Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 159 of 210
Found at i:53232784 original size:2 final size:2
Alignment explanation
Indices: 53232777--53232801 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
53232767 ATCAACTTAG
53232777 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
53232802 GTTTTCAGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:53237043 original size:20 final size:20
Alignment explanation
Indices: 53237020--53237057 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
53237010 TACCAGATAC
*
53237020 GCAGATAAACTGCCAGAATT
1 GCAGACAAACTGCCAGAATT
*
53237040 GCAGACAAGCTGCCAGAA
1 GCAGACAAACTGCCAGAA
53237058 ATGTGGACAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.24, G:0.24, T:0.13
Consensus pattern (20 bp):
GCAGACAAACTGCCAGAATT
Found at i:53244204 original size:13 final size:13
Alignment explanation
Indices: 53244186--53244222 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
53244176 ATTAGGTTTT
53244186 GGAGGTTACTACA
1 GGAGGTTACTACA
53244199 GGAGGTTACTACA
1 GGAGGTTACTACA
53244212 GGAGGTTACTA
1 GGAGGTTACTA
53244223 AACGAGTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.30, C:0.14, G:0.32, T:0.24
Consensus pattern (13 bp):
GGAGGTTACTACA
Found at i:53246595 original size:19 final size:18
Alignment explanation
Indices: 53246571--53246615 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
53246561 TATCAAGATA
*
53246571 AATATTAGATTAAATTAT
1 AATATTAAATTAAATTAT
*
53246589 AAGTATTAAATTTAATT-T
1 AA-TATTAAATTAAATTAT
53246607 AATATTAAA
1 AATATTAAA
53246616 CTATTAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 7 0.29
18 5 0.21
19 12 0.50
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.44
Consensus pattern (18 bp):
AATATTAAATTAAATTAT
Found at i:53248187 original size:15 final size:15
Alignment explanation
Indices: 53248148--53248179 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
53248138 TATGCATGCA
53248148 AAATATAAAAGACAT
1 AAATATAAAAGACAT
*
53248163 AAATACAAAAGACAT
1 AAATATAAAAGACAT
53248178 AA
1 AA
53248180 TAGTAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATATAAAAGACAT
Found at i:53251608 original size:45 final size:45
Alignment explanation
Indices: 53251533--53251709 Score: 178
Period size: 45 Copynumber: 4.0 Consensus size: 45
53251523 TACACGGTGG
* * * * * *
53251533 ATCAGCACATAGC-ACCACCCTAATATTCAATGATACTCAGTAGA
1 ATCAGCACACAACAACCACCTTTATAATCAATGATACCCAGTAGA
* * * * *
53251577 ATCAGCAAATAACAACCACCTTCATAATCAAT-AGTACCCGGTGGA
1 ATCAGCACACAACAACCACCTTTATAATCAATGA-TACCCAGTAGA
*** *
53251622 ATCAGCACACAACAACCACCTTTATAATCAATGATACTTGGTGGA
1 ATCAGCACACAACAACCACCTTTATAATCAATGATACCCAGTAGA
* *
53251667 ATCAGCACACAGCAACCACCTTTATAATCAATGGTACCCAGTA
1 ATCAGCACACAACAACCACCTTTATAATCAATGATACCCAGTA
53251710 CACGTAGTAG
Statistics
Matches: 111, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
44 12 0.11
45 98 0.88
46 1 0.01
ACGTcount: A:0.38, C:0.27, G:0.12, T:0.22
Consensus pattern (45 bp):
ATCAGCACACAACAACCACCTTTATAATCAATGATACCCAGTAGA
Found at i:53251669 original size:90 final size:88
Alignment explanation
Indices: 53251527--53251705 Score: 223
Period size: 90 Copynumber: 2.0 Consensus size: 88
53251517 AACAGATACA
* * * *
53251527 CGGTGGATCAGCACATAGCACCACCCTAATATTCAATGATACTCAGTAGAATCAGCAAATAACAA
1 CGGTGGATCAGCACACAACACCACCCTAATAATCAATGATACTCAGTAGAATCAGCAAACAACAA
53251592 CCACCTTCATAATCAATAGTACC
66 CCACCTTCATAATCAATAGTACC
* * ** * * *
53251615 CGGTGGAATCAGCACACAACAACCACCTTTATAATCAATGATACTTGGTGGAATCAGCACACAGC
1 CGGTGG-ATCAGCACACAAC-ACCACCCTAATAATCAATGATACTCAGTAGAATCAGCAAACAAC
* *
53251680 AACCACCTTTATAATCAATGGTACC
64 AACCACCTTCATAATCAATAGTACC
53251705 C
1 C
53251706 AGTACACGTA
Statistics
Matches: 76, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
88 6 0.08
89 11 0.14
90 59 0.78
ACGTcount: A:0.37, C:0.27, G:0.14, T:0.22
Consensus pattern (88 bp):
CGGTGGATCAGCACACAACACCACCCTAATAATCAATGATACTCAGTAGAATCAGCAAACAACAA
CCACCTTCATAATCAATAGTACC
Found at i:53253175 original size:72 final size:72
Alignment explanation
Indices: 53253057--53253203 Score: 233
Period size: 72 Copynumber: 2.0 Consensus size: 72
53253047 CTTCTATGTT
*
53253057 GTTGATCGTTTGCAAGTTTTTCTACAACTTTCTCAAGAATTGAACTTGGTGATTGTTCTACCACT
1 GTTGATCGTTTGCAAGTTTTTCTACAACTTTCTCAAGAATTAAACTTGGTGATTGTTCTACCACT
53253122 -CTCGAAA
66 CCT-GAAA
* * **
53253129 GTTGATCGTTTGCAGGTTTTTCTACAACTTTTTTGAGAATTAAACTTGGTGATTGTTCTACCACT
1 GTTGATCGTTTGCAAGTTTTTCTACAACTTTCTCAAGAATTAAACTTGGTGATTGTTCTACCACT
53253194 CCTGAAA
66 CCTGAAA
53253201 GTT
1 GTT
53253204 CCTCGAGTAC
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
72 67 0.97
73 2 0.03
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.41
Consensus pattern (72 bp):
GTTGATCGTTTGCAAGTTTTTCTACAACTTTCTCAAGAATTAAACTTGGTGATTGTTCTACCACT
CCTGAAA
Found at i:53253331 original size:115 final size:115
Alignment explanation
Indices: 53253129--53253336 Score: 344
Period size: 115 Copynumber: 1.8 Consensus size: 115
53253119 ACTCTCGAAA
* * *
53253129 GTTGATCGTTTGCAGGTTTTTCTACAACTTTTTTGAGAATTAAACTTGGTGATTGTTCTACCACT
1 GTTGATCGTTTGCAGGTTTTTCTACAAATTTCTCGAGAATTAAACTTGGTGATTGTTCTACCACT
53253194 CCTGAAAGTTCCTCGAGTACCACTTTACCTTGAGCGTATTCCTCTATGTT
66 CCTGAAAGTTCCTCGAGTACCACTTTACCTTGAGCGTATTCCTCTATGTT
* * * *
53253244 GTTGATCGTTTGTAGGTTTTTCTGCAAATTTCTCGCGAATTGAACTTGGTGATTGTTCTACCACT
1 GTTGATCGTTTGCAGGTTTTTCTACAAATTTCTCGAGAATTAAACTTGGTGATTGTTCTACCACT
*
53253309 CTTGAAAGTTCCTCGAGTACCACTTTAC
66 CCTGAAAGTTCCTCGAGTACCACTTTAC
53253337 TTCGAGGCTT
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
115 85 1.00
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.40
Consensus pattern (115 bp):
GTTGATCGTTTGCAGGTTTTTCTACAAATTTCTCGAGAATTAAACTTGGTGATTGTTCTACCACT
CCTGAAAGTTCCTCGAGTACCACTTTACCTTGAGCGTATTCCTCTATGTT
Found at i:53264765 original size:15 final size:16
Alignment explanation
Indices: 53264738--53264767 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
53264728 TTAAGTTAAA
53264738 GAAAGTAAATGAAATG
1 GAAAGTAAATGAAATG
53264754 GAAAGT-AATGAAAT
1 GAAAGTAAATGAAAT
53264768 AAAAATGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.57, C:0.00, G:0.23, T:0.20
Consensus pattern (16 bp):
GAAAGTAAATGAAATG
Found at i:53265254 original size:15 final size:16
Alignment explanation
Indices: 53265234--53265263 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
53265224 TGGTGCCTTG
53265234 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
53265249 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
53265264 AGCATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:53271852 original size:177 final size:177
Alignment explanation
Indices: 53271556--53271913 Score: 617
Period size: 177 Copynumber: 2.0 Consensus size: 177
53271546 ACATCTCATG
* * *
53271556 TCACAATATCGCATCATATTACTCAGTCCACAATTATTCACATAATCACACATTTTGCCAAAATA
1 TCACAATATCACATCATATTACTCAATCCACAATTATTCACATAATCACACATTTTACCAAAATA
*
53271621 AATCAAGGGGAAATAGAAATCTTACACTTGGAACTTAGGATACGGGTTTAGGCTATTCCTAAGCT
66 AATCAAGGGGAAATAGAAAGCTTACACTTGGAACTTAGGATACGGGTTTAGGCTATTCCTAAGCT
* * *
53271686 CCCAATTAACACTATGAATCATGTCTACTAGCGGCGATTCGAAACAC
131 CCCAATTAACACTATGAATCATGTCTACTAACAGCGATTCCAAACAC
*
53271733 TCACAATATCACATCATATTACTCAATCCACAATTATTCACATAATCACACATTTTACCCAAATA
1 TCACAATATCACATCATATTACTCAATCCACAATTATTCACATAATCACACATTTTACCAAAATA
*
53271798 AATCAAGGGGAAATAGAAAGCTTACACTTGGAACTTAGGATAGGGGTTTAGGCTATTCCTAAGCT
66 AATCAAGGGGAAATAGAAAGCTTACACTTGGAACTTAGGATACGGGTTTAGGCTATTCCTAAGCT
* *
53271863 CCTAATTAACACTATGAATCCTGTCTACTAACAGCGATTCCAAACAC
131 CCCAATTAACACTATGAATCATGTCTACTAACAGCGATTCCAAACAC
53271910 TCAC
1 TCAC
53271914 CAATCACTCG
Statistics
Matches: 170, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
177 170 1.00
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (177 bp):
TCACAATATCACATCATATTACTCAATCCACAATTATTCACATAATCACACATTTTACCAAAATA
AATCAAGGGGAAATAGAAAGCTTACACTTGGAACTTAGGATACGGGTTTAGGCTATTCCTAAGCT
CCCAATTAACACTATGAATCATGTCTACTAACAGCGATTCCAAACAC
Found at i:53290879 original size:30 final size:29
Alignment explanation
Indices: 53290838--53290904 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
53290828 ATCAATAAAA
*
53290838 GCCGTTTTTTTTCAAAATTTACCGAAATGG
1 GCCGATTTTTTT-AAAATTTACCGAAATGG
** *
53290868 GCCGATTTTTTTATTATTTACCGGAATGG
1 GCCGATTTTTTTAAAATTTACCGAAATGG
53290897 GCC-ATTTT
1 GCCGATTTT
53290905 CCGCGAAATC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 5 0.15
29 17 0.52
30 11 0.33
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.43
Consensus pattern (29 bp):
GCCGATTTTTTTAAAATTTACCGAAATGG
Found at i:53303616 original size:22 final size:22
Alignment explanation
Indices: 53303588--53303635 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
53303578 CTCTCTAATC
53303588 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
53303610 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
53303632 CTCT
1 CTCT
53303636 GAAACCCATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.25, C:0.33, G:0.00, T:0.42
Consensus pattern (22 bp):
CTCTCAATTTCCTTCCAAAATT
Found at i:53303666 original size:51 final size:51
Alignment explanation
Indices: 53303610--53303722 Score: 181
Period size: 51 Copynumber: 2.2 Consensus size: 51
53303600 TTCCAAAATT
*
53303610 CTCTCAATTTCCTTCCAAAATTCTCTGAAACCCATATTTAATTTCAATTTC
1 CTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTC
* * *
53303661 CTCTCAATTTTCTTCGAAAATTCTCTCAAATCCATATTTAATTTCAATTTC
1 CTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTC
*
53303712 CCCTCAATTTC
1 CTCTCAATTTC
53303723 ATTTTTTAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.28, C:0.27, G:0.02, T:0.42
Consensus pattern (51 bp):
CTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTC
Found at i:53305349 original size:15 final size:15
Alignment explanation
Indices: 53305329--53305359 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
53305319 CTGCGGACCT
53305329 TGAGGTGTTTGACGA
1 TGAGGTGTTTGACGA
53305344 TGAGGTGTTTGACGA
1 TGAGGTGTTTGACGA
53305359 T
1 T
53305360 TACCATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.06, G:0.39, T:0.35
Consensus pattern (15 bp):
TGAGGTGTTTGACGA
Found at i:53305806 original size:18 final size:18
Alignment explanation
Indices: 53305780--53305814 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
53305770 AGGTGTGTTT
* *
53305780 CCTAGCCCTTATATGTAC
1 CCTAACCCTTACATGTAC
53305798 CCTAACCCTTACATGTA
1 CCTAACCCTTACATGTA
53305815 TCCTTTTCTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.34, G:0.09, T:0.31
Consensus pattern (18 bp):
CCTAACCCTTACATGTAC
Found at i:53306368 original size:29 final size:29
Alignment explanation
Indices: 53306307--53306386 Score: 124
Period size: 29 Copynumber: 2.8 Consensus size: 29
53306297 ACACAATTAA
* *
53306307 CTAACTTAATTAAAAACCCTAACCTTAAC
1 CTAATTTAATTAAAAACCCTAACCCTAAC
*
53306336 CTAATTTAATTAAAAACCCTAACCCTAAT
1 CTAATTTAATTAAAAACCCTAACCCTAAC
*
53306365 CTAATTTAATTAAAAATCCTAA
1 CTAATTTAATTAAAAACCCTAA
53306387 TTTAATTTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (29 bp):
CTAATTTAATTAAAAACCCTAACCCTAAC
Found at i:53306440 original size:29 final size:28
Alignment explanation
Indices: 53306404--53306829 Score: 277
Period size: 29 Copynumber: 16.0 Consensus size: 28
53306394 TTACTAATAA
53306404 TTAA-CTAATTTAATTAAAAATCCTAACC
1 TTAACCTAATTTAATTAAAAA-CCTAACC
53306432 TTAACCTAATTTAATTAAAAACTCTAACC
1 TTAACCTAATTTAATTAAAAAC-CTAACC
*
53306461 CTAACCTAATTTAATTAAAAA-C---CC
1 TTAACCTAATTTAATTAAAAACCTAACC
*
53306485 -TAAACTAATTTAATTAAAAACCCTAA--
1 TTAACCTAATTTAATTAAAAA-CCTAACC
* * * *
53306511 TT----TAATTTTACTAACAA-TTAA-C
1 TTAACCTAATTTAATTAAAAACCTAACC
* *
53306533 -TAACTTAAT-T-A--AAAACCCTAACC
1 TTAACCTAATTTAATTAAAAACCTAACC
*
53306556 CTAACCTAATTTAATTAAAAACCCTAACC
1 TTAACCTAATTTAATTAAAAA-CCTAACC
*
53306585 CTAACCTAATTTAATTAAAAACTCTAACC
1 TTAACCTAATTTAATTAAAAAC-CTAACC
* *
53306614 CTAACCTAATATAATTAAAAACACTAA--
1 TTAACCTAATTTAATTAAAAAC-CTAACC
* * * * *
53306641 TT----TAATTTTACTAACAA-TTTA-C
1 TTAACCTAATTTAATTAAAAACCTAACC
* *
53306663 -TAACTTAAT-T-A--AAAACCCTAACC
1 TTAACCTAATTTAATTAAAAACCTAACC
*
53306686 CTAACCTAATTTAATTAAAAACCCTAACC
1 TTAACCTAATTTAATTAAAAA-CCTAACC
* *
53306715 CTAACCTAACTTAATTAAAAACCCTAACC
1 TTAACCTAATTTAATTAAAAA-CCTAACC
* *
53306744 CTAACCTAACTTAATTAAAAACCCTAACC
1 TTAACCTAATTTAATTAAAAA-CCTAACC
* *
53306773 CTAACCTAACTTAATTAAAAACCCTAACC
1 TTAACCTAATTTAATTAAAAA-CCTAACC
* *
53306802 CTAACCTAACTTAATTAAAAACCCTAAC
1 TTAACCTAATTTAATTAAAAA-CCTAAC
53306830 TTTACATATT
Statistics
Matches: 336, Mismatches: 27, Indels: 69
0.78 0.06 0.16
Matches are distributed among these distances:
21 13 0.04
22 5 0.01
23 46 0.14
24 20 0.06
25 11 0.03
26 2 0.01
27 3 0.01
28 14 0.04
29 222 0.66
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (28 bp):
TTAACCTAATTTAATTAAAAACCTAACC
Found at i:53306449 original size:101 final size:100
Alignment explanation
Indices: 53306272--53306582 Score: 384
Period size: 101 Copynumber: 3.1 Consensus size: 100
53306262 TTTGATGTCA
* * *
53306272 TAAAAACCCTAATGTAATTTTACTAACACAATTAACTAACTTAATTAAAAACCCTAACCTTAACC
1 TAAAAACCCTAATCTAATTTTACT-A-A-AATTAACTAATTTAATTAAAAATCCTAACCTTAACC
*
53306337 TAATTTAATTAAAAACCCTAACCCTAATCTAATTTAAT
63 TAATTTAATTAAAAACCCTAACCCTAACCTAATTTAAT
* *
53306375 TAAAAATCCTAATTTAATTTTACTAATAATTAACTAATTTAATTAAAAATCCTAACCTTAACCTA
1 TAAAAACCCTAATCTAATTTTACTAA-AATTAACTAATTTAATTAAAAATCCTAACCTTAACCTA
*
53306440 ATTTAATTAAAAACTCTAACCCTAACCTAATTTAAT
65 ATTTAATTAAAAACCCTAACCCTAACCTAATTTAAT
* * * * * * *
53306476 TAAAAACCCTAAACTAATTTAATTAAAA--ACCCTAATTTAATT----TTACTAACAATTAA-CT
1 TAAAAACCCTAATCTAATTTTACTAAAATTA-ACTAATTTAATTAAAAATCCTAAC-CTTAACCT
*
53306534 AACTTAATTAAAAACCCTAACCCTAACCTAATTTAAT
64 AATTTAATTAAAAACCCTAACCCTAACCTAATTTAAT
53306571 TAAAAACCCTAA
1 TAAAAACCCTAA
53306583 CCCTAACCTA
Statistics
Matches: 188, Mismatches: 18, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
95 55 0.29
96 4 0.02
98 1 0.01
99 11 0.06
100 2 0.01
101 92 0.49
102 1 0.01
103 22 0.12
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (100 bp):
TAAAAACCCTAATCTAATTTTACTAAAATTAACTAATTTAATTAAAAATCCTAACCTTAACCTAA
TTTAATTAAAAACCCTAACCCTAACCTAATTTAAT
Found at i:53306480 original size:130 final size:130
Alignment explanation
Indices: 53306307--53306770 Score: 751
Period size: 130 Copynumber: 3.6 Consensus size: 130
53306297 ACACAATTAA
* * *
53306307 CTAACTTAATTAAAAACCCTAACCTTAACCTAATTTAATTAAAAACCCTAACCCTAATCTAATTT
1 CTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTT
* * * * *
53306372 AATTAAAAATCCTAATTTAATTTTACTAATAATTAACTAATTTAATTAAAAATCCTAACCTTAAC
66 AATTAAAAACCCTAATTTAATTTTACTAACAATTAACTAACTTAATTAAAAACCCTAACCCTAAC
*
53306437 CTAATTTAATTAAAAACTCTAACCCTAACCTAATTTAATTAAAAACCCT-A----AA-CTAATTT
1 CTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTT
53306496 AATTAAAAACCCTAATTTAATTTTACTAACAATTAACTAACTTAATTAAAAACCCTAACCCTAAC
66 AATTAAAAACCCTAATTTAATTTTACTAACAATTAACTAACTTAATTAAAAACCCTAACCCTAAC
* *
53306561 CTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACTCTAACCCTAACCTAATAT
1 CTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTT
* *
53306626 AATTAAAAACACTAATTTAATTTTACTAACAATTTACTAACTTAATTAAAAACCCTAACCCTAAC
66 AATTAAAAACCCTAATTTAATTTTACTAACAATTAACTAACTTAATTAAAAACCCTAACCCTAAC
* *
53306691 CTAATTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCTAACTT
1 CTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTT
53306756 AATTAAAAACCCTAA
66 AATTAAAAACCCTAA
53306771 CCCTAACCTA
Statistics
Matches: 310, Mismatches: 18, Indels: 12
0.91 0.05 0.04
Matches are distributed among these distances:
124 114 0.37
125 3 0.01
129 3 0.01
130 190 0.61
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (130 bp):
CTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTT
AATTAAAAACCCTAATTTAATTTTACTAACAATTAACTAACTTAATTAAAAACCCTAACCCTAAC
Found at i:53306505 original size:153 final size:150
Alignment explanation
Indices: 53306408--53306799 Score: 455
Period size: 159 Copynumber: 2.5 Consensus size: 150
53306398 TAATAATTAA
* * *
53306408 CTAATTTAATTAAAAATCCTAACCTTAACCTAATTTAATTAAAAACTCTAACCCTAACCTAATTT
1 CTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACTCTAACCCTAACCTAATAT
* *
53306473 AATTAAAAACCCTAAACTAATTTAATTAAAAACCCTAATTTAATTTTACTAACAATTAACTAACT
66 AATTAAAAACCCTAAACTAATTTAATTAAAAACCCTAATTTAATTTAACTAACAAATAACTAACT
53306538 TAATTAAAAACCCTAACCCTAAC
131 TAATTAAAAA--CTAA-CCTAAC
53306561 CTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACTCTAACCCTAACCTAATAT
1 CTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACTCTAACCCTAACCTAATAT
* ** * * *** * * **
53306626 AATTAAAAACACTAATTTAATTTTACTAACAATTTACTAACTTAATTAAAAACCCTAAC-CCTAA
66 AATTAAAAACCCTAAACTAATTTAATTAA-AA-ACCCTAATTTAATT--TAA--CTAACAAATAA
*
53306690 CCTAATTTAATTAAAAACCCTAACCCTAAC
125 -CTAACTTAATTAAAAA--CTAA-CCTAAC
* * *
53306720 CTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCTAACT-
1 CTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACTCTAACCCTAACCTAA-TA
53306784 TAATTAAAAACCCTAA
65 TAATTAAAAACCCTAA
53306800 CCCTAACCTA
Statistics
Matches: 210, Mismatches: 21, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
153 86 0.41
154 2 0.01
155 10 0.05
157 1 0.00
158 3 0.01
159 107 0.51
160 1 0.00
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.30
Consensus pattern (150 bp):
CTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACTCTAACCCTAACCTAATAT
AATTAAAAACCCTAAACTAATTTAATTAAAAACCCTAATTTAATTTAACTAACAAATAACTAACT
TAATTAAAAACTAACCTAAC
Found at i:53306510 original size:18 final size:19
Alignment explanation
Indices: 53306465--53306517 Score: 63
Period size: 23 Copynumber: 2.6 Consensus size: 19
53306455 CTAACCCTAA
53306465 CCTAATTTAATTAAAAACC
1 CCTAATTTAATTAAAAACC
53306484 CTAAACTAATTTAATTAAAAA-C
1 C----CTAATTTAATTAAAAACC
53306506 CCTAATTTAATT
1 CCTAATTTAATT
53306518 TTACTAACAA
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
18 11 0.37
19 1 0.03
22 2 0.07
23 16 0.53
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.36
Consensus pattern (19 bp):
CCTAATTTAATTAAAAACC
Found at i:53306631 original size:87 final size:87
Alignment explanation
Indices: 53306532--53306829 Score: 312
Period size: 87 Copynumber: 3.3 Consensus size: 87
53306522 TAACAATTAA
53306532 CTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTT
1 CTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTT
*
53306597 AATTAAAAACTCTAACCCTAAC
66 AATTAAAAACCCTAACCCTAAC
* ** * ** ***
53306619 CTAA-TATAATTAAAAACACTAA-TTTAATTTTACTAACAATTTACTAACTTAATTAAAAACCCT
1 CTAACT-TAATTAAAAACCCTAACCCTAA----CCT---AA-TT--TAA-TTAA--AAACCCTAA
**
53306682 AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAAC
52 CC--CTAACCTAATTTAATTAAAAACCCTAACCCTAAC
* *
53306720 CTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCTAACTT
1 CTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTT
53306785 AATTAAAAACCCTAACCCTAAC
66 AATTAAAAACCCTAACCCTAAC
53306807 CTAACTTAATTAAAAACCCTAAC
1 CTAACTTAATTAAAAACCCTAAC
53306830 TTTACATATT
Statistics
Matches: 168, Mismatches: 25, Indels: 36
0.73 0.11 0.16
Matches are distributed among these distances:
86 4 0.02
87 75 0.45
89 4 0.02
90 2 0.01
91 4 0.02
92 3 0.02
93 2 0.01
94 3 0.02
95 2 0.01
96 3 0.02
97 4 0.02
98 2 0.01
99 4 0.02
101 52 0.31
102 4 0.02
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.28
Consensus pattern (87 bp):
CTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTT
AATTAAAAACCCTAACCCTAAC
Found at i:53306896 original size:10 final size:10
Alignment explanation
Indices: 53306881--53306905 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
53306871 TTTTGGCTTA
53306881 ATAATTTTAC
1 ATAATTTTAC
53306891 ATAATTTTAC
1 ATAATTTTAC
53306901 ATAAT
1 ATAAT
53306906 GTTAGATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (10 bp):
ATAATTTTAC
Found at i:53306968 original size:122 final size:122
Alignment explanation
Indices: 53306830--53307062 Score: 421
Period size: 122 Copynumber: 1.9 Consensus size: 122
53306820 AAACCCTAAC
53306830 TTTACATATTTTGATAATATTACTAACCATTAACAAAAAAATTTTGGCTTAATAATTTTACATAA
1 TTTACATATTTTGATAATATTACTAACCATTAACAAAAAAATTTTGGCTTAATAATTTTACATAA
53306895 TTTTACATAATGTTAGATTTGGTAAAATGTTTTGTCTGGAACTAACAATTAAATAAT
66 TTTTACATAATGTTAGATTTGGTAAAATGTTTTGTCTGGAACTAACAATTAAATAAT
*** *
53306952 TTTACATATTTTGATAATATTACTAACCATTAACAAAATTTTTTTGGCTTAATAATTTTACATAC
1 TTTACATATTTTGATAATATTACTAACCATTAACAAAAAAATTTTGGCTTAATAATTTTACATAA
*
53307017 TTTTGCATAATGTTAGATTTGGTAAAATGTTTTGTCTGGAACTAAC
66 TTTTACATAATGTTAGATTTGGTAAAATGTTTTGTCTGGAACTAAC
53307063 NNNNNNNNNN
Statistics
Matches: 106, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
122 106 1.00
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.43
Consensus pattern (122 bp):
TTTACATATTTTGATAATATTACTAACCATTAACAAAAAAATTTTGGCTTAATAATTTTACATAA
TTTTACATAATGTTAGATTTGGTAAAATGTTTTGTCTGGAACTAACAATTAAATAAT
Found at i:53311004 original size:124 final size:124
Alignment explanation
Indices: 53310646--53310995 Score: 594
Period size: 124 Copynumber: 2.8 Consensus size: 124
53310636 CCCAAACTTG
* * * *
53310646 CTACTGTAGCAAATTCGCGTCCACGAGGACGCGATTTCACAATTTCTTCTCAAATAGCATCTTGG
1 CTACTGTAGCAAAATCGCATCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
53310711 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATATTTCTTACATGAC
* * *
53310770 CTACTGTAGCAAAATCGCATCCACGAGGGCGCGATTTCACAATTTCTACTCAAATATCATCCTCG
1 CTACTGTAGCAAAATCGCATCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
*
53310835 TAGAAGCAATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATATTTCTTACATGAC
53310894 CTACTGTAGCAAAATCGCATCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCATCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
* *
53310959 TAGAAGCGATTTTATACAATTTGAC-CAGAAATGTCAA
66 TAGAAGCGATTTTATACTATTTG-CTCAGAAACGTCAA
53310996 CTCGAAATAA
Statistics
Matches: 211, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
124 210 1.00
125 1 0.00
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (124 bp):
CTACTGTAGCAAAATCGCATCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATATTTCTTACATGAC
Found at i:53316596 original size:41 final size:39
Alignment explanation
Indices: 53316533--53316616 Score: 91
Period size: 41 Copynumber: 2.1 Consensus size: 39
53316523 ATTATTTTTT
53316533 AATTAATTAGAATTAAATAATTTAATTTGAAATAAG-AATTA
1 AATTAATTAGAATTAAATAATTT--TTTG-AATAAGAAATTA
* *
53316574 AATTAATTAGTCATTATA-AATTTTTTGAATAAGACAATTA
1 AATTAATTAG-AATTAAATAATTTTTTGAATAAGA-AATTA
53316614 AAT
1 AAT
53316617 ATATTTCATC
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
38 6 0.16
39 4 0.11
40 8 0.21
41 15 0.39
42 5 0.13
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.40
Consensus pattern (39 bp):
AATTAATTAGAATTAAATAATTTTTTGAATAAGAAATTA
Found at i:53323442 original size:196 final size:197
Alignment explanation
Indices: 53323221--53323614 Score: 781
Period size: 196 Copynumber: 2.0 Consensus size: 197
53323211 TTATCTATAT
53323221 TAAATTGATTAAAAAATCATATAAAATATATAAAAAATTAAAAAAAAAACATTTTTTAAAAAAAT
1 TAAATTGATTAAAAAATCATATAAAATATATAAAAAATTAAAAAAAAAACATTTTTTAAAAAAAT
53323286 GAAATTTTATAAAGTTTAAAAGTTAATAAATATAAATTTAAAAAGGGGTAAACTACACCGCAAAT
66 GAAATTTTATAAAGTTTAAAAGTTAATAAATATAAATTTAAAAAGGGGTAAACTACACCGCAAAT
53323351 CACCCTAAAATAGCGCCGTTCCTATTTTGGCCCCTTTAAATTTTTTTTGTCAAGTTAGTTACTCT
131 CACCCTAAAATAGCGCCGTTCCTATTTTGGCCCCTTTAAATTTTTTTTGTCAAGTTAGTTACTCT
53323416 AA
196 AA
53323418 TAAATTGATT-AAAAATCATATAAAATATATAAAAAATTAAAAAAAAAACATTTTTTAAAAAAAT
1 TAAATTGATTAAAAAATCATATAAAATATATAAAAAATTAAAAAAAAAACATTTTTTAAAAAAAT
53323482 GAAATTTTATAAAGTTTAAAAGTTAATAAATATAAATTTAAAAAGGGGTAAACTACACCGCAAAT
66 GAAATTTTATAAAGTTTAAAAGTTAATAAATATAAATTTAAAAAGGGGTAAACTACACCGCAAAT
53323547 CACCCTAAAATAGCGCCGTTCCTATTTTGGCCCCTTTAAATTTTTTTTGTCAAGTTAGTTACTCT
131 CACCCTAAAATAGCGCCGTTCCTATTTTGGCCCCTTTAAATTTTTTTTGTCAAGTTAGTTACTCT
53323612 AA
196 AA
53323614 T
1 T
53323615 GAAGATAATT
Statistics
Matches: 197, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
196 187 0.95
197 10 0.05
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.34
Consensus pattern (197 bp):
TAAATTGATTAAAAAATCATATAAAATATATAAAAAATTAAAAAAAAAACATTTTTTAAAAAAAT
GAAATTTTATAAAGTTTAAAAGTTAATAAATATAAATTTAAAAAGGGGTAAACTACACCGCAAAT
CACCCTAAAATAGCGCCGTTCCTATTTTGGCCCCTTTAAATTTTTTTTGTCAAGTTAGTTACTCT
AA
Found at i:53325326 original size:41 final size:41
Alignment explanation
Indices: 53325228--53325586 Score: 381
Period size: 41 Copynumber: 8.9 Consensus size: 41
53325218 CTTACCTTTC
* * *
53325228 GGGGCTTTAGCGGCGTTTTTAAAAAAGTGCCGCTAATGC-T
1 GGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTT
* * *
53325268 -CGG-TTTAGCGGCATTTTTGAAAATGCGCCGCTAATGCTT
1 GGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTT
*
53325307 GGGGTTTTAGCGGCGTTTTTG-AAAAGCGCCGCTAATGTTT
1 GGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTT
* * * * *
53325347 GGTGTTTTAACGGCATTTTTTAAAAAGCGCCGCTAATGCTC
1 GGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTT
* * * *
53325388 GGGATTTTAGCGGCGTTTTTGAAAAGGCGTCGCTAATGCTG
1 GGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTT
* * * * *
53325429 GGGGCTTTGGTGGCGTTTTTGAAAAAGCACCGCTAATGCTC
1 GGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTT
* * *
53325470 AGTGTTTTAGCGGCGTTTTAT-AAAAAGCGCTGCTAATGC-T
1 GGGGTTTTAGCGGCGTTTT-TGAAAAAGCGCCGCTAATGCTT
* * * *
53325510 GGGGTTTTAGCTGAGTTTTTGGAAAAGCGCCGCTAATGCTG
1 GGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTT
* *
53325551 GGGGCTTTAGC-GCTATTTTTGAAAAAGCGCCGCTAA
1 GGGGTTTTAGCGGC-GTTTTTGAAAAAGCGCCGCTAA
53325587 AAACATTTTA
Statistics
Matches: 261, Mismatches: 50, Indels: 15
0.80 0.15 0.05
Matches are distributed among these distances:
38 30 0.11
39 4 0.02
40 68 0.26
41 158 0.61
42 1 0.00
ACGTcount: A:0.21, C:0.17, G:0.29, T:0.32
Consensus pattern (41 bp):
GGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTT
Found at i:53325377 original size:81 final size:80
Alignment explanation
Indices: 53325226--53325586 Score: 388
Period size: 81 Copynumber: 4.5 Consensus size: 80
53325216 TTCTTACCTT
* * * *
53325226 TCGGGGCTTTAGCGGCGTTTTTAAAAAAGTGCCGCTAATGCT-CGG-TTTAGCGGCATTTTTGAA
1 TCGGGGTTTTAGCGGCGTTTTT-GAAAAGCGCCGCTAATGCTGGGGTTTTAGCGGCATTTTTGAA
*
53325289 AATGCGCCGCTAATGC
65 AAAGCGCCGCTAATGC
* * * * *
53325305 TTGGGGTTTTAGCGGCGTTTTTGAAAAGCGCCGCTAATGTTTGGTGTTTTAACGGCATTTTTTAA
1 TCGGGGTTTTAGCGGCGTTTTTGAAAAGCGCCGCTAATG-CTGGGGTTTTAGCGGCATTTTTGAA
53325370 AAAGCGCCGCTAATGC
65 AAAGCGCCGCTAATGC
* * * * * *
53325386 TCGGGATTTTAGCGGCGTTTTTGAAAAGGCGTCGCTAATGCTGGGGGCTTTGGTGGCGTTTTTGA
1 TCGGGGTTTTAGCGGCGTTTTTGAAAA-GCGCCGCTAATGCT-GGGGTTTTAGCGGCATTTTTGA
*
53325451 AAAAGCACCGCTAATGC
64 AAAAGCGCCGCTAATGC
* * * * * *
53325468 TCAGTGTTTTAGCGGCGTTTTATAAAAAGCGCTGCTAATGCTGGGGTTTTAGCTG-AGTTTTTGG
1 TCGGGGTTTTAGCGGCGTTTT-TGAAAAGCGCCGCTAATGCTGGGGTTTTAGCGGCA-TTTTTGA
53325532 AAAAGCGCCGCTAATGC
64 AAAAGCGCCGCTAATGC
* * *
53325549 TGGGGGCTTTAGC-GCTATTTTTGAAAAAGCGCCGCTAA
1 TCGGGGTTTTAGCGGC-GTTTTTG-AAAAGCGCCGCTAA
53325587 AAACATTTTA
Statistics
Matches: 231, Mismatches: 42, Indels: 16
0.80 0.15 0.06
Matches are distributed among these distances:
78 15 0.06
79 21 0.09
80 4 0.02
81 114 0.49
82 72 0.31
83 5 0.02
ACGTcount: A:0.21, C:0.17, G:0.29, T:0.32
Consensus pattern (80 bp):
TCGGGGTTTTAGCGGCGTTTTTGAAAAGCGCCGCTAATGCTGGGGTTTTAGCGGCATTTTTGAAA
AAGCGCCGCTAATGC
Found at i:53325518 original size:122 final size:119
Alignment explanation
Indices: 53325233--53325586 Score: 426
Period size: 122 Copynumber: 2.9 Consensus size: 119
53325223 CTTTCGGGGC
* * *
53325233 TTTAGCGGCGTTTTTAAAAAAGTGCCGCTAATGCT-CGG-TTTAGCGGCATTTTTGAAAATGCGC
1 TTTAGCGGCGTTTTT-AAAAAGCGCCGCTAATGCTGGGGTTTTAGCGGCGTTTTTGAAAA-GCGC
* * * **
53325296 CGCTAATGCTTGGGGTTTTAGCGGCGTTTTTG-AAAAGCGCCGCTAATGTTTGGTGT
64 CGCTAATGCTGGGGGCTTTAG-GGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGTGT
* * *
53325352 TTTAACGGCATTTTTTAAAAAGCGCCGCTAATGCTCGGGATTTTAGCGGCGTTTTTGAAAAGGCG
1 TTTAGCGGC-GTTTTTAAAAAGCGCCGCTAATGCT-GGGGTTTTAGCGGCGTTTTTGAAAA-GCG
* * *
53325417 TCGCTAATGCTGGGGGCTTTGGTGGCGTTTTTGAAAAAGCACCGCTAATGCTCAGTGT
63 CCGCTAATGCTGGGGGCTTTAG-GGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGTGT
* * *
53325475 TTTAGCGGCGTTTTATAAAAAGCGCTGCTAATGCTGGGGTTTTAGCTGAGTTTTTGGAAAAGCGC
1 TTTAGCGGCGTTTT-TAAAAAGCGCCGCTAATGCTGGGGTTTTAGCGGCGTTTTT-GAAAAGCGC
* *
53325540 CGCTAATGCTGGGGGCTTTAGCGCTATTTTTGAAAAAGCGCCGCTAA
64 CGCTAATGCTGGGGGCTTTAGGGC-GTTTTTGAAAAAGCGCCGCTAA
53325587 AAACATTTTA
Statistics
Matches: 200, Mismatches: 27, Indels: 13
0.83 0.11 0.05
Matches are distributed among these distances:
119 26 0.13
120 5 0.03
121 3 0.01
122 114 0.57
123 52 0.26
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.32
Consensus pattern (119 bp):
TTTAGCGGCGTTTTTAAAAAGCGCCGCTAATGCTGGGGTTTTAGCGGCGTTTTTGAAAAGCGCCG
CTAATGCTGGGGGCTTTAGGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGTGT
Found at i:53325989 original size:28 final size:28
Alignment explanation
Indices: 53325957--53326011 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
53325947 TCAGGAGTAT
* * *
53325957 GGATTTAGGGATTATGGTTTAAGGGTTG
1 GGATTTAAGGATTAGGGGTTAAGGGTTG
*
53325985 GGATTTAAGGTTTAGGGGTTAAGGGTT
1 GGATTTAAGGATTAGGGGTTAAGGGTT
53326012 AAGGGTTTAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.40, T:0.38
Consensus pattern (28 bp):
GGATTTAAGGATTAGGGGTTAAGGGTTG
Found at i:53325998 original size:21 final size:20
Alignment explanation
Indices: 53325964--53326026 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 20
53325954 TATGGATTTA
*
53325964 GGGATTATGGTTTAAGGGTT
1 GGGATTAAGGTTTAAGGGTT
*
53325984 GGGATTTAAGGTTTAGGGGTT
1 GGGA-TTAAGGTTTAAGGGTT
*
53326005 AAGGG-TTAAGGGTTTAGGGGTT
1 --GGGATTAA-GGTTTAAGGGTT
53326027 AGACGTTAGG
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
20 4 0.11
21 18 0.49
22 12 0.32
23 3 0.08
ACGTcount: A:0.21, C:0.00, G:0.43, T:0.37
Consensus pattern (20 bp):
GGGATTAAGGTTTAAGGGTT
Found at i:53329534 original size:15 final size:15
Alignment explanation
Indices: 53329514--53329542 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
53329504 TATTTTAAGG
53329514 TTTAGGGATTATGGT
1 TTTAGGGATTATGGT
53329529 TTTAGGGATTATGG
1 TTTAGGGATTATGG
53329543 ATCATGGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.34, T:0.45
Consensus pattern (15 bp):
TTTAGGGATTATGGT
Found at i:53329572 original size:14 final size:15
Alignment explanation
Indices: 53329555--53329587 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
53329545 CATGGTTTAT
53329555 GGTTTAAGGGTT-GA
1 GGTTTAAGGGTTAGA
*
53329569 GGTTTAAGGTTTAGA
1 GGTTTAAGGGTTAGA
53329584 GGTT
1 GGTT
53329588 AGAGATCATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.21, C:0.00, G:0.39, T:0.39
Consensus pattern (15 bp):
GGTTTAAGGGTTAGA
Found at i:53330854 original size:22 final size:22
Alignment explanation
Indices: 53330826--53330890 Score: 94
Period size: 22 Copynumber: 3.0 Consensus size: 22
53330816 TATAAATTTT
53330826 CCCCCTGATATCCCCAACTTTC
1 CCCCCTGATATCCCCAACTTTC
*
53330848 CCCCCTGATATCCCTAACTTTC
1 CCCCCTGATATCCCCAACTTTC
* * *
53330870 CCCCTTGAAACCCCCAACTTT
1 CCCCCTGATATCCCCAACTTT
53330891 ACCAACACAC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.20, C:0.48, G:0.05, T:0.28
Consensus pattern (22 bp):
CCCCCTGATATCCCCAACTTTC
Found at i:53338395 original size:322 final size:322
Alignment explanation
Indices: 53337810--53338457 Score: 1215
Period size: 322 Copynumber: 2.0 Consensus size: 322
53337800 CAACATTAGC
*
53337810 CAAAATAACCTATACATGCCATTATAACCTTAACCAAGACATCAAAATCTACTGATATAATCTTT
1 CAAAATAACCTATACATGCCATTATAACCTTAACCAAGACATCAAAATCTACCGATATAATCTTT
*
53337875 GGACAGTGTGATAGGTCTTCGAAGAGTTTCCAACCCAATTGAGCTTCCGATAATCTGAAAAGTAA
66 GGACAGTGTGATAGGTCTTCGAAGAGTTTCCAACCCAATTGAGCTTCCGATAATCTAAAAAGTAA
*
53337940 GAAAAAATAACTACGTAAGCAATGAATGCTTAGTAAGCTCGTATAAACTTTAATCATATCTATCC
131 GAAAAAATAACTACGTAAGCAATGAATACTTAGTAAGCTCGTATAAACTTTAATCATATCTATCC
*
53338005 ATTTCAAATATGAAATTTACACATATCAAGAATAACCTTATATCGATACCGCAAGATTCATGAAT
196 ATTTCAAATATGAAATTTACACATATCAAGAATAACCCTATATCGATACCGCAAGATTCATGAAT
*
53338070 ACATATTCAACAACTCACAAAATGGATAAATCCACAGCATCACATATACCTATCATATTTAA
261 ACATATTCAACAACTCACAAAATGAATAAATCCACAGCATCACATATACCTATCATATTTAA
53338132 CAAAATAACCTATACATGCCATTATAACCTTAACCAAGACATCAAAATCTACCGATATAATCTTT
1 CAAAATAACCTATACATGCCATTATAACCTTAACCAAGACATCAAAATCTACCGATATAATCTTT
* *
53338197 GGACATTGTGATAGGTCTTCGACGAGTTTCCAACCCAATTGAGCTTCCGATAATCTAAAAAGTAA
66 GGACAGTGTGATAGGTCTTCGAAGAGTTTCCAACCCAATTGAGCTTCCGATAATCTAAAAAGTAA
53338262 GAAAAAATAACTACGTAAGCAATGAATACTTAGTAAGCTCGTATAAACTTTAATCATATCTATCC
131 GAAAAAATAACTACGTAAGCAATGAATACTTAGTAAGCTCGTATAAACTTTAATCATATCTATCC
*
53338327 ATTTCAAATATGAAATTTACACATATCATGAATAACCCTATATCGATACCGCAAGATTCATGAAT
196 ATTTCAAATATGAAATTTACACATATCAAGAATAACCCTATATCGATACCGCAAGATTCATGAAT
*
53338392 ACATATTCAACAACTCACAAAATGAATAAATCCATAGCATCACATATACCTATCATATTTAA
261 ACATATTCAACAACTCACAAAATGAATAAATCCACAGCATCACATATACCTATCATATTTAA
53338454 CAAA
1 CAAA
53338458 GTAGGATTTT
Statistics
Matches: 317, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
322 317 1.00
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.28
Consensus pattern (322 bp):
CAAAATAACCTATACATGCCATTATAACCTTAACCAAGACATCAAAATCTACCGATATAATCTTT
GGACAGTGTGATAGGTCTTCGAAGAGTTTCCAACCCAATTGAGCTTCCGATAATCTAAAAAGTAA
GAAAAAATAACTACGTAAGCAATGAATACTTAGTAAGCTCGTATAAACTTTAATCATATCTATCC
ATTTCAAATATGAAATTTACACATATCAAGAATAACCCTATATCGATACCGCAAGATTCATGAAT
ACATATTCAACAACTCACAAAATGAATAAATCCACAGCATCACATATACCTATCATATTTAA
Found at i:53338588 original size:15 final size:16
Alignment explanation
Indices: 53338568--53338600 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
53338558 ATCAATTCAA
53338568 CTCATCA-TTCCATTT
1 CTCATCACTTCCATTT
53338583 CTCATCACTTTCCATTT
1 CTCATCAC-TTCCATTT
53338600 C
1 C
53338601 AAGTATGAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.18, C:0.36, G:0.00, T:0.45
Consensus pattern (16 bp):
CTCATCACTTCCATTT
Found at i:53342951 original size:14 final size:15
Alignment explanation
Indices: 53342932--53342961 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
53342922 AACGAGCCCG
53342932 TAAATATTT-TTTAT
1 TAAATATTTATTTAT
53342946 TAAATATTTATTTAT
1 TAAATATTTATTTAT
53342961 T
1 T
53342962 TATTATATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TAAATATTTATTTAT
Found at i:53360059 original size:25 final size:25
Alignment explanation
Indices: 53360025--53360076 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
53360015 TTCAAGTTAG
53360025 CAAAAGAGCTATTGTAAGCTCATAT
1 CAAAAGAGCTATTGTAAGCTCATAT
53360050 CAAAAGAGCTATTGTAAGCTCATAT
1 CAAAAGAGCTATTGTAAGCTCATAT
53360075 CA
1 CA
53360077 GACCCCGGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.27
Consensus pattern (25 bp):
CAAAAGAGCTATTGTAAGCTCATAT
Found at i:53360146 original size:16 final size:19
Alignment explanation
Indices: 53360125--53360165 Score: 61
Period size: 16 Copynumber: 2.3 Consensus size: 19
53360115 ATTATACTTA
53360125 ATTGTATG-TGTA-AA-TG
1 ATTGTATGATGTATAATTG
53360141 ATTGTATGATGTATAATTG
1 ATTGTATGATGTATAATTG
53360160 ATTGTA
1 ATTGTA
53360166 GTTGCTCCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 8 0.36
17 4 0.18
18 2 0.09
19 8 0.36
ACGTcount: A:0.32, C:0.00, G:0.22, T:0.46
Consensus pattern (19 bp):
ATTGTATGATGTATAATTG
Found at i:53371632 original size:28 final size:28
Alignment explanation
Indices: 53371592--53371647 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
53371582 AAGAAAAATG
53371592 AAAGAGTTCAAATATTTCTTCTACAAGC
1 AAAGAGTTCAAATATTTCTTCTACAAGC
53371620 AAAGAGTTCAAATATTTCTTCTACAAGC
1 AAAGAGTTCAAATATTTCTTCTACAAGC
53371648 TTGCTCCAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (28 bp):
AAAGAGTTCAAATATTTCTTCTACAAGC
Found at i:53372481 original size:4 final size:4
Alignment explanation
Indices: 53372472--53372501 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
53372462 CTTCAAGGAT
53372472 CATA CATA CATA CATA CATA CATA CATA CA
1 CATA CATA CATA CATA CATA CATA CATA CA
53372502 ATCAAAACGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (4 bp):
CATA
Found at i:53372717 original size:35 final size:34
Alignment explanation
Indices: 53372666--53372733 Score: 91
Period size: 35 Copynumber: 2.0 Consensus size: 34
53372656 CTACATAACT
*
53372666 TTATAAAAAATTCAAAAAATAAAAATAAATAAAAA
1 TTATAAAAAATACAAAAAATAAAAA-AAATAAAAA
* **
53372701 TTATTAAAAATACAAAAAATTTAAAAAATAAAA
1 TTATAAAAAATACAAAAAATAAAAAAAATAAAA
53372734 TAAAATATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 8 0.28
35 21 0.72
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (34 bp):
TTATAAAAAATACAAAAAATAAAAAAAATAAAAA
Found at i:53372718 original size:9 final size:9
Alignment explanation
Indices: 53372667--53372741 Score: 57
Period size: 9 Copynumber: 8.3 Consensus size: 9
53372657 TACATAACTT
53372667 TATAAAAAA
1 TATAAAAAA
53372676 T-TCAAAAAA
1 TAT-AAAAAA
53372685 TA-AAAATAA
1 TATAAAA-AA
*
53372694 -ATAAAAAT
1 TATAAAAAA
*
53372702 TATTAAAAA
1 TATAAAAAA
*
53372711 TACAAAAAA
1 TATAAAAAA
*
53372720 TTTAAAAAA
1 TATAAAAAA
*
53372729 TAAAATAAAA
1 TATAA-AAAA
53372739 TAT
1 TAT
53372742 TTTTTAAAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 11
0.70 0.14 0.15
Matches are distributed among these distances:
8 7 0.14
9 37 0.74
10 6 0.12
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (9 bp):
TATAAAAAA
Found at i:53383269 original size:77 final size:77
Alignment explanation
Indices: 53383142--53383629 Score: 931
Period size: 77 Copynumber: 6.3 Consensus size: 77
53383132 TGAGACAATC
* *
53383142 TTAAAGTTTTATGTCAATAAAATTTTATACATTTCAAGTTCAAAGATTAAAATATATCTAATTGT
1 TTAAAGTGTTATGTCAATAAAATTTTATATATTTCAAGTTCAAAGATTAAAATATATCTAATTGT
53383207 CAAGTTCAATTA
66 CAAGTTCAATTA
* *
53383219 TTAAAGAGTTATGTTAATAAAATTTTATATATTTCAAGTTCAAAGATTAAAATATATCTAATTGT
1 TTAAAGTGTTATGTCAATAAAATTTTATATATTTCAAGTTCAAAGATTAAAATATATCTAATTGT
53383284 CAAGTTCAATTA
66 CAAGTTCAATTA
*
53383296 TTAAAGTGTTATGCCAATAAAATTTTATATATTTCAAGTTCAAAGATTAAAATATATCTAATTGT
1 TTAAAGTGTTATGTCAATAAAATTTTATATATTTCAAGTTCAAAGATTAAAATATATCTAATTGT
53383361 CAAGTTCAATTA
66 CAAGTTCAATTA
53383373 TTAAAGTGTTATGTCAATAAAATTTTATATATTTCAAGTTCAAAGATTAAAATATATCTAATTGT
1 TTAAAGTGTTATGTCAATAAAATTTTATATATTTCAAGTTCAAAGATTAAAATATATCTAATTGT
53383438 CAAGTTCAATTA
66 CAAGTTCAATTA
53383450 TTAAAGTGTTATGTCAATAAAATTTTATATATTTCAAGTTCAAAGATTAAAATATATCTAATTGT
1 TTAAAGTGTTATGTCAATAAAATTTTATATATTTCAAGTTCAAAGATTAAAATATATCTAATTGT
53383515 CAAGTTCAATTA
66 CAAGTTCAATTA
53383527 TTAAAGTGTTATGTCAATAAAATTTTATATATTTCAAGTTCAAAGATTAAAATATATCTAATTGT
1 TTAAAGTGTTATGTCAATAAAATTTTATATATTTCAAGTTCAAAGATTAAAATATATCTAATTGT
53383592 CAAGTTCAATTA
66 CAAGTTCAATTA
53383604 TTAAAGTGTTATGTCAATAAAATTTT
1 TTAAAGTGTTATGTCAATAAAATTTT
53383630 TATTAAAATT
Statistics
Matches: 403, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
77 403 1.00
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.42
Consensus pattern (77 bp):
TTAAAGTGTTATGTCAATAAAATTTTATATATTTCAAGTTCAAAGATTAAAATATATCTAATTGT
CAAGTTCAATTA
Found at i:53383818 original size:45 final size:44
Alignment explanation
Indices: 53383737--53383826 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 44
53383727 GCCTCTATTC
53383737 CATTCAACCAAACACAAGAATACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGAATACTATTACGCCTCTATTCCATTA
* * *
53383781 CATTCAACCAAACA-ATTGAATTGCTATTACGTCTCTATTCCATTA
1 CATTCAACCAAACACA-AGAA-TACTATTACGCCTCTATTCCATTA
53383826 C
1 C
53383827 GTCTATATTC
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 17 0.41
45 23 0.56
ACGTcount: A:0.36, C:0.28, G:0.06, T:0.31
Consensus pattern (44 bp):
CATTCAACCAAACACAAGAATACTATTACGCCTCTATTCCATTA
Found at i:53383827 original size:16 final size:16
Alignment explanation
Indices: 53383806--53383842 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
53383796 TTGAATTGCT
*
53383806 ATTACGTCTCTATTCC
1 ATTACGTCTATATTCC
53383822 ATTACGTCTATATTCC
1 ATTACGTCTATATTCC
53383838 ATTAC
1 ATTAC
53383843 AGCGAACCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.24, C:0.27, G:0.05, T:0.43
Consensus pattern (16 bp):
ATTACGTCTATATTCC
Found at i:53390103 original size:20 final size:20
Alignment explanation
Indices: 53390070--53390107 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
53390060 TTTTAATAAT
* *
53390070 TTGATTAAATTTAATTTTAC
1 TTGATCAAAATTAATTTTAC
53390090 TTGATCAAAATTAATTTT
1 TTGATCAAAATTAATTTT
53390108 TCCAAAAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (20 bp):
TTGATCAAAATTAATTTTAC
Found at i:53391275 original size:15 final size:14
Alignment explanation
Indices: 53391249--53391284 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
53391239 ACTATGCATG
*
53391249 CAAAATATAAAAGA
1 CAAAATACAAAAGA
53391263 CAGAAATACAAAAGA
1 CA-AAATACAAAAGA
53391278 CAAAATA
1 CAAAATA
53391285 GTGAAATGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.69, C:0.11, G:0.08, T:0.11
Consensus pattern (14 bp):
CAAAATACAAAAGA
Found at i:53394746 original size:49 final size:48
Alignment explanation
Indices: 53394620--53394798 Score: 168
Period size: 50 Copynumber: 3.6 Consensus size: 48
53394610 ACATGTCAAA
* * * *
53394620 GCCATGTCCCAGACATGGTATTACATGGGATGTTTCCTGTAC-TTCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGAT-TTTCATAT-CGTGCCAAT
* *
53394669 GCCATAG-CCCAGATATGGTCTTACATGGGAGTTTTCATATCGGTGCCCAT
1 GCCAT-GTCCCAGACATGGTCTTACATGGGA-TTTTCATATC-GTGCCAAT
* *
53394719 GCCATGTCCCAGACATGGTCTTA-ATGGGGACCTCTT-ATCTCGATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACAT-GGGA--TTTTCATATCG-TGCCAAT
*
53394769 GCCATGTCCCAGACATGGTCTTACGTGGGA
1 GCCATGTCCCAGACATGGTCTTACATGGGA
53394799 CCTCTCATAA
Statistics
Matches: 109, Mismatches: 12, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
48 1 0.01
49 36 0.33
50 68 0.62
51 4 0.04
ACGTcount: A:0.22, C:0.26, G:0.23, T:0.29
Consensus pattern (48 bp):
GCCATGTCCCAGACATGGTCTTACATGGGATTTTCATATCGTGCCAAT
Found at i:53394799 original size:50 final size:51
Alignment explanation
Indices: 53394664--53394852 Score: 179
Period size: 50 Copynumber: 3.6 Consensus size: 51
53394654 TCCTGTACTT
* * * * * *
53394664 CCAATGCCATAG-CCCAGATATGGTCTTACATGGGA-GTTTTCATATCGGTG
1 CCAATGCCAT-GTCCCAGACATGGTCTTACATGGGACCTCTTAATCTCGATG
*
53394714 CCCATGCCATGTCCCAGACATGGTCTTA-ATGGGGACCTCTT-ATCTCGATG
1 CCAATGCCATGTCCCAGACATGGTCTTACAT-GGGACCTCTTAATCTCGATG
* *
53394764 CCAATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATAATCTCAATAATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT--TAATCTC---GATG
* * *
53394820 TCAATGCCATGACCCAAACATGGTCTTACATGG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGG
53394853 TATCTCATTC
Statistics
Matches: 116, Mismatches: 13, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
49 3 0.03
50 71 0.61
51 4 0.03
52 1 0.01
53 5 0.04
56 32 0.28
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.28
Consensus pattern (51 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTAATCTCGATG
Found at i:53397627 original size:22 final size:20
Alignment explanation
Indices: 53397595--53397635 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
53397585 TTAGTTGTAC
*
53397595 ATATATTTATATTTTATTGT
1 ATATATTTATATTGTATTGT
53397615 ATATATTAATATATTGTATTG
1 ATATATT--TATATTGTATTG
53397636 GCCGCTTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
22 11 0.61
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (20 bp):
ATATATTTATATTGTATTGT
Found at i:53401549 original size:30 final size:30
Alignment explanation
Indices: 53401513--53401569 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
53401503 ATGAATCGGG
*
53401513 TTCATCAAGTGATACCAATGGTCATTCGAA
1 TTCATCAAGTGATACCAATGCTCATTCGAA
53401543 TTCATCAAGTGATACCAATGCTCATTC
1 TTCATCAAGTGATACCAATGCTCATTC
53401570 TCACTCTACC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.32
Consensus pattern (30 bp):
TTCATCAAGTGATACCAATGCTCATTCGAA
Found at i:53410641 original size:41 final size:41
Alignment explanation
Indices: 53410592--53410748 Score: 190
Period size: 41 Copynumber: 3.8 Consensus size: 41
53410582 GGGCAAAAAA
*
53410592 GTGC-ATTCAGGGGTACCGAAGTACAAATAGGGGCACATAT
1 GTGCAATTCAGGGGTACCGAAGTACAAATAGGGGCACGTAT
* ** * * *
53410632 GTACAATTCAGGGGGTATTGAAGTTCAAACAAGGGCACGTAT
1 GTGCAATTCA-GGGGTACCGAAGTACAAATAGGGGCACGTAT
* *
53410674 GTGCAATTTAGGGGTACCGAAGTACAAAGAGGGGCACGTAT
1 GTGCAATTCAGGGGTACCGAAGTACAAATAGGGGCACGTAT
* * *
53410715 GTGCAATTTAGGGGAACCGAAGTACAACTAGGGG
1 GTGCAATTCAGGGGTACCGAAGTACAAATAGGGG
53410749 TGCACATGTG
Statistics
Matches: 98, Mismatches: 17, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
40 3 0.03
41 62 0.63
42 33 0.34
ACGTcount: A:0.32, C:0.15, G:0.32, T:0.20
Consensus pattern (41 bp):
GTGCAATTCAGGGGTACCGAAGTACAAATAGGGGCACGTAT
Found at i:53412931 original size:67 final size:67
Alignment explanation
Indices: 53412823--53412953 Score: 199
Period size: 67 Copynumber: 2.0 Consensus size: 67
53412813 ACCTGGTTGA
** * *
53412823 GATACCCGCTTGATGGCTGACAAACTTTATCACTTGAAAAGTTTCCAAGTGTTGGGAATATAGTC
1 GATACCCGCTCAATGGCTGACAAACTCTATCACTTGAAAAGTTTCCAAGTGTCGGGAATATAGTC
53412888 GG
66 GG
* * *
53412890 GATACCCGCTCAATGGCTGACGAACTCTGTCACTTGGAAAGTTTCCAAGTGTCGGGAATATAGT
1 GATACCCGCTCAATGGCTGACAAACTCTATCACTTGAAAAGTTTCCAAGTGTCGGGAATATAGT
53412954 TGTACGAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
67 57 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.28
Consensus pattern (67 bp):
GATACCCGCTCAATGGCTGACAAACTCTATCACTTGAAAAGTTTCCAAGTGTCGGGAATATAGTC
GG
Found at i:53414878 original size:27 final size:26
Alignment explanation
Indices: 53414820--53414883 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 26
53414810 ATGAATTTTC
53414820 TCAAAATTTTATCGGGGCTAAAATCG
1 TCAAAATTTTATCGGGGCTAAAATCG
* * *
53414846 TAAAAATTTTATCGAGGGGTAAAATTG
1 TCAAAATTTTATCG-GGGCTAAAATCG
53414873 TCAAAATTTTA
1 TCAAAATTTTA
53414884 CTAGAGTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
26 13 0.39
27 20 0.61
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.34
Consensus pattern (26 bp):
TCAAAATTTTATCGGGGCTAAAATCG
Found at i:53418029 original size:24 final size:24
Alignment explanation
Indices: 53417997--53418086 Score: 82
Period size: 23 Copynumber: 4.0 Consensus size: 24
53417987 GGCCTGACGC
*
53417997 ATATTAAATATATATATTTAATAA
1 ATATAAAATATATATATTTAATAA
* *
53418021 ATATAAAATATATAT-TTGATTAA
1 ATATAAAATATATATATTTAATAA
* * * *
53418044 AAATAAAAAATATATATTTGATTA
1 ATATAAAATATATATATTTAATAA
53418068 A-A-AAAATA-A-ATATTTAATA
1 ATATAAAATATATATATTTAATA
53418087 TATAATTCGA
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
20 8 0.15
21 1 0.02
22 5 0.09
23 20 0.38
24 19 0.36
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (24 bp):
ATATAAAATATATATATTTAATAA
Found at i:53418087 original size:27 final size:25
Alignment explanation
Indices: 53418002--53418080 Score: 101
Period size: 25 Copynumber: 3.2 Consensus size: 25
53417992 GACGCATATT
* *
53418002 AAATATATATAT--TTAATAAATATA
1 AAATATATATTTGATTAA-AAATAAA
53418026 AAATATATATTTGATTAAAAATAAA
1 AAATATATATTTGATTAAAAATAAA
*
53418051 AAATATATATTTGATTAAAAA-AAT
1 AAATATATATTTGATTAAAAATAAA
53418075 AAATAT
1 AAATAT
53418081 TTAATATATA
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
24 19 0.38
25 27 0.54
26 4 0.08
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (25 bp):
AAATATATATTTGATTAAAAATAAA
Found at i:53418976 original size:125 final size:126
Alignment explanation
Indices: 53418816--53419067 Score: 497
Period size: 125 Copynumber: 2.0 Consensus size: 126
53418806 TTTTTTGTCC
53418816 TCTCATTCATTTTTTTTTCGTTTTAAATAACTTTTTAACCAAACACATGTTAAATATTTAAATTT
1 TCTCATTCATTTTTTTTTCGTTTTAAATAACTTTTTAACCAAACACATGTTAAATATTTAAATTT
53418881 AATTTAACTTTGAGGTGAATTTATTTTTTCTTTATTCCTTTTATTTATTT-ATTTTATATT
66 AATTTAACTTTGAGGTGAATTTATTTTTTCTTTATTCCTTTTATTTATTTGATTTTATATT
53418941 TCTCATTCATTTTTTTTTCGTTTTAAATAACTTTTTAACCAAACACATGTTAAATATTTAAATTT
1 TCTCATTCATTTTTTTTTCGTTTTAAATAACTTTTTAACCAAACACATGTTAAATATTTAAATTT
53419006 AATTTAACTTTGAGGTGAATTTATTTTTTCTTTATTCCTTTTATTTATTTGATTTTATATT
66 AATTTAACTTTGAGGTGAATTTATTTTTTCTTTATTCCTTTTATTTATTTGATTTTATATT
53419067 T
1 T
53419068 TTATTTATTT
Statistics
Matches: 126, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
125 115 0.91
126 11 0.09
ACGTcount: A:0.28, C:0.10, G:0.05, T:0.57
Consensus pattern (126 bp):
TCTCATTCATTTTTTTTTCGTTTTAAATAACTTTTTAACCAAACACATGTTAAATATTTAAATTT
AATTTAACTTTGAGGTGAATTTATTTTTTCTTTATTCCTTTTATTTATTTGATTTTATATT
Found at i:53419082 original size:14 final size:14
Alignment explanation
Indices: 53419045--53419085 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
53419035 CTTTATTCCT
*
53419045 TTTATTTA-TTTGA
1 TTTATTTATTTTTA
*
53419058 TTT-TATATTTTTA
1 TTTATTTATTTTTA
53419071 TTTATTTATTTTTA
1 TTTATTTATTTTTA
53419085 T
1 T
53419086 AGCTTTTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
12 3 0.13
13 10 0.43
14 10 0.43
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (14 bp):
TTTATTTATTTTTA
Found at i:53429587 original size:3 final size:3
Alignment explanation
Indices: 53429555--53429706 Score: 64
Period size: 3 Copynumber: 50.7 Consensus size: 3
53429545 TTAACAGTAG
* * * **
53429555 AAT AAT AAG AA- ACT AAT AAC AAT AAAT AAT AAT TGT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT
* * * * * *
53429600 AGT AAT AGT AAT AACGT CAGT -AT AAT AAT ATT ATT AAT AAT AAT AAG
1 AAT AAT AAT AAT AA--T -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
53429647 AAT GAT AAC AAT -AT AAT AAT AAA AAT AAA AAT AA- AGA- AAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT -AAT
*
53429691 AAT -AC AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
53429707 ACAAAAATAA
Statistics
Matches: 109, Mismatches: 29, Indels: 22
0.68 0.18 0.14
Matches are distributed among these distances:
2 7 0.06
3 93 0.85
4 7 0.06
5 1 0.01
6 1 0.01
ACGTcount: A:0.62, C:0.04, G:0.06, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:53441614 original size:28 final size:29
Alignment explanation
Indices: 53441557--53441614 Score: 66
Period size: 28 Copynumber: 2.0 Consensus size: 29
53441547 TGAAATAATC
* * *
53441557 ATAGAAAAATTAAGTAAATAAAGATTTAA
1 ATAGAAAAATTAAATAAACAAAGATGTAA
53441586 ATAGAAAAA-TAAATAAACCAAA-ATGTAA
1 ATAGAAAAATTAAATAAA-CAAAGATGTAA
53441614 A
1 A
53441615 AACAAATTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
28 13 0.52
29 12 0.48
ACGTcount: A:0.66, C:0.03, G:0.09, T:0.22
Consensus pattern (29 bp):
ATAGAAAAATTAAATAAACAAAGATGTAA
Found at i:53452534 original size:25 final size:25
Alignment explanation
Indices: 53452490--53452578 Score: 97
Period size: 25 Copynumber: 3.6 Consensus size: 25
53452480 ACTCCATAAT
* * * *
53452490 TCGTGAGAGCACATCAATTTATAGC
1 TCGTGAGAGCATACCGATTTACAGC
53452515 TCGTGAGAGCATACCGATTTACAGC
1 TCGTGAGAGCATACCGATTTACAGC
* * * *
53452540 TTGTGAAAGCATACTGATTCACAGC
1 TCGTGAGAGCATACCGATTTACAGC
*
53452565 TCGTGTGAGCATAC
1 TCGTGAGAGCATAC
53452579 ATGTACAGGA
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 53 1.00
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.27
Consensus pattern (25 bp):
TCGTGAGAGCATACCGATTTACAGC
Found at i:53461205 original size:13 final size:12
Alignment explanation
Indices: 53461183--53461216 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
53461173 TTTATAGTAA
53461183 ATACAATCAACC
1 ATACAATCAACC
*
53461195 TATATAATCAACC
1 -ATACAATCAACC
53461208 ATACAATCA
1 ATACAATCA
53461217 CGAATTCAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (12 bp):
ATACAATCAACC
Found at i:53461485 original size:210 final size:208
Alignment explanation
Indices: 53460992--53461614 Score: 938
Period size: 210 Copynumber: 3.0 Consensus size: 208
53460982 ATTATTCACA
*
53460992 AATTTAATCAACCAAACAATCACAAATTCAACAATTTATCATACATAGTAGCATGCTAGTTTTCC
1 AATTTAATCAACCAAACAATCACGAATTCAACAATTTATCATACATAGTAGCATGCTAG-TTTCC
* * * * *
53461057 TGTCTTTTATATTTCATCTGGTACGTTCAATTGCTTAATGCCTCTTTATAGTGTAATATACAGAG
65 TGTATTTTCTATTTCATCTGGTACGTTCAATTGCTTAATGCCTATTTATAGTGTAATATATAGAA
* *
53461122 CTTAGTAGTCTGAA-AATAAAAAATTTATAATCATCTACTATCATGAAAAAATTTATAGTAAATA
130 CTTAGTAGTCT-AATAATAAAAAATTTAAAATCATCTACTATCATG-CAAAATTTATAGTAAATA
53461186 CAATCAACC--TAT--
193 CAATCAACCTATATAC
* *
53461198 -A--TAATCAACCATACAATCACGAATTCAACAATTTATCATACATAGTAGCATGCTCGTTTCCC
1 AATTTAATCAACCAAACAATCACGAATTCAACAATTTATCATACATAGTAGCATGCTAGTTT-CC
* * * *
53461260 TGTATTTTCTATTTCATCTGGTATGTTCAATTGTTTAATGCCTATTTATAATATAATATATAGAA
65 TGTATTTTCTATTTCATCTGGTACGTTCAATTGCTTAATGCCTATTTATAGTGTAATATATAGAA
* *
53461325 ATTAGTAGTCTAATAATAAAAAATGTAAAATCATCTACTATCATGCAAAATTTATAGTAAATACA
130 CTTAGTAGTCTAATAATAAAAAATTTAAAATCATCTACTATCATGCAAAATTTATAGTAAATACA
53461390 ATCAACCTATATAC
195 ATCAACCTATATAC
*
53461404 AAGTTTAATCAACCAAACAATCACGAATTCAACAATTTATCATACATAGTAGCATGCTTGTTTCC
1 AA-TTTAATCAACCAAACAATCACGAATTCAACAATTTATCATACATAGTAGCATGCTAGTTTCC
* * *
53461469 AAGTATTTTCTATTTCATTTGGTACGTTCAATTGCTTAATGGCTATTTATAGTGTAATATATAGA
65 -TGTATTTTCTATTTCATCTGGTACGTTCAATTGCTTAATGCCTATTTATAGTGTAATATATAGA
* *
53461534 ACTTTGTAGTCTAATAATCAAAAATTTAAAATCATCTACTATCATGCAAAATTTATAGTAAATAC
129 ACTTAGTAGTCTAATAATAAAAAATTTAAAATCATCTACTATCATGCAAAATTTATAGTAAATAC
53461599 AATCAACCTATATAC
194 AATCAACCTATATAC
53461614 A
1 A
53461615 TGTTCTTAAC
Statistics
Matches: 377, Mismatches: 29, Indels: 18
0.89 0.07 0.04
Matches are distributed among these distances:
202 31 0.08
203 149 0.40
204 3 0.01
205 1 0.00
207 1 0.00
209 2 0.01
210 190 0.50
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.36
Consensus pattern (208 bp):
AATTTAATCAACCAAACAATCACGAATTCAACAATTTATCATACATAGTAGCATGCTAGTTTCCT
GTATTTTCTATTTCATCTGGTACGTTCAATTGCTTAATGCCTATTTATAGTGTAATATATAGAAC
TTAGTAGTCTAATAATAAAAAATTTAAAATCATCTACTATCATGCAAAATTTATAGTAAATACAA
TCAACCTATATAC
Found at i:53462904 original size:210 final size:209
Alignment explanation
Indices: 53462419--53463047 Score: 1017
Period size: 210 Copynumber: 3.0 Consensus size: 209
53462409 TATTCAAAAA
* * * * *
53462419 TTTAATCATCCAAACAATTACAAATTCAACAATTTATCATAAATAGTAGCATGCTCGTTTCCCTA
1 TTTAATCAACCAAACAATCACGAATTCAACAATTTATCATACATAGTAGCATGCTCGTTTCCCTG
* * *
53462484 TATTTTCTATTTCATCTCGTACGTTCAATTGCTTAATGCCTCTTTATAGTGTAATATATAAAACT
66 TATTTTCTATTTCATCTGGTACGTTCAATTGCTTAATGCCTATTTATAGTGTAATATATAGAAC-
* *
53462549 TTGTAGTCTGAA-AATCAAAAATTTAAAATCATCTACTACCATGGAAAAATTTATAGTAAATACA
130 TTGTAGTCT-AATAATCAAAAATTTAAAATCATCTACTATCAT-GCAAAATTTATAGTAAATACA
53462613 ATCAACCTATATACAAG
193 ATCAACCTATATACAAG
* * *
53462630 TTTAATCAACTAAAGAATCACGAATTCAACAATTTATCATACTTAGTAGCATGCTCGTTTCCCTG
1 TTTAATCAACCAAACAATCACGAATTCAACAATTTATCATACATAGTAGCATGCTCGTTTCCCTG
* *
53462695 TATTTTCTATTTCATCTGGTACGTTCAATTGTTTAATGCCTATTTATAATGTAATATATAGAACT
66 TATTTTCTATTTCATCTGGTACGTTCAATTGCTTAATGCCTATTTATAGTGTAATATATAGAACT
*
53462760 TAGTAGTCTAATAATAAAAAATTTAAAATCATCTACTATCATGCAAAATTTATAGTAAATACAAT
131 T-GTAGTCTAATAATCAAAAATTTAAAATCATCTACTATCATGCAAAATTTATAGTAAATACAAT
53462825 CAACCTATATACAAG
195 CAACCTATATACAAG
* *
53462840 TTTCATCAACCAAACAATCACGAATTCAACAATTTATCGTACATAGTAGCATGCTCGTTTCCCTG
1 TTTAATCAACCAAACAATCACGAATTCAACAATTTATCATACATAGTAGCATGCTCGTTTCCCTG
* *
53462905 TATTTTCTATTTCATCCGGTACGTTCAATTGCTTAATACCTATTTATAGTGTAATATATAGAACT
66 TATTTTCTATTTCATCTGGTACGTTCAATTGCTTAATGCCTATTTATAGTGTAATATATAGAACT
53462970 CTGTAGTCTAATAATCAAAAATTTAAAATCATCTACTATCATGCAAAATTTATAGTAAATACAAT
131 -TGTAGTCTAATAATCAAAAATTTAAAATCATCTACTATCATGCAAAATTTATAGTAAATACAAT
*
53463035 CAACTTATATACA
195 CAACCTATATACA
53463048 TGTTCCTAAC
Statistics
Matches: 388, Mismatches: 27, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
210 236 0.61
211 152 0.39
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.36
Consensus pattern (209 bp):
TTTAATCAACCAAACAATCACGAATTCAACAATTTATCATACATAGTAGCATGCTCGTTTCCCTG
TATTTTCTATTTCATCTGGTACGTTCAATTGCTTAATGCCTATTTATAGTGTAATATATAGAACT
TGTAGTCTAATAATCAAAAATTTAAAATCATCTACTATCATGCAAAATTTATAGTAAATACAATC
AACCTATATACAAG
Found at i:53470199 original size:28 final size:28
Alignment explanation
Indices: 53470160--53470227 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
53470150 CTATTCAGTG
53470160 ACAGT-ACAGTGTGCGCCTTAGCCCAAT
1 ACAGTAACAGTGTGCGCCTTAGCCCAAT
*
53470187 ACAG-AATCAGTGTGGGCCTTAGCCCAAT
1 ACAGTAA-CAGTGTGCGCCTTAGCCCAAT
53470215 ACAGTAACAGTGT
1 ACAGTAACAGTGT
53470228 TGTGCAATAA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
27 5 0.14
28 30 0.81
29 2 0.05
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.22
Consensus pattern (28 bp):
ACAGTAACAGTGTGCGCCTTAGCCCAAT
Found at i:53470406 original size:26 final size:26
Alignment explanation
Indices: 53470328--53470408 Score: 99
Period size: 26 Copynumber: 3.1 Consensus size: 26
53470318 AACACACTAA
*
53470328 TATCGCAGCAAAGCTGCCAGTAATAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
* * *
53470354 CATCGCAGCAGAGCTGCCAGTATCAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
* * *
53470380 TATTGCAGTAAAGCTACCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
53470406 TAT
1 TAT
53470409 ATGTGGTAAA
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.33, C:0.23, G:0.22, T:0.21
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAGTAACAG
Found at i:53470675 original size:27 final size:27
Alignment explanation
Indices: 53470645--53471013 Score: 335
Period size: 27 Copynumber: 13.6 Consensus size: 27
53470635 TATAACAATC
*
53470645 ATTTCGTTCATTTTACCCTATAGGGGT
1 ATTTCGGTCATTTTACCCTATAGGGGT
** * *
53470672 ATTTTAGACATTTTACCCTATGGGGGT
1 ATTTCGGTCATTTTACCCTATAGGGGT
* *
53470699 ATTTCGGTCATTTTATCTTAT-GGGAGT
1 ATTTCGGTCATTTTACCCTATAGGG-GT
* *
53470726 ATTTTGGTCATTTTATCCTAT-GAGGGT
1 ATTTCGGTCATTTTACCCTATAG-GGGT
53470753 ATTTCGGTCATTTTACCCTAT-GGGTGT
1 ATTTCGGTCATTTTACCCTATAGGG-GT
* * *
53470780 ATTTTGGTTATTTTACCCTATAGAGGT
1 ATTTCGGTCATTTTACCCTATAGGGGT
*
53470807 ATTTCAGTCATTTTACCCTAT-GAGGGT
1 ATTTCGGTCATTTTACCCTATAG-GGGT
* *
53470834 ATTTCGATCATTTTACCCTATGGGGGT
1 ATTTCGGTCATTTTACCCTATAGGGGT
* *
53470861 ATTTAGGTCATTTTA-ACT-TAGGAGGCT
1 ATTTCGGTCATTTTACCCTATAGG-GG-T
*
53470888 ATTTTGGTCATTTTACCCTAT-GAGGGT
1 ATTTCGGTCATTTTACCCTATAG-GGGT
**
53470915 ATTTCAATCATTTTACCCTATAGGGGT
1 ATTTCGGTCATTTTACCCTATAGGGGT
* *
53470942 ATTTCGGTTATTTT-CATCTATTAGGGGT
1 ATTTCGGTCATTTTAC-CCTA-TAGGGGT
** *
53470970 AAAAT-AGTCATTTTACCCT-TCAGGGGT
1 -ATTTCGGTCATTTTACCCTAT-AGGGGT
*
53470997 ATTTTGGTCATTTTACC
1 ATTTCGGTCATTTTACC
53471014 TATTTTGGGG
Statistics
Matches: 280, Mismatches: 44, Indels: 36
0.78 0.12 0.10
Matches are distributed among these distances:
25 3 0.01
26 14 0.05
27 231 0.82
28 27 0.10
29 5 0.02
ACGTcount: A:0.21, C:0.15, G:0.20, T:0.44
Consensus pattern (27 bp):
ATTTCGGTCATTTTACCCTATAGGGGT
Found at i:53470793 original size:81 final size:81
Alignment explanation
Indices: 53470652--53470960 Score: 392
Period size: 81 Copynumber: 3.8 Consensus size: 81
53470642 ATCATTTCGT
*
53470652 TCATTTTACCCTAT-AGGGGTATTTTAGA-CATTTTACCCTATGGGGGTATTTCGGTCATTTTAT
1 TCATTTTACCCTATGA-GGGTATTTCA-ATCATTTTACCCTATGGGGGTATTTCGGTCATTTTAT
53470715 CTTATGG-GAGTATTTTGG
64 CTTATGGAG-GTATTTTGG
* ** * * * * *
53470733 TCATTTTATCCTATGAGGGTATTTCGGTCATTTTACCCTATGGGTGTATTTTGGTTATTTTACCC
1 TCATTTTACCCTATGAGGGTATTTCAATCATTTTACCCTATGGGGGTATTTCGGTCATTTTATCT
* **
53470798 TATAGAGGTATTTCAG
66 TATGGAGGTATTTTGG
* * *
53470814 TCATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTATGGGGGTATTTAGGTCATTTTAACT
1 TCATTTTACCCTATGAGGGTATTTCAATCATTTTACCCTATGGGGGTATTTCGGTCATTTTATCT
53470879 TA-GGAGGCTATTTTGG
66 TATGGAGG-TATTTTGG
* *
53470895 TCATTTTACCCTATGAGGGTATTTCAATCATTTTACCCTATAGGGGTATTTCGGTTATTTTCATC
1 TCATTTTACCCTATGAGGGTATTTCAATCATTTTACCCTATGGGGGTATTTCGGTCATTTT-ATC
53470960 T
65 T
53470961 ATTAGGGGTA
Statistics
Matches: 196, Mismatches: 27, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
80 4 0.02
81 187 0.95
82 5 0.03
ACGTcount: A:0.20, C:0.15, G:0.20, T:0.44
Consensus pattern (81 bp):
TCATTTTACCCTATGAGGGTATTTCAATCATTTTACCCTATGGGGGTATTTCGGTCATTTTATCT
TATGGAGGTATTTTGG
Found at i:53471266 original size:17 final size:18
Alignment explanation
Indices: 53471244--53471277 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
53471234 ATCCGTGTGA
53471244 GGCCCACA-AGCCCATTG
1 GGCCCACACAGCCCATTG
53471261 GGCCCACACAGCCCATT
1 GGCCCACACAGCCCATT
53471278 TCGGCTCAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.24, C:0.44, G:0.21, T:0.12
Consensus pattern (18 bp):
GGCCCACACAGCCCATTG
Found at i:53485430 original size:13 final size:11
Alignment explanation
Indices: 53485387--53485437 Score: 52
Period size: 10 Copynumber: 4.6 Consensus size: 11
53485377 TTAAAAATAA
*
53485387 AAAAGTTTTG-
1 AAAATTTTTGT
*
53485397 AAGATTTTTGT
1 AAAATTTTTGT
53485408 AAAA-TTTTGT
1 AAAATTTTTGT
53485418 AAAGTATTTTTGT
1 AAA--ATTTTTGT
53485431 AAAATTT
1 AAAATTT
53485438 ATAAAGTGGA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
10 17 0.50
11 7 0.21
12 1 0.03
13 9 0.26
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (11 bp):
AAAATTTTTGT
Found at i:53485442 original size:22 final size:23
Alignment explanation
Indices: 53485400--53485444 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
53485390 AGTTTTGAAG
*
53485400 ATTTTTGTAAAATTTTGTAAAGT
1 ATTTTTGTAAAATTTTATAAAGT
53485423 ATTTTTGTAAAA-TTTATAAAGT
1 ATTTTTGTAAAATTTTATAAAGT
53485445 GGATGTCCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (23 bp):
ATTTTTGTAAAATTTTATAAAGT
Found at i:53495972 original size:25 final size:23
Alignment explanation
Indices: 53495921--53495973 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 23
53495911 TTTAATTTAA
***
53495921 TATTTATATATTTTATATATTTT
1 TATTTATATATTTTATATATAGG
53495944 TATTTATTAATATTTTATATATAGG
1 TATTTA-T-ATATTTTATATATAGG
53495969 TATTT
1 TATTT
53495974 TAACATTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 6 0.24
24 1 0.04
25 18 0.72
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (23 bp):
TATTTATATATTTTATATATAGG
Found at i:53495976 original size:23 final size:24
Alignment explanation
Indices: 53495923--53495982 Score: 59
Period size: 25 Copynumber: 2.5 Consensus size: 24
53495913 TAATTTAATA
***
53495923 TTTATATATTTTATATATTTTTATT
1 TTTA-ATATTTTATATATAGGTATT
53495948 TATTAATATTTTATATATAGGTA-T
1 T-TTAATATTTTATATATAGGTATT
*
53495972 TTTAACATTTT
1 TTTAATATTTT
53495983 TTAATGTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
23 9 0.30
24 2 0.07
25 16 0.53
26 3 0.10
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (24 bp):
TTTAATATTTTATATATAGGTATT
Found at i:53508358 original size:9 final size:9
Alignment explanation
Indices: 53508340--53508369 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
53508330 AACAAAATTA
53508340 TTAAACACT
1 TTAAACACT
*
53508349 TTAAAAACT
1 TTAAACACT
53508358 TTAAACACT
1 TTAAACACT
53508367 TTA
1 TTA
53508370 CAGGATAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.37
Consensus pattern (9 bp):
TTAAACACT
Found at i:53508361 original size:18 final size:19
Alignment explanation
Indices: 53508317--53508371 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 19
53508307 GGTACAACAC
**
53508317 ACTTTAAACACTCAACAAA
1 ACTTTAAACACTTTACAAA
*
53508336 ATTATTAAACACTTTA-AAA
1 ACT-TTAAACACTTTACAAA
53508355 ACTTTAAACACTTTACA
1 ACTTTAAACACTTTACA
53508372 GGATAGTTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
18 12 0.40
19 8 0.27
20 10 0.33
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.31
Consensus pattern (19 bp):
ACTTTAAACACTTTACAAA
Found at i:53515889 original size:24 final size:24
Alignment explanation
Indices: 53515859--53515907 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
53515849 TTTGAGTCAT
53515859 TTATTTTTGATCTCTTAGTATTTA
1 TTATTTTTGATCTCTTAGTATTTA
*
53515883 TTATTTTTGATCTTTTAGTATTTA
1 TTATTTTTGATCTCTTAGTATTTA
53515907 T
1 T
53515908 GTTGTAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.20, C:0.06, G:0.08, T:0.65
Consensus pattern (24 bp):
TTATTTTTGATCTCTTAGTATTTA
Found at i:53526414 original size:227 final size:228
Alignment explanation
Indices: 53526019--53526476 Score: 909
Period size: 227 Copynumber: 2.0 Consensus size: 228
53526009 AAATGAAGAA
53526019 CAATGAAGAGAGAGAAGTGAGAGAGAAGTGAATAATGAATGGTTTTGAGATGTGTTTGAAGTGAG
1 CAATGAAGAGAGAGAAGTGAGAGAGAAGTGAATAATGAATGGTTTTGAGATGTGTTTGAAGTGAG
53526084 CAGCCAAGGGGGGTAGTTATAGGTTAAGAAGGCTGCTAAAAATAGCCAAAATCAGTAGCCAAAGA
66 CAGCCAAGGGGGGTAGTTATAGGTTAAGAAGGCTGCTAAAAATAGCCAAAATCAGTAGCCAAAGA
53526149 CTCCCCCCATGGTCAGCCACACATGTGTCATATTTGAAGATGTTATTTTTAGGTAGGGGCAAATC
131 CTCCCCCCATGGTCAGCCACACATGTGTCATATTTGAAGATGTTATTTTTAGGTAGGGGCAAATC
53526214 TTGAAAGGCATGAATAGTGGA-GGGTTTGAATG
196 TTGAAAGGCATGAATAGTGGAGGGGTTTGAATG
53526246 CAATGAAGAGAGAGAAGTGAGAGAGAAGTGAATAATGAATGGTTTTGAGATGTGTTTGAAGTGAG
1 CAATGAAGAGAGAGAAGTGAGAGAGAAGTGAATAATGAATGGTTTTGAGATGTGTTTGAAGTGAG
53526311 CAGCCAAGGGGGGTAGTTATAGGTTAAGAAGGCTGCTAAAAATAGCCAAAATCAGTAGCCAAAGA
66 CAGCCAAGGGGGGTAGTTATAGGTTAAGAAGGCTGCTAAAAATAGCCAAAATCAGTAGCCAAAGA
53526376 CTCCCCCCATGGTCAGCCACACATGTGTCATATTTGAAGATGTTATTTTTAGGTAGGGGCAAATC
131 CTCCCCCCATGGTCAGCCACACATGTGTCATATTTGAAGATGTTATTTTTAGGTAGGGGCAAATC
53526441 TTGAAAGGCATGAATAGTGGAGGGGTTTGAATG
196 TTGAAAGGCATGAATAGTGGAGGGGTTTGAATG
53526474 CAA
1 CAA
53526477 ATTGAAGGAG
Statistics
Matches: 230, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
227 216 0.94
228 14 0.06
ACGTcount: A:0.34, C:0.12, G:0.29, T:0.24
Consensus pattern (228 bp):
CAATGAAGAGAGAGAAGTGAGAGAGAAGTGAATAATGAATGGTTTTGAGATGTGTTTGAAGTGAG
CAGCCAAGGGGGGTAGTTATAGGTTAAGAAGGCTGCTAAAAATAGCCAAAATCAGTAGCCAAAGA
CTCCCCCCATGGTCAGCCACACATGTGTCATATTTGAAGATGTTATTTTTAGGTAGGGGCAAATC
TTGAAAGGCATGAATAGTGGAGGGGTTTGAATG
Found at i:53529815 original size:218 final size:218
Alignment explanation
Indices: 53529437--53529872 Score: 872
Period size: 218 Copynumber: 2.0 Consensus size: 218
53529427 GCTTGGCGCG
53529437 CGAGCTGGTGCGAAGGCTATTGGAGTTGGACGTGCGGGCAGGTGCAGCGACAAGGAGCAGGCTGC
1 CGAGCTGGTGCGAAGGCTATTGGAGTTGGACGTGCGGGCAGGTGCAGCGACAAGGAGCAGGCTGC
53529502 TGGGCTGTTGGCGCGCACGGTGTGTGTTTGGGCTACTGGTGTCGAAGGTGGGTGTTGGTGTGGCT
66 TGGGCTGTTGGCGCGCACGGTGTGTGTTTGGGCTACTGGTGTCGAAGGTGGGTGTTGGTGTGGCT
53529567 AGGTTGAGGTGATGTGAAAAAGTGGAATAGATGGGTGAAATTTATAGTGAATGGAGTAGGAGTTT
131 AGGTTGAGGTGATGTGAAAAAGTGGAATAGATGGGTGAAATTTATAGTGAATGGAGTAGGAGTTT
53529632 AATTAAAATTCTTAGAACAAACT
196 AATTAAAATTCTTAGAACAAACT
53529655 CGAGCTGGTGCGAAGGCTATTGGAGTTGGACGTGCGGGCAGGTGCAGCGACAAGGAGCAGGCTGC
1 CGAGCTGGTGCGAAGGCTATTGGAGTTGGACGTGCGGGCAGGTGCAGCGACAAGGAGCAGGCTGC
53529720 TGGGCTGTTGGCGCGCACGGTGTGTGTTTGGGCTACTGGTGTCGAAGGTGGGTGTTGGTGTGGCT
66 TGGGCTGTTGGCGCGCACGGTGTGTGTTTGGGCTACTGGTGTCGAAGGTGGGTGTTGGTGTGGCT
53529785 AGGTTGAGGTGATGTGAAAAAGTGGAATAGATGGGTGAAATTTATAGTGAATGGAGTAGGAGTTT
131 AGGTTGAGGTGATGTGAAAAAGTGGAATAGATGGGTGAAATTTATAGTGAATGGAGTAGGAGTTT
53529850 AATTAAAATTCTTAGAACAAACT
196 AATTAAAATTCTTAGAACAAACT
53529873 AATAATTAAT
Statistics
Matches: 218, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
218 218 1.00
ACGTcount: A:0.23, C:0.11, G:0.39, T:0.26
Consensus pattern (218 bp):
CGAGCTGGTGCGAAGGCTATTGGAGTTGGACGTGCGGGCAGGTGCAGCGACAAGGAGCAGGCTGC
TGGGCTGTTGGCGCGCACGGTGTGTGTTTGGGCTACTGGTGTCGAAGGTGGGTGTTGGTGTGGCT
AGGTTGAGGTGATGTGAAAAAGTGGAATAGATGGGTGAAATTTATAGTGAATGGAGTAGGAGTTT
AATTAAAATTCTTAGAACAAACT
Found at i:53530025 original size:22 final size:19
Alignment explanation
Indices: 53529986--53530027 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
53529976 TGTAAAGTTG
53529986 ATAATAATTAATATATATT
1 ATAATAATTAATATATATT
53530005 ATAATAGATATAATTATATATT
1 ATAATA-AT-TAA-TATATATT
53530027 A
1 A
53530028 ATGATTATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 3 0.15
22 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
ATAATAATTAATATATATT
Found at i:53532395 original size:481 final size:481
Alignment explanation
Indices: 53531493--53532455 Score: 1926
Period size: 481 Copynumber: 2.0 Consensus size: 481
53531483 CTTCGAAGTG
53531493 TAAAGTTGATAATAATTAATATATATTATAATAAATAGAATTATATACTAGTTATTATCATATTA
1 TAAAGTTGATAATAATTAATATATATTATAATAAATAGAATTATATACTAGTTATTATCATATTA
53531558 TTTATTAAATTAAATTAAATTAAAAATATTTATTCTAGATGCCTTTTGAAAATATTTACAAAAAG
66 TTTATTAAATTAAATTAAATTAAAAATATTTATTCTAGATGCCTTTTGAAAATATTTACAAAAAG
53531623 AGACGTAATTTTTAATATTTGCAAAAAGAGCAACCAACTTTTGAAAATAGTTCAATTAAGTACCT
131 AGACGTAATTTTTAATATTTGCAAAAAGAGCAACCAACTTTTGAAAATAGTTCAATTAAGTACCT
53531688 AGACTTAAAGAAAATTTGAAATTGAGTTGCAATTAAAACTTGGATCAAAATTGACCATGTTATTT
196 AGACTTAAAGAAAATTTGAAATTGAGTTGCAATTAAAACTTGGATCAAAATTGACCATGTTATTT
53531753 GAAAAACTAATAATTTATTTTGCCATGGAGAGAATAATTTCTCGGAAGATTATGTTAAAATCAGT
261 GAAAAACTAATAATTTATTTTGCCATGGAGAGAATAATTTCTCGGAAGATTATGTTAAAATCAGT
53531818 TCCCAAGAAAGATTGGAGGGCTCACAAGCGGTCCCACTTAAGTTCCAATCTCCTAGACAGAATTT
326 TCCCAAGAAAGATTGGAGGGCTCACAAGCGGTCCCACTTAAGTTCCAATCTCCTAGACAGAATTT
53531883 ATTTAAACATACTAATCCCGAAAATATACCCTAAACCATTTATTTAAAAAGAAAAACAAGAAAAA
391 ATTTAAACATACTAATCCCGAAAATATACCCTAAACCATTTATTTAAAAAGAAAAACAAGAAAAA
53531948 TTAAATATCTTATAAAATGAACAAGA
456 TTAAATATCTTATAAAATGAACAAGA
53531974 TAAAGTTGATAATAATTAATATATATTATAATAAATAGAATTATATACTAGTTATTATCATATTA
1 TAAAGTTGATAATAATTAATATATATTATAATAAATAGAATTATATACTAGTTATTATCATATTA
53532039 TTTATTAAATTAAATTAAATTAAAAATATTTATTCTAGATGCCTTTTGAAAATATTTACAAAAAG
66 TTTATTAAATTAAATTAAATTAAAAATATTTATTCTAGATGCCTTTTGAAAATATTTACAAAAAG
53532104 AGACGTAATTTTTAATATTTGCAAAAAGAGCAACCAACTTTTGAAAATAGTTCAATTAAGTACCT
131 AGACGTAATTTTTAATATTTGCAAAAAGAGCAACCAACTTTTGAAAATAGTTCAATTAAGTACCT
53532169 AGACTTAAAGAAAATTTGAAATTGAGTTGCAATTAAAACTTGGATCAAAATTGACCATGTTATTT
196 AGACTTAAAGAAAATTTGAAATTGAGTTGCAATTAAAACTTGGATCAAAATTGACCATGTTATTT
53532234 GAAAAACTAATAATTTATTTTGCCATGGAGAGAATAATTTCTCGGAAGATTATGTTAAAATCAGT
261 GAAAAACTAATAATTTATTTTGCCATGGAGAGAATAATTTCTCGGAAGATTATGTTAAAATCAGT
53532299 TCCCAAGAAAGATTGGAGGGCTCACAAGCGGTCCCACTTAAGTTCCAATCTCCTAGACAGAATTT
326 TCCCAAGAAAGATTGGAGGGCTCACAAGCGGTCCCACTTAAGTTCCAATCTCCTAGACAGAATTT
53532364 ATTTAAACATACTAATCCCGAAAATATACCCTAAACCATTTATTTAAAAAGAAAAACAAGAAAAA
391 ATTTAAACATACTAATCCCGAAAATATACCCTAAACCATTTATTTAAAAAGAAAAACAAGAAAAA
53532429 TTAAATATCTTATAAAATGAACAAGA
456 TTAAATATCTTATAAAATGAACAAGA
53532455 T
1 T
53532456 TTGATCTCGT
Statistics
Matches: 482, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
481 482 1.00
ACGTcount: A:0.44, C:0.12, G:0.11, T:0.33
Consensus pattern (481 bp):
TAAAGTTGATAATAATTAATATATATTATAATAAATAGAATTATATACTAGTTATTATCATATTA
TTTATTAAATTAAATTAAATTAAAAATATTTATTCTAGATGCCTTTTGAAAATATTTACAAAAAG
AGACGTAATTTTTAATATTTGCAAAAAGAGCAACCAACTTTTGAAAATAGTTCAATTAAGTACCT
AGACTTAAAGAAAATTTGAAATTGAGTTGCAATTAAAACTTGGATCAAAATTGACCATGTTATTT
GAAAAACTAATAATTTATTTTGCCATGGAGAGAATAATTTCTCGGAAGATTATGTTAAAATCAGT
TCCCAAGAAAGATTGGAGGGCTCACAAGCGGTCCCACTTAAGTTCCAATCTCCTAGACAGAATTT
ATTTAAACATACTAATCCCGAAAATATACCCTAAACCATTTATTTAAAAAGAAAAACAAGAAAAA
TTAAATATCTTATAAAATGAACAAGA
Found at i:53538946 original size:50 final size:50
Alignment explanation
Indices: 53538835--53539082 Score: 243
Period size: 50 Copynumber: 4.9 Consensus size: 50
53538825 ATTTGGGTAA
*
53538835 AGAGATCCCATGTAAGACCATGTCTGGGACATGGAATTGGCATCATTGAGACTATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC---GAG---ATG
* * *
53538891 AGAGGTCCCATGTAAGACAATGTCTGGGACATGGCGTTGGCATCGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATG
* ** * * *
53538941 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATG
* *
53538991 AGA-ACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCAGTAC-AGA--
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-T-CGAGATG
* * **
53539040 AAACATCCCATGTAAGACCATGTCTGGGACATGGTTTTGGCAT
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
53539083 GTTATTATCA
Statistics
Matches: 164, Mismatches: 24, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
48 1 0.01
49 35 0.21
50 82 0.50
51 2 0.01
52 1 0.01
53 3 0.02
56 40 0.24
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATG
Found at i:53548548 original size:17 final size:18
Alignment explanation
Indices: 53548528--53548570 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
53548518 TATGCGTTGA
53548528 TTGGCGAGTTTTG-GGTT
1 TTGGCGAGTTTTGTGGTT
* *
53548545 TTGGTGAATTTTGTGGTT
1 TTGGCGAGTTTTGTGGTT
*
53548563 TGGGCGAG
1 TTGGCGAG
53548571 ATATATGGTT
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.09, C:0.05, G:0.42, T:0.44
Consensus pattern (18 bp):
TTGGCGAGTTTTGTGGTT
Found at i:53556680 original size:24 final size:25
Alignment explanation
Indices: 53556653--53556700 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
53556643 CTGTATAACG
53556653 GGAAGATCATAAGAGCC-ATAATTA
1 GGAAGATCATAAGAGCCAATAATTA
* **
53556677 GGAAGCTCATGCGAGCCAATAATT
1 GGAAGATCATAAGAGCCAATAATT
53556701 GGTAGCTCCG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.21
Consensus pattern (25 bp):
GGAAGATCATAAGAGCCAATAATTA
Found at i:53556742 original size:25 final size:25
Alignment explanation
Indices: 53556704--53556831 Score: 86
Period size: 25 Copynumber: 5.2 Consensus size: 25
53556694 AATAATTGGT
*
53556704 AGCTCCGAAGAGCCATTAATCGGGA
1 AGCTTCGAAGAGCCATTAATCGGGA
* **
53556729 AGCTTCGAATAGCCA-TATATCGAAA
1 AGCTTCGAAGAGCCATTA-ATCGGGA
*
53556754 AG-TTC-AAGCGAGCCA-T-ATCGGGT
1 AGCTTCGAA--GAGCCATTAATCGGGA
* *
53556777 AGCTTTGAAGAGCCATTAATCAGGA
1 AGCTTCGAAGAGCCATTAATCGGGA
* * * *
53556802 AGCTCACAAACAGCCTTTAATCGGGA
1 AGCT-TCGAAGAGCCATTAATCGGGA
53556828 AGCT
1 AGCT
53556832 CACCAAGAGC
Statistics
Matches: 78, Mismatches: 17, Indels: 15
0.71 0.15 0.14
Matches are distributed among these distances:
23 14 0.18
24 8 0.10
25 37 0.47
26 19 0.24
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.21
Consensus pattern (25 bp):
AGCTTCGAAGAGCCATTAATCGGGA
Found at i:53556816 original size:26 final size:26
Alignment explanation
Indices: 53556787--53556859 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 26
53556777 AGCTTTGAAG
53556787 AGCCATTAATCAGGAAGCTCACAAAC
1 AGCCATTAATCAGGAAGCTCACAAAC
* * * *
53556813 AGCCTTTAATCGGGAAGCTCACCAAG
1 AGCCATTAATCAGGAAGCTCACAAAC
*
53556839 AGCCA-TATATCAGGACGCTCA
1 AGCCATTA-ATCAGGAAGCTCA
53556860 TAAGAGCTGT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
25 2 0.05
26 37 0.95
ACGTcount: A:0.36, C:0.27, G:0.19, T:0.18
Consensus pattern (26 bp):
AGCCATTAATCAGGAAGCTCACAAAC
Found at i:53564572 original size:25 final size:25
Alignment explanation
Indices: 53564542--53564624 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
53564532 GCCCTCTCTC
*
53564542 GAGCCATATAACGAGAAGCTCATAT
1 GAGCCATATAACGAGAAGCTCATAA
* * * **
53564567 GAGCCATGTGACGAGAAGCTTATCC
1 GAGCCATATAACGAGAAGCTCATAA
* * * *
53564592 GGGCTATATAATGGGAAGCTCATAA
1 GAGCCATATAACGAGAAGCTCATAA
53564617 GAGCCATA
1 GAGCCATA
53564625 ATCAGGAAGC
Statistics
Matches: 42, Mismatches: 16, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.20
Consensus pattern (25 bp):
GAGCCATATAACGAGAAGCTCATAA
Found at i:53564634 original size:24 final size:24
Alignment explanation
Indices: 53564599--53564816 Score: 95
Period size: 25 Copynumber: 8.8 Consensus size: 24
53564589 TCCGGGCTAT
53564599 ATAAT-GGGAAGCTCATAAGAGCC
1 ATAATCGGGAAGCTCATAAGAGCC
* ** *
53564622 ATAATCAGGAAGCTCATGCGTGCC
1 ATAATCGGGAAGCTCATAAGAGCC
* **
53564646 AATAA-CGGGTAGCTCCGAAGAGCC
1 -ATAATCGGGAAGCTCATAAGAGCC
*
53564670 ATTAATCGGGAAGCTCCA-AATAGCC
1 A-TAATCGGGAAGCT-CATAAGAGCC
* *
53564695 ATATATCGGGAAGTTCA-AGCGAGCC
1 ATA-ATCGGGAAGCTCATA-AGAGCC
* *
53564720 ATATATTGGGAAGCTC-TGGAGAGCC
1 ATA-ATCGGGAAGCTCAT-AAGAGCC
* * * *
53564745 ATTAATCAGAAAGCTCAAAAAGAACC
1 A-TAATCGGGAAGCTC-ATAAGAGCC
* * * *
53564771 TTTAATTGGGAAGCTCACGAAGATCC
1 -ATAATCGGGAAGCTCA-TAAGAGCC
* *
53564797 ATATATCGAGACGCTCATAA
1 ATA-ATCGGGAAGCTCATAA
53564817 AAGTTGTGGT
Statistics
Matches: 142, Mismatches: 38, Indels: 28
0.68 0.18 0.13
Matches are distributed among these distances:
23 6 0.04
24 34 0.24
25 67 0.47
26 35 0.25
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (24 bp):
ATAATCGGGAAGCTCATAAGAGCC
Found at i:53567711 original size:540 final size:540
Alignment explanation
Indices: 53566693--53567772 Score: 2160
Period size: 540 Copynumber: 2.0 Consensus size: 540
53566683 ATATTATCTC
53566693 TTCTGATGGTATTAAAGTTGACCTCGTCAAGGTAAAGGCAGTACTTTAGTGTAAAGTGCCCAAAA
1 TTCTGATGGTATTAAAGTTGACCTCGTCAAGGTAAAGGCAGTACTTTAGTGTAAAGTGCCCAAAA
53566758 ATGCATCTGAAGTTCATAGTTTTTTGGGGTTAGCTAGTTATTACAGAAGATTTCTAAAGGTTTTT
66 ATGCATCTGAAGTTCATAGTTTTTTGGGGTTAGCTAGTTATTACAGAAGATTTCTAAAGGTTTTT
53566823 CTGTGATAGCACCGCCCCTGACTTGGTTATTGAAAACGAAACAAAAGTTTGAGTGGAATGATGAG
131 CTGTGATAGCACCGCCCCTGACTTGGTTATTGAAAACGAAACAAAAGTTTGAGTGGAATGATGAG
53566888 TGTCAACAGAGTTTTGAGCAATTGAAAATAGTTTTTACTGAAGCTCCAGTGTTAGCACAACTAGA
196 TGTCAACAGAGTTTTGAGCAATTGAAAATAGTTTTTACTGAAGCTCCAGTGTTAGCACAACTAGA
53566953 GTTTGGGACAAAGTATACAATTTACATTGATGCATCTTTGAATGGGTTATGATGTGTGCTCATGC
261 GTTTGGGACAAAGTATACAATTTACATTGATGCATCTTTGAATGGGTTATGATGTGTGCTCATGC
53567018 AGAAAGGAAAAGTTATAGCTTATGTGTCACATCAGCTTAAACCATATGAGAGAAACTATCCAACT
326 AGAAAGGAAAAGTTATAGCTTATGTGTCACATCAGCTTAAACCATATGAGAGAAACTATCCAACT
53567083 CACGACTTAAAATTGGCAGTAGTGATGTTAGCATTGAAAATCTGGAGAAATTATTTGTGTAACAA
391 CACGACTTAAAATTGGCAGTAGTGATGTTAGCATTGAAAATCTGGAGAAATTATTTGTGTAACAA
53567148 CCTGTTTTTCTGTGGTGTCGGAAATAGTGGTTTTCGGGCCACCAAATCTGACGAGTAAGTTCGTA
456 CCTGTTTTTCTGTGGTGTCGGAAATAGTGGTTTTCGGGCCACCAAATCTGACGAGTAAGTTCGTA
53567213 AATATTATTATTTAATATTT
521 AATATTATTATTTAATATTT
53567233 TTCTGATGGTATTAAAGTTGACCTCGTCAAGGTAAAGGCAGTACTTTAGTGTAAAGTGCCCAAAA
1 TTCTGATGGTATTAAAGTTGACCTCGTCAAGGTAAAGGCAGTACTTTAGTGTAAAGTGCCCAAAA
53567298 ATGCATCTGAAGTTCATAGTTTTTTGGGGTTAGCTAGTTATTACAGAAGATTTCTAAAGGTTTTT
66 ATGCATCTGAAGTTCATAGTTTTTTGGGGTTAGCTAGTTATTACAGAAGATTTCTAAAGGTTTTT
53567363 CTGTGATAGCACCGCCCCTGACTTGGTTATTGAAAACGAAACAAAAGTTTGAGTGGAATGATGAG
131 CTGTGATAGCACCGCCCCTGACTTGGTTATTGAAAACGAAACAAAAGTTTGAGTGGAATGATGAG
53567428 TGTCAACAGAGTTTTGAGCAATTGAAAATAGTTTTTACTGAAGCTCCAGTGTTAGCACAACTAGA
196 TGTCAACAGAGTTTTGAGCAATTGAAAATAGTTTTTACTGAAGCTCCAGTGTTAGCACAACTAGA
53567493 GTTTGGGACAAAGTATACAATTTACATTGATGCATCTTTGAATGGGTTATGATGTGTGCTCATGC
261 GTTTGGGACAAAGTATACAATTTACATTGATGCATCTTTGAATGGGTTATGATGTGTGCTCATGC
53567558 AGAAAGGAAAAGTTATAGCTTATGTGTCACATCAGCTTAAACCATATGAGAGAAACTATCCAACT
326 AGAAAGGAAAAGTTATAGCTTATGTGTCACATCAGCTTAAACCATATGAGAGAAACTATCCAACT
53567623 CACGACTTAAAATTGGCAGTAGTGATGTTAGCATTGAAAATCTGGAGAAATTATTTGTGTAACAA
391 CACGACTTAAAATTGGCAGTAGTGATGTTAGCATTGAAAATCTGGAGAAATTATTTGTGTAACAA
53567688 CCTGTTTTTCTGTGGTGTCGGAAATAGTGGTTTTCGGGCCACCAAATCTGACGAGTAAGTTCGTA
456 CCTGTTTTTCTGTGGTGTCGGAAATAGTGGTTTTCGGGCCACCAAATCTGACGAGTAAGTTCGTA
53567753 AATATTATTATTTAATATTT
521 AATATTATTATTTAATATTT
53567773 ACAAGTCAAA
Statistics
Matches: 540, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
540 540 1.00
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (540 bp):
TTCTGATGGTATTAAAGTTGACCTCGTCAAGGTAAAGGCAGTACTTTAGTGTAAAGTGCCCAAAA
ATGCATCTGAAGTTCATAGTTTTTTGGGGTTAGCTAGTTATTACAGAAGATTTCTAAAGGTTTTT
CTGTGATAGCACCGCCCCTGACTTGGTTATTGAAAACGAAACAAAAGTTTGAGTGGAATGATGAG
TGTCAACAGAGTTTTGAGCAATTGAAAATAGTTTTTACTGAAGCTCCAGTGTTAGCACAACTAGA
GTTTGGGACAAAGTATACAATTTACATTGATGCATCTTTGAATGGGTTATGATGTGTGCTCATGC
AGAAAGGAAAAGTTATAGCTTATGTGTCACATCAGCTTAAACCATATGAGAGAAACTATCCAACT
CACGACTTAAAATTGGCAGTAGTGATGTTAGCATTGAAAATCTGGAGAAATTATTTGTGTAACAA
CCTGTTTTTCTGTGGTGTCGGAAATAGTGGTTTTCGGGCCACCAAATCTGACGAGTAAGTTCGTA
AATATTATTATTTAATATTT
Found at i:53569173 original size:40 final size:40
Alignment explanation
Indices: 53569128--53569420 Score: 358
Period size: 40 Copynumber: 7.3 Consensus size: 40
53569118 TTATACTTTT
* * * *
53569128 TGTTTGGCATGTTACGATTAGATCAA-CTCTTATGAGCTAC
1 TGTTTGGCGTGTTACGGTTGGAT-AAGCTCTTATGAGCTTC
* *
53569168 TGTTTGGCGTGTTTCGGTTGGATCAGCTCTTATGAGCTTC
1 TGTTTGGCGTGTTACGGTTGGATAAGCTCTTATGAGCTTC
* * *
53569208 TGTTTGGTGTGTTACGATTGGATAAGCTCTTATGAGCTTT
1 TGTTTGGCGTGTTACGGTTGGATAAGCTCTTATGAGCTTC
*
53569248 TGTTTGGCGTGTTTCGGTTGGATAAGCTCTTATGAGCTTC
1 TGTTTGGCGTGTTACGGTTGGATAAGCTCTTATGAGCTTC
* *
53569288 TGTTTGGCATGTTACGGTTGGATAAGCTATTATGAGCTTC
1 TGTTTGGCGTGTTACGGTTGGATAAGCTCTTATGAGCTTC
*
53569328 TGTTTGGCGTGTTACGGTTGGATCAA-CTCTTATGAGCTCC
1 TGTTTGGCGTGTTACGGTTGGAT-AAGCTCTTATGAGCTTC
* * * * *
53569368 TGTTTAGTGTGCTT-CGGGTGGATCAGCTCTTATGAGTTTC
1 TGTTTGGCGTG-TTACGGTTGGATAAGCTCTTATGAGCTTC
* *
53569408 TGTCTGGTGTGTT
1 TGTTTGGCGTGTT
53569421 CAGTTGATTT
Statistics
Matches: 220, Mismatches: 29, Indels: 9
0.85 0.11 0.03
Matches are distributed among these distances:
39 4 0.02
40 212 0.96
41 4 0.02
ACGTcount: A:0.15, C:0.15, G:0.28, T:0.42
Consensus pattern (40 bp):
TGTTTGGCGTGTTACGGTTGGATAAGCTCTTATGAGCTTC
Found at i:53570101 original size:20 final size:20
Alignment explanation
Indices: 53570076--53570124 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
53570066 AAGTTTATGC
53570076 TAAGTAAATGAAATGGAAAG
1 TAAGTAAATGAAATGGAAAG
* *
53570096 TAAGTAAATGGAATGGTAAG
1 TAAGTAAATGAAATGGAAAG
*
53570116 AAAGTAAAT
1 TAAGTAAAT
53570125 AGAGTGGTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.24, T:0.22
Consensus pattern (20 bp):
TAAGTAAATGAAATGGAAAG
Found at i:53580085 original size:39 final size:40
Alignment explanation
Indices: 53580029--53580113 Score: 136
Period size: 39 Copynumber: 2.1 Consensus size: 40
53580019 AATAATTAAT
* *
53580029 TCATTAGTTACCTTACAATTGCAATGCAAGAGTAACTTAG
1 TCATTAGTTACCATACAATTGCAATGCAAGAATAACTTAG
*
53580069 TCATT-GTTACCATACAATTGTAATGCAAGAATAACTTAG
1 TCATTAGTTACCATACAATTGCAATGCAAGAATAACTTAG
53580108 TCATTA
1 TCATTA
53580114 TTTTACTTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
39 36 0.88
40 5 0.12
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.34
Consensus pattern (40 bp):
TCATTAGTTACCATACAATTGCAATGCAAGAATAACTTAG
Found at i:53582576 original size:5 final size:5
Alignment explanation
Indices: 53582566--53582591 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
53582556 AAACAAATAT
53582566 ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG A
53582592 ATTCCATCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (5 bp):
ATTCG
Found at i:53583979 original size:33 final size:31
Alignment explanation
Indices: 53583934--53584036 Score: 103
Period size: 28 Copynumber: 3.5 Consensus size: 31
53583924 AGAATCAATC
*
53583934 TGGGCCTGAGCCCTATACAGTATCAGT-ACAGTG
1 TGGGCCTTAGCCC-ATA-A-TATCAGTAACAGTG
53583967 TGGGCCTTAGCCCAT--TA-CAGTAACAGTG
1 TGGGCCTTAGCCCATAATATCAGTAACAGTG
*
53583995 TGGGCCTTAGCCC--AATAT-AGTAACAATG
1 TGGGCCTTAGCCCATAATATCAGTAACAGTG
*
53584023 TGGGCCTTATCCCA
1 TGGGCCTTAGCCCA
53584037 ATACAGTAAT
Statistics
Matches: 62, Mismatches: 3, Indels: 14
0.78 0.04 0.18
Matches are distributed among these distances:
27 4 0.06
28 44 0.71
32 2 0.03
33 12 0.19
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.25
Consensus pattern (31 bp):
TGGGCCTTAGCCCATAATATCAGTAACAGTG
Found at i:53583996 original size:28 final size:28
Alignment explanation
Indices: 53583957--53584050 Score: 136
Period size: 28 Copynumber: 3.4 Consensus size: 28
53583947 TATACAGTAT
*
53583957 CAGT-ACAGTGTGGGCCTTAGCCCATTA
1 CAGTAACAGTGTGGGCCTTAGCCCAATA
53583984 CAGTAACAGTGTGGGCCTTAGCCCAATA
1 CAGTAACAGTGTGGGCCTTAGCCCAATA
* * *
53584012 TAGTAACAATGTGGGCCTTATCCCAATA
1 CAGTAACAGTGTGGGCCTTAGCCCAATA
53584040 CAGTAATCAGT
1 CAGTAA-CAGT
53584051 ACAATGCAGT
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 4 0.07
28 52 0.88
29 3 0.05
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (28 bp):
CAGTAACAGTGTGGGCCTTAGCCCAATA
Found at i:53584089 original size:21 final size:21
Alignment explanation
Indices: 53584065--53584115 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
53584055 TGCAGTGATG
53584065 ACAC-CCATTCCA-ATCCAACCA
1 ACACACCATTCCATA-CC-ACCA
*
53584086 ACACACCACTCCATACCACCA
1 ACACACCATTCCATACCACCA
53584107 ACACACCAT
1 ACACACCAT
53584116 GTGGGGATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 16 0.62
22 9 0.35
23 1 0.04
ACGTcount: A:0.39, C:0.49, G:0.00, T:0.12
Consensus pattern (21 bp):
ACACACCATTCCATACCACCA
Found at i:53584232 original size:26 final size:26
Alignment explanation
Indices: 53584156--53584232 Score: 109
Period size: 26 Copynumber: 3.0 Consensus size: 26
53584146 ACACCAATAT
* *
53584156 CGCAGCAAAGCTGCCAGTAAGAATAA
1 CGCAGCAAAGCTGCCAGTAACAGTAA
*
53584182 CGCAGCAAAGCTGCCAGTAATAGTAA
1 CGCAGCAAAGCTGCCAGTAACAGTAA
* *
53584208 TGCAGTAAAGCTGCCAGTAACAGTA
1 CGCAGCAAAGCTGCCAGTAACAGTA
53584233 TATGTGGCAT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.39, C:0.22, G:0.23, T:0.16
Consensus pattern (26 bp):
CGCAGCAAAGCTGCCAGTAACAGTAA
Found at i:53584453 original size:27 final size:26
Alignment explanation
Indices: 53584422--53584697 Score: 255
Period size: 27 Copynumber: 10.2 Consensus size: 26
53584412 GGTATAACGA
53584422 TCATTTTACCCTATAGGGGTATTTCGG
1 TCATTTTACCCT-TAGGGGTATTTCGG
* * *
53584449 GCATTTTACCTTTCGGAGGTATTTCGG
1 TCATTTTACCCTTAGG-GGTATTTCGG
* * *
53584476 TTATTTTACCCTTCGGGTGTATTTCGA
1 TCATTTTACCCTTAGGG-GTATTTCGG
* *
53584503 TCATTTTACCCTTCGAGAGTATTTCGG
1 TCATTTTACCCTTAG-GGGTATTTCGG
*
53584530 TCATTTTACCCTTCAGGGGTATTTTGG
1 TCATTTTACCCTT-AGGGGTATTTCGG
** * *
53584557 TCATTTTACAATTCAAGGGTATTTCGA
1 TCATTTTACCCTT-AGGGGTATTTCGG
* * *
53584584 TCATTTTACCTTTTGGGGGTATTTCAG
1 TCATTTTACC-CTTAGGGGTATTTCGG
* *
53584611 TCATTTTACCCTTCAAGGGTATTTCGT
1 TCATTTTACCCTT-AGGGGTATTTCGG
* * *
53584638 TTATTTTACCCTTTGGGGGTATTTCAG
1 TCATTTTACCC-TTAGGGGTATTTCGG
* *
53584665 TCATTTTACCCTTCGAGGGTATTTTGG
1 TCATTTTACCCTTAG-GGGTATTTCGG
53584692 TCATTT
1 TCATTT
53584698 GGCCACGAAT
Statistics
Matches: 203, Mismatches: 38, Indels: 16
0.79 0.15 0.06
Matches are distributed among these distances:
26 9 0.04
27 188 0.93
28 6 0.03
ACGTcount: A:0.17, C:0.18, G:0.20, T:0.45
Consensus pattern (26 bp):
TCATTTTACCCTTAGGGGTATTTCGG
Found at i:53584498 original size:54 final size:53
Alignment explanation
Indices: 53584422--53584697 Score: 311
Period size: 54 Copynumber: 5.1 Consensus size: 53
53584412 GGTATAACGA
* * *
53584422 TCATTTTACCCTATAGGGGTATTTCGGGCATTTTACCTTTCG-GAGGTATTTCGG
1 TCATTTTACCCT-TCGGGGTATTTCGGTCATTTTACCCTTCGAG-GGTATTTCGG
* * *
53584476 TTATTTTACCCTTCGGGTGTATTTCGATCATTTTACCCTTCGAGAGTATTTCGG
1 TCATTTTACCCTTCGGG-GTATTTCGGTCATTTTACCCTTCGAGGGTATTTCGG
* ** * *
53584530 TCATTTTACCCTTCAGGGGTATTTTGGTCATTTTACAATTCAAGGGTATTTCGA
1 TCATTTTACCCTTC-GGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCGG
* * * * *
53584584 TCATTTTACCTTTTGGGGGTATTTCAGTCATTTTACCCTTCAAGGGTATTTCGT
1 TCATTTTACC-CTTCGGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCGG
* * * *
53584638 TTATTTTACCCTTTGGGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTTGG
1 TCATTTTACCC-TTCGGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCGG
53584692 TCATTT
1 TCATTT
53584698 GGCCACGAAT
Statistics
Matches: 190, Mismatches: 27, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
53 4 0.02
54 180 0.95
55 6 0.03
ACGTcount: A:0.17, C:0.18, G:0.20, T:0.45
Consensus pattern (53 bp):
TCATTTTACCCTTCGGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCGG
Found at i:53584535 original size:81 final size:80
Alignment explanation
Indices: 53584410--53584697 Score: 314
Period size: 81 Copynumber: 3.6 Consensus size: 80
53584400 TCATCTCCCA
** * * *
53584410 GGGGTATAACGATCATTTTACCCTATAG-GGGTATTTCGGGCATTTTACCTTTCGGAGGTATTTC
1 GGGGTATTTCGATCATTTTACCCT-TCGAGGGTATTTCGGTCATTTTACCCTTCGGAGGTATTTC
53584474 GGTTATTTTACCCTTC
65 GGTTATTTTACCCTTC
*
53584490 GGGTGTATTTCGATCATTTTACCCTTCGAGAGTATTTCGGTCATTTTACCCTTCAGG-GGTATTT
1 GGG-GTATTTCGATCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTC-GGAGGTATTT
* * **
53584554 TGGTCATTTTACAATTC
64 CGGTTATTTTACCCTTC
* * * * * *
53584571 AAGGGTATTTCGATCATTTTACCTTTTGGGGGTATTTCAGTCATTTTACCCTTC-AAGGGTATTT
1 -GGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCGGA-GGTATTT
* *
53584635 CGTTTATTTTACCCTTTG
64 CGGTTATTTTACCC-TTC
*
53584653 GGGGTATTTC-AGTCATTTTACCCTTCGAGGGTATTTTGGTCATTT
1 GGGGTATTTCGA-TCATTTTACCCTTCGAGGGTATTTCGGTCATTT
53584698 GGCCACGAAT
Statistics
Matches: 171, Mismatches: 29, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
80 6 0.04
81 159 0.93
82 6 0.04
ACGTcount: A:0.18, C:0.18, G:0.21, T:0.43
Consensus pattern (80 bp):
GGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCGGAGGTATTTCG
GTTATTTTACCCTTC
Found at i:53588213 original size:21 final size:20
Alignment explanation
Indices: 53588174--53588213 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
53588164 CCTCAGTCAG
*
53588174 AACTTTCTTCAATTTATCAA
1 AACTTTCTTCAACTTATCAA
*
53588194 AACTTTCTTGCTACTTATCA
1 AACTTTCTT-CAACTTATCA
53588214 GTCCAGTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.30, C:0.23, G:0.03, T:0.45
Consensus pattern (20 bp):
AACTTTCTTCAACTTATCAA
Found at i:53591549 original size:51 final size:50
Alignment explanation
Indices: 53591418--53591856 Score: 357
Period size: 51 Copynumber: 8.7 Consensus size: 50
53591408 AAAGTGATGG
* * * * *** * *
53591418 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAATGATGGG
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGAAAACTTTGA
* * * * * *
53591468 TCGCATGTGTAGTACTATGTGCAGGCTACTATGCGAACCGAATAGCTTTGA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGAA-AACTTTGA
* * * * * *
53591519 TCACGTGTGTAGTACTGTGTTAAGGCTACTACGTGTATCGATAAA-TAATGG
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGA-AAACT-TTGA
* * * * *
53591570 TCACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGAGAAGCTTTGA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGA-AAACTTTGA
* * * * * * *
53591621 GCACGTGTGTAGTACTGTGTGAATGCTACTACGTGTATCGGTAAACTATGA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTG-AACCGAAAACTTTGA
* * * * * * * *
53591672 TTACATGTGTAGTACTAAGTGAAGGCTACAATGGGTACCAAAAAGCTTT-A
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGAAAA-CTTTGA
* *
53591722 GTCACGTATGTAGTACTATGTGAAGGCTACTACGTGAGCCGTAAAAC-TTGA
1 -TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-AAAACTTTGA
* *
53591773 TCACGTGTGTCGTACTATGTGAAGGCTACTACGTGAACTGTAAAAC--TGA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-AAAACTTTGA
53591822 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTG
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTG
53591857 TATCGAATGA
Statistics
Matches: 304, Mismatches: 76, Indels: 19
0.76 0.19 0.05
Matches are distributed among these distances:
49 37 0.12
50 85 0.28
51 174 0.57
52 8 0.03
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGAAAACTTTGA
Found at i:53591617 original size:102 final size:100
Alignment explanation
Indices: 53591418--53591861 Score: 479
Period size: 102 Copynumber: 4.4 Consensus size: 100
53591408 AAAGTGATGG
* * * * *
53591418 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCG-GAATGATGGGTCGCATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGTAAATAAT-GATCACATGTGTAGTA
* * *
53591482 CTATGTGCAGGCTACTATGCGAACCGAATAGCTTTGA
65 CTAAGTGAAGGCTACTATGTGAACCGAA-AGCTTTGA
* * *
53591519 TCACGTGTGTAGTACTGTGTTAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCG-TAAATAATGATCACATGTGTAGTA
*
53591584 CTAAGTGAAGGCTACTATGTGTACCGAGAAGCTTTGA
65 CTAAGTGAAGGCTACTATGTGAACCGA-AAGCTTTGA
* * * *
53591621 GCACGTGTGTAGTACTGTGTGAATGCTACTACGTGTATCGGTAAACT-ATGATTACATGTGTAGT
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATC-GTAAA-TAATGATCACATGTGTAGT
* * * *
53591685 ACTAAGTGAAGGCTACAATGGGTACCAAAAAGCTTT-A
64 ACTAAGTGAAGGCTACTATGTGAACC-GAAAGCTTTGA
* * * * *
53591722 GTCACGTATGTAGTACTATGTGAAGGCTACTACGTG-AGCCGTAAA-ACTTGATCACGTGTGTCG
1 -TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA-TCGTAAATA-ATGATCACATGTGTAG
* * * *
53591785 TACTATGTGAAGGCTACTACGTGAACTGTAAAAC--TGA
63 TACTAAGTGAAGGCTACTATGTGAACCG-AAAGCTTTGA
53591822 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCG
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCG
53591862 AATGATAAAA
Statistics
Matches: 293, Mismatches: 37, Indels: 28
0.82 0.10 0.08
Matches are distributed among these distances:
99 37 0.13
100 2 0.01
101 81 0.28
102 164 0.56
103 9 0.03
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.30
Consensus pattern (100 bp):
TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGTAAATAATGATCACATGTGTAGTAC
TAAGTGAAGGCTACTATGTGAACCGAAAGCTTTGA
Found at i:53599518 original size:28 final size:28
Alignment explanation
Indices: 53599486--53599567 Score: 128
Period size: 28 Copynumber: 2.9 Consensus size: 28
53599476 ATCAGTACAG
*
53599486 TGTGGGCCTTAGCCCATTACAGTAATAA
1 TGTGGGCCTTAGCCCAATACAGTAATAA
* *
53599514 TGTGGGCCTTAGCCCAATATAGTAACAA
1 TGTGGGCCTTAGCCCAATACAGTAATAA
*
53599542 TGTGGGCCTTATCCCAATACAGTAAT
1 TGTGGGCCTTAGCCCAATACAGTAAT
53599568 TAGTACAATG
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 48 1.00
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (28 bp):
TGTGGGCCTTAGCCCAATACAGTAATAA
Found at i:53599929 original size:27 final size:27
Alignment explanation
Indices: 53599883--53600217 Score: 298
Period size: 27 Copynumber: 12.4 Consensus size: 27
53599873 GGGTATAACA
*
53599883 GTCATTTTACCCTAT-AGGGGT-TTTTG
1 GTCATTTTACCCT-TCGGGGGTATTTTG
* *
53599909 TGTCATTTTACCCTTCGGGGGAATTTCG
1 -GTCATTTTACCCTTCGGGGGTATTTTG
* * * * *
53599937 ATCATTTTACCGTTTGGGGCTATTTCG
1 GTCATTTTACCCTTCGGGGGTATTTTG
* * * *
53599964 ATCATTTTACCCTTCGAGGGAATTTCG
1 GTCATTTTACCCTTCGGGGGTATTTTG
* **
53599991 GTCATTTTACCCTTCGAGGGTATTTCA
1 GTCATTTTACCCTTCGGGGGTATTTTG
* * *
53600018 GTTATTTTACCCTTAGAGGGTATTTTG
1 GTCATTTTACCCTTCGGGGGTATTTTG
* *
53600045 GTCATTTTACCCTTTGGGGGTATTTCG
1 GTCATTTTACCCTTCGGGGGTATTTTG
* * * * *
53600072 ATAATTTTACCTTTCGAGGGTATTTCG
1 GTCATTTTACCCTTCGGGGGTATTTTG
* * *
53600099 ATTATTTTACCTTTCGGGGGTATTTTG
1 GTCATTTTACCCTTCGGGGGTATTTTG
***
53600126 GTCATTTTACCCTTTAAGGGTATTTTG
1 GTCATTTTACCCTTCGGGGGTATTTTG
* **
53600153 GTCATTTTACCCTTCGGAGGTATTTCA
1 GTCATTTTACCCTTCGGGGGTATTTTG
* * *
53600180 ATTATTTTACCCTTCGAGGGTATTTTG
1 GTCATTTTACCCTTCGGGGGTATTTTG
53600207 GTCA-TTTACCC
1 GTCATTTTACCC
53600218 ACGAATGGCA
Statistics
Matches: 254, Mismatches: 52, Indels: 5
0.82 0.17 0.02
Matches are distributed among these distances:
26 8 0.03
27 242 0.95
28 4 0.02
ACGTcount: A:0.17, C:0.18, G:0.21, T:0.44
Consensus pattern (27 bp):
GTCATTTTACCCTTCGGGGGTATTTTG
Found at i:53600001 original size:81 final size:79
Alignment explanation
Indices: 53599883--53600217 Score: 365
Period size: 81 Copynumber: 4.2 Consensus size: 79
53599873 GGGTATAACA
* * * * *
53599883 GTCATTTTACCCTAT-AGGGGT-TTTTGTGTCATTTTACCCTTCGGGGGAATTTCGATCATTTTA
1 GTCATTTTACCCTTTGA-GGGTATTTCG-GTCATTTTACCCTTCGAGGGTATTTCGATTATTTTA
*
53599946 CCGTTTGGGGCTATTTCG
64 CC-TTTGGGG-TATTTTG
* * *
53599964 ATCATTTTACCCTTCGAGGGAATTTCGGTCATTTTACCCTTCGAGGGTATTTC-AGTTATTTTAC
1 GTCATTTTACCCTTTGAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCGA-TTATTTTA-
*
53600028 CCTTAGAGGGTATTTTG
64 CCTTTG-GGGTATTTTG
* * * *
53600045 GTCATTTTACCCTTTGGGGGTATTTCGATAATTTTACCTTTCGAGGGTATTTCGATTATTTTACC
1 GTCATTTTACCCTTTGAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCGATTATTTTACC
53600110 TTTCGGGGGTATTTTG
66 TTT--GGGGTATTTTG
* * *
53600126 GTCATTTTACCCTTTAAGGGTATTTTGGTCATTTTACCCTTCG-GAGGTATTTCAATTATTTTAC
1 GTCATTTTACCCTTTGAGGGTATTTCGGTCATTTTACCCTTCGAG-GGTATTTCGATTATTTTA-
*
53600190 CCTTCGAGGGTATTTTG
64 CCTTTG-GGGTATTTTG
53600207 GTCA-TTTACCC
1 GTCATTTTACCC
53600218 ACGAATGGCA
Statistics
Matches: 217, Mismatches: 26, Indels: 23
0.82 0.10 0.09
Matches are distributed among these distances:
80 14 0.06
81 187 0.86
82 16 0.07
ACGTcount: A:0.17, C:0.18, G:0.21, T:0.44
Consensus pattern (79 bp):
GTCATTTTACCCTTTGAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCGATTATTTTACC
TTTGGGGTATTTTG
Found at i:53602329 original size:14 final size:15
Alignment explanation
Indices: 53602310--53602341 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
53602300 GTGGTTATAG
53602310 TTAAAATA-ATAAAA
1 TTAAAATAGATAAAA
53602324 TTAAAATAGATAAAA
1 TTAAAATAGATAAAA
53602339 TTA
1 TTA
53602342 TGATGTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (15 bp):
TTAAAATAGATAAAA
Found at i:53605532 original size:26 final size:26
Alignment explanation
Indices: 53605485--53605534 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
53605475 ACATATTTTC
* *
53605485 TCAAATTTTTACCAGGGATAAAATTG
1 TCAAAATTTTACAAGGGATAAAATTG
53605511 TCAAAATTTTACTAAGGG-TAAAAT
1 TCAAAATTTTAC-AAGGGATAAAAT
53605535 AGGGATGAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 17 0.81
27 4 0.19
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.34
Consensus pattern (26 bp):
TCAAAATTTTACAAGGGATAAAATTG
Found at i:53616490 original size:34 final size:35
Alignment explanation
Indices: 53616432--53616498 Score: 118
Period size: 34 Copynumber: 1.9 Consensus size: 35
53616422 CAAACACCAG
53616432 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
*
53616467 AAAATATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAA
53616499 TATTTTACTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 17 0.55
35 14 0.45
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:53618298 original size:2 final size:2
Alignment explanation
Indices: 53618291--53618321 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
53618281 TCATGGAGAC
53618291 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
53618322 TTGTTTATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:53622525 original size:36 final size:36
Alignment explanation
Indices: 53622478--53622550 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
53622468 AGAGTGCATG
53622478 CGTGTCACATCAACTTTAAACTCACCAGAAGGGGTT
1 CGTGTCACATCAACTTTAAACTCACCAGAAGGGGTT
53622514 CGTGTCACATCAACTTTAAACTCACCAGAAGGGGTT
1 CGTGTCACATCAACTTTAAACTCACCAGAAGGGGTT
53622550 C
1 C
53622551 ATTTGCGCCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (36 bp):
CGTGTCACATCAACTTTAAACTCACCAGAAGGGGTT
Found at i:53625002 original size:2 final size:2
Alignment explanation
Indices: 53624995--53625023 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
53624985 CCCTCCCTTC
53624995 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
53625024 ATGTTACCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:53631061 original size:37 final size:37
Alignment explanation
Indices: 53631009--53631089 Score: 126
Period size: 37 Copynumber: 2.2 Consensus size: 37
53630999 TTTGTTCAAT
* * *
53631009 CGTGTTGGATTGGATTTTGGGCTATGCTTATAGCACC
1 CGTGTTGGATGGGATTTTGAGCTATGCTTACAGCACC
53631046 CGTGTTGGATGGGATTTTGAGCTATGCTTACAGCACC
1 CGTGTTGGATGGGATTTTGAGCTATGCTTACAGCACC
*
53631083 CTTGTTG
1 CGTGTTG
53631090 TCATAGTATA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.16, C:0.17, G:0.30, T:0.37
Consensus pattern (37 bp):
CGTGTTGGATGGGATTTTGAGCTATGCTTACAGCACC
Found at i:53633667 original size:40 final size:40
Alignment explanation
Indices: 53633612--53633780 Score: 329
Period size: 40 Copynumber: 4.2 Consensus size: 40
53633602 GGAAACAAGA
53633612 AAGACAAATGATCTGAAATAATTCCTAATAATCAATAGTT
1 AAGACAAATGATCTGAAATAATTCCTAATAATCAATAGTT
53633652 AAGACAAATGATCTGAAATAATTCCTAATAATCAATAGTT
1 AAGACAAATGATCTGAAATAATTCCTAATAATCAATAGTT
53633692 AAGACAAATGATCTGAAATAATTCCTAATAATCAATAGTT
1 AAGACAAATGATCTGAAATAATTCCTAATAATCAATAGTT
53633732 AAGACAAATGATCTGAAATAATTCCTAATAATCAATAGTT
1 AAGACAAATGATCTGAAATAATTCCTAATAATCAATAGTT
53633772 AAGATCAAA
1 AAGA-CAAA
53633781 ATATCCCTAA
Statistics
Matches: 128, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
40 124 0.97
41 4 0.03
ACGTcount: A:0.49, C:0.12, G:0.10, T:0.29
Consensus pattern (40 bp):
AAGACAAATGATCTGAAATAATTCCTAATAATCAATAGTT
Found at i:53639676 original size:7 final size:7
Alignment explanation
Indices: 53639666--53639696 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
53639656 GTTTTTGGAT
53639666 TTTAGGG
1 TTTAGGG
53639673 TTTAGGG
1 TTTAGGG
53639680 TTTAGGG
1 TTTAGGG
53639687 TTTAGGG
1 TTTAGGG
53639694 TTT
1 TTT
53639697 TTAGGATTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.13, C:0.00, G:0.39, T:0.48
Consensus pattern (7 bp):
TTTAGGG
Found at i:53639898 original size:108 final size:108
Alignment explanation
Indices: 53639709--53640031 Score: 448
Period size: 118 Copynumber: 2.9 Consensus size: 108
53639699 AGGATTCTAC
* * * * *
53639709 AATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCCGAATGCTGTTTGA
1 AATAATTTCGGGTTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGA
* * *
53639774 TAAGAATTTGTGAAATCACGGCCTCGTGGACGGTCCTGGAAGA
66 GAAGAATTTGTGAAATCGCGCCCTCGTGGACGGTCCTGGAAGA
* * *
53639817 AATAATTTCGGGCTGACGTTTCTGAGCAAATAATATAAAATCACTTCTAACAGGATGCTATTTGA
1 AATAATTTCGGGTTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGA
*
53639882 GAAGAATTTGTGAAATCGCGCCCTGCGCTTTTGCTACAGTAGGTCCTGGAAGA
66 GAAGAATTTGTGAAATCGCGCCCT-CG----TG-GAC----GGTCCTGGAAGA
53639935 AATAATTTCGGGTTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGA
1 AATAATTTCGGGTTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGA
53640000 GAAGAATTTGTGAAATCGCGCCCTCGTGGACG
66 GAAGAATTTGTGAAATCGCGCCCTCGTGGACG
53640032 CGCTTTTGTT
Statistics
Matches: 189, Mismatches: 16, Indels: 20
0.84 0.07 0.09
Matches are distributed among these distances:
108 79 0.42
109 2 0.01
112 2 0.01
113 4 0.02
114 2 0.01
117 2 0.01
118 98 0.52
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (108 bp):
AATAATTTCGGGTTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGA
GAAGAATTTGTGAAATCGCGCCCTCGTGGACGGTCCTGGAAGA
Found at i:53641409 original size:13 final size:14
Alignment explanation
Indices: 53641390--53641427 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
53641380 CAATGGCATA
53641390 GAAATAATATAAAC
1 GAAATAATATAAAC
53641404 -AAATAA-ATAAAC
1 GAAATAATATAAAC
53641416 GAAACTAATATA
1 GAAA-TAATATA
53641428 CATAAGAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.29
13 9 0.43
14 3 0.14
15 3 0.14
ACGTcount: A:0.66, C:0.08, G:0.05, T:0.21
Consensus pattern (14 bp):
GAAATAATATAAAC
Done.