Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 195 of 255
Found at i:65058842 original size:49 final size:51
Alignment explanation
Indices: 65058786--65058923 Score: 208
Period size: 49 Copynumber: 2.7 Consensus size: 51
65058776 TAGCCAAAGC
*
65058786 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-T
1 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGATCCAAGT
* * * *
65058835 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGATCCAAGT
*
65058886 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACAC
1 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACAC
65058924 TTGTGACCTC
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
49 40 0.51
50 3 0.04
51 36 0.46
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (51 bp):
TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGATCCAAGT
Found at i:65061096 original size:9 final size:9
Alignment explanation
Indices: 65061075--65061107 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
65061065 GTGTTAATCA
65061075 AAATTAA-T
1 AAATTAATT
*
65061083 AAATTGATT
1 AAATTAATT
65061092 AAATTAATT
1 AAATTAATT
65061101 AAATTAA
1 AAATTAA
65061108 GCAACCTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 6 0.27
9 16 0.73
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (9 bp):
AAATTAATT
Found at i:65065360 original size:17 final size:17
Alignment explanation
Indices: 65065338--65065373 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
65065328 AATCCTAATT
*
65065338 AAACTAAATAAAAATAA
1 AAACTAAACAAAAATAA
*
65065355 AAACTAACCAAAAATAA
1 AAACTAAACAAAAATAA
65065372 AA
1 AA
65065374 TAAGTCTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.75, C:0.11, G:0.00, T:0.14
Consensus pattern (17 bp):
AAACTAAACAAAAATAA
Found at i:65076574 original size:47 final size:47
Alignment explanation
Indices: 65076545--65076805 Score: 414
Period size: 47 Copynumber: 5.6 Consensus size: 47
65076535 ATATATGAGC
* * *
65076545 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGC
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
* * *
65076592 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGC
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
* *
65076639 TAAGGCCGAATGGCCAATGTGATGAGTGTGAACATGCATTTGTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
* * *
65076686 TAAGACCGAATGGCCAATGTGATGAATGTGAACATGTATATATGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
*
65076733 TAAGGCCGAATGGCCAATGTGATGGATGTGAACATGCATATGTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
65076780 TAAGGCCGAATGGCCAATGTGATGAA
1 TAAGGCCGAATGGCCAATGTGATGAA
65076806 CGTGGAAGTG
Statistics
Matches: 201, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 201 1.00
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.26
Consensus pattern (47 bp):
TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
Found at i:65076612 original size:94 final size:94
Alignment explanation
Indices: 65076514--65076825 Score: 455
Period size: 94 Copynumber: 3.3 Consensus size: 94
65076504 TTAGGATTTT
* ** * *
65076514 ATGTGATGGATGTGAATGTGTATATATGAGCTAAGGCCGAATGGCAAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGTATATATGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* *
65076579 TGCATTTGTGTGCTAAGGCCGAATGGCAA
66 TGCATTTGTGTGATAAGGCCGAATGGCCA
* * * *
65076608 ATGTGATGAATGTGAACATGCATTTGTGTGCTAAGGCCGAATGGCCAATGTGATGAGTGTGAACA
1 ATGTGATGAATGTGAACATGTATATATGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACA
*
65076673 TGCATTTGTGTGATAAGACCGAATGGCCA
66 TGCATTTGTGTGATAAGGCCGAATGGCCA
* *
65076702 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAACA
1 ATGTGATGAATGTGAACATGTATATATGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACA
*
65076767 TGCATATGTGTGATAAGGCCGAATGGCCA
66 TGCATTTGTGTGATAAGGCCGAATGGCCA
* *
65076796 ATGTGATGAACGTGGAA-GTGTATATATGTG
1 ATGTGATGAATGT-GAACATGTATATATGTG
65076826 GGGAAGCCGA
Statistics
Matches: 195, Mismatches: 22, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
94 192 0.98
95 3 0.02
ACGTcount: A:0.30, C:0.11, G:0.30, T:0.28
Consensus pattern (94 bp):
ATGTGATGAATGTGAACATGTATATATGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TGCATTTGTGTGATAAGGCCGAATGGCCA
Found at i:65076635 original size:23 final size:23
Alignment explanation
Indices: 65076562--65076635 Score: 55
Period size: 23 Copynumber: 3.2 Consensus size: 23
65076552 GAATGGCAAA
65076562 TGTGATGAATGTGAACATGCATT
1 TGTGATGAATGTGAACATGCATT
* * **
65076585 TGTG-TGCTAAGGCCG-A-ATGGCAAA
1 TGTGATG--AATG-TGAACAT-GCATT
65076609 TGTGATGAATGTGAACATGCATT
1 TGTGATGAATGTGAACATGCATT
65076632 TGTG
1 TGTG
65076636 TGCTAAGGCC
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 3 0.08
23 17 0.47
24 13 0.36
25 3 0.08
ACGTcount: A:0.28, C:0.11, G:0.30, T:0.31
Consensus pattern (23 bp):
TGTGATGAATGTGAACATGCATT
Found at i:65076839 original size:47 final size:47
Alignment explanation
Indices: 65076514--65076825 Score: 383
Period size: 47 Copynumber: 6.6 Consensus size: 47
65076504 TTAGGATTTT
* ** * * *
65076514 ATGTGATGGATGTGAATGTGTATATATGAGCTAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* * * * *
65076561 ATGTGATGAATGTGAACATGCATTTGTGTGCTAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* * * *
65076608 ATGTGATGAATGTGAACATGCATTTGTGTGCTAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* * * * *
65076655 ATGTGATGAGTGTGAACATGCATTTGTGTGATAAGACCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
65076702 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* * *
65076749 ATGTGATGGATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* *
65076796 ATGTGATGAACGTGGAA-GTGTATATATGTG
1 ATGTGATGAATGT-GAACATGTATATATGTG
65076826 GGGAAGCCGA
Statistics
Matches: 240, Mismatches: 24, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
47 237 0.99
48 3 0.01
ACGTcount: A:0.30, C:0.11, G:0.30, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
Found at i:65082398 original size:69 final size:68
Alignment explanation
Indices: 65082233--65082403 Score: 202
Period size: 69 Copynumber: 2.5 Consensus size: 68
65082223 GTTTAAGGCT
* * * * *
65082233 TAAGACCATAGCTCTATTATGGCAACTAATAGAGTCTAATGGGATAGTAAACATGATGATTTTAA
1 TAAGACCATAGCTCAACTATGGCAAC-AATAAAGTCTAATGGGATAGTAAACAAGAGGATTTTAA
65082298 AGTG
65 AGTG
* * *
65082302 TAAGACCATAGCTCAGCTATGGCAACAAATAAAGTCTATTGGGATAGTAAACACAG-GGA-TTTC
1 TAAGACCATAGCTCAACTATGGCAAC-AATAAAGTCTAATGGGATAGTAAACA-AGAGGATTTTA
65082365 AAGCTG
64 AAG-TG
**
65082371 TAAGACCATAGCTCAACTATGAAAACAATAAAG
1 TAAGACCATAGCTCAACTATGGCAACAATAAAG
65082404 CCCGCCAGGA
Statistics
Matches: 88, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
68 13 0.15
69 74 0.84
70 1 0.01
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.25
Consensus pattern (68 bp):
TAAGACCATAGCTCAACTATGGCAACAATAAAGTCTAATGGGATAGTAAACAAGAGGATTTTAAA
GTG
Found at i:65086954 original size:20 final size:21
Alignment explanation
Indices: 65086908--65086954 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
65086898 AAGATGAGTA
*
65086908 AAAAC-TCTTGCAAAAAAAAT
1 AAAACATCTTGCAAAAAAAAC
* *
65086928 AAGACATCTT-CAAAATAAAC
1 AAAACATCTTGCAAAAAAAAC
65086948 AAAACAT
1 AAAACAT
65086955 TTTCCAATTA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.60, C:0.17, G:0.04, T:0.19
Consensus pattern (21 bp):
AAAACATCTTGCAAAAAAAAC
Found at i:65087097 original size:31 final size:31
Alignment explanation
Indices: 65087059--65087117 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
65087049 AACAATTTAA
* * *
65087059 CTCTTTTTGAAAGATTGATGGCCAAATTCAG
1 CTCTTTTTAAAAGATTAAGGGCCAAATTCAG
*
65087090 CTCTTTTTAAAAGCTTAAGGGCCAAATT
1 CTCTTTTTAAAAGATTAAGGGCCAAATT
65087118 GAAAGAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.36
Consensus pattern (31 bp):
CTCTTTTTAAAAGATTAAGGGCCAAATTCAG
Found at i:65089066 original size:47 final size:48
Alignment explanation
Indices: 65088993--65089205 Score: 160
Period size: 47 Copynumber: 4.6 Consensus size: 48
65088983 GTGTAATACT
* * *
65088993 GATGCCATGTCCTAGACATGGTCTTACACTGGC-TCATC-CATTAAGTC
1 GATGCCATGTCCCAAACAT-GTCTTACACTGGCTTCATCTCATTAAGCC
* * * *
65089040 GATGCCATGTCCCAAACATAGCCTTACACTGAC-ACATCTC-GT-AGCC
1 GATGCCATGTCCCAAACAT-GTCTTACACTGGCTTCATCTCATTAAGCC
** * *
65089086 GCCG-CATGTCCCAAACATGTCTTACACTGGCTT-A-CATCATGAGGCC
1 GATGCCATGTCCCAAACATGTCTTACACTGGCTTCATC-TCATTAAGCC
* * * * *
65089132 GATG-CATTTCCCAAACATGTCTTACACTAGCTTTCGTCTCA--ATGTC
1 GATGCCATGTCCCAAACATGTCTTACACTGGC-TTCATCTCATTAAGCC
65089178 GATGCCATGTCCCAAACATGGTCTTACA
1 GATGCCATGTCCCAAACAT-GTCTTACA
65089206 TTAGCTCTCA
Statistics
Matches: 132, Mismatches: 24, Indels: 19
0.75 0.14 0.11
Matches are distributed among these distances:
43 1 0.01
44 14 0.11
45 14 0.11
46 42 0.32
47 48 0.36
48 12 0.09
49 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAAACATGTCTTACACTGGCTTCATCTCATTAAGCC
Found at i:65089147 original size:46 final size:45
Alignment explanation
Indices: 65089089--65089256 Score: 176
Period size: 46 Copynumber: 3.6 Consensus size: 45
65089079 CGTAGCCGCC
*
65089089 GCATGTCCCAAACATGTCTTACACTGGCTTACATCATGAGGCCGAT
1 GCATGTCCCAAACATGTCTTACACTAGCTT-CATCATGAGGCCGAT
* * * * *
65089135 GCATTTCCCAAACATGTCTTACACTAGCTTTCGTC-TCAATGTCGAT
1 GCATGTCCCAAACATGTCTTACACTAGC-TTCATCAT-GAGGCCGAT
* * * *
65089181 GCCATGTCCCAAACATGGTCTTACATTAGCTCTCATAATGTGGCTGAT
1 G-CATGTCCCAAACAT-GTCTTACACTAGCT-TCATCATGAGGCCGAT
*
65089229 GCATGTCCCAGACATGTCTTACACTAGC
1 GCATGTCCCAAACATGTCTTACACTAGC
65089257 ACGTAAATAA
Statistics
Matches: 99, Mismatches: 17, Indels: 12
0.77 0.13 0.09
Matches are distributed among these distances:
45 1 0.01
46 48 0.48
47 29 0.29
48 20 0.20
49 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (45 bp):
GCATGTCCCAAACATGTCTTACACTAGCTTCATCATGAGGCCGAT
Found at i:65096702 original size:13 final size:13
Alignment explanation
Indices: 65096684--65096709 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
65096674 GCTCGGCAGG
65096684 GACACGCCCGTGT
1 GACACGCCCGTGT
65096697 GACACGCCCGTGT
1 GACACGCCCGTGT
65096710 CCGATTGCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:65108731 original size:30 final size:28
Alignment explanation
Indices: 65108697--65108758 Score: 106
Period size: 28 Copynumber: 2.1 Consensus size: 28
65108687 ATGGATTTAA
65108697 ATTATTTATTATTTAAGTAAATAGATATTT
1 ATTATTTATTA-TTAAGTAAA-AGATATTT
65108727 ATTATTTATTATTAAGTAAAAGATATTT
1 ATTATTTATTATTAAGTAAAAGATATTT
65108755 ATTA
1 ATTA
65108759 ATTAAATAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 12 0.38
29 9 0.28
30 11 0.34
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (28 bp):
ATTATTTATTATTAAGTAAAAGATATTT
Found at i:65109949 original size:47 final size:47
Alignment explanation
Indices: 65109897--65109997 Score: 132
Period size: 47 Copynumber: 2.1 Consensus size: 47
65109887 ACCTTGTGTG
* ** *
65109897 TCGTACTGTTACTA-TTACTTTGGTTTAATCCGATGAGGTACTAAGTA
1 TCGTACTGTTACTATTTACTTCGG-CAAAGCCGATGAGGTACTAAGTA
* *
65109944 TCGTACTGTTACTATTTTCTTCGGCAAAGCCGATGAGGTACTAAGTG
1 TCGTACTGTTACTATTTACTTCGGCAAAGCCGATGAGGTACTAAGTA
65109991 TCGTACT
1 TCGTACT
65109998 AGTGTGTTGG
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
47 40 0.85
48 7 0.15
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.38
Consensus pattern (47 bp):
TCGTACTGTTACTATTTACTTCGGCAAAGCCGATGAGGTACTAAGTA
Found at i:65110111 original size:39 final size:39
Alignment explanation
Indices: 65110052--65110200 Score: 174
Period size: 39 Copynumber: 3.8 Consensus size: 39
65110042 TTAATAGGGG
65110052 TAAACTACTATACTGAATAATTGATAGTTACTAAATAAC
1 TAAACTACTATACTGAATAATTGATAGTTACTAAATAAC
* * * *
65110091 TAAAATACTATATTGAATAATTGATAGTTATTGAATAAC
1 TAAACTACTATACTGAATAATTGATAGTTACTAAATAAC
** * * *
65110130 TAAACTACTGCAATGAATATTTGATAGTTATTGAAA-AAC
1 TAAACTACTATACTGAATAATTGATAGTTACT-AAATAAC
* * *
65110169 TAAATTACTATACTGAATAACTGATTGTTACT
1 TAAACTACTATACTGAATAATTGATAGTTACT
65110201 GATTACATAT
Statistics
Matches: 91, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
39 89 0.98
40 2 0.02
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.36
Consensus pattern (39 bp):
TAAACTACTATACTGAATAATTGATAGTTACTAAATAAC
Found at i:65126305 original size:16 final size:15
Alignment explanation
Indices: 65126275--65126308 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
65126265 TTAAACATGA
65126275 TAATAAAAATAAAAT
1 TAATAAAAATAAAAT
*
65126290 TAATAAAATTTAAAAT
1 TAATAAAA-ATAAAAT
65126306 TAA
1 TAA
65126309 AGTCTTTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
TAATAAAAATAAAAT
Found at i:65128194 original size:25 final size:25
Alignment explanation
Indices: 65128160--65128247 Score: 79
Period size: 25 Copynumber: 3.5 Consensus size: 25
65128150 GGATTACCTA
* *
65128160 TAAGGCCTTTGTGGCAAACTCTTTG
1 TAAGACCTTTGTGGAAAACTCTTTG
* *
65128185 TAAGACCTTTTTGGAAAACTCTTTA
1 TAAGACCTTTGTGGAAAACTCTTTG
** * * *
65128210 TAAGGTCTTTATGGTAAACTCTCTG
1 TAAGACCTTTGTGGAAAACTCTTTG
65128235 TAA-AGCCTTTGTG
1 TAAGA-CCTTTGTG
65128248 ACGAGCTCTC
Statistics
Matches: 49, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
25 49 1.00
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (25 bp):
TAAGACCTTTGTGGAAAACTCTTTG
Found at i:65130921 original size:28 final size:27
Alignment explanation
Indices: 65130864--65131015 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
65130854 TAAATTGTGC
* *
65130864 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
65130891 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
65130919 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
65130946 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* *
65130974 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
65131001 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
65131016 GACTTAATAA
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:65130929 original size:55 final size:55
Alignment explanation
Indices: 65130864--65131015 Score: 241
Period size: 55 Copynumber: 2.8 Consensus size: 55
65130854 TAAATTGTGC
* *
65130864 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* *
65130919 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* * *
65130974 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
65131016 GACTTAATAA
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 90 1.00
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
Found at i:65142316 original size:18 final size:18
Alignment explanation
Indices: 65142293--65142332 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
65142283 ATGCTTAGCT
65142293 GGCAGACTAACCTGCCTA
1 GGCAGACTAACCTGCCTA
65142311 GGCAGACTAACCTGCCTA
1 GGCAGACTAACCTGCCTA
65142329 GGCA
1 GGCA
65142333 AAATTAGACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.28, C:0.33, G:0.25, T:0.15
Consensus pattern (18 bp):
GGCAGACTAACCTGCCTA
Found at i:65159666 original size:27 final size:27
Alignment explanation
Indices: 65159140--65159673 Score: 533
Period size: 27 Copynumber: 19.8 Consensus size: 27
65159130 TTAGTTTACC
* *
65159140 AATTACTGTTTTACCCTCGATTTATAG
1 AATTACCGTTTTACCCTCGATTTACAG
*
65159167 AATTACCGTTTTA-CCTCGATTTATAG
1 AATTACCGTTTTACCCTCGATTTACAG
** *
65159193 AATTACCGTTTT-CCTCTCGATTTGTAA
1 AATTACCGTTTTACC-CTCGATTTACAG
65159220 AATTACCGTTTTACCCTCGATTTACAG
1 AATTACCGTTTTACCCTCGATTTACAG
*
65159247 AATTACCATTTTACCCTC-AGTTTACAG
1 AATTACCGTTTTACCCTCGA-TTTACAG
** *
65159274 AATTACTATTTTACCCTCGATTTATAG
1 AATTACCGTTTTACCCTCGATTTACAG
** ** *
65159301 AATTATTGTTTTACCCTCGATTTGTAA
1 AATTACCGTTTTACCCTCGATTTACAG
* * *
65159328 AATTACCATTTTACCCTCGATTTATAA
1 AATTACCGTTTTACCCTCGATTTACAG
*
65159355 AATTACCATTTTACCCTC-AGTTTACAG
1 AATTACCGTTTTACCCTCGA-TTTACAG
** *
65159382 AATTACTATTTTACCCTCGATTTACAC
1 AATTACCGTTTTACCCTCGATTTACAG
*
65159409 AATTACCGTTTTACCCTC-AGTTTACAA
1 AATTACCGTTTTACCCTCGA-TTTACAG
** *
65159436 AATTACTATTTTACCCTCGATTTATAG
1 AATTACCGTTTTACCCTCGATTTACAG
** *
65159463 AATTACCGTTTTACCCTCGATTTGTAA
1 AATTACCGTTTTACCCTCGATTTACAG
* *
65159490 AATTACTGTTTTACCCTTGATTTACAG
1 AATTACCGTTTTACCCTCGATTTACAG
* * *
65159517 AATTACTGGTTTACCCTC-AGTTTACAA
1 AATTACCGTTTTACCCTCGA-TTTACAG
* ** *
65159544 AATTATCGTTTTACCCTCGATTTGTAA
1 AATTACCGTTTTACCCTCGATTTACAG
** *
65159571 AATTACTATTTTACCCTTGATTTACAG
1 AATTACCGTTTTACCCTCGATTTACAG
* * *
65159598 AATTACTGGTTTACCCTC-AGTTTACAA
1 AATTACCGTTTTACCCTCGA-TTTACAG
*
65159625 AATTATCGTTTTACCCTCGATTTACAG
1 AATTACCGTTTTACCCTCGATTTACAG
* * *
65159652 AATTACCGGTGTACCCTTGATT
1 AATTACCGTTTTACCCTCGATT
65159674 GTGAAATTAC
Statistics
Matches: 430, Mismatches: 64, Indels: 26
0.83 0.12 0.05
Matches are distributed among these distances:
26 31 0.07
27 392 0.91
28 7 0.02
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.41
Consensus pattern (27 bp):
AATTACCGTTTTACCCTCGATTTACAG
Found at i:65159719 original size:27 final size:27
Alignment explanation
Indices: 65159678--65159873 Score: 248
Period size: 27 Copynumber: 7.3 Consensus size: 27
65159668 TTGATTGTGA
*
65159678 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * * *
65159705 AGTTTCCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
65159732 AATTACTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
65159759 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
65159786 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
65159813 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
65159840 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
65159867 AATTACC
1 AATTACC
65159874 ATTTTGCCCC
Statistics
Matches: 143, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 143 1.00
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:65159742 original size:54 final size:54
Alignment explanation
Indices: 65159678--65159873 Score: 277
Period size: 54 Copynumber: 3.6 Consensus size: 54
65159668 TTGATTGTGA
* * *
65159678 AATTACTGAAATACCCTTGTAGGGTAGAGTTTCCGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * *
65159732 AATTACTGAAATACCCTTATAGGATAGAATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
*
65159786 AATTA-TCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * * *
65159840 AATTACCGAGATACCCTTGTGGGGTAAAATTACC
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACC
65159874 ATTTTGCCCC
Statistics
Matches: 125, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
53 1 0.01
54 124 0.99
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (54 bp):
AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
Found at i:65160133 original size:27 final size:28
Alignment explanation
Indices: 65160073--65160153 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 28
65160063 GGAGGAAGCG
*
65160073 TTCTGGTGGCTATGCCACAAATATC--TA
1 TTCTGGTGGCTCTGCCAC-AATATCTGTA
65160100 TTCTGGTGGCTCTGCCACAATATCTGTA
1 TTCTGGTGGCTCTGCCACAATATCTGTA
* * *
65160128 TT-TGGTGACTCTGTCGCAATATCTGT
1 TTCTGGTGGCTCTGCCACAATATCTGT
65160154 TGACTGATCG
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
26 6 0.12
27 38 0.79
28 4 0.08
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.37
Consensus pattern (28 bp):
TTCTGGTGGCTCTGCCACAATATCTGTA
Found at i:65160487 original size:27 final size:27
Alignment explanation
Indices: 65160465--65160539 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 27
65160455 TAGGTGGGTT
*
65160465 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
65160492 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* *
65160519 TGTCACGATATCTGT-TCTGGT
1 TGCCACAATATCTGTATCTGGT
65160540 AGCCATGCTG
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 6 0.14
27 36 0.84
28 1 0.02
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.37
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:65160665 original size:6 final size:6
Alignment explanation
Indices: 65160656--65160842 Score: 138
Period size: 6 Copynumber: 30.8 Consensus size: 6
65160646 TTGCATTCAC
* *
65160656 ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
65160705 -TTACTA ATACTG ATTCTG ATTCTG ATTCTG -TTACAT- ATTCTG ATTCTA
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-C-TG ATTCTG ATTCTG
* * * * *
65160753 ATTCTG -TCACCTA ATTCTG ATTCTA ATTCTG ATTTTG -TTACTA ATAT-TG
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG
65160802 ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
65160843 CATTTTGGTT
Statistics
Matches: 143, Mismatches: 20, Indels: 36
0.72 0.10 0.18
Matches are distributed among these distances:
5 12 0.08
6 117 0.82
7 11 0.08
8 3 0.02
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:65160804 original size:85 final size:85
Alignment explanation
Indices: 65160656--65160842 Score: 313
Period size: 85 Copynumber: 2.2 Consensus size: 85
65160646 TTGCATTCAC
* *
65160656 ATTCTGATTCTGATTCTGTCACGTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTAATTCTGATTCTGTTACTAATACTGATTC
65160721 TGATTCTGATTCTGTTACAT-
66 TGATTCTGATTCTGTTAC-TG
* * *
65160741 ATTCTGATTCTAATTCTGTCACCTAATTCTGATTCTAATTCTGATTTTGTTACTAATATTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTAATTCTGATTCTGTTACTAATACTGATTC
65160806 TGATTCTGATTCTGTTACTG
66 TGATTCTGATTCTGTTACTG
65160826 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
65160843 CATTTTGGTT
Statistics
Matches: 95, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
84 1 0.01
85 94 0.99
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.49
Consensus pattern (85 bp):
ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTAATTCTGATTCTGTTACTAATACTGATTC
TGATTCTGATTCTGTTACTG
Found at i:65160860 original size:30 final size:30
Alignment explanation
Indices: 65160656--65160863 Score: 207
Period size: 30 Copynumber: 7.1 Consensus size: 30
65160646 TTGCATTCAC
* *
65160656 ATTCTGATTCTGATTCTGTCACGTAATTCTG
1 ATTCTGATTCTGATTTTGTTAC-TAATTCTG
* *
65160687 ATTCTGATTCTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTTTGTTACTAATTCTG
*
65160717 ATTCTGATTCTGATTCTGTTAC--A---T-
1 ATTCTGATTCTGATTTTGTTACTAATTCTG
* * *
65160741 ATTCTGATTCTAATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTTTGTTA-CTAATTCTG
*
65160772 ATTCTAATTCTGATTTTGTTACTAATAT-TG
1 ATTCTGATTCTGATTTTGTTACTAAT-TCTG
* *
65160802 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTTTGTTACTAATTCTG
* *
65160832 ATTCTGATTCTCATTTTGGTT-CCAATTCTG
1 ATTCTGATTCTGATTTT-GTTACTAATTCTG
65160862 AT
1 AT
65160864 AATGTTTCTT
Statistics
Matches: 152, Mismatches: 15, Indels: 21
0.81 0.08 0.11
Matches are distributed among these distances:
24 19 0.12
25 2 0.01
27 1 0.01
28 1 0.01
29 1 0.01
30 86 0.57
31 42 0.28
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.49
Consensus pattern (30 bp):
ATTCTGATTCTGATTTTGTTACTAATTCTG
Found at i:65161753 original size:22 final size:23
Alignment explanation
Indices: 65161731--65161782 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
65161721 ATGTTCTTAC
65161731 TTTTATTCTACTTTAAGACTACT
1 TTTTATTCTACTTTAAGACTACT
* *
65161754 TTTTATTTTTCTTTAAG-CTTA-T
1 TTTTATTCTACTTTAAGAC-TACT
65161776 TTTTATT
1 TTTTATT
65161783 AGGTTTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 9 0.35
23 17 0.65
ACGTcount: A:0.21, C:0.12, G:0.04, T:0.63
Consensus pattern (23 bp):
TTTTATTCTACTTTAAGACTACT
Found at i:65164929 original size:49 final size:49
Alignment explanation
Indices: 65164867--65164990 Score: 160
Period size: 49 Copynumber: 2.5 Consensus size: 49
65164857 TTTTGTGTGT
* * * * *
65164867 CAGTGTAAAACCTGTCTTGGACATGGCATTGACAC-CGATAGATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATTGAC-CTCGAGACATGAAAGC
* * *
65164916 CAGTGTAAGACCTGTATGGGACACGGCATTGACCTCGAGACATGAAAGT
1 CAGTGTAAGACCTGTCTGGGACATGGCATTGACCTCGAGACATGAAAGC
65164965 CAGTGTAAGACCTGTCTGGGACATGG
1 CAGTGTAAGACCTGTCTGGGACATGG
65164991 TATCGACTTT
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
48 1 0.02
49 63 0.98
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATTGACCTCGAGACATGAAAGC
Found at i:65186219 original size:47 final size:47
Alignment explanation
Indices: 65186151--65186276 Score: 152
Period size: 47 Copynumber: 2.7 Consensus size: 47
65186141 GAAGTGTGCT
* * *
65186151 AGTGTAAGACATGTATGGGACATGCATCGGCCACATT-G-TGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTAGACGAGAGCA
65186197 AGTGTAAGACCATGTCTGGGACATGGCATCGG--CATTACGACGAGAGCA
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCCATTA-GACGAGAGCA
*
65186245 AGTGTAAGACATGTCTGGGACATGTATCGGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC
65186277 TTGAGATATG
Statistics
Matches: 69, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
45 4 0.06
46 15 0.22
47 28 0.41
48 22 0.32
ACGTcount: A:0.28, C:0.20, G:0.31, T:0.21
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCCATTAGACGAGAGCA
Found at i:65186243 original size:48 final size:45
Alignment explanation
Indices: 65186151--65186417 Score: 154
Period size: 48 Copynumber: 5.7 Consensus size: 45
65186141 GAAGTGTGCT
* *
65186151 AGTGTAAGACATGTATGGGACAT-GCATCGGCCACATT-G-TGAGAGCC
1 AGTGTAAGAC-TGTCTGGGACATGGCATCGG---CATTAGACGAGAGCC
*
65186197 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTACGACGAGAGCA
1 AGTGTAAGA-C-TGTCTGGGACATGGCATCGGCATTA-GACGAGAGCC
* * * *
65186245 AGTGTAAGACATGTCTGGGACAT-GTATCGGCCTTGAGA-TATGCAAGCT
1 AGTGTAAGAC-TGTCTGGGACATGGCATCGGCATT-AGACGA-G--AGCC
* * * * *
65186293 AGTTTAAGATCTATCTGGGACATGGCATCTGC-TT-GAC-ATATGTC
1 AGTGTAAGA-CTGTCTGGGACATGGCATCGGCATTAGACGAGA-GCC
* * * *
65186337 AGTGTTAGACTTCTCTGGGACATGGCATCGACATCGATAGATGAGAGCC
1 AGTGTAAGAC-TGTCTGGGACATGGCATCGGCAT---TAGACGAGAGCC
*
65186386 ACTGTAAGACCTGTCTGGGACATGGCATCGGC
1 AGTGTAAGA-CTGTCTGGGACATGGCATCGGC
65186418 CTCGATATAT
Statistics
Matches: 174, Mismatches: 26, Indels: 39
0.73 0.11 0.16
Matches are distributed among these distances:
43 2 0.01
44 26 0.15
45 6 0.03
46 24 0.14
47 29 0.17
48 47 0.27
49 37 0.21
50 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.25
Consensus pattern (45 bp):
AGTGTAAGACTGTCTGGGACATGGCATCGGCATTAGACGAGAGCC
Found at i:65186423 original size:49 final size:49
Alignment explanation
Indices: 65186151--65186463 Score: 202
Period size: 49 Copynumber: 6.6 Consensus size: 49
65186141 GAAGTGTGCT
* * * *
65186151 AGTGTAAGACATGTATGGGACAT-GCATCGGCCAC-ATTG-TGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATAGATGAGAGCC
* * *
65186197 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAT---TACGACGAGAGCA
1 AGTGTAAGACC-TGTCTGGGACATGGCATCGGCCTCGATA-GATGAGAGCC
* * * * * *
65186245 AGTGTAAGACATGTCTGGGACAT-GTATCGGCCTTGAGATATGCA-AGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATAGATG-AGAGCC
* * * * * * * *
65186293 AGTTTAAGATCTATCTGGGACATGGCATCTG-CTTG--ACAT-A-TGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATAGATGAGAGCC
* * * * *
65186337 AGTGTTAGACTTCTCTGGGACATGGCATCGACATCGATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATAGATGAGAGCC
* * *
65186386 ACTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATAGATGAGAGCC
* * **
65186435 AATGTAAGACCATGTTTGTAACATGGCAT
1 AGTGTAAGACC-TGTCTGGGACATGGCAT
65186464 TGGCATCATA
Statistics
Matches: 204, Mismatches: 48, Indels: 26
0.73 0.17 0.09
Matches are distributed among these distances:
44 26 0.13
45 2 0.01
46 22 0.11
47 27 0.13
48 53 0.26
49 60 0.29
50 14 0.07
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.25
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATAGATGAGAGCC
Found at i:65188712 original size:43 final size:42
Alignment explanation
Indices: 65188661--65188759 Score: 117
Period size: 42 Copynumber: 2.3 Consensus size: 42
65188651 TCCCAGACGT
* * * *
65188661 GGTCTTACATGTAATAAAATATCAGTGCCACTGTCCCAGATAG
1 GGTCTTACACGTAATAAAATATCA-TGCCAATGTCCCAAACAG
* * * *
65188704 GGTCTTACACGAAATCAAATATGATGCCAATGTCCCAAACAT
1 GGTCTTACACGTAATAAAATATCATGCCAATGTCCCAAACAG
65188746 GGTCTTACACGTAA
1 GGTCTTACACGTAA
65188760 ATCATAAGTC
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
42 27 0.57
43 20 0.43
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.26
Consensus pattern (42 bp):
GGTCTTACACGTAATAAAATATCATGCCAATGTCCCAAACAG
Found at i:65188750 original size:42 final size:42
Alignment explanation
Indices: 65188651--65188802 Score: 137
Period size: 43 Copynumber: 3.6 Consensus size: 42
65188641 GGGTGTTACA
* * * * * *
65188651 TCCCAGACGTGGTCTTACATGTAATAAAATATCAGTGCCACTG
1 TCCCAGACATGGTCTTACACGAAATCAAATATGA-TGCCAATG
* *
65188694 TCCCAGATAGGGTCTTACACGAAATCAAATATGATGCCAATG
1 TCCCAGACATGGTCTTACACGAAATCAAATATGATGCCAATG
* * *
65188736 TCCCAAACATGGTCTTACACGTAAATCATAAGT-CGATGCCAACG
1 TCCCAGACATGGTCTTACACG-AAATCA-AA-TATGATGCCAATG
* *
65188780 TCTCAGACGT-GTCTTACACGAAA
1 TCCCAGACATGGTCTTACACGAAA
65188803 ACACATATCG
Statistics
Matches: 90, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
42 28 0.31
43 43 0.48
44 18 0.20
45 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACACGAAATCAAATATGATGCCAATG
Found at i:65188794 original size:43 final size:42
Alignment explanation
Indices: 65188704--65188802 Score: 112
Period size: 44 Copynumber: 2.3 Consensus size: 42
65188694 TCCCAGATAG
* *
65188704 GGTCTTACACGAAATCAAATATGATGCCAATGTCCCAAACAT
1 GGTCTTACACGAAATCAAATACGATGCCAACGTCCCAAACAT
* * *
65188746 GGTCTTACACGTAAATCATAAGT-CGATGCCAACGTCTCAGACGT
1 GGTCTTACACG-AAATCA-AA-TACGATGCCAACGTCCCAAACAT
65188790 -GTCTTACACGAAA
1 GGTCTTACACGAAA
65188803 ACACATATCG
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
42 14 0.29
43 16 0.33
44 18 0.37
45 1 0.02
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.24
Consensus pattern (42 bp):
GGTCTTACACGAAATCAAATACGATGCCAACGTCCCAAACAT
Found at i:65189846 original size:18 final size:18
Alignment explanation
Indices: 65189819--65189853 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
65189809 ACAAATAGGC
65189819 ACTTTAACAAACAGCAGT
1 ACTTTAACAAACAGCAGT
*
65189837 ACTTTGACAAACAGCAG
1 ACTTTAACAAACAGCAG
65189854 GCAACTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.23, G:0.14, T:0.20
Consensus pattern (18 bp):
ACTTTAACAAACAGCAGT
Found at i:65195785 original size:16 final size:16
Alignment explanation
Indices: 65195764--65195801 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
65195754 TTTATCTTAA
65195764 AATTTATTTGCAATCC
1 AATTTATTTGCAATCC
65195780 AATTTATTTGCAATCC
1 AATTTATTTGCAATCC
*
65195796 TATTTA
1 AATTTA
65195802 ATTATTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.32, C:0.16, G:0.05, T:0.47
Consensus pattern (16 bp):
AATTTATTTGCAATCC
Found at i:65206892 original size:19 final size:19
Alignment explanation
Indices: 65206868--65206904 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
65206858 TTTGATTTTA
*
65206868 TTCTTTTTTTAAAAAAATT
1 TTCTTTTTCTAAAAAAATT
65206887 TTCTTTTTCTAAAAAAAT
1 TTCTTTTTCTAAAAAAAT
65206905 AACTAACGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (19 bp):
TTCTTTTTCTAAAAAAATT
Found at i:65210645 original size:22 final size:21
Alignment explanation
Indices: 65210617--65210657 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
65210607 TATAATGAAT
*
65210617 AATAAATAGAATATTTAAAATA
1 AATAAATAAAAT-TTTAAAATA
65210639 AATAAATAAAATTTTAAAA
1 AATAAATAAAATTTTAAAA
65210658 GGTATGTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (21 bp):
AATAAATAAAATTTTAAAATA
Found at i:65212031 original size:14 final size:14
Alignment explanation
Indices: 65212012--65212038 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
65212002 TGTTGTAAAT
65212012 GGACATTTATTTTG
1 GGACATTTATTTTG
65212026 GGACATTTATTTT
1 GGACATTTATTTT
65212039 AGTTTTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.19, T:0.52
Consensus pattern (14 bp):
GGACATTTATTTTG
Found at i:65212321 original size:44 final size:44
Alignment explanation
Indices: 65212213--65212328 Score: 126
Period size: 44 Copynumber: 2.6 Consensus size: 44
65212203 GCTTTGATCC
*
65212213 ACTCCACTACAACTTCAGGGAGATAAGAATCGTAACTTCAACCT
1 ACTCCACTACAACTTCAGGGAGATAAGAATCGTAACTTCAACAT
* * ** * ** *
65212257 ACTCTACTGCAACCTT-AGGGAGATAAGGTTTGTGGCTTCAATAT
1 ACTCCACTACAA-CTTCAGGGAGATAAGAATCGTAACTTCAACAT
*
65212301 GCTCCACTACAACTTCAGGGAGATAAGA
1 ACTCCACTACAACTTCAGGGAGATAAGA
65212329 TTCGCCATGG
Statistics
Matches: 57, Mismatches: 13, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
43 3 0.05
44 51 0.89
45 3 0.05
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (44 bp):
ACTCCACTACAACTTCAGGGAGATAAGAATCGTAACTTCAACAT
Found at i:65217006 original size:29 final size:29
Alignment explanation
Indices: 65216973--65217028 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
65216963 TCTGAGGTAG
65216973 GATTTGTTTCTCCTCTTGTTCTACCATAA
1 GATTTGTTTCTCCTCTTGTTCTACCATAA
65217002 GATTTGTTTCTCCTCTTGTTCTACCAT
1 GATTTGTTTCTCCTCTTGTTCTACCAT
65217029 CCTTAATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.14, C:0.25, G:0.11, T:0.50
Consensus pattern (29 bp):
GATTTGTTTCTCCTCTTGTTCTACCATAA
Found at i:65224859 original size:22 final size:21
Alignment explanation
Indices: 65224831--65224871 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
65224821 TATAATGAAT
*
65224831 AATAAATAGAATATTTAAAATA
1 AATAAATAAAAT-TTTAAAATA
65224853 AATAAATAAAATTTTAAAA
1 AATAAATAAAATTTTAAAA
65224872 GGTATGTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (21 bp):
AATAAATAAAATTTTAAAATA
Found at i:65226316 original size:14 final size:14
Alignment explanation
Indices: 65226299--65226325 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
65226289 TTTTGTAAAT
65226299 GGACTTTTATTTTG
1 GGACTTTTATTTTG
65226313 GGACTTTTATTTT
1 GGACTTTTATTTT
65226326 AGTTTGTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.07, G:0.19, T:0.59
Consensus pattern (14 bp):
GGACTTTTATTTTG
Found at i:65227340 original size:21 final size:22
Alignment explanation
Indices: 65227300--65227341 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
65227290 TATTTTCACG
65227300 TTTATATATTTAATAAAAGAAC
1 TTTATATATTTAATAAAAGAAC
65227322 TTTATATATTTAA-AAAAGAA
1 TTTATATATTTAATAAAAGAA
65227342 AGTCACTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.40
Consensus pattern (22 bp):
TTTATATATTTAATAAAAGAAC
Found at i:65228048 original size:32 final size:35
Alignment explanation
Indices: 65227991--65228081 Score: 107
Period size: 35 Copynumber: 2.6 Consensus size: 35
65227981 ATTTATTTGT
*
65227991 TTATTATTGGTTTTATAATATTTTAAATGT-TTTAT-AA
1 TTATTATT--TTTTA-AA-ATTTTAAATATATTTATAAA
*
65228028 -TATTATTTTTTAAAATTTTAAATATATTTTTAAA
1 TTATTATTTTTTAAAATTTTAAATATATTTATAAA
65228062 TTATTATTTTTTAAAATTTT
1 TTATTATTTTTTAAAATTTT
65228082 TAAAATTATT
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
32 10 0.20
33 6 0.12
34 7 0.14
35 19 0.39
36 7 0.14
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (35 bp):
TTATTATTTTTTAAAATTTTAAATATATTTATAAA
Found at i:65228051 original size:22 final size:23
Alignment explanation
Indices: 65228011--65228062 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 23
65228001 TTTTATAATA
*
65228011 TTTTAAATGTTTTATAATATTATT
1 TTTTAAATATTTTATAATA-TATT
65228035 TTTTAAA-ATTTTA-AATATA-T
1 TTTTAAATATTTTATAATATATT
65228055 TTTTAAAT
1 TTTTAAAT
65228063 TATTATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 8 0.31
21 2 0.08
22 4 0.15
23 5 0.19
24 7 0.27
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
TTTTAAATATTTTATAATATATT
Found at i:65228060 original size:12 final size:12
Alignment explanation
Indices: 65228043--65228100 Score: 59
Period size: 12 Copynumber: 4.8 Consensus size: 12
65228033 TTTTTTAAAA
65228043 TTTT-AAATATAT
1 TTTTAAAAT-TAT
65228055 TTTTAAATTATTAT
1 TTTTAAA--ATTAT
*
65228069 TTTTTAAA--AT
1 TTTTAAAATTAT
65228079 TTTTAAAATTAT
1 TTTTAAAATTAT
65228091 TTTTAAAATT
1 TTTTAAAATT
65228101 TTTAAAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
10 9 0.23
12 17 0.44
13 2 0.05
14 9 0.23
15 2 0.05
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTTAAAATTAT
Found at i:65228067 original size:35 final size:35
Alignment explanation
Indices: 65228020--65228097 Score: 115
Period size: 35 Copynumber: 2.2 Consensus size: 35
65228010 ATTTTAAATG
65228020 TTTTATAATATTATTTTTTAAAA-TTTT-AAATATAT
1 TTTTA-AATATTATTTTTTAAAATTTTTAAAAT-TAT
65228055 TTTTAAATTATTATTTTTTAAAATTTTTAAAATTAT
1 TTTTAAA-TATTATTTTTTAAAATTTTTAAAATTAT
65228091 TTTTAAA
1 TTTTAAA
65228098 ATTTTTAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
34 2 0.05
35 20 0.50
36 14 0.35
37 4 0.10
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (35 bp):
TTTTAAATATTATTTTTTAAAATTTTTAAAATTAT
Found at i:65228083 original size:9 final size:9
Alignment explanation
Indices: 65228034--65228107 Score: 55
Period size: 9 Copynumber: 8.0 Consensus size: 9
65228024 ATAATATTAT
65228034 TTTTTAAAA
1 TTTTTAAAA
65228043 -TTTTAAATA
1 TTTTTAAA-A
*
65228052 TATTTTTAAA
1 T-TTTTAAAA
* *
65228062 TTATT--AT
1 TTTTTAAAA
65228069 TTTTTAAAA
1 TTTTTAAAA
65228078 TTTTTAAAATTA
1 TTTTT-AAA--A
65228090 TTTTTAAAA
1 TTTTTAAAA
65228099 TTTTTAAAA
1 TTTTTAAAA
65228108 AAAAAATTTA
Statistics
Matches: 52, Mismatches: 5, Indels: 16
0.71 0.07 0.22
Matches are distributed among these distances:
7 5 0.10
8 7 0.13
9 20 0.38
10 5 0.10
11 9 0.17
12 6 0.12
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:65228103 original size:21 final size:22
Alignment explanation
Indices: 65228053--65228107 Score: 85
Period size: 21 Copynumber: 2.5 Consensus size: 22
65228043 TTTTAAATAT
65228053 ATTTTTAAATTATTATTTTTTAAA
1 ATTTTTAAA--ATTATTTTTTAAA
65228077 ATTTTTAAAATTA-TTTTTAAA
1 ATTTTTAAAATTATTTTTTAAA
65228098 ATTTTTAAAA
1 ATTTTTAAAA
65228108 AAAAAATTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
21 18 0.58
22 4 0.13
24 9 0.29
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
ATTTTTAAAATTATTTTTTAAA
Found at i:65228231 original size:22 final size:20
Alignment explanation
Indices: 65228189--65228253 Score: 87
Period size: 22 Copynumber: 3.1 Consensus size: 20
65228179 GTTTTATAAT
*
65228189 ATTTTAAATGTATATTTTAAA
1 ATTTTAAAT-TATTTTTTAAA
65228210 ATTTTAAAAATTATTTTTTAAA
1 ATTTT--AAATTATTTTTTAAA
65228232 ATTTTAAA-TATTTTTTAAA
1 ATTTTAAATTATTTTTTAAA
65228251 ATT
1 ATT
65228254 ATTTTTAAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
19 14 0.34
20 3 0.07
21 5 0.12
22 15 0.37
23 4 0.10
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (20 bp):
ATTTTAAATTATTTTTTAAA
Found at i:65228257 original size:22 final size:22
Alignment explanation
Indices: 65228180--65228268 Score: 80
Period size: 23 Copynumber: 4.1 Consensus size: 22
65228170 TTATTATTTG
* *
65228180 TTTTATAATATTTTAAATGTATA
1 TTTTAAAATATTTTAAAT-TATT
*
65228203 TTTTAAAAT-TTTAAAAATTATT
1 TTTTAAAATATTT-TAAATTATT
65228225 TTTT-AAA-ATTTTAAA-TATT
1 TTTTAAAATATTTTAAATTATT
65228244 TTTTAAAATTATTTTTAAA-TATT
1 TTTTAAAA-TA-TTTTAAATTATT
65228267 TT
1 TT
65228269 CAATTTTTTT
Statistics
Matches: 56, Mismatches: 4, Indels: 12
0.78 0.06 0.17
Matches are distributed among these distances:
19 8 0.14
20 6 0.11
21 6 0.11
22 11 0.20
23 25 0.45
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (22 bp):
TTTTAAAATATTTTAAATTATT
Found at i:65228278 original size:32 final size:31
Alignment explanation
Indices: 65228202--65228298 Score: 126
Period size: 32 Copynumber: 3.1 Consensus size: 31
65228192 TTAAATGTAT
65228202 ATTTTAAA-A-TTTTAAAAATTATTTTTTAAA
1 ATTTTAAATATTTTTAAAAATTA-TTTTTAAA
*
65228232 ATTTTAAATATTTTTTAAAATTATTTTTAAA
1 ATTTTAAATATTTTTAAAAATTATTTTTAAA
* * *
65228263 TATTTTCAATTTTTTTAAAAATTATATTTAAA
1 -ATTTTAAATATTTTTAAAAATTATTTTTAAA
65228295 ATTT
1 ATTT
65228299 AAAAAATAAT
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
30 8 0.14
31 13 0.22
32 38 0.64
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (31 bp):
ATTTTAAATATTTTTAAAAATTATTTTTAAA
Found at i:65228376 original size:24 final size:24
Alignment explanation
Indices: 65228332--65228377 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
65228322 TTCCTTTATC
*
65228332 TTTTATTTGTTTATTATTATTTGT
1 TTTTATTTGTTTATTAATATTTGT
*
65228356 TTTTAATTTTTTTA-TAATATTT
1 TTTT-ATTTGTTTATTAATATTT
65228378 TAAGTATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.74
Consensus pattern (24 bp):
TTTTATTTGTTTATTAATATTTGT
Found at i:65237106 original size:41 final size:41
Alignment explanation
Indices: 65237060--65237311 Score: 346
Period size: 41 Copynumber: 6.2 Consensus size: 41
65237050 AAAAAACACT
* * * **
65237060 GCTAAAAA-CAGAGCAATAGCGGTGTTTTTTGTTAAAACGCC
1 GCTAAAAACCAGAGCATTAGCGGCG-CTTTTGGCAAAACGCC
* *
65237101 ACTAAAAA-CAGAGCATTAGCGGCGCTTTTGGTAAAACGCC
1 GCTAAAAACCAGAGCATTAGCGGCGCTTTTGGCAAAACGCC
**
65237141 GCTAAAAACCAGAGCATTAGCGGCGCTTTTGAAAAAACGCC
1 GCTAAAAACCAGAGCATTAGCGGCGCTTTTGGCAAAACGCC
65237182 GCTAAAAACCAGAGCATTAGCGGCGCTTTTGGCAAAACGCC
1 GCTAAAAACCAGAGCATTAGCGGCGCTTTTGGCAAAACGCC
* *
65237223 GCTAAAAACTAGAGCATTAGCTGCGCTTTTGGCAAAACGCC
1 GCTAAAAACCAGAGCATTAGCGGCGCTTTTGGCAAAACGCC
* **
65237264 GCTAAAAACCAGAGCATTAGCGGCGCTTTCGATAAAACGCC
1 GCTAAAAACCAGAGCATTAGCGGCGCTTTTGGCAAAACGCC
*
65237305 CCTAAAA
1 GCTAAAA
65237312 GTCATATAAT
Statistics
Matches: 192, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
40 21 0.11
41 171 0.89
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.20
Consensus pattern (41 bp):
GCTAAAAACCAGAGCATTAGCGGCGCTTTTGGCAAAACGCC
Found at i:65237268 original size:123 final size:122
Alignment explanation
Indices: 65237050--65237311 Score: 382
Period size: 123 Copynumber: 2.1 Consensus size: 122
65237040 GCGTTTTATC
* * * * **
65237050 AAAAAACACTGCTAAAAACAGAGCAATAGCGGTGTTTTTTGTTAAAACGCCACTAAAAACAGAGC
1 AAAAAACGCCGCTAAAAACAGAGCAATAGCGGCGTCTTTTGGCAAAACGCCACTAAAAACAGAGC
* *
65237115 ATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTG
66 ATTAGCGGCGCTTTTGGCAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCG
* *
65237172 AAAAAACGCCGCTAAAAACCAGAGCATTAGCGGCG-CTTTTGGCAAAACGCCGCTAAAAACTAGA
1 AAAAAACGCCGCTAAAAA-CAGAGCAATAGCGGCGTCTTTTGGCAAAACGCCACTAAAAAC-AGA
*
65237236 GCATTAGCTGCGCTTTTGGCAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCG
64 GCATTAGCGGCGCTTTTGGCAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCG
* *
65237295 ATAAAACGCCCCTAAAA
1 AAAAAACGCCGCTAAAA
65237312 GTCATATAAT
Statistics
Matches: 125, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
122 37 0.30
123 88 0.70
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.19
Consensus pattern (122 bp):
AAAAAACGCCGCTAAAAACAGAGCAATAGCGGCGTCTTTTGGCAAAACGCCACTAAAAACAGAGC
ATTAGCGGCGCTTTTGGCAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCG
Found at i:65237425 original size:21 final size:22
Alignment explanation
Indices: 65237399--65237439 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
65237389 AAATCCTAAA
65237399 AACCCCT-AAACACTAAACTAT
1 AACCCCTAAAACACTAAACTAT
*
65237420 AACCCCTAAAACCCTAAACT
1 AACCCCTAAAACACTAAACT
65237440 CCAAAAACCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.46, C:0.37, G:0.00, T:0.17
Consensus pattern (22 bp):
AACCCCTAAAACACTAAACTAT
Found at i:65238837 original size:13 final size:13
Alignment explanation
Indices: 65238819--65238852 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
65238809 ATTGGAACGT
*
65238819 CTAAAATTTCCCC
1 CTAAAATCTCCCC
65238832 CTAAAATCTCCCC
1 CTAAAATCTCCCC
65238845 CTAAAATC
1 CTAAAATC
65238853 GGTATCCCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.35, C:0.38, G:0.00, T:0.26
Consensus pattern (13 bp):
CTAAAATCTCCCC
Found at i:65238900 original size:14 final size:14
Alignment explanation
Indices: 65238881--65238910 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
65238871 CTAATTTTTC
65238881 CCCCAAATCAAAAT
1 CCCCAAATCAAAAT
65238895 CCCCAAATCAAAAT
1 CCCCAAATCAAAAT
65238909 CC
1 CC
65238911 TTCCACCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.47, C:0.40, G:0.00, T:0.13
Consensus pattern (14 bp):
CCCCAAATCAAAAT
Found at i:65238997 original size:14 final size:14
Alignment explanation
Indices: 65238978--65239007 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
65238968 ATTTCTTGCT
65238978 TCTCTAAATCTCCA
1 TCTCTAAATCTCCA
65238992 TCTCTAAATCTCCA
1 TCTCTAAATCTCCA
65239006 TC
1 TC
65239008 CCTTTGATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.37, G:0.00, T:0.37
Consensus pattern (14 bp):
TCTCTAAATCTCCA
Found at i:65241633 original size:5 final size:5
Alignment explanation
Indices: 65241619--65241648 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
65241609 ACGTGGTAAT
*
65241619 TTTAA ATTAA TTTAA TTTAA TTTAA TTTAA
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA
65241649 CTAATAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (5 bp):
TTTAA
Found at i:65243118 original size:19 final size:19
Alignment explanation
Indices: 65243095--65243141 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
65243085 ATTTAATCTA
*
65243095 ATTTTTATTATTTA-TTTT
1 ATTTTTATTATATATTTTT
* *
65243113 AGTTTTGATTCTATATTTTT
1 A-TTTTTATTATATATTTTT
65243133 ATTTTTATT
1 ATTTTTATT
65243142 TTAATTTGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
ATTTTTATTATATATTTTT
Found at i:65243184 original size:20 final size:20
Alignment explanation
Indices: 65243159--65243203 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
65243149 GATAATGAAT
65243159 TTTAATAGAAAATTTTTATA
1 TTTAATAGAAAATTTTTATA
65243179 TTTAATAGAAAATTTTTATA
1 TTTAATAGAAAATTTTTATA
65243199 TTTAA
1 TTTAA
65243204 ATCATGGACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (20 bp):
TTTAATAGAAAATTTTTATA
Found at i:65243656 original size:23 final size:23
Alignment explanation
Indices: 65243608--65243666 Score: 59
Period size: 24 Copynumber: 2.6 Consensus size: 23
65243598 CTATTCGGGC
*
65243608 TAAACAGGAAACTCATAAGAGTT
1 TAAACAGGAAACTCATAAGAGCT
* *
65243631 TAAATCAGGAAGCTCAT-TGAGCT
1 TAAA-CAGGAAACTCATAAGAGCT
*
65243654 T-AACAGGTAACTC
1 TAAACAGGAAACTC
65243667 CGAAGAGTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
21 8 0.27
22 2 0.07
23 9 0.30
24 11 0.37
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.24
Consensus pattern (23 bp):
TAAACAGGAAACTCATAAGAGCT
Found at i:65245065 original size:13 final size:14
Alignment explanation
Indices: 65245041--65245076 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
65245031 GTGTTTGAAT
65245041 ATATTT-AAAAATA
1 ATATTTAAAAAATA
65245054 AT-TTTAAAAAATA
1 ATATTTAAAAAATA
65245067 ATATTTAAAA
1 ATATTTAAAA
65245077 TTTTAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 3 0.14
13 11 0.52
14 7 0.33
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
ATATTTAAAAAATA
Found at i:65245081 original size:22 final size:21
Alignment explanation
Indices: 65245053--65245110 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
65245043 ATTTAAAAAT
*
65245053 AATTTTAAAAAATAATATTTAA
1 AATTTTAAAAAATAAT-TCTAA
* *
65245075 AATTTTAAAATATACTTCTAA
1 AATTTTAAAAAATAATTCTAA
* *
65245096 AATATTATAAAATAA
1 AATTTTAAAAAATAA
65245111 ATAATAAATT
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
21 15 0.52
22 14 0.48
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (21 bp):
AATTTTAAAAAATAATTCTAA
Found at i:65245198 original size:21 final size:21
Alignment explanation
Indices: 65245172--65245290 Score: 116
Period size: 21 Copynumber: 5.5 Consensus size: 21
65245162 TATAATATTA
*
65245172 AAAAATAATATTTAAAATTTC
1 AAAAATAATATTTAAAATTTT
*
65245193 AAAAATAATATTTAAATTTTTT
1 AAAAATAATATTTAAA-ATTTT
65245215 AAAAAT-ATATTTAAAATTTT
1 AAAAATAATATTTAAAATTTT
* *
65245235 TAAAATAATATTATAAAACATTT
1 AAAAATAATATT-TAAAA-TTTT
*
65245258 -AAAATATACATTTAAAATATTAT
1 AAAAATA-ATATTTAAAAT-TT-T
*
65245281 AAAACTAATA
1 AAAAATAATA
65245291 ATAAACAAAT
Statistics
Matches: 81, Mismatches: 9, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
20 9 0.11
21 30 0.37
22 27 0.33
23 10 0.12
24 5 0.06
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.40
Consensus pattern (21 bp):
AAAAATAATATTTAAAATTTT
Found at i:65245227 original size:42 final size:43
Alignment explanation
Indices: 65245172--65245275 Score: 129
Period size: 42 Copynumber: 2.4 Consensus size: 43
65245162 TATAATATTA
***
65245172 AAAAATAATATTTAAAATTTCAAAAATAATATT-TAAATTTTTT
1 AAAAAT-ATATTTAAAATTTCAAAAATAATATTATAAAACATTT
**
65245215 AAAAATATATTTAAAATTTTTAAAATAATATTATAAAACATTT
1 AAAAATATATTTAAAATTTCAAAAATAATATTATAAAACATTT
*
65245258 AAAATATACATTTAAAAT
1 AAAA-ATATATTTAAAAT
65245276 ATTATAAAAC
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
42 24 0.45
43 17 0.32
44 12 0.23
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (43 bp):
AAAAATATATTTAAAATTTCAAAAATAATATTATAAAACATTT
Found at i:65245268 original size:13 final size:13
Alignment explanation
Indices: 65245252--65245277 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
65245242 ATATTATAAA
65245252 ACATTTAAAATAT
1 ACATTTAAAATAT
65245265 ACATTTAAAATAT
1 ACATTTAAAATAT
65245278 TATAAAACTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (13 bp):
ACATTTAAAATAT
Found at i:65245307 original size:24 final size:24
Alignment explanation
Indices: 65245279--65245331 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
65245269 TTAAAATATT
*
65245279 ATAAAACTAATAATAA-ACAAATAA
1 ATAAAACAAATAA-AAGACAAATAA
65245303 ATAAAACAAATAAAAGACAAATAA
1 ATAAAACAAATAAAAGACAAATAA
65245327 A-AAAA
1 ATAAAA
65245332 TATTGAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.75, C:0.08, G:0.02, T:0.15
Consensus pattern (24 bp):
ATAAAACAAATAAAAGACAAATAA
Found at i:65245311 original size:13 final size:13
Alignment explanation
Indices: 65245279--65245316 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
65245269 TTAAAATATT
*
65245279 ATAAAACTAAT-A
1 ATAAAACAAATAA
65245291 AT-AAACAAATAA
1 ATAAAACAAATAA
65245303 ATAAAACAAATAA
1 ATAAAACAAATAA
65245316 A
1 A
65245317 AGACAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 7 0.30
12 5 0.22
13 11 0.48
ACGTcount: A:0.74, C:0.08, G:0.00, T:0.18
Consensus pattern (13 bp):
ATAAAACAAATAA
Found at i:65245330 original size:13 final size:12
Alignment explanation
Indices: 65245293--65245368 Score: 57
Period size: 11 Copynumber: 6.2 Consensus size: 12
65245283 AACTAATAAT
65245293 AAACAAATAAATA
1 AAACAAATAAA-A
65245306 AAACAAAT-AAA
1 AAACAAATAAAA
*
65245317 AGACAAATAAAA
1 AAACAAATAAAA
* * *
65245329 AAA-TATTGAAA
1 AAACAAATAAAA
*
65245340 AAATAAATAAAGAA
1 AAACAAAT-AA-AA
65245354 AAACAAAATAAAA
1 AAAC-AAATAAAA
65245367 AA
1 AA
65245369 CGAAAAAGGA
Statistics
Matches: 49, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
11 16 0.33
12 9 0.18
13 13 0.27
14 7 0.14
15 4 0.08
ACGTcount: A:0.78, C:0.05, G:0.04, T:0.13
Consensus pattern (12 bp):
AAACAAATAAAA
Found at i:65245361 original size:19 final size:19
Alignment explanation
Indices: 65245339--65245375 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
65245329 AAATATTGAA
65245339 AAAATAAATAAA-GAAAAAC
1 AAAATAAA-AAACGAAAAAC
65245358 AAAATAAAAAACGAAAAA
1 AAAATAAAAAACGAAAAA
65245376 GGACAAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.81, C:0.05, G:0.05, T:0.08
Consensus pattern (19 bp):
AAAATAAAAAACGAAAAAC
Found at i:65246405 original size:43 final size:43
Alignment explanation
Indices: 65246344--65246429 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
65246334 AAATGCTGTA
65246344 AATGTTTTATTAACATTTAGTTATAAAATACTTCTACAGATAC
1 AATGTTTTATTAACATTTAGTTATAAAATACTTCTACAGATAC
*
65246387 AATGTTTTATTTACATTTAGTTATAAAATACTTCTACAGATAC
1 AATGTTTTATTAACATTTAGTTATAAAATACTTCTACAGATAC
65246430 TATCTTGTTC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.43
Consensus pattern (43 bp):
AATGTTTTATTAACATTTAGTTATAAAATACTTCTACAGATAC
Found at i:65249352 original size:17 final size:17
Alignment explanation
Indices: 65249330--65249364 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
65249320 TTCAAGGTAA
*
65249330 ATTTGTTTTTTTTTTTT
1 ATTTGTTATTTTTTTTT
65249347 ATTTGTTATTTTTTTTT
1 ATTTGTTATTTTTTTTT
65249364 A
1 A
65249365 CTGAAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.11, C:0.00, G:0.06, T:0.83
Consensus pattern (17 bp):
ATTTGTTATTTTTTTTT
Found at i:65252037 original size:3 final size:3
Alignment explanation
Indices: 65252031--65252065 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
65252021 TCTGTTGTTG
65252031 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
65252066 TCTAGCTCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:65252158 original size:25 final size:26
Alignment explanation
Indices: 65252110--65252167 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
65252100 GTTGTTTTAT
* * *
65252110 ATTTTTATAATTTTATATATATTTCA
1 ATTTTTTTAATTTTAAAGATATTTCA
*
65252136 ATTTTTTTAATTTTAAAGA-ATTTTA
1 ATTTTTTTAATTTTAAAGATATTTCA
65252161 ATTTTTT
1 ATTTTTT
65252168 AAAATAATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 12 0.43
26 16 0.57
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (26 bp):
ATTTTTTTAATTTTAAAGATATTTCA
Found at i:65253087 original size:15 final size:16
Alignment explanation
Indices: 65253059--65253091 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
65253049 ATATTTTATC
*
65253059 TATTTTTTGGATTTTT
1 TATTTTTTGAATTTTT
65253075 TATTTTTT-AATTTTT
1 TATTTTTTGAATTTTT
65253090 TA
1 TA
65253092 CAATTGACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (16 bp):
TATTTTTTGAATTTTT
Found at i:65255059 original size:21 final size:21
Alignment explanation
Indices: 65254994--65255064 Score: 74
Period size: 21 Copynumber: 3.4 Consensus size: 21
65254984 AATCAAGCTT
*
65254994 AATATTATTATATTGATAATAA
1 AATATTATTATATTAAT-ATAA
* *
65255016 AAT-TTATTTTTATTATTA-AA
1 AATATTA-TTATATTAATATAA
*
65255036 AATATTAATATATTAATATAA
1 AATATTATTATATTAATATAA
65255057 AATATTAT
1 AATATTAT
65255065 ATTTTTCAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
20 13 0.33
21 16 0.41
22 10 0.26
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (21 bp):
AATATTATTATATTAATATAA
Found at i:65255639 original size:13 final size:13
Alignment explanation
Indices: 65255621--65255645 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65255611 GTAAGTGATT
65255621 TTGATGATTTTTC
1 TTGATGATTTTTC
65255634 TTGATGATTTTT
1 TTGATGATTTTT
65255646 ACACTTTTGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.04, G:0.16, T:0.64
Consensus pattern (13 bp):
TTGATGATTTTTC
Found at i:65256667 original size:42 final size:43
Alignment explanation
Indices: 65256611--65256697 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 43
65256601 ATATATATGA
* * *
65256611 AGCATCTGAGCTCGTTGAA-GGTCCGAGTTCATTATGGATGCG
1 AGCATCCGAACTCGTTGAATGGTCCGAGTTCATAATGGATGCG
*
65256653 AGCATCCGAACTCGTTGAATTGGTCTGAGTTCATAATGGATGCG
1 AGCATCCGAACTCGTTGAA-TGGTCCGAGTTCATAATGGATGCG
65256697 A
1 A
65256698 TACATGTAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
42 17 0.44
44 22 0.56
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (43 bp):
AGCATCCGAACTCGTTGAATGGTCCGAGTTCATAATGGATGCG
Found at i:65262897 original size:19 final size:19
Alignment explanation
Indices: 65262857--65262910 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
65262847 TATAATAGTT
* *
65262857 AAAATAAATAAAGAAAATA
1 AAAAGAAATAAAGAAAAGA
65262876 AAAAGAAATAAA-ATAAAGA
1 AAAAGAAATAAAGA-AAAGA
*
65262895 AAAAGGAAAGAAAGAA
1 AAAA-GAAATAAAGAA
65262911 GGACGAAACA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 1 0.03
19 19 0.66
20 8 0.28
21 1 0.03
ACGTcount: A:0.78, C:0.00, G:0.13, T:0.09
Consensus pattern (19 bp):
AAAAGAAATAAAGAAAAGA
Found at i:65269965 original size:22 final size:23
Alignment explanation
Indices: 65269939--65269987 Score: 82
Period size: 22 Copynumber: 2.2 Consensus size: 23
65269929 AAAACAGAAC
*
65269939 AGGGAAAGAAAGAAAGAAAAAA-
1 AGGGAAAAAAAGAAAGAAAAAAT
65269961 AGGGAAAAAAAGAAAGAAAAAAT
1 AGGGAAAAAAAGAAAGAAAAAAT
65269984 AGGG
1 AGGG
65269988 TTTTGGGGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 21 0.84
23 4 0.16
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.02
Consensus pattern (23 bp):
AGGGAAAAAAAGAAAGAAAAAAT
Found at i:65270391 original size:6 final size:6
Alignment explanation
Indices: 65270380--65270418 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
65270370 TATGTACCAC
* *
65270380 TACTGT TACTGT TACTGT TACTGT TACTAT TTCTGT TAC
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTGT TAC
65270419 GGTGTACTCC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.18, C:0.18, G:0.13, T:0.51
Consensus pattern (6 bp):
TACTGT
Found at i:65273885 original size:20 final size:21
Alignment explanation
Indices: 65273860--65273898 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
65273850 ATTCAGTCGA
65273860 AGATAATTA-ATTATTTAACT
1 AGATAATTAGATTATTTAACT
*
65273880 AGATAATTAGTTTATTTAA
1 AGATAATTAGATTATTTAA
65273899 TCGATTATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.46
Consensus pattern (21 bp):
AGATAATTAGATTATTTAACT
Found at i:65289439 original size:21 final size:21
Alignment explanation
Indices: 65289415--65289455 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
65289405 TGAGAAAGGT
65289415 TTGTAGTTAATGTGAAATTGC
1 TTGTAGTTAATGTGAAATTGC
65289436 TTGTAGTTAATGTGAAATTG
1 TTGTAGTTAATGTGAAATTG
65289456 GTTGATTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.02, G:0.24, T:0.44
Consensus pattern (21 bp):
TTGTAGTTAATGTGAAATTGC
Found at i:65289490 original size:17 final size:18
Alignment explanation
Indices: 65289458--65289491 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
65289448 TGAAATTGGT
65289458 TGATTTATACTTATTTAA
1 TGATTTATACTTATTTAA
*
65289476 TGATTTA-AGTTATTTA
1 TGATTTATACTTATTTA
65289492 CATACGAGCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.32, C:0.03, G:0.09, T:0.56
Consensus pattern (18 bp):
TGATTTATACTTATTTAA
Found at i:65290404 original size:55 final size:55
Alignment explanation
Indices: 65290345--65290470 Score: 175
Period size: 55 Copynumber: 2.3 Consensus size: 55
65290335 AGCCTGTGTG
* *
65290345 CAACACTGACTTTAAAACACGGCCATGGCACACGCCCGTGTGGCCTGCCCATGGA
1 CAACACTGACTTTAAAACACGGCCATGACACACGCCCGTGTGGCCTACCCATGGA
* * * *
65290400 CAACATTGACTTTAAAACACGGTCATGACACACGCCCGTGTGGCCTACCCGTGTA
1 CAACACTGACTTTAAAACACGGCCATGACACACGCCCGTGTGGCCTACCCATGGA
65290455 CTAA-ACTGAC-TTAAAA
1 C-AACACTGACTTTAAAA
65290471 TTTTAAGTGC
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
54 6 0.10
55 55 0.87
56 2 0.03
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (55 bp):
CAACACTGACTTTAAAACACGGCCATGACACACGCCCGTGTGGCCTACCCATGGA
Found at i:65291380 original size:47 final size:46
Alignment explanation
Indices: 65291324--65291488 Score: 174
Period size: 47 Copynumber: 3.5 Consensus size: 46
65291314 ACTCTTAGCC
*
65291324 GATGCATGTCCCAGACACGTCTTACACTGGCTATCATCATCGAGGCT
1 GATGCATGTCCCAGACATGTCTTACACTGGCTATCATCATCGA-GCT
* * * *
65291371 GATGCATGTCCCAGACATGCCTTACACTGGC-ACTCATC-TCTACACC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTA-TCATCATCGA-GCT
* * * *
65291417 AATGCCATGTCCCAGATATGGTCTTACACTGGCTCTCATAAT-GTAGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATCATCG-AGCT
65291465 GATGCATGTCCCAGACATGTCTTA
1 GATGCATGTCCCAGACATGTCTTA
65291489 TACTAGCATA
Statistics
Matches: 96, Mismatches: 16, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
46 14 0.15
47 60 0.62
48 20 0.21
49 2 0.02
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTATCATCATCGAGCT
Found at i:65291472 original size:94 final size:91
Alignment explanation
Indices: 65291231--65291496 Score: 272
Period size: 94 Copynumber: 2.9 Consensus size: 91
65291221 TAAGTTGTCG
* * * *
65291231 ATGCCATGTCCCAGACATGGTCTTATACTAGCTCTCGGATATACATGCTGATGCATGTCCTC-GA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC--ATAT-GAGGCTGATGCATGTCC-CAGA
* * * *
65291295 TATGTCTTACACTAGCACGACTCTTAGCCG
62 CATGTCTTACACTAGCACCACTCTTAACCA
* *
65291325 ATG-CATGTCCCAGACA-CGTCTTACACTGGCTATCATCATCGAGGCTGATGCATGTCCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-AT-GAGGCTGATGCATGTCCCAGACA
* *
65291388 TGCCTTACACTGGCACTCA-TCTCTACACCA
64 TGTCTTACACTAGCAC-CACTCT-TA-ACCA
*
65291418 ATGCCATGTCCCAGATATGGTCTTACACTGGCTCTCATAATGTA-GCTGATGCATGTCCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATG-AGGCTGATGCATGTCCCAGACA
*
65291482 TGTCTTATACTAGCA
64 TGTCTTACACTAGCA
65291497 TACAAGAAAT
Statistics
Matches: 144, Mismatches: 20, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
90 3 0.02
91 37 0.26
92 17 0.12
93 18 0.12
94 48 0.33
95 21 0.15
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (91 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATGAGGCTGATGCATGTCCCAGACATG
TCTTACACTAGCACCACTCTTAACCA
Found at i:65292825 original size:13 final size:13
Alignment explanation
Indices: 65292807--65292834 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
65292797 TTCCCTGGTG
65292807 TTGTATTGAATGA
1 TTGTATTGAATGA
65292820 TTGTATTGAATGA
1 TTGTATTGAATGA
65292833 TT
1 TT
65292835 TATGAGAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (13 bp):
TTGTATTGAATGA
Found at i:65295769 original size:28 final size:27
Alignment explanation
Indices: 65295712--65295863 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
65295702 TAAATTGTGC
*
65295712 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
65295739 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
65295767 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
65295794 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
65295822 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
65295849 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
65295864 GACTTAATAT
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:65295776 original size:55 final size:55
Alignment explanation
Indices: 65295712--65295863 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
65295702 TAAATTGTGC
*
65295712 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
65295767 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
65295822 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
65295864 GACTTAATAT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:65300961 original size:40 final size:40
Alignment explanation
Indices: 65300865--65301088 Score: 240
Period size: 40 Copynumber: 5.7 Consensus size: 40
65300855 TTGAATGCTG
* * * * *
65300865 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
65300905 TCC-GGATAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
65300944 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* **
65300984 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
65301024 TCCGGGTTATGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
65301063 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
65301089 AACGAGGAGC
Statistics
Matches: 160, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
39 57 0.36
40 103 0.64
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:65301106 original size:79 final size:80
Alignment explanation
Indices: 65300939--65301121 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
65300929 GTGCGAGATA
* * *
65300939 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
65301004 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
65301019 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
65301083 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
65301098 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
65301122 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:65319372 original size:28 final size:27
Alignment explanation
Indices: 65319315--65319466 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
65319305 TAAATTGTGC
*
65319315 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
65319342 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
65319370 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
65319397 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
65319425 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
65319452 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
65319467 GACTTAATAT
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:65319379 original size:55 final size:55
Alignment explanation
Indices: 65319315--65319466 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
65319305 TAAATTGTGC
*
65319315 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
65319370 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
65319425 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
65319467 GACTTAATAT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:65327313 original size:28 final size:27
Alignment explanation
Indices: 65327256--65327407 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
65327246 TAAATTGTGC
* *
65327256 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
65327283 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
65327311 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
65327338 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* *
65327366 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
65327393 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
65327408 GACTTAATAA
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 67 0.56
28 52 0.44
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:65327321 original size:55 final size:55
Alignment explanation
Indices: 65327256--65327407 Score: 250
Period size: 55 Copynumber: 2.8 Consensus size: 55
65327246 TAAATTGTGC
* *
65327256 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* *
65327311 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* *
65327366 AGCACTAAGTGTGCGAGTTGATTATATAGCACTAAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
65327408 GACTTAATAA
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 91 1.00
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
Found at i:65329716 original size:5 final size:5
Alignment explanation
Indices: 65329706--65329741 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
65329696 TTTTTTACAC
65329706 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT T
1 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT T
65329742 TAGAACACTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TAAAT
Found at i:65330090 original size:9 final size:9
Alignment explanation
Indices: 65330076--65330116 Score: 64
Period size: 9 Copynumber: 4.4 Consensus size: 9
65330066 ATTAATATTT
65330076 TAATTAAAC
1 TAATTAAAC
65330085 TAATTAAAC
1 TAATTAAAC
*
65330094 TAACTAAAC
1 TAATTAAAC
65330103 TAACTTAAAC
1 TAA-TTAAAC
65330113 TAAT
1 TAAT
65330117 GGACTTTCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
9 21 0.72
10 8 0.28
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.32
Consensus pattern (9 bp):
TAATTAAAC
Found at i:65336125 original size:6 final size:6
Alignment explanation
Indices: 65336106--65336149 Score: 70
Period size: 6 Copynumber: 7.0 Consensus size: 6
65336096 TTAAATCCTC
65336106 TTATCTT TTCATTT TTATTT TTATTT TTATTT TTATTT TTATTT
1 TTAT-TT TT-ATTT TTATTT TTATTT TTATTT TTATTT TTATTT
65336150 CAATTTTATT
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
6 28 0.78
7 6 0.17
8 2 0.06
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.80
Consensus pattern (6 bp):
TTATTT
Found at i:65336155 original size:12 final size:12
Alignment explanation
Indices: 65336112--65336156 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
65336102 CCTCTTATCT
65336112 TTTC-ATTTTTA
1 TTTCTATTTTTA
*
65336123 TTTTTATTTTTA
1 TTTCTATTTTTA
*
65336135 TTTTTATTTTTA
1 TTTCTATTTTTA
*
65336147 TTTCAATTTT
1 TTTCTATTTT
65336157 ATTATTTTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
11 3 0.10
12 27 0.90
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTCTATTTTTA
Found at i:65336155 original size:18 final size:17
Alignment explanation
Indices: 65336112--65336159 Score: 69
Period size: 18 Copynumber: 2.8 Consensus size: 17
65336102 CCTCTTATCT
65336112 TTTCATTTTTATTTTTA
1 TTTCATTTTTATTTTTA
*
65336129 TTTTTATTTTTATTTTTA
1 -TTTCATTTTTATTTTTA
*
65336147 TTTCAATTTTATT
1 TTTCATTTTTATT
65336160 ATTTTCTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 11 0.41
18 16 0.59
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTCATTTTTATTTTTA
Found at i:65340037 original size:17 final size:17
Alignment explanation
Indices: 65340010--65340042 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
65340000 TCACTACATT
65340010 TTTATTTCACATATTCAC
1 TTTATTTCACA-ATTCAC
65340028 TTTA-TTCACAATTCA
1 TTTATTTCACAATTCA
65340043 TAAAATACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 6 0.40
18 4 0.27
ACGTcount: A:0.30, C:0.21, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTATTTCACAATTCAC
Found at i:65342384 original size:22 final size:21
Alignment explanation
Indices: 65342356--65342396 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
65342346 AATGATTTTT
65342356 AATATTTTATAATATAAAATTA
1 AATATTTTAT-ATATAAAATTA
*
65342378 AATATTTTATATTTAAAAT
1 AATATTTTATATATAAAAT
65342397 AGTGAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AATATTTTATATATAAAATTA
Found at i:65346361 original size:13 final size:13
Alignment explanation
Indices: 65346345--65346369 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65346335 TAGGCCACAT
65346345 GGCCGTGTCCCTA
1 GGCCGTGTCCCTA
65346358 GGCCGTGTCCCT
1 GGCCGTGTCCCT
65346370 CACACGGTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.04, C:0.40, G:0.32, T:0.24
Consensus pattern (13 bp):
GGCCGTGTCCCTA
Found at i:65349061 original size:16 final size:17
Alignment explanation
Indices: 65349030--65349063 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
65349020 TTTAATGTGA
65349030 TCCAAATATCATATTTT
1 TCCAAATATCATATTTT
*
65349047 TCCAAA-ATTATATTTT
1 TCCAAATATCATATTTT
65349063 T
1 T
65349064 GCACCTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.35, C:0.15, G:0.00, T:0.50
Consensus pattern (17 bp):
TCCAAATATCATATTTT
Found at i:65359101 original size:17 final size:17
Alignment explanation
Indices: 65359079--65359117 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
65359069 TATAATTAAT
65359079 TTTAAAAGTTTAATATA
1 TTTAAAAGTTTAATATA
*
65359096 TTTAAAATTTTAATATA
1 TTTAAAAGTTTAATATA
*
65359113 CTTAA
1 TTTAA
65359118 TATATATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (17 bp):
TTTAAAAGTTTAATATA
Found at i:65359197 original size:58 final size:58
Alignment explanation
Indices: 65359088--65359199 Score: 136
Period size: 58 Copynumber: 1.9 Consensus size: 58
65359078 TTTTAAAAGT
* * * * * * *
65359088 TTAATATATTTAAAATTTTAATATACTTAATATATATTTTTAATAGGTAAAAAAATTC
1 TTAATATATTTAAAATTTTAAAAAACTTAATAAAAAATTTAAATAAGTAAAAAAATTC
*
65359146 TTAATATATTTAAAATTTTAAAAAACTTAA-AAAAAATTTAAATATATTAAAAAA
1 TTAATATATTTAAAATTTTAAAAAACTTAATAAAAAATTTAAATA-AGTAAAAAA
65359200 TGTTAAGTAT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
57 10 0.22
58 35 0.78
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.42
Consensus pattern (58 bp):
TTAATATATTTAAAATTTTAAAAAACTTAATAAAAAATTTAAATAAGTAAAAAAATTC
Found at i:65359238 original size:72 final size:72
Alignment explanation
Indices: 65359141--65359304 Score: 224
Period size: 72 Copynumber: 2.3 Consensus size: 72
65359131 TAGGTAAAAA
*
65359141 AATTCTTAATATATTTAA-AATTTTAAAAAACTTAAAAAAAATTTAAATATATTAAAAAATG-TT
1 AATT-TTAATAT-TTTAATATTTTTAAAAAACTTAAAAAAAA-TTAAATATATTAAAAAATGTTT
65359204 AAGTATAACC
63 AAGTATAACC
* * * **
65359214 AATTTTAATATTTTAATATTTTTAATATATTTTTAAAAAATTAAATATATTAAAAAATGTTTAAG
1 AATTTTAATATTTTAATATTTTTAAAAAACTTAAAAAAAATTAAATATATTAAAAAATGTTTAAG
65359279 TATAACC
66 TATAACC
*
65359286 AATTTTAAAATTTTAATAT
1 AATTTTAATATTTTAATAT
65359305 ATTCAATATA
Statistics
Matches: 82, Mismatches: 7, Indels: 5
0.87 0.07 0.05
Matches are distributed among these distances:
71 24 0.29
72 54 0.66
73 4 0.05
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (72 bp):
AATTTTAATATTTTAATATTTTTAAAAAACTTAAAAAAAATTAAATATATTAAAAAATGTTTAAG
TATAACC
Found at i:65359252 original size:71 final size:73
Alignment explanation
Indices: 65359177--65359326 Score: 250
Period size: 72 Copynumber: 2.1 Consensus size: 73
65359167 AAAACTTAAA
* * *
65359177 AAAAATTTAAATATATTAAAAAATG-TTAAGTATAACCAATTTTAATATTTTAATATTTTTAATA
1 AAAAATTTAAATATATTAAAAAATGTTTAAGTATAACCAATTTTAAAATTTTAATATATTCAATA
65359241 TA-TTTTT
66 TATTTTTT
*
65359248 AAAAAATTAAATATATTAAAAAATGTTTAAGTATAACCAATTTTAAAATTTTAATATATTCAATA
1 AAAAATTTAAATATATTAAAAAATGTTTAAGTATAACCAATTTTAAAATTTTAATATATTCAATA
65359313 TATTTTTT
66 TATTTTTT
65359321 AAAAAT
1 AAAAAT
65359327 ATATTTTAAA
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
71 24 0.33
72 38 0.53
73 10 0.14
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (73 bp):
AAAAATTTAAATATATTAAAAAATGTTTAAGTATAACCAATTTTAAAATTTTAATATATTCAATA
TATTTTTT
Found at i:65359404 original size:17 final size:17
Alignment explanation
Indices: 65359382--65359443 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
65359372 AGAGAATTTT
65359382 TTTAAATATATTTAAAA
1 TTTAAATATATTTAAAA
* * *
65359399 TTTAAAAAAAATTAAAAAA
1 TTT-AAATATATT-TAAAA
*
65359418 TGTAAATATA-TTAAAA
1 TTTAAATATATTTAAAA
65359434 TTTTAAATAT
1 -TTTAAATAT
65359444 GTTAAAGAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
16 4 0.12
17 12 0.35
18 12 0.35
19 6 0.18
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (17 bp):
TTTAAATATATTTAAAA
Found at i:65360588 original size:12 final size:12
Alignment explanation
Indices: 65360567--65360599 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
65360557 TTGTAAAACA
65360567 TGTTAT-AAAAG
1 TGTTATAAAAAG
65360578 TGTTATAAAAAG
1 TGTTATAAAAAG
*
65360590 TGTTACAAAA
1 TGTTATAAAA
65360600 TATATATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.48, C:0.03, G:0.15, T:0.33
Consensus pattern (12 bp):
TGTTATAAAAAG
Found at i:65374495 original size:57 final size:57
Alignment explanation
Indices: 65374407--65374521 Score: 230
Period size: 57 Copynumber: 2.0 Consensus size: 57
65374397 ACTCAACGTT
65374407 AAAGAGAAAACACTGTCCCAACCACCTATTAAACCCAATAATCCATCCTTCATGGTG
1 AAAGAGAAAACACTGTCCCAACCACCTATTAAACCCAATAATCCATCCTTCATGGTG
65374464 AAAGAGAAAACACTGTCCCAACCACCTATTAAACCCAATAATCCATCCTTCATGGTG
1 AAAGAGAAAACACTGTCCCAACCACCTATTAAACCCAATAATCCATCCTTCATGGTG
65374521 A
1 A
65374522 TCCCCCAACA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.39, C:0.30, G:0.10, T:0.21
Consensus pattern (57 bp):
AAAGAGAAAACACTGTCCCAACCACCTATTAAACCCAATAATCCATCCTTCATGGTG
Found at i:65377382 original size:26 final size:26
Alignment explanation
Indices: 65377353--65377460 Score: 155
Period size: 26 Copynumber: 4.2 Consensus size: 26
65377343 TGGTACAAAT
*
65377353 TGATAAT-GAGTTAGGTAAATGTTTCA
1 TGATAATGGA-TTAGGTAAATGTTCCA
*
65377379 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
65377405 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
* *
65377431 TGATAATGGTTTAGGTAAATGTCCCA
1 TGATAATGGATTAGGTAAATGTTCCA
65377457 TGAT
1 TGAT
65377461 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
26 73 0.97
27 2 0.03
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:65377418 original size:52 final size:52
Alignment explanation
Indices: 65377353--65377460 Score: 171
Period size: 52 Copynumber: 2.1 Consensus size: 52
65377343 TGGTACAAAT
* *
65377353 TGATAATGAGTTAGGTAAATGTTTCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGAGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATCCCA
* * *
65377405 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTCCCA
1 TGATAATGAGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATCCCA
65377457 TGAT
1 TGAT
65377461 GGGCATTTCA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (52 bp):
TGATAATGAGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATCCCA
Done.