTAAACCACCAATC
* * *
31877800 CATGAACCTCCAAAGAAGCCTCCAATGTATAAACCTAAACCACCACTC
1 CATGAACTTCCAAAGAAGCCTCCAACGTATAAACCTAAACCACCAATC
* * * *
31877848 CATGAACTTCCAAAGAAGCCACCGA-TTCATGAACCTAAACCACCAA
1 CATGAACTTCCAAAGAAGCCTCCAACGT-ATAAACCTAAACCACCAA
31877894 AGCCACCAGT
Statistics
Matches: 81, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
47 1 0.01
48 80 0.99
ACGTcount: A:0.39, C:0.34, G:0.10, T:0.17
Consensus pattern (48 bp):
CATGAACTTCCAAAGAAGCCTCCAACGTATAAACCTAAACCACCAATC
Found at i:31878009 original size:177 final size:177
Alignment explanation
Indices: 31877802--31878149 Score: 552
Period size: 177 Copynumber: 2.0 Consensus size: 177
31877792 CATCAATCCA
* *
31877802 TGAACCTCCAAAGAAGCCTCCAATGTATAAACCTAAACCACCACTCCATGAACTTCCAAAGAAGC
1 TGAACCTCCAAAGAAGCCTCCAACGTATAAACCTAAACCACCACTCCATGAACCTCCAAAGAAGC
* * *
31877867 CACCGATTCATGAACCTAAACCACCAAAGCCACCAGTTCACGAACCTCCAAAGAAAGAGAAACCA
66 CACCGATGCATGAACCTAAACCACCAAAGCCACCAATCCACGAACCTCCAAAGAAAGAGAAACCA
* * *
31877932 GAACACAAGCCACCAATATATGAACCTCCGAAGAAACCACCAGTCCG
131 GAACACAAGCCACCAATATATGAACATCCAAAAAAACCACCAGTCCG
* * * *
31877979 TGAACCTTCAAAGAAGCCTCCAGCGTATAAACCTAAACCACCAGTTCATGAACCTCCAAAGAAGC
1 TGAACCTCCAAAGAAGCCTCCAACGTATAAACCTAAACCACCACTCCATGAACCTCCAAAGAAGC
*
31878044 CACCGATGCATGAATCTAAACCACCAAAGCCACCAATCCACGAACCTCCAAAGAAAGAGAAACCA
66 CACCGATGCATGAACCTAAACCACCAAAGCCACCAATCCACGAACCTCCAAAGAAAGAGAAACCA
* * *
31878109 GAACCCAAGCCACCAGTTTATGAACATCCAAAAAAACCACC
131 GAACACAAGCCACCAATATATGAACATCCAAAAAAACCACC
31878150 TTCTGGTCAC
Statistics
Matches: 155, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
177 155 1.00
ACGTcount: A:0.42, C:0.33, G:0.12, T:0.13
Consensus pattern (177 bp):
TGAACCTCCAAAGAAGCCTCCAACGTATAAACCTAAACCACCACTCCATGAACCTCCAAAGAAGC
CACCGATGCATGAACCTAAACCACCAAAGCCACCAATCCACGAACCTCCAAAGAAAGAGAAACCA
GAACACAAGCCACCAATATATGAACATCCAAAAAAACCACCAGTCCG
Found at i:31878063 original size:48 final size:47
Alignment explanation
Indices: 31877965--31878069 Score: 122
Period size: 48 Copynumber: 2.2 Consensus size: 47
31877955 ACCTCCGAAG
* * *
31877965 AAACCACCAGTCCGTGAACCTTCAAAGAAGCCTCCAGCGTATAAACCT
1 AAACCACCAGTCCATGAACCTCCAAAGAAGCCACCAGCG-ATAAACCT
* * *
31878013 AAACCACCAGTTCATGAACCTCCAAAGAAGCCACCGATGC-ATGAATCT
1 AAACCACCAGTCCATGAACCTCCAAAGAAGCCACC-A-GCGATAAACCT
31878061 AAACCACCA
1 AAACCACCA
31878070 AAGCCACCAA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
48 46 0.94
49 1 0.02
50 2 0.04
ACGTcount: A:0.38, C:0.33, G:0.13, T:0.15
Consensus pattern (47 bp):
AAACCACCAGTCCATGAACCTCCAAAGAAGCCACCAGCGATAAACCT
Found at i:31878740 original size:16 final size:16
Alignment explanation
Indices: 31878716--31878746 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
31878706 CAAAACCAAA
31878716 CTAAACCCAATTAACC
1 CTAAACCCAATTAACC
*
31878732 CTAAGCCCAATTAAC
1 CTAAACCCAATTAAC
31878747 AGGCCCAGAC
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:0.42, C:0.35, G:0.03, T:0.19
Consensus pattern (16 bp):
CTAAACCCAATTAACC
Found at i:31879234 original size:33 final size:35
Alignment explanation
Indices: 31879175--31879239 Score: 82
Period size: 33 Copynumber: 1.9 Consensus size: 35
31879165 GAGTATTACG
*
31879175 ATTTTATTTTTTAAAAAGTTATTTATA-ATTTATA
1 ATTTTATTTTTGAAAAAGTTATTTATAGATTTATA
*
31879209 ATTTT-TTTTTGAAAAATTTCA-TTATAGATTT
1 ATTTTATTTTTGAAAAAGTT-ATTTATAGATTT
31879240 TGATAATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
33 17 0.63
34 10 0.37
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (35 bp):
ATTTTATTTTTGAAAAAGTTATTTATAGATTTATA
Found at i:31880522 original size:21 final size:21
Alignment explanation
Indices: 31880478--31880523 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
31880468 TATATAAGAA
* *
31880478 ATTTTAGTTTAACTTTTTTAG
1 ATTTTAGTTTAAATTTTTCAG
* *
31880499 ATTTTATTTTAAATTTTTCGG
1 ATTTTAGTTTAAATTTTTCAG
31880520 ATTT
1 ATTT
31880524 ATTCATTTGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.04, G:0.09, T:0.63
Consensus pattern (21 bp):
ATTTTAGTTTAAATTTTTCAG
Found at i:31884808 original size:25 final size:25
Alignment explanation
Indices: 31884780--31884861 Score: 78
Period size: 25 Copynumber: 3.2 Consensus size: 25
31884770 TACTTCTTAT
31884780 TATCACATACAAATCATAATTTAAA
1 TATCACATACAAATCATAATTTAAA
* * * * *
31884805 TATCATCATATATAA--GTACTTCTTAT
1 TATCA-CATACA-AATCATAATT-TAAA
31884831 TATCACATACAAATCATAATTTAAA
1 TATCACATACAAATCATAATTTAAA
31884856 TATCAC
1 TATCAC
31884862 TTTTCTAATA
Statistics
Matches: 42, Mismatches: 10, Indels: 10
0.68 0.16 0.16
Matches are distributed among these distances:
24 2 0.05
25 22 0.52
26 16 0.38
27 2 0.05
ACGTcount: A:0.45, C:0.17, G:0.01, T:0.37
Consensus pattern (25 bp):
TATCACATACAAATCATAATTTAAA
Found at i:31884824 original size:51 final size:51
Alignment explanation
Indices: 31884753--31884860 Score: 216
Period size: 51 Copynumber: 2.1 Consensus size: 51
31884743 AGTTTAAAAC
31884753 ATATCATCATATATAAGTACTTCTTATTATCACATACAAATCATAATTTAA
1 ATATCATCATATATAAGTACTTCTTATTATCACATACAAATCATAATTTAA
31884804 ATATCATCATATATAAGTACTTCTTATTATCACATACAAATCATAATTTAA
1 ATATCATCATATATAAGTACTTCTTATTATCACATACAAATCATAATTTAA
31884855 ATATCA
1 ATATCA
31884861 CTTTTCTAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.44, C:0.16, G:0.02, T:0.39
Consensus pattern (51 bp):
ATATCATCATATATAAGTACTTCTTATTATCACATACAAATCATAATTTAA
Found at i:31888124 original size:23 final size:22
Alignment explanation
Indices: 31888094--31888170 Score: 68
Period size: 22 Copynumber: 3.5 Consensus size: 22
31888084 ATTTGATATG
*
31888094 GTTTAAATGCTGGCAAAAGTAT
1 GTTTAAATGCTGCCAAAAGTAT
* * *
31888116 GTTTCAAATGTTGTC-AAAGTAA
1 GTTT-AAATGCTGCCAAAAGTAT
*
31888138 GTTTTAAATGTTGTCCAAAA-TAT
1 G-TTTAAATGCTG-CCAAAAGTAT
31888161 GTTTAAATGC
1 GTTTAAATGC
31888171 CATCCAAAGC
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
22 27 0.60
23 15 0.33
24 3 0.07
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (22 bp):
GTTTAAATGCTGCCAAAAGTAT
Found at i:31888579 original size:35 final size:36
Alignment explanation
Indices: 31888473--31888581 Score: 96
Period size: 36 Copynumber: 3.1 Consensus size: 36
31888463 ACGTAGGGTG
* * * * *
31888473 CATTTATTTTTCAGTTATACCGACTAGTACTGGGCA
1 CATTTATTTGTCAGTTATATCGACCAATGCTGGGCA
* * * * * *
31888509 CACTCATTTGTCGGTT-TGATTGACCAACGCAGGGCA
1 CATTTATTTGTCAGTTAT-ATCGACCAATGCTGGGCA
31888545 CATTTATTTGTC-GTTATATCGACCAATGCTGGGCA
1 CATTTATTTGTCAGTTATATCGACCAATGCTGGGCA
31888580 CA
1 CA
31888582 CTCATTTTGT
Statistics
Matches: 55, Mismatches: 16, Indels: 5
0.72 0.21 0.07
Matches are distributed among these distances:
35 21 0.38
36 34 0.62
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (36 bp):
CATTTATTTGTCAGTTATATCGACCAATGCTGGGCA
Found at i:31888591 original size:36 final size:36
Alignment explanation
Indices: 31888502--31888588 Score: 106
Period size: 35 Copynumber: 2.4 Consensus size: 36
31888492 CCGACTAGTA
*
31888502 CTGGGCACACTCATTTGTCGGTTTGATTGACCAACG
1 CTGGGCACACTCATTTGTCGGTTTGATCGACCAACG
* * * *
31888538 CAGGGCACATTTATTTGTC-GTTAT-ATCGACCAATG
1 CTGGGCACACTCATTTGTCGGTT-TGATCGACCAACG
31888573 CTGGGCACACTCATTT
1 CTGGGCACACTCATTT
31888589 TGTGATGCAT
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
35 25 0.60
36 17 0.40
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.32
Consensus pattern (36 bp):
CTGGGCACACTCATTTGTCGGTTTGATCGACCAACG
Found at i:31888591 original size:72 final size:73
Alignment explanation
Indices: 31888436--31888591 Score: 192
Period size: 72 Copynumber: 2.2 Consensus size: 73
31888426 GAATGAATGA
* * ** * * *
31888436 ACACTCATTTT-TCGATTTTATCGACCAACGTAGGGTGCATTTATTTTTCAGTTATACCGACTAG
1 ACACTCATTTTGTCGATTTGATCGACCAACGCAGGGCACATTTATTTGTCAGTTATACCGACCAA
31888500 TACTGGGC
66 TACTGGGC
* * *
31888508 ACACTCA-TTTGTCGGTTTGATTGACCAACGCAGGGCACATTTATTTGTC-GTTATATCGACCAA
1 ACACTCATTTTGTCGATTTGATCGACCAACGCAGGGCACATTTATTTGTCAGTTATACCGACCAA
*
31888571 TGCTGGGC
66 TACTGGGC
31888579 ACACTCATTTTGT
1 ACACTCATTTTGT
31888592 GATGCATCGA
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
71 28 0.39
72 43 0.61
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (73 bp):
ACACTCATTTTGTCGATTTGATCGACCAACGCAGGGCACATTTATTTGTCAGTTATACCGACCAA
TACTGGGC
Found at i:31894002 original size:36 final size:36
Alignment explanation
Indices: 31893938--31894064 Score: 132
Period size: 36 Copynumber: 3.5 Consensus size: 36
31893928 TACCGACCAG
* * * *
31893938 TTGTCAGTTATACTGATCAGTGTTGGGCACACTCAT
1 TTGTCAGTTTTACCGACCAGTGCTGGGCACACTCAT
* *
31893974 TTGTCAGTTTTACCGACCA--GCATCGGGCACATTTAT
1 TTGTCAGTTTTACCGACCAGTGC-T-GGGCACACTCAT
* * *
31894010 TTTTCAGTTATACCAACCAGTGCTGGGCACACTCAT
1 TTGTCAGTTTTACCGACCAGTGCTGGGCACACTCAT
*
31894046 TTGTCAATTTTACCGACCA
1 TTGTCAGTTTTACCGACCA
31894065 ACGCATACTA
Statistics
Matches: 72, Mismatches: 15, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
34 1 0.01
35 1 0.01
36 67 0.93
37 1 0.01
38 2 0.03
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (36 bp):
TTGTCAGTTTTACCGACCAGTGCTGGGCACACTCAT
Found at i:31894757 original size:228 final size:226
Alignment explanation
Indices: 31894250--31894784 Score: 733
Period size: 228 Copynumber: 2.4 Consensus size: 226
31894240 TACTATTGTT
* * * * *
31894250 TATTATTATACTTGTTGAAATATGCTCTAAGTCCTTAAACTTTTC-GTAAATTTGAAAGTTAGCT
1 TATTATTATACTAGTTGAAATATGCTCTAAGTCCCTATACTTTTCAG-ACATTTGAAAGTTAGCC
31894314 CT-TCTACTATATTATATAATGTTATATCATATCATATATAATATATTAATAGTTCATATATGCA
65 CTCT-TACTATATTATATAATGTTATATCATATCA-ATATAATATATTAATAGTTCATATATGCA
* *
31894378 TTAATGATTTAACATTATAATATCATGTAATACTATATAATTTATTATCATCTATAAAATAATAA
128 TTAATGATTAAACATTATAATATCATGTAACACTATATAATTTATTATCATCTATAAAATAATAA
31894443 TAGCAGTACATTATATATATTACATATGATTATA
193 TAGCAGTACATTATATATATTACATATGATTATA
* * ** * * *
31894477 TATTATT-TAGTAGTTGAAATATGCTCTAGGTATCTATACTTTTTATACATTTGAAAATTAGCCC
1 TATTATTATACTAGTTGAAATATGCTCTAAGTCCCTATACTTTTCAGACATTTGAAAGTTAGCCC
* * *
31894541 TCTTACTATATTATATAATGTTATATCGTATC-ATATAATATATTAATAATTTATATCTATATGC
66 TCTTACTATATTATATAATGTTATATCATATCAATATAATATATTAAT-AGTT-CA--TATATGC
**
31894605 ATTAATGATTAAACATTATATATATCATGTAACACTATATCTTTTATTATCATCTATAAAATAAT
127 ATTAATGATTAAACATTATA-ATATCATGTAACACTATATAATTTATTATCATCTATAAAATAAT
*
31894670 AATAGCAGTACA-T-TATATATTACATATTATTATA
191 AATAGCAGTACATTATATATATTACATATGATTATA
* *
31894704 TATTATTATACTAGTTGAAATATGCTCTAAATCCCTATACTTTTCAGACATTTGAAAGTTAGACC
1 TATTATTATACTAGTTGAAATATGCTCTAAGTCCCTATACTTTTCAGACATTTGAAAGTTAGCCC
* *
31894769 TCCTA-TATAATATATA
66 TCTTACTATATTATATA
31894785 TAGTAGTACA
Statistics
Matches: 269, Mismatches: 31, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
224 15 0.06
225 3 0.01
226 74 0.28
227 45 0.17
228 79 0.29
229 53 0.20
ACGTcount: A:0.38, C:0.11, G:0.07, T:0.43
Consensus pattern (226 bp):
TATTATTATACTAGTTGAAATATGCTCTAAGTCCCTATACTTTTCAGACATTTGAAAGTTAGCCC
TCTTACTATATTATATAATGTTATATCATATCAATATAATATATTAATAGTTCATATATGCATTA
ATGATTAAACATTATAATATCATGTAACACTATATAATTTATTATCATCTATAAAATAATAATAG
CAGTACATTATATATATTACATATGATTATA
Found at i:31894775 original size:113 final size:117
Alignment explanation
Indices: 31894658--31894894 Score: 306
Period size: 120 Copynumber: 2.0 Consensus size: 117
31894648 TTATTATCAT
*
31894658 CTATAAAATA-ATAATAGCAGTACATTATATATTAC-A-TAT-TATTA-TATATTATTATACTAG
1 CTATAAAATATAT-ATAGCAGTACATTATATATCACTATTATATATTATTATATTATTATACTAG
31894718 TTGAAATATGCTCTAAATCCCTATACTTTTCAG-ACATTTGAAAGTTAGACCTC
65 TTGAAATATGCTCTAAATCCCTATACTTTTC-GTACATTTGAAAGTTAGACCTC
* * * *
31894771 CTATATAATATATATAGTAGTACATTATATATCACTTATTATATATTATTGTTTATTGTTATACT
1 CTATAAAATATATATAGCAGTACATTATATATCAC-TATTATATATTA-T-TATATTATTATACT
* * * *
31894836 AGTTGAAATTTGCTCTAAGTCTCTATACTTTTCGTACATTTGAAAGTTAGCCCTC
63 AGTTGAAATATGCTCTAAATCCCTATACTTTTCGTACATTTGAAAGTTAGACCTC
31894891 CTAT
1 CTAT
31894895 TATATTATAC
Statistics
Matches: 106, Mismatches: 9, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
113 29 0.27
114 2 0.02
115 1 0.01
116 3 0.03
117 5 0.05
119 1 0.01
120 65 0.61
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.43
Consensus pattern (117 bp):
CTATAAAATATATATAGCAGTACATTATATATCACTATTATATATTATTATATTATTATACTAGT
TGAAATATGCTCTAAATCCCTATACTTTTCGTACATTTGAAAGTTAGACCTC
Found at i:31894864 original size:120 final size:121
Alignment explanation
Indices: 31894687--31894903 Score: 330
Period size: 120 Copynumber: 1.8 Consensus size: 121
31894677 GTACATTATA
31894687 TATTACATATTATTATATATTATTATACTAGTTGAAATATGCTCTAAATCCCTATACTTTTCAG-
1 TATTACATATTATTATATATTATTATACTAGTTGAAATATGCTCTAAATCCCTATACTTTTC-GT
31894751 ACATTTGAAAGTTAGACCTCCTA-TATAATATATATAGTAGTACATTATATATCACT
65 ACATTTGAAAGTTAGACCTCCTATTATAATATATATAGTAGTACATTATATATCACT
* * * * * * *
31894807 TATTATATATTATTGTTTATTGTTATACTAGTTGAAATTTGCTCTAAGTCTCTATACTTTTCGTA
1 TATTACATATTATTATATATTATTATACTAGTTGAAATATGCTCTAAATCCCTATACTTTTCGTA
* *
31894872 CATTTGAAAGTTAGCCCTCCTATTATATTATA
66 CATTTGAAAGTTAGACCTCCTATTATAATATA
31894904 CAATGCTATA
Statistics
Matches: 86, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
119 1 0.01
120 77 0.90
121 8 0.09
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.45
Consensus pattern (121 bp):
TATTACATATTATTATATATTATTATACTAGTTGAAATATGCTCTAAATCCCTATACTTTTCGTA
CATTTGAAAGTTAGACCTCCTATTATAATATATATAGTAGTACATTATATATCACT
Found at i:31907069 original size:43 final size:41
Alignment explanation
Indices: 31906968--31907078 Score: 127
Period size: 42 Copynumber: 2.7 Consensus size: 41
31906958 TGATATTTTG
*
31906968 TGTAAGACCATGTCTGGGAC-ATGGCATCGATATGAGAATCA
1 TGTAAGACCATATCTGGG-CTATGGCATCGATATGAGAATCA
* * *
31907009 TGTAAGACTATAGCTGGGCTATTGGCATCGATATTAG-ATCCCA
1 TGTAAGACCATATCTGGGCTA-TGGCATCGATATGAGAAT--CA
*
31907052 TGTAAGACCATATCTGGGATATGGCAT
1 TGTAAGACCATATCTGGGCTATGGCAT
31907079 TGGTATGATT
Statistics
Matches: 59, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
40 1 0.02
41 18 0.31
42 20 0.34
43 20 0.34
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (41 bp):
TGTAAGACCATATCTGGGCTATGGCATCGATATGAGAATCA
Found at i:31911661 original size:15 final size:16
Alignment explanation
Indices: 31911632--31911661 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
31911622 CAAACATGCT
31911632 TTAACACATTATCAAA
1 TTAACACATTATCAAA
31911648 TTAACACA-TATCAA
1 TTAACACATTATCAA
31911662 CAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:31913990 original size:40 final size:39
Alignment explanation
Indices: 31913946--31914139 Score: 237
Period size: 40 Copynumber: 4.9 Consensus size: 39
31913936 GGATATAGCT
* * *
31913946 ACTCGCTCGAATGCCTTCGGGGCATAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGGCTTAGCCCGGTT-TAGTA
* * *
31913986 ACTCGCACCAATGCCTTCGGGACTTAGCCCGGATTTGGTA
1 ACTCGCACAAATGCCTTCGGGGCTTAGCCCGG-TTTAGTA
* *
31914026 ACTCGCACAAATGCCTTCGGAAG-TTAGCCCGGATTTGGTA
1 ACTCGCACAAATGCCTTCGG-GGCTTAGCCCGG-TTTAGTA
* *
31914066 ACTCGCACAAATGCCTTCGGGACTTAGCCCAGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGGCTTAGCCC-GGTTTAGTA
*
31914106 GCTCGCACAAATGCCTTCGGGGCTTAGCCCGGTT
1 ACTCGCACAAATGCCTTCGGGGCTTAGCCCGGTT
31914140 ATCATTCGAA
Statistics
Matches: 135, Mismatches: 15, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
39 3 0.02
40 129 0.96
41 3 0.02
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (39 bp):
ACTCGCACAAATGCCTTCGGGGCTTAGCCCGGTTTAGTA
Found at i:31934971 original size:46 final size:47
Alignment explanation
Indices: 31934913--31935065 Score: 153
Period size: 46 Copynumber: 3.4 Consensus size: 47
31934903 GGGTTAATGT
*
31934913 GAGCTAGTGTAAGA-CATGTCTGAGACATACATCGACCACATTATGA
1 GAGCCAGTGTAAGAGCATGTCTGAGACATACATCGACCACATTATGA
* *** * *
31934959 GAGCCAGTGTAAGAGCATGTCTGGGACACGGTATTG--GA-A-T-T--
1 GAGCCAGTGTAAGAGCATGTCTGAGACA-TACATCGACCACATTATGA
* *
31935000 GAGCTAGTGTAAGA-CATGTCTGAGACATACATCAACCACATTATGA
1 GAGCCAGTGTAAGAGCATGTCTGAGACATACATCGACCACATTATGA
31935046 GAGCCAGTGTAAGAGCATGT
1 GAGCCAGTGTAAGAGCATGT
31935066 TTGGGACACG
Statistics
Matches: 81, Mismatches: 16, Indels: 19
0.70 0.14 0.16
Matches are distributed among these distances:
39 2 0.02
40 12 0.15
41 14 0.17
42 1 0.01
43 2 0.02
44 2 0.02
45 1 0.01
46 27 0.33
47 17 0.21
48 3 0.04
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.24
Consensus pattern (47 bp):
GAGCCAGTGTAAGAGCATGTCTGAGACATACATCGACCACATTATGA
Found at i:31935152 original size:93 final size:87
Alignment explanation
Indices: 31934912--31935129 Score: 328
Period size: 87 Copynumber: 2.4 Consensus size: 87
31934902 TGGGTTAATG
31934912 TGAGCTAGTGTAAGACATGTCTGAGACATACATCGACCACATTATGAGAGCCAGTGTAAGAGCAT
1 TGAGCTAGTGTAAGACATGTCTGAGACATACATCGACCACATTATGAGAGCCAGTGTAAGAGCAT
*
31934977 GTCTGGGACACGGTATTGGAAT
66 GTCTGGGACACGGTATCGGAAT
*
31934999 TGAGCTAGTGTAAGACATGTCTGAGACATACATCAACCACATTATGAGAGCCAGTGTAAGAGCAT
1 TGAGCTAGTGTAAGACATGTCTGAGACATACATCGACCACATTATGAGAGCCAGTGTAAGAGCAT
* *
31935064 GTTTGGGACACGGTATCGGCAT
66 GTCTGGGACACGGTATCGGAAT
* *
31935086 TAAGCTAGTGCTAGTGTAAGACATGTCTGGGACATGCATCGACC
1 T--G--A--GCTAGTGTAAGACATGTCTGAGACATACATCGACC
31935130 TCGAGACGTA
Statistics
Matches: 118, Mismatches: 7, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
87 84 0.71
89 1 0.01
91 1 0.01
93 32 0.27
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.24
Consensus pattern (87 bp):
TGAGCTAGTGTAAGACATGTCTGAGACATACATCGACCACATTATGAGAGCCAGTGTAAGAGCAT
GTCTGGGACACGGTATCGGAAT
Found at i:31935227 original size:44 final size:44
Alignment explanation
Indices: 31935097--31935229 Score: 128
Period size: 46 Copynumber: 3.0 Consensus size: 44
31935087 AAGCTAGTGC
* * *
31935097 TAGTGTAAGACATGTCTGGGACATGCATCGAC-CTCGAGACGTAAGT
1 TAGTGTAAGACATGTCTGGGACAGGCATCGACTATC-AGA--TATGT
* * * *
31935143 CAGTGTAAGACATGTCTGGGACATGCATCGGCTATGAGATATGT
1 TAGTGTAAGACATGTCTGGGACAGGCATCGACTATCAGATATGT
*
31935187 TAGTGTAAGACCATGTCTGGTACACGGCATCGAC-A-CAGATATG
1 TAGTGTAAGA-CATGTCTGGGACA-GGCATCGACTATCAGATATG
31935230 CTAGAGCCTG
Statistics
Matches: 74, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
44 20 0.27
45 13 0.18
46 40 0.54
47 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.25
Consensus pattern (44 bp):
TAGTGTAAGACATGTCTGGGACAGGCATCGACTATCAGATATGT
Found at i:31942949 original size:20 final size:20
Alignment explanation
Indices: 31942909--31942956 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
31942899 TAACAACAAC
**
31942909 AACGAAAATTTTTACTTGTA
1 AACGAAAATTTTTACAAGTA
31942929 AACGAAAATTTTTACAAGTA
1 AACGAAAATTTTTACAAGTA
*
31942949 AATGAAAA
1 AACGAAAA
31942957 GCAGACATGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.50, C:0.08, G:0.10, T:0.31
Consensus pattern (20 bp):
AACGAAAATTTTTACAAGTA
Found at i:31967240 original size:46 final size:44
Alignment explanation
Indices: 31967072--31967256 Score: 146
Period size: 47 Copynumber: 4.1 Consensus size: 44
31967062 ATTTGTGTGC
** * * * *
31967072 CAGTGTAAGACATGTCTAAGACATGCATCGGCCAC-ATTATGAAAGC
1 CAGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GAT--ATGT
* *
31967118 CAGTGTAAGATCATGTCTGGGACATGGCATCGGCATTGA-GACGAGAGGT
1 CAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC--T-ACGA-GATATGT
31967167 -AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATATGT
1 CAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATATGT
* *
31967210 CAGTGTAAGACCATCTCTGGGACATAGCATCAGC-ACGA-ATATGT
1 CAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATATGT
31967254 CAG
1 CAG
31967257 AGCTAGTGTA
Statistics
Matches: 117, Mismatches: 12, Indels: 22
0.77 0.08 0.15
Matches are distributed among these distances:
43 6 0.05
44 21 0.18
45 17 0.15
46 25 0.21
47 26 0.22
48 17 0.15
49 2 0.02
51 3 0.03
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (44 bp):
CAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATATGT
Found at i:31967252 original size:44 final size:44
Alignment explanation
Indices: 31967167--31967256 Score: 130
Period size: 44 Copynumber: 2.0 Consensus size: 44
31967157 GACGAGAGGT
* *
31967167 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATATGTC
1 AGTGTAAGACATCTCTGGGACATGCATCAGCTACGAGATATGTC
31967211 AGTGTAAGACCATCTCTGGGACATAGCATCAGC-ACGA-ATATGTC
1 AGTGTAAGA-CATCTCTGGGACAT-GCATCAGCTACGAGATATGTC
31967255 AG
1 AG
31967257 AGCTAGTGTA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
44 18 0.43
45 17 0.40
46 7 0.17
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (44 bp):
AGTGTAAGACATCTCTGGGACATGCATCAGCTACGAGATATGTC
Found at i:31973961 original size:46 final size:46
Alignment explanation
Indices: 31973911--31974039 Score: 224
Period size: 46 Copynumber: 2.8 Consensus size: 46
31973901 TGTTTGGGCA
*
31973911 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
31973957 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*
31974003 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
31974040 CGGTTACATG
Statistics
Matches: 80, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
45 2 0.03
46 78 0.98
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:31976976 original size:15 final size:15
Alignment explanation
Indices: 31976956--31977024 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
31976946 ATATCTTGGG
31976956 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
31976971 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
31976986 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
31977001 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
31977016 TTTCTTTAT
1 TTTCTTTAT
31977025 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:31977025 original size:30 final size:30
Alignment explanation
Indices: 31976947--31977034 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
31976937 AATAGTATCA
* * * *
31976947 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
31976977 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
31977007 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
31977035 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:31985150 original size:10 final size:10
Alignment explanation
Indices: 31985135--31985164 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
31985125 ACACATTCAG
31985135 CAAAACATTT
1 CAAAACATTT
31985145 CAAAACATTT
1 CAAAACATTT
*
31985155 CAAATCATTT
1 CAAAACATTT
31985165 GAAAGCAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (10 bp):
CAAAACATTT
Found at i:31992530 original size:12 final size:12
Alignment explanation
Indices: 31992513--31992538 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
31992503 CTGACATCAT
31992513 ATTTTCAGAAAA
1 ATTTTCAGAAAA
31992525 ATTTTCAGAAAA
1 ATTTTCAGAAAA
31992537 AT
1 AT
31992539 CTGATATCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.35
Consensus pattern (12 bp):
ATTTTCAGAAAA
Found at i:32004190 original size:29 final size:29
Alignment explanation
Indices: 32004123--32004190 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
32004113 GAGTTATATC
* * *
32004123 GATTTGGCTTTGGTCCATGCATATCGGAT
1 GATTTGGCTTCGGGCCATGCATATAGGAT
* *
32004152 GATATGGCTTCGGGCCATGTATATAGGAT
1 GATTTGGCTTCGGGCCATGCATATAGGAT
*
32004181 GATTTAGCTT
1 GATTTGGCTT
32004191 TAGGCCATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.21, C:0.15, G:0.28, T:0.37
Consensus pattern (29 bp):
GATTTGGCTTCGGGCCATGCATATAGGAT
Found at i:32004196 original size:29 final size:28
Alignment explanation
Indices: 32004123--32004198 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 28
32004113 GAGTTATATC
*
32004123 GATTTGGCTTTGGTCCATGCATATCGGAT
1 GATTTGGCTTTGG-CCATGCATATAGGAT
* * *
32004152 GATATGGCTTCGGGCCATGTATATAGGAT
1 GATTTGGCTT-TGGCCATGCATATAGGAT
*
32004181 GATTTAGCTTTAGGCCAT
1 GATTTGGCTTT-GGCCAT
32004199 AATAATAGTT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
29 36 0.95
30 2 0.05
ACGTcount: A:0.21, C:0.16, G:0.28, T:0.36
Consensus pattern (28 bp):
GATTTGGCTTTGGCCATGCATATAGGAT
Found at i:32007629 original size:58 final size:58
Alignment explanation
Indices: 32007556--32007679 Score: 232
Period size: 58 Copynumber: 2.2 Consensus size: 58
32007546 GGCTTATATA
*
32007556 CAACAACATCTCAAAATATCATTCACTTACGTCTATTCTATACATGCCATACGAATTC
1 CAACAACATCTCAAAATATCATTCACTTACATCTATTCTATACATGCCATACGAATTC
32007614 CAACAACATCTCAAAATATCATTCACTTACATCTATTCTATACATGCCATACGAATTC
1 CAACAACATCTCAAAATATCATTCACTTACATCTATTCTATACATGCCATACGAATTC
32007672 CAA-AACAT
1 CAACAACAT
32007680 AATAGCACCA
Statistics
Matches: 65, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
57 5 0.08
58 60 0.92
ACGTcount: A:0.39, C:0.27, G:0.04, T:0.30
Consensus pattern (58 bp):
CAACAACATCTCAAAATATCATTCACTTACATCTATTCTATACATGCCATACGAATTC
Found at i:32011325 original size:19 final size:19
Alignment explanation
Indices: 32011297--32011333 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
32011287 TCGCTTCTTG
*
32011297 TCTGAAAAAAATCTTAAGC
1 TCTGAAAAAAACCTTAAGC
*
32011316 TCTGACAAAAACCTTAAG
1 TCTGAAAAAAACCTTAAG
32011334 GATGTCATCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.19, G:0.11, T:0.24
Consensus pattern (19 bp):
TCTGAAAAAAACCTTAAGC
Found at i:32016980 original size:79 final size:81
Alignment explanation
Indices: 32016867--32017049 Score: 241
Period size: 79 Copynumber: 2.3 Consensus size: 81
32016857 TACTCGTTCA
* *
32016867 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* * *
32016930 ATTTAGTGAC-TCGCACC
65 ATATAGTCACTTAGCA-C
**
32016947 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
32017010 TATAGTCACTTAGCAC
66 TATAGTCACTTAGCAC
*
32017026 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
32017050 CATCATTCGA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 3 0.03
79 60 0.66
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTCACTTAGCAC
Found at i:32017049 original size:40 final size:40
Alignment explanation
Indices: 32016846--32017049 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
32016836 TCGAATTTAA
** *
32016846 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
32016886 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
32016926 CCGGATTTAGTGACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
32016965 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
32017005 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
32017045 CCGGA
1 CCGGA
32017050 CATCATTCGA
Statistics
Matches: 140, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:32025145 original size:39 final size:40
Alignment explanation
Indices: 32025029--32025213 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
32025019 GCTACTCGTT
*
32025029 CAAATGCCTTCGGGACATAGCCC-GATTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
32025069 CAAATGCCTTCGGGACTTAACCCGGATTTAGTGACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
32025109 CCAATGCCTTTGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
32025148 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
32025189 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
32025214 CATCATTCGA
Statistics
Matches: 124, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 76 0.61
41 15 0.12
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:32025173 original size:79 final size:81
Alignment explanation
Indices: 32025031--32025213 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
32025021 TACTCGTTCA
* *
32025031 AATGCCTTCGGGACATAGCCC-GATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
* * *
32025095 TTTAGTGAC-TCGCACC
66 TATAGTCACTTAGCA-C
* **
32025111 AATGCCTTTGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
32025173 ATATAGTCACTTAGCAC
65 ATATAGTCACTTAGCAC
*
32025190 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
32025214 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 57 0.64
80 29 0.33
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTCACTTAGCAC
Found at i:32035851 original size:42 final size:42
Alignment explanation
Indices: 32035792--32035951 Score: 216
Period size: 42 Copynumber: 3.8 Consensus size: 42
32035782 TTAGGGTTAC
* *
32035792 TGAGACTACGTGTAAGACCATATATGGGATATGGCATCAATA
1 TGAGACTTCGTGTAAGACCATATATGGGATATGGCATCGATA
*
32035834 TGAGACTTCGTGTAAGACCATATATGGGATATGGCATTGATA
1 TGAGACTTCGTGTAAGACCATATATGGGATATGGCATCGATA
*
32035876 TGAGACTTCGTGTAAGACCATAGT-TGGGTTATTGGCATCGATA
1 TGAGACTTCGTGTAAGACCATA-TATGGGATA-TGGCATCGATA
* * *
32035919 CGAGA-TTACATGTAAGACCATATCTGGGATATG
1 TGAGACTT-CGTGTAAGACCATATATGGGATATG
32035952 ACATTGGTAC
Statistics
Matches: 106, Mismatches: 8, Indels: 8
0.87 0.07 0.07
Matches are distributed among these distances:
42 72 0.68
43 34 0.32
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (42 bp):
TGAGACTTCGTGTAAGACCATATATGGGATATGGCATCGATA
Found at i:32035947 original size:85 final size:84
Alignment explanation
Indices: 32035792--32035957 Score: 228
Period size: 85 Copynumber: 2.0 Consensus size: 84
32035782 TTAGGGTTAC
* *
32035792 TGAGACTACGTGTAAGACCATATATGGGATATGGCATCAATATGAGACTTCGTGTAAGACCATAT
1 TGAGACTACGTGTAAGACCATATATGGGATATGGCATCAATACGAGACTTCATGTAAGACCATAT
*
32035857 ATGGGATATGGCATTGATA
66 ATGGGATATGACATTGATA
* * *
32035876 TGAGACTTCGTGTAAGACCATAGT-TGGGTTATTGGCATCGATACGAGA-TTACATGTAAGACCA
1 TGAGACTACGTGTAAGACCATA-TATGGGATA-TGGCATCAATACGAGACTT-CATGTAAGACCA
*
32035939 TATCTGGGATATGACATTG
63 TATATGGGATATGACATTG
32035958 GTACGGTACC
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
84 29 0.40
85 43 0.60
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (84 bp):
TGAGACTACGTGTAAGACCATATATGGGATATGGCATCAATACGAGACTTCATGTAAGACCATAT
ATGGGATATGACATTGATA
Found at i:32042385 original size:30 final size:30
Alignment explanation
Indices: 32042327--32042387 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
32042317 TTCCCGAACC
*
32042327 TAGGGGCAAAAGTGTAAATATGTAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGGAAAAGTT
* * * *
32042357 TAGGGGCAAAATTGTAATTTTGGCAAAGTT
1 TAGGGGCAAAAGTGTAAATATGGAAAAGTT
32042387 T
1 T
32042388 GAGTTAAGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.38, C:0.05, G:0.26, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGGAAAAGTT
Found at i:32042973 original size:68 final size:64
Alignment explanation
Indices: 32042851--32043001 Score: 160
Period size: 68 Copynumber: 2.3 Consensus size: 64
32042841 ATACAGATGG
* * * * *
32042851 TATGTAGCTAGGTCACATGTATGGTGCTAAGTGCACATCATGTGTACAACAGAGCTACGAGACAT
1 TATGTAGCTAGGTCGCATGGATGATACTAAGTGCACACCATGTGTACAACAGAGCTACG-G-CA-
32042916 TA
63 TA
* * * * *
32042918 TGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGCTACGGGAT
1 T-ATGTAGCTAGGTCGCATGGATGATACTAAGTGCACACCATGT-GTACAACAGAGCTACGGCAT
32042982 A
64 A
32042983 TATGTAGCTAGGTCGCATG
1 TATGTAGCTAGGTCGCATG
32043002 CGTGGTTCCA
Statistics
Matches: 72, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
64 18 0.25
65 3 0.04
66 1 0.01
67 2 0.03
68 47 0.65
69 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (64 bp):
TATGTAGCTAGGTCGCATGGATGATACTAAGTGCACACCATGTGTACAACAGAGCTACGGCATA
Found at i:32043000 original size:64 final size:64
Alignment explanation
Indices: 32042920--32043102 Score: 174
Period size: 67 Copynumber: 2.8 Consensus size: 64
32042910 AGACATTATG
* ** *
32042920 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACAAGATAA
* * * * * *
32042984 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCACGTAGACAAGAGAGCTACAAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACAAGAT
32043049 AA
63 AA
** * *
32043051 ACTG--GCTAGGTCATATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAG
1 A-TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAG
32043103 TCAAAATTAT
Statistics
Matches: 94, Mismatches: 20, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
62 1 0.01
63 17 0.18
64 25 0.27
66 20 0.21
67 29 0.31
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACAAGATAA
Found at i:32049845 original size:19 final size:17
Alignment explanation
Indices: 32049795--32049839 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
32049785 AGTTGGGCCA
*
32049795 TGTGGG-CCTCACAGGCT
1 TGTGGGCCCT-ACGGGCT
32049812 TGTGGGCCCTACGGGCT
1 TGTGGGCCCTACGGGCT
32049829 TGTGGGCCCTA
1 TGTGGGCCCTA
32049840 TACGGGTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 23 0.88
18 3 0.12
ACGTcount: A:0.09, C:0.29, G:0.38, T:0.24
Consensus pattern (17 bp):
TGTGGGCCCTACGGGCT
Found at i:32053311 original size:219 final size:220
Alignment explanation
Indices: 32052930--32053333 Score: 596
Period size: 219 Copynumber: 1.8 Consensus size: 220
32052920 CAGACAGGTG
** *
32052930 TGTAAACACTACCTAAACTGTGGAAATCGGTAAAAAGCCGAAAGGTGCGATTAGATGACACCACA
1 TGTAAACACTACCTAAACTGTGGAAATCGACAAAAAGCCGAAAGGTCCGATTAGATGACACCACA
* *
32052995 CGGGCATACGGCTACCCATGTGGTAACCCGTGTGACCAAACATGGGCGGATGGTAGACGAGGCCC
66 CGGGCATACGGCTACCCATGTGGTAACCCGTGTAACCAAACATGAGCGGATGGTAGACGAGGCCC
* * * *
32053060 TCATGAGCGAATTCGTGGGCTGAGGCCGTATTGGCT-ATTTTGGGCTAAGTTGGGCTATGTGGGC
131 TCATGAGAGAATTCATGGGCCGAGGCCGTATTGGCTAATTTTGGGCCAAGTTGGGCTATGTGGGC
32053124 CCCACACGGTTAAACCACATAGACA
196 CCCACACGGTTAAACCACATAGACA
* *
32053149 TGTAAACACTATCTAAACTGTGGAAATCGACAAAAAGCCGAAAGGTCCGATTAG-TCGGCACCAC
1 TGTAAACACTACCTAAACTGTGGAAATCGACAAAAAGCCGAAAGGTCCGATTAGAT-GACACCAC
* * * * * * *
32053213 ACGGGCATGCGGTTACCCATGTGGTAGCCTGTGTAACTAAACATGAGTGGATGGTCGACGAGGCC
65 ACGGGCATACGGCTACCCATGTGGTAACCCGTGTAACCAAACATGAGCGGATGGTAGACGAGGCC
* * *
32053278 GTCATGAGAGAATTCATGGGCCGAGGTCGTATTGGGTAATTTTGGGCCAAGTTGGG
130 CTCATGAGAGAATTCATGGGCCGAGGCCGTATTGGCTAATTTTGGGCCAAGTTGGG
32053334 TCGTGTAGGC
Statistics
Matches: 162, Mismatches: 21, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
218 1 0.01
219 144 0.89
220 17 0.10
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (220 bp):
TGTAAACACTACCTAAACTGTGGAAATCGACAAAAAGCCGAAAGGTCCGATTAGATGACACCACA
CGGGCATACGGCTACCCATGTGGTAACCCGTGTAACCAAACATGAGCGGATGGTAGACGAGGCCC
TCATGAGAGAATTCATGGGCCGAGGCCGTATTGGCTAATTTTGGGCCAAGTTGGGCTATGTGGGC
CCCACACGGTTAAACCACATAGACA
Found at i:32063880 original size:40 final size:40
Alignment explanation
Indices: 32063775--32064099 Score: 446
Period size: 40 Copynumber: 8.2 Consensus size: 40
32063765 GGATTAATAA
* *
32063775 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
32063815 TCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
32063854 CTGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
32063894 CCGGGCTAAGTCCTGAAGACATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
32063934 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
32063974 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
32064014 CCGGGCTAAGTCCCG--TGCCTTCGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
32064052 CCGGGCTAAGTCCCGAAGGTATTTGAGCTAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
32064092 CC-GGCTAA
1 CCGGGCTAA
32064100 ACTCCGAAGG
Statistics
Matches: 255, Mismatches: 25, Indels: 11
0.88 0.09 0.04
Matches are distributed among these distances:
38 35 0.14
39 41 0.16
40 179 0.70
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:32067450 original size:119 final size:120
Alignment explanation
Indices: 32067274--32067496 Score: 301
Period size: 119 Copynumber: 1.9 Consensus size: 120
32067264 TACTCGTTCA
* * *
32067274 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAGCCCGGAT
*
32067339 ATAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * *
32067394 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTC-ATATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGAGA-CTTAGCCCGG
* * *
32067456 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
32067497 CATCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 2 0.02
119 68 0.76
120 20 0.22
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAGCCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:32067496 original size:40 final size:40
Alignment explanation
Indices: 32067272--32067496 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
32067262 GCTACTCGTT
* *
32067272 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
32067312 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
32067352 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
32067392 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
** * * * *
32067431 CAAATGCCTTC-ATATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
32067472 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
32067497 CATCATTCAA
Statistics
Matches: 162, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
39 32 0.20
40 120 0.74
41 10 0.06
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:32069952 original size:30 final size:30
Alignment explanation
Indices: 32069918--32070014 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
32069908 AGCTCACTCC
32069918 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
32069948 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
32069978 CAGCTCAACTTTAGCTCACGAGCTAAAACT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
32070008 TAGCTCA
1 TAGCTCA
32070015 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:32077089 original size:40 final size:40
Alignment explanation
Indices: 32076934--32077098 Score: 223
Period size: 40 Copynumber: 4.2 Consensus size: 40
32076924 ATTGATAACT
* *
32076934 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTTC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATA-TCC
32076974 GGGCTAAG-CCCGAAGGCATTTGTG-TGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCT-AGTTACTATATCC
*
32077013 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATATCC
* *
32077053 AGGCTAAGTCCCGAAGGCATTTGAGCTAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTTA-CTATATCC
32077093 -GGCTAA
1 GGGCTAA
32077099 ACTCCGAAGG
Statistics
Matches: 114, Mismatches: 6, Indels: 11
0.87 0.05 0.08
Matches are distributed among these distances:
38 1 0.01
39 41 0.36
40 72 0.63
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATATCC
Found at i:32077097 original size:79 final size:79
Alignment explanation
Indices: 32076934--32077098 Score: 221
Period size: 79 Copynumber: 2.1 Consensus size: 79
32076924 ATTGATAACT
* * * *
32076934 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTTCGGGCTAAGCCCGAAGGCATTTGTGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCAGGCTAAGCCCGAAGGCATTTGAGT
32076999 GAGTTACTATATCC
66 GAGTTACTATATCC
*
32077013 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCCAGGCTAAGTCCCGAAGGCATTTGA
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-TCCAGGCTAAG-CCCGAAGGCATTTGA
32077077 GCT-AG-TAGCTATATCC
64 G-TGAGTTA-CTATATCC
32077093 -GGCTAA
1 GGGCTAA
32077099 ACTCCGAAGG
Statistics
Matches: 77, Mismatches: 5, Indels: 8
0.86 0.06 0.09
Matches are distributed among these distances:
78 2 0.03
79 49 0.64
80 25 0.32
81 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (79 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCAGGCTAAGCCCGAAGGCATTTGAGT
GAGTTACTATATCC
Found at i:32088963 original size:39 final size:40
Alignment explanation
Indices: 32088847--32089031 Score: 189
Period size: 40 Copynumber: 4.7 Consensus size: 40
32088837 GCTACTCGTT
* *
32088847 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* * *
32088887 CAAATGCCTTCGGGACTTAACCCAGATTTAGTGACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
32088927 CCAATACCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
32088966 CAAATGCCTTC-AGATCTTAGTCCGAATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
32089007 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
32089032 CATCATTCGA
Statistics
Matches: 117, Mismatches: 23, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
38 1 0.01
39 30 0.26
40 74 0.63
41 12 0.10
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:32095893 original size:47 final size:47
Alignment explanation
Indices: 32095839--32096196 Score: 574
Period size: 47 Copynumber: 7.6 Consensus size: 47
32095829 TATTTGAATA
* *
32095839 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
32095886 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGAT-ATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATG-TGATG
*
32095935 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
32095982 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
32096029 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
32096076 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
32096123 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
32096170 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
32096197 TCCCGAAGGG
Statistics
Matches: 295, Mismatches: 12, Indels: 8
0.94 0.04 0.03
Matches are distributed among these distances:
46 1 0.00
47 250 0.85
49 43 0.15
50 1 0.00
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:32108716 original size:48 final size:48
Alignment explanation
Indices: 32108614--32108727 Score: 124
Period size: 48 Copynumber: 2.4 Consensus size: 48
32108604 CATGTCCCGA
*
32108614 ACATGGTCTTACATAGGATCACATAACAATGCGAAAGCCATGTCCCAG
1 ACATGGTCTTACATAGGATCACATAACAATGCGAAAGCCATATCCCAG
** * *
32108662 ACATGGTCTTACAT-GGTATCACATGTCACTGCCG-AAGCCATATCCTAG
1 ACATGGTCTTACATAGG-ATCACATAACAATG-CGAAAGCCATATCCCAG
* * *
32108710 ATATGGTATTATATAGGA
1 ACATGGTCTTACATAGGA
32108728 GCTCATCCAC
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
47 2 0.04
48 49 0.89
49 4 0.07
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.26
Consensus pattern (48 bp):
ACATGGTCTTACATAGGATCACATAACAATGCGAAAGCCATATCCCAG
Found at i:32115981 original size:20 final size:21
Alignment explanation
Indices: 32115956--32115996 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
32115946 AGATCTTTTG
32115956 GGTATAGTTAGTC-CTTTATT
1 GGTATAGTTAGTCTCTTTATT
32115976 GGTATAGTTAGTCTCTTTATT
1 GGTATAGTTAGTCTCTTTATT
32115997 TTAAGTATGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.20, C:0.10, G:0.20, T:0.51
Consensus pattern (21 bp):
GGTATAGTTAGTCTCTTTATT
Found at i:32118730 original size:33 final size:33
Alignment explanation
Indices: 32118688--32118756 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
32118678 TGACAAAGTA
32118688 TGTAGGAATTGCCCTTTGATGATTAGAGGACAC
1 TGTAGGAATTGCCCTTTGATGATTAGAGGACAC
32118721 TGTAGGAATTGCCCTTTGATGATTAGAGGACAC
1 TGTAGGAATTGCCCTTTGATGATTAGAGGACAC
32118754 TGT
1 TGT
32118757 TTTTCGACTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.32
Consensus pattern (33 bp):
TGTAGGAATTGCCCTTTGATGATTAGAGGACAC
Found at i:32122752 original size:22 final size:22
Alignment explanation
Indices: 32122712--32122753 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
32122702 TTATGAATTA
*
32122712 TATGTTTGGTATGACTTTGGCT
1 TATGTTTGGCATGACTTTGGCT
32122734 TATGATTTGGCATGA-TTTGG
1 TATG-TTTGGCATGACTTTGG
32122754 TATGGATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.17, C:0.07, G:0.29, T:0.48
Consensus pattern (22 bp):
TATGTTTGGCATGACTTTGGCT
Found at i:32138286 original size:40 final size:40
Alignment explanation
Indices: 32138187--32138288 Score: 118
Period size: 40 Copynumber: 2.5 Consensus size: 40
32138177 GCTACTCGTT
* *
32138187 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACA
* * * *
32138227 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTCA-CA
32138268 CAAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGACTTAGCC
32138289 TGGACATCAT
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
39 3 0.06
40 40 0.77
41 9 0.17
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACA
Found at i:32150125 original size:93 final size:93
Alignment explanation
Indices: 32150013--32150184 Score: 285
Period size: 93 Copynumber: 1.8 Consensus size: 93
32150003 TGCCCATAAG
*
32150013 CGAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCGCATCCATAAGTGAACTCGGAA-TCAACT
1 CGAACTCGGACTCAACTCAACGAGCTCGGA-CATTCGCATCCATAAGTGAACTC-GAACTCAACT
32150076 CAACGAGTTCGGATGCCTAGTTACATCTCA
64 CAACGAGTTCGGATGCCTAGTTACATCTCA
*
32150106 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
*
32150171 ACGTGTTCGGATGC
66 ACGAGTTCGGATGC
32150185 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
92 3 0.04
93 69 0.93
94 2 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:32150180 original size:46 final size:47
Alignment explanation
Indices: 32150006--32150181 Score: 177
Period size: 46 Copynumber: 3.8 Consensus size: 47
32149996 TGTAACCTGC
* * *
32150006 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCGCAT
1 CCATAAGCGAACTCGAACTCAACTCAACGAGTTCGGAGCATTCGCAT
* *
32150052 CCATAAGTGAACTCGGAA-TCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTC-GAACTCAACTCAACGAGTTCGGA-G-C-A-TTCGCAT
* *
32150102 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA-CATTCGCAT
1 CCATAAGCGAACTCGAACTCAACTCAACGAGTTCGGAGCATTCGCAT
* *
32150145 CCATAAGTGAACTCGAACTCAACTCAACGTGTTCGGA
1 CCATAAGCGAACTCGAACTCAACTCAACGAGTTCGGA
32150182 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 13, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 57 0.54
47 29 0.27
48 3 0.03
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (47 bp):
CCATAAGCGAACTCGAACTCAACTCAACGAGTTCGGAGCATTCGCAT
Found at i:32152774 original size:48 final size:48
Alignment explanation
Indices: 32152641--32152775 Score: 189
Period size: 48 Copynumber: 2.8 Consensus size: 48
32152631 GTGGATGAGC
* * * *
32152641 TCCCATATAAGACCATATCTGGGATATGGCTTTGGCAGTGACATGTGA
1 TCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCATTGACATGTGA
**
32152689 TCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCATTGTTATGTGA
1 TCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCATTGACATGTGA
* * *
32152737 TCCCATGTAAGACCATGCCCGGGACATGGCATTGGCATT
1 TCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCATT
32152776 AGAATGAGAC
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 78 1.00
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (48 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCATTGACATGTGA
Found at i:32152916 original size:48 final size:48
Alignment explanation
Indices: 32152641--32152915 Score: 170
Period size: 48 Copynumber: 5.8 Consensus size: 48
32152631 GTGGATGAGC
* * * * ** *
32152641 TCCCATATAAGACCATATCTGGGATATGGCTTTGGCAGTGACATGTGA
1 TCCCATGTAAGACCATATCTGGGACATGGCATTGGCACTGTTATGTGG
* * * *
32152689 TCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCATTGTTATGTGA
1 TCCCATGTAAGACCATATCTGGGACATGGCATTGGCACTGTTATGTGG
** * * * *
32152737 TCCCATGTAAGACCATGCCCGGGACATGGCATTGGCATTAG-AATG-AG
1 TCCCATGTAAGACCATATCTGGGACATGGCATTGGCACT-GTTATGTGG
* * * * * ** * *
32152784 ACATCGTGTAAGATCACAGT-TGGG-C-TAACA---GCTCTGGTATGTGAG
1 TC-CCATGTAAGACCATA-TCTGGGACATGGCATTGGCACTGTTATGTG-G
* * * *
32152829 ATCCCAAGTAAGACCATGTCTAGGACATGGCATTGGCACCGTTATGTGG
1 -TCCCATGTAAGACCATATCTGGGACATGGCATTGGCACTGTTATGTGG
*
32152878 TCCCATGTAAGACCATATCTGGGATATGGCATTGGCAC
1 TCCCATGTAAGACCATATCTGGGACATGGCATTGGCAC
32152916 CCTACCTTGT
Statistics
Matches: 171, Mismatches: 43, Indels: 26
0.71 0.18 0.11
Matches are distributed among these distances:
42 1 0.01
43 6 0.04
44 1 0.01
45 13 0.08
46 5 0.03
47 5 0.03
48 128 0.75
49 2 0.01
50 10 0.06
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (48 bp):
TCCCATGTAAGACCATATCTGGGACATGGCATTGGCACTGTTATGTGG
Found at i:32155670 original size:21 final size:22
Alignment explanation
Indices: 32155644--32155684 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
32155634 ACACTTGACA
32155644 AGGGGC-ACACGCCCGTGTGGG
1 AGGGGCGACACGCCCGTGTGGG
32155665 AGGGGCGACACGCCCGTGTG
1 AGGGGCGACACGCCCGTGTG
32155685 ACCAATTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.15, C:0.29, G:0.46, T:0.10
Consensus pattern (22 bp):
AGGGGCGACACGCCCGTGTGGG
Found at i:32156880 original size:47 final size:48
Alignment explanation
Indices: 32156806--32157031 Score: 182
Period size: 47 Copynumber: 4.8 Consensus size: 48
32156796 GTGGGTAAGG
* *
32156806 TGCCGATGCCATGTCCCGAACACGGTCTTACACTAGCTCATATCTC-A
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCATATCTCGA
* * *
32156853 TGTCGATGCCATGTCCCAAACATGGTCTTACACT-GATTATCATCTCG-
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCAT-ATCTCGA
* * * *
32156900 TAGCCGATG-CATGTCTCAGACAT-GTCTTACAC-AGGT-TTACGTCTCGA
1 T-GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCATA--TCTCGA
* * * **
32156947 GGCCGATG-CATGTCCCATACAT-GTCTTACACTAGCACCCATCTCGA
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCATATCTCGA
* * * * *
32156993 TGCTGATTCCATGTACCAAGCATGGTCTTACACTGGCTC
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTC
32157032 TCCTAATGTA
Statistics
Matches: 143, Mismatches: 25, Indels: 21
0.76 0.13 0.11
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 59 0.41
47 62 0.43
48 20 0.14
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (48 bp):
TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCATATCTCGA
Found at i:32156991 original size:46 final size:45
Alignment explanation
Indices: 32156807--32157026 Score: 137
Period size: 46 Copynumber: 4.7 Consensus size: 45
32156797 TGGGTAAGGT
* * *
32156807 GCCGATGCCATGTCCCGAACACGGTCTTACACTAGCTCATATCTC-A
1 GCCGATGCCATGTCCC-AACA-TGTCTTACACTAGCACACATCTCGA
* *
32156853 TGTCGATGCCATGTCCCAAACATGGTCTTACACT-G-ATTATCATCTCGTA
1 -GCCGATGCCATGTCCC-AACAT-GTCTTACACTAGCA-CA-CATCTCG-A
* *** *
32156902 GCCGATG-CATGTCTCAGACATGTCTTACAC-AGGTTTACGTCTCGA
1 GCCGATGCCATGTCCCA-ACATGTCTTACACTA-GCACACATCTCGA
*
32156947 GGCCGATG-CATGTCCCATACATGTCTTACACTAGCACCCATCTCGA
1 -GCCGATGCCATGTCCCA-ACATGTCTTACACTAGCACACATCTCGA
* * *
32156993 TGCTGATTCCATGTACCAAGCATGGTCTTACACT
1 -GCCGATGCCATGTCCCAA-CAT-GTCTTACACT
32157027 GGCTCTCCTA
Statistics
Matches: 138, Mismatches: 21, Indels: 27
0.74 0.11 0.15
Matches are distributed among these distances:
45 1 0.01
46 60 0.43
47 60 0.43
48 16 0.12
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (45 bp):
GCCGATGCCATGTCCCAACATGTCTTACACTAGCACACATCTCGA
Found at i:32157067 original size:140 final size:141
Alignment explanation
Indices: 32156807--32157069 Score: 329
Period size: 140 Copynumber: 1.9 Consensus size: 141
32156797 TGGGTAAGGT
* * *
32156807 GCCGATGCCATGTCCCGAACACGGTCTTACACTAGCTCATATCTCATGTCGATGCCATGTCCCAA
1 GCCGATGCCATGTCCCGAACACGGTCTTACACTAGCACACATCTCATGTCGATGCCATGTACCAA
* * *
32156872 ACATGGTCTTACACTGATTATCATCTCGTAGCCGATGCATGTCTCAGACATGTCTTACACAGGTT
66 ACATGGTCTTACACTGACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACAGGTT
32156937 TACGTCTCGAG
131 TACGTCTCGAG
* * *
32156948 GCCGATG-CATGTCCC-ATACA-TGTCTTACACTAGCACCCATCTCGATG-CTGATTCCATGTAC
1 GCCGATGCCATGTCCCGA-ACACGGTCTTACACTAGCACACATCTC-ATGTC-GATGCCATGTAC
* * * * *
32157009 CAAGCATGGTCTTACACTGGCTCTCCTAAT-GTAGCTGATGCATGTCCCAGACATGTCTTAC
63 CAAACATGGTCTTACACTGACTATCAT-ATCGTAGCCGATGCATGTCCCAGACATGTCTTAC
32157070 TCTAGCCCAT
Statistics
Matches: 104, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
139 21 0.20
140 75 0.72
141 8 0.08
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.29
Consensus pattern (141 bp):
GCCGATGCCATGTCCCGAACACGGTCTTACACTAGCACACATCTCATGTCGATGCCATGTACCAA
ACATGGTCTTACACTGACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACAGGTT
TACGTCTCGAG
Found at i:32158389 original size:28 final size:28
Alignment explanation
Indices: 32158344--32158414 Score: 117
Period size: 28 Copynumber: 2.5 Consensus size: 28
32158334 TAGGATATGA
*
32158344 CATTGTGCTAAGTGAAATAAGTCCATGG
1 CATTGTGCTAAGTGAAATAAGCCCATGG
32158372 CAATT-TGCTAAGTGAAATAAGCCCATGG
1 C-ATTGTGCTAAGTGAAATAAGCCCATGG
32158400 CATTGTGCTAAGTGA
1 CATTGTGCTAAGTGA
32158415 GAAATTTCTC
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
27 3 0.08
28 34 0.85
29 3 0.08
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.28
Consensus pattern (28 bp):
CATTGTGCTAAGTGAAATAAGCCCATGG
Found at i:32159894 original size:40 final size:40
Alignment explanation
Indices: 32159827--32160073 Score: 376
Period size: 40 Copynumber: 6.2 Consensus size: 40
32159817 CCTTCGGAGT
* *
32159827 TTAG-CCGGATATAGCT-ACTAGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGAC
*
32159866 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
*
32159906 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
*
32159946 TTAGCCCAGATATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
32159986 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGG-C
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* * *
32160025 TTAGCCC-GAAATTAGTCACTAGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGAC
32160065 TTAGCCCGG
1 TTAGCCCGG
32160074 TTATCAATCC
Statistics
Matches: 194, Mismatches: 9, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
38 3 0.02
39 37 0.19
40 153 0.79
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:32161767 original size:51 final size:51
Alignment explanation
Indices: 32161691--32161921 Score: 358
Period size: 51 Copynumber: 4.5 Consensus size: 51
32161681 TTAGGGTTGT
* *
32161691 CACAAGTGTGGTACTATATGAAGGCCACTTTGTGAATATAATAGCTTTGGA
1 CACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAATAAAATAGCTTTGGA
* * * *
32161742 CACAAGTGTGGTACTATGTGAAGGCCATTTTTTGAATATAATAGCTTCGGA
1 CACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAATAAAATAGCTTTGGA
*
32161793 CACAAGTGTGGTACTATGTAAAGGCCACTTTGTGAATAAAATAGCTTTGGA
1 CACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAATAAAATAGCTTTGGA
32161844 CACAAGTGTGGTACTATGTG-AGAGCCACTTTGTGAATAAAATAGCTTTGG-
1 CACAAGTGTGGTACTATGTGAAG-GCCACTTTGTGAATAAAATAGCTTTGGA
*
32161894 CTACAAGGGTGGTACTATGTGAAGGCCA
1 C-ACAAGTGTGGTACTATGTGAAGGCCA
32161922 TCGTGTATCC
Statistics
Matches: 166, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
50 3 0.02
51 161 0.97
52 2 0.01
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (51 bp):
CACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAATAAAATAGCTTTGGA
Done.