Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008460.1 Hibiscus syriacus cultivar Beakdansim tig00111273_pilon, whole genome shotgun sequence
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: 2854393
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 15
Found at i:355111 original size:21 final size:21
Alignment explanation
Indices: 355067--355142 Score: 93
Period size: 21 Copynumber: 3.7 Consensus size: 21
355057 TCTGAAACTT
*
355067 AAAATCGCAACGCGAA-AT-G
1 AAAATCGCAACGCGAATTTGG
355086 AAAATCGCAACGCGAATTTGG
1 AAAATCGCAACGCGAATTTGG
* * *
355107 AAAATCGTAATGCGAATTAGG
1 AAAATCGCAACGCGAATTTGG
*
355128 AAAATCGCAATGCGA
1 AAAATCGCAACGCGA
355143 TTTACATATT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
19 16 0.32
20 1 0.02
21 33 0.66
ACGTcount: A:0.43, C:0.17, G:0.22, T:0.17
Consensus pattern (21 bp):
AAAATCGCAACGCGAATTTGG
Found at i:355199 original size:20 final size:20
Alignment explanation
Indices: 355176--355221 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
355166 TGAAAACTGA
* *
355176 GTTGCGAAATTGGAGTTCGC
1 GTTGCGAAATTCGAGATCGC
355196 GTTGCG-AATTCGAGATCGC
1 GTTGCGAAATTCGAGATCGC
355215 GTTGCGA
1 GTTGCGA
355222 TTTTCATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.20, C:0.17, G:0.35, T:0.28
Consensus pattern (20 bp):
GTTGCGAAATTCGAGATCGC
Found at i:355597 original size:20 final size:21
Alignment explanation
Indices: 355572--355624 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 21
355562 CTCTAAGAGA
355572 TGGAGAT-AGACGAATTTCGC
1 TGGAGATGAGACGAATTTCGC
* *
355592 TGGAGATGGGGACGAATTTCGT
1 TGGAGAT-GAGACGAATTTCGC
355614 TGGAGATGAGA
1 TGGAGATGAGA
355625 ACGGATGTCG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 7 0.25
21 3 0.11
22 18 0.64
ACGTcount: A:0.28, C:0.09, G:0.38, T:0.25
Consensus pattern (21 bp):
TGGAGATGAGACGAATTTCGC
Found at i:355608 original size:22 final size:22
Alignment explanation
Indices: 355580--355621 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
355570 GATGGAGATA
355580 GACGAATTTCGCTGGAGATGGG
1 GACGAATTTCGCTGGAGATGGG
*
355602 GACGAATTTCGTTGGAGATG
1 GACGAATTTCGCTGGAGATG
355622 AGAACGGATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.24, C:0.12, G:0.38, T:0.26
Consensus pattern (22 bp):
GACGAATTTCGCTGGAGATGGG
Found at i:355813 original size:20 final size:20
Alignment explanation
Indices: 355788--355833 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
355778 ACGCGCTTTG
*
355788 CGAATTTGACTTCTGTGTTA
1 CGAATTTGACTTATGTGTTA
*
355808 CGAATTTGACTTATGTGTTG
1 CGAATTTGACTTATGTGTTA
355828 CGAATT
1 CGAATT
355834 ACAAATTCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.22, C:0.13, G:0.22, T:0.43
Consensus pattern (20 bp):
CGAATTTGACTTATGTGTTA
Found at i:355847 original size:20 final size:20
Alignment explanation
Indices: 355824--355986 Score: 263
Period size: 20 Copynumber: 8.2 Consensus size: 20
355814 TGACTTATGT
* * *
355824 GTTGCGAATTACAAATTCAC
1 GTTGCGATTTACAGATTCGC
* *
355844 GTTGCGATTTACAGGTTCTC
1 GTTGCGATTTACAGATTCGC
355864 GTTGCGATTTACAGATTCGC
1 GTTGCGATTTACAGATTCGC
355884 GTTGCGATTTACAGATTCGC
1 GTTGCGATTTACAGATTCGC
355904 GTTGCGATTTACAGATTCGC
1 GTTGCGATTTACAGATTCGC
355924 GTTGCGATTTACAGATTCGC
1 GTTGCGATTTACAGATTCGC
*
355944 GTTGCGATTTACAGATTCGT
1 GTTGCGATTTACAGATTCGC
*
355964 GTTGCGATTTACATATTCGC
1 GTTGCGATTTACAGATTCGC
355984 GTT
1 GTT
355987 ACGAATTTGG
Statistics
Matches: 134, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 134 1.00
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACAGATTCGC
Found at i:356610 original size:35 final size:35
Alignment explanation
Indices: 356559--356630 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
356549 AATTGGTAAC
*
356559 GCTTTCATATAGGCTCGAGTGAAAACATTTCACAG
1 GCTTCCATATAGGCTCGAGTGAAAACATTTCACAG
*
356594 GCTTCCATATAGGCTCGATTGAAAACATTTCACAG
1 GCTTCCATATAGGCTCGAGTGAAAACATTTCACAG
356629 GC
1 GC
356631 AGCTAGTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (35 bp):
GCTTCCATATAGGCTCGAGTGAAAACATTTCACAG
Found at i:357474 original size:2 final size:2
Alignment explanation
Indices: 357469--357504 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
357459 AATTATTAAG
357469 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
357505 GTGTGTGTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:357798 original size:43 final size:44
Alignment explanation
Indices: 357723--357841 Score: 131
Period size: 43 Copynumber: 2.8 Consensus size: 44
357713 GATAACAAAT
* *
357723 AATAA-ATAAATATTAAATAAATC-AAAGG-AAAAAGA-GAAAA
1 AATAATATAAAAATAAAATAAATCAAAAGGAAAAAAGATGAAAA
*
357763 AATAATATAAAAATAAAATAAATCAAAAGGAAAAAATATGAAAA
1 AATAATATAAAAATAAAATAAATCAAAAGGAAAAAAGATGAAAA
* * ** *
357807 AAAAAT-TAAAAACAAAATATGTCAAAAGAAAAAAA
1 AATAATATAAAAATAAAATAAATCAAAAGGAAAAAA
357842 TATTAAATAA
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
40 5 0.07
41 16 0.24
42 5 0.07
43 31 0.46
44 10 0.15
ACGTcount: A:0.72, C:0.03, G:0.08, T:0.17
Consensus pattern (44 bp):
AATAATATAAAAATAAAATAAATCAAAAGGAAAAAAGATGAAAA
Found at i:357861 original size:43 final size:42
Alignment explanation
Indices: 357737--357861 Score: 117
Period size: 43 Copynumber: 3.0 Consensus size: 42
357727 AATAAATATT
* * * ** *
357737 AAATAAATCAAAGGAAAAAGAGAAAAAAT-AATATAAAAATA
1 AAATAAATCAAAAGAAAAAAATATGAAATAAATATAAAAACA
* * *
357778 AAATAAATCAAAAGGAAAAAATATGAAAAAAAAATTAAAAACA
1 AAATAAATCAAAAGAAAAAAATATGAAATAAATA-TAAAAACA
** *
357821 AAATATGTCAAAAGAAAAAAATATTAAATAAATATGAAAAA
1 AAATAAATCAAAAGAAAAAAATATGAAATAAATAT-AAAAA
357862 ATATTAATAT
Statistics
Matches: 66, Mismatches: 15, Indels: 4
0.78 0.18 0.05
Matches are distributed among these distances:
41 22 0.33
42 4 0.06
43 40 0.61
ACGTcount: A:0.72, C:0.03, G:0.08, T:0.17
Consensus pattern (42 bp):
AAATAAATCAAAAGAAAAAAATATGAAATAAATATAAAAACA
Found at i:357977 original size:6 final size:7
Alignment explanation
Indices: 357926--357996 Score: 54
Period size: 7 Copynumber: 9.3 Consensus size: 7
357916 TAATAATAAT
357926 AATAAAA
1 AATAAAA
357933 GAATAAAA
1 -AATAAAA
357941 AATATATAA
1 AATA-A-AA
*
357950 AA-AATA
1 AATAAAA
*
357956 TATAAAAA
1 AAT-AAAA
357964 AATAAAA
1 AATAAAA
357971 AATAAAA
1 AATAAAA
357978 AATGAAATA
1 AAT-AAA-A
357987 GAATAAAA
1 -AATAAAA
357995 AA
1 AA
357997 ATAATAAAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 15
0.73 0.06 0.21
Matches are distributed among these distances:
6 2 0.04
7 21 0.40
8 18 0.35
9 8 0.15
10 3 0.06
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.18
Consensus pattern (7 bp):
AATAAAA
Found at i:358004 original size:11 final size:11
Alignment explanation
Indices: 357920--358006 Score: 65
Period size: 11 Copynumber: 8.0 Consensus size: 11
357910 TAGTAATAAT
*
357920 AATAATAATAA
1 AATAATAAAAA
*
357931 AAGAAT-AAAA
1 AATAATAAAAA
357941 AAT-ATATAAAA
1 AATAATA-AAAA
357952 AATATATAAAAA
1 AATA-ATAAAAA
357964 AATAA-AAAATA
1 AATAATAAAA-A
* *
357975 AAAAAT-GAAA
1 AATAATAAAAA
* *
357985 TAGAATAAAAA
1 AATAATAAAAA
357996 AATAATAAAAA
1 AATAATAAAAA
358007 GGGGGTTAAA
Statistics
Matches: 59, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
9 2 0.03
10 14 0.24
11 32 0.54
12 8 0.14
13 3 0.05
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (11 bp):
AATAATAAAAA
Found at i:360446 original size:83 final size:83
Alignment explanation
Indices: 359982--361148 Score: 1569
Period size: 83 Copynumber: 13.9 Consensus size: 83
359972 CAAATTTGAC
* * * * ** *
359982 ATGCCCTTGAGTTGAGTGTAATCGAACTCGAAGATCTTGGTTGACAGATAACCCTTCTTACTTTG
1 ATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTG
* * *
360047 AGCTATGTTGTAAATTTTAT
66 AGTTATGCTGTAAA--TGAT
* *
360067 ATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTTGCCTTG
1 ATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTG
** *
360132 AACTATGCTATAAATTTGAT
66 AGTTATGCTGTAAA--TGAT
* * * * *
360152 GTGCCCTTGAGCTGAATGTAATCGAACTCGAATGCCTTTTGTTGACAGATAACCCTTCTCGCCTT
1 ATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTTGACAGATAACCCTTCTCGCCTT
* *
360217 GAGCTATGCTATAAATTTGAT
65 GAGTTATGCTGTAAA--TGAT
* * * * * *
360238 GTGCCTTTGAGCTGAGTGTAATCAAACCCGAAGGTCTTGGTTGACAGACATCCCTTCTCGCCTTG
1 ATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTG
* *
360303 AGCTATACTGTAAATTTGAT
66 AGTTATGCTGTAAA--TGAT
* * * *
360323 GTACCTTTGAGCCGAGTGTAATCGAACTCGAAGGTTTTTGTTGACAGATAACCCTTCTCGCCTTG
1 ATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTG
*
360388 AGTTATGATGTAAATGAT
66 AGTTATGCTGTAAATGAT
* * * * * *
360406 ATGCATTTGAGTTGAGTGTAATTGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTCTCATTG
1 ATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTG
360471 AGTTATGCTGTAAATGAT
66 AGTTATGCTGTAAATGAT
* * *
360489 ATGCCTTTGAGCTGAGTGTAATCAAACTCGAAGGTCTTTGTTGACATATAATCCTTCTCGCCTTG
1 ATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTG
360554 AGTTATGCTGTAAATGAT
66 AGTTATGCTGTAAATGAT
* * * *
360572 ATGCCTTTGAACTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCACTTTG
1 ATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTG
* *
360637 AGCTATTCTGTACTAATTGGAT
66 AGTTATGCTGTA--AA-T-GAT
* * * *
360659 GTTCCTTTGAGCTGAGTGTAATCGAACTTGAAGGTCTTTGTTGACAGATAACCCTTCTCTCCTTG
1 ATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTG
360724 AGTTATGCTGTAAATGAT
66 AGTTATGCTGTAAATGAT
* *
360742 ATGCCTTTGAGCTAAGTGTAATCGAACTTGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTG
1 ATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTG
360807 AGTTATGCTGTAAATGAT
66 AGTTATGCTGTAAATGAT
* *
360825 ATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCACCTTG
1 ATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTG
*
360890 AGCTATGCTGTAAATGAT
66 AGTTATGCTGTAAATGAT
360908 ATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTG
1 ATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTG
*
360973 AGTTATGCTATAAATGAT
66 AGTTATGCTGTAAATGAT
* *
360991 ATGCCTTTGAGCTGAGTGTAATCGAACTCGAAAGTCTTTGTTGATAGATAACCCTTCTCGCCTTG
1 ATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTG
* *
361056 AGTTACGTTGTACTAATTGGAT
66 AGTTATGCTGTA--AA-T-GAT
* * * *
361078 GTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACTGATAACCTTTCTCGCCTTG
1 ATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTG
361143 AGTTAT
66 AGTTAT
361149 TATGTACTGA
Statistics
Matches: 971, Mismatches: 102, Indels: 16
0.89 0.09 0.01
Matches are distributed among these distances:
83 529 0.54
84 1 0.00
85 225 0.23
86 78 0.08
87 138 0.14
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (83 bp):
ATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTG
AGTTATGCTGTAAATGAT
Found at i:360701 original size:336 final size:335
Alignment explanation
Indices: 359988--361148 Score: 1623
Period size: 336 Copynumber: 3.4 Consensus size: 335
359978 TGACATGCCC
* * * ** * *
359988 TTGAGTTGAGTGTAATCGAACTCGAAGATCTTGGTTGACAGATAACCCTTCTTACTTTGAGCTAT
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTAT
*
360053 GTTGTAAATTTTATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAA
66 GTTGTAAA-TTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAA
* ** * * *
360118 CCCTTCTTGCCTTGAACTATGCTATAAATTTGATGTGCCCTTGAGCTGAATGTAATCGAACTCGA
130 CCCTTCTCGCCTTGAGTTATGCTGTAAA--TGATATGCCTTTGAGCTGAATGTAATCGAACTCGA
* * * *
360183 ATGCCTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTATAAATTTGATGTGCCTTTGA
193 AGGTC-TTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAA--TGATATGCCTTTGA
* * * * *
360248 GCTGAGTGTAATCAAACCCGAAGGTCTTGGTTGACAGACATCCCTTCTCGCCTTGAGCTATACTG
255 GCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATACTG
360313 TA-AATTTGATGTACCT
320 TATAA-TTGATGTACCT
* *
360329 TTGAGCCGAGTGTAATCGAACTCGAAGGTTTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTAT
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTAT
* * * * * *
360394 GATGTAAA-TGATATGCATTTGAGTTGAGTGTAATTGAACTCGAAGGTCTTTGTTGGCAGATAAC
66 GTTGTAAATTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAAC
* * * *
360458 CCTTCTCTCATTGAGTTATGCTGTAAATGATATGCCTTTGAGCTGAGTGTAATCAAACTCGAAGG
131 CCTTCTCGCCTTGAGTTATGCTGTAAATGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGG
* * * * *
360523 TCTTTGTTGACATATAATCCTTCTCGCCTTGAGTTATGCTGTAAATGATATGCCTTTGAACTGAA
196 TCTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATGATATGCCTTTGAGCTGAG
* * *
360588 TGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCACTTTGAGCTATTCTGTACTAA
261 TGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATACTGTA-TAA
*
360653 TTGGATGTTCCT
325 TT-GATGTACCT
* *
360665 TTGAGCTGAGTGTAATCGAACTTGAAGGTCTTTGTTGACAGATAACCCTTCTCTCCTTGAGTTAT
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTAT
* * * *
360730 GCTGTAAA-TGATATGCCTTTGAGCTAAGTGTAATCGAACTTGAAGGTCTTTGTTGACAGATAAC
66 GTTGTAAATTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAAC
360794 CCTTCTCGCCTTGAGTTATGCTGTAAATGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGG
131 CCTTCTCGCCTTGAGTTATGCTGTAAATGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGG
*
360859 TCTTTGTTGACAGATAACCCTTCTCACCTTGAGCTATGCTGTAAATGATATGCCTTTGAGCTGAG
196 TCTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATGATATGCCTTTGAGCTGAG
360924 TGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAG-T-TA-TGCTATAA
261 TGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATACTG-TATAA
* * *
360986 ATGATATGCCT
325 TTGATGTACCT
* * *
360997 TTGAGCTGAGTGTAATCGAACTCGAAAGTCTTTGTTGATAGATAACCCTTCTCGCCTTGAGTTAC
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTAT
* *
361062 GTTGTACTAATTGGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACTGAT
66 GTTGTA--AATT-GATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACAGAT
*
361127 AACCTTTCTCGCCTTGAGTTAT
128 AACCCTTCTCGCCTTGAGTTAT
361149 TATGTACTGA
Statistics
Matches: 729, Mismatches: 83, Indels: 21
0.88 0.10 0.03
Matches are distributed among these distances:
332 72 0.10
333 6 0.01
334 75 0.10
335 4 0.01
336 404 0.55
337 34 0.05
339 71 0.10
341 63 0.09
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (335 bp):
TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTAT
GTTGTAAATTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAAC
CCTTCTCGCCTTGAGTTATGCTGTAAATGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGG
TCTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATGATATGCCTTTGAGCTGAG
TGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATACTGTATAAT
TGATGTACCT
Found at i:360784 original size:419 final size:420
Alignment explanation
Indices: 359988--361148 Score: 1720
Period size: 419 Copynumber: 2.8 Consensus size: 420
359978 TGACATGCCC
* * *
359988 TTGAGTTGAGTGTAATCGAACTCGAAGATCTTGGTTGACAGATAACCCTTCT-TACTTTGAGCTA
1 TTGAGTTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCT-CATTGAGCTA
* * *
360052 TGTTGTAAATTTTATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACAGATA
65 TGCTGTAAA--TGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATA
* ** * *
360117 ACCCTTCTTGCCTTGAACTATGCTATAAATTTGATGTGCCCTTGAGCTGAATGTAATCGAACTCG
128 ACCCTTCTCGCCTTGAGTTATGCTATAAA--TGATATGCCTTTGAGCTGAATGTAATCGAACTCG
* * * * *
360182 AATGCCTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTATA--AATTTGATGTGCCTT
191 AAAGTC-TTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATTCTGTACTAATTGGATGTGCCTT
* * * * *
360245 TGAGCTGAGTGTAATCAAACCCGAAGGTCTTGGTTGACAGACATCCCTTCTCGCCTTGAGCTATA
255 TGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCGCCTTGAGTTATA
* * *
360310 CTGTAAATTTGATGTACCTTTGAGCCGAGTGTAATCGAACTCGAAGGTTTTTGTTGACAGATAAC
320 CTGTAAA-TTGATATACCTTTGAGCCAAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAAC
360375 CCTTCTCGCCTTGAGTTATGATGTAAATGATATGCAT
384 CCTTCTCGCCTTGAGTTATGATGTAAATGATATGCAT
* * *
360412 TTGAGTTGAGTGTAATTGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTCTCATTGAGTTAT
1 TTGAGTTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCTCATTGAGCTAT
* * *
360477 GCTGTAAATGATATGCCTTTGAGCTGAGTGTAATCAAACTCGAAGGTCTTTGTTGACATATAATC
66 GCTGTAAATGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACC
* * *
360542 CTTCTCGCCTTGAGTTATGCTGTAAATGATATGCCTTTGAACTGAATGTAATCGAACTCGAAGGT
131 CTTCTCGCCTTGAGTTATGCTATAAATGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAAGT
* * *
360607 CTTTGTTGACAGATAACCCTTCTCACTTTGAGCTATTCTGTACTAATTGGATGTTCCTTTGAGCT
196 CTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATTCTGTACTAATTGGATGTGCCTTTGAGCT
* * * *
360672 GAGTGTAATCGAACTTGAAGGTCTTTGTTGACAGATAACCCTTCTCTCCTTGAGTTATGCTGTAA
261 GAGTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCGCCTTGAGTTATACTGTAA
* * *
360737 A-TGATATGCCTTTGAGCTAAGTGTAATCGAACTTGAAGGTCTTTGTTGACAGATAACCCTTCTC
326 ATTGATATACCTTTGAGCCAAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTC
* *
360801 GCCTTGAGTTATGCTGTAAATGATATGCCT
391 GCCTTGAGTTATGATGTAAATGATATGCAT
* * * *
360831 TTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCACCTTGAGCTAT
1 TTGAGTTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCTCATTGAGCTAT
360896 GCTGTAAATGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACC
66 GCTGTAAATGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACC
*
360961 CTTCTCGCCTTGAGTTATGCTATAAATGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAAGT
131 CTTCTCGCCTTGAGTTATGCTATAAATGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAAGT
* * *
361026 CTTTGTTGATAGATAACCCTTCTCGCCTTGAGTTACGT-TGTACTAATTGGATGTGCCTTTGAGC
196 CTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTA-TTCTGTACTAATTGGATGTGCCTTTGAGC
* *
361090 TGAGTGTAATCGAACTCGAAGGTCTTGGTTGACTGATAACCTTTCTCGCCTTGAGTTAT
260 TGAGTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCGCCTTGAGTTAT
361149 TATGTACTGA
Statistics
Matches: 664, Mismatches: 69, Indels: 13
0.89 0.09 0.02
Matches are distributed among these distances:
419 413 0.62
420 36 0.05
421 76 0.11
422 74 0.11
424 64 0.10
425 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (420 bp):
TTGAGTTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCTCATTGAGCTAT
GCTGTAAATGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACC
CTTCTCGCCTTGAGTTATGCTATAAATGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAAGT
CTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATTCTGTACTAATTGGATGTGCCTTTGAGCT
GAGTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCGCCTTGAGTTATACTGTAA
ATTGATATACCTTTGAGCCAAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTC
GCCTTGAGTTATGATGTAAATGATATGCAT
Found at i:362023 original size:20 final size:20
Alignment explanation
Indices: 361998--362040 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
361988 TGTGAAATTG
361998 ACTATAACAGGTGTTCATTA
1 ACTATAACAGGTGTTCATTA
362018 ACTATAACAGGTGTTCATTA
1 ACTATAACAGGTGTTCATTA
362038 ACT
1 ACT
362041 CCCTTAGTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (20 bp):
ACTATAACAGGTGTTCATTA
Found at i:362331 original size:99 final size:99
Alignment explanation
Indices: 362160--362352 Score: 291
Period size: 99 Copynumber: 1.9 Consensus size: 99
362150 CAACTCAATA
* *
362160 TATAAACACCTTTATCAGGTTAGTTGAATCTTACCCATAAAGCCAGGGCGTTTAACCAATTGACT
1 TATAAACACCTTTATCAGGCTAGCTGAATCTTACCCATAAAGCCAGGGCGTTTAACCAATTGACT
362225 TAGAGGGACAACTCAAGCTTTATTGTATAGATAT
66 TAGAGGGACAACTCAAGCTTTATTGTATAGATAT
* * *
362259 TATAATCACCTTTATTAGGCTAGCTGAATCTTATCCATAAAGCC-GAGGCGTTTAACCAATTG-C
1 TATAAACACCTTTATCAGGCTAGCTGAATCTTACCCATAAAGCCAG-GGCGTTTAACCAATTGAC
* *
362322 TCTAGAGGGATAATTCAAGCTTTATTGTATA
65 T-TAGAGGGACAACTCAAGCTTTATTGTATA
362353 CATAATATTA
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
98 3 0.04
99 82 0.96
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (99 bp):
TATAAACACCTTTATCAGGCTAGCTGAATCTTACCCATAAAGCCAGGGCGTTTAACCAATTGACT
TAGAGGGACAACTCAAGCTTTATTGTATAGATAT
Found at i:365047 original size:43 final size:44
Alignment explanation
Indices: 364979--365071 Score: 120
Period size: 43 Copynumber: 2.1 Consensus size: 44
364969 GTTAAATAAC
* *
364979 AAATAATAAATAAATATTAAATAAATCAAAGGGAAAA-AGAGAAA
1 AAATAATAAATAAATATAAAATAAATCAAAAGGAAAATAGA-AAA
*
365023 AAATAATATAA-AAA-ATAAAATAAATCAAAAGGAAAATATAAAA
1 AAATAATA-AATAAATATAAAATAAATCAAAAGGAAAATAGAAAA
365066 AAATAA
1 AAATAA
365072 AAAGAAAATA
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
43 29 0.66
44 13 0.30
45 2 0.05
ACGTcount: A:0.72, C:0.02, G:0.08, T:0.18
Consensus pattern (44 bp):
AAATAATAAATAAATATAAAATAAATCAAAAGGAAAATAGAAAA
Found at i:365059 original size:21 final size:21
Alignment explanation
Indices: 365020--365082 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
365010 GGAAAAAGAG
365020 AAAAAATAATATAA-AAAATA-A
1 AAAAAATAA-A-AAGAAAATATA
* *
365041 AATAAATCAAAAGGAAAATATA
1 AAAAAAT-AAAAAGAAAATATA
365063 AAAAAATAAAAAGAAAATAT
1 AAAAAATAAAAAGAAAATAT
365083 GTCAAAAGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
20 1 0.03
21 25 0.71
22 9 0.26
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.17
Consensus pattern (21 bp):
AAAAAATAAAAAGAAAATATA
Found at i:365133 original size:24 final size:25
Alignment explanation
Indices: 365106--365155 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
365096 AATATTAAAT
*
365106 AAATATGAAAACAA-AAATAAATAA
1 AAATATGAAAACAACAAAAAAATAA
* *
365130 AAATATTAAAATAACAAAAAAATAA
1 AAATATGAAAACAACAAAAAAATAA
365155 A
1 A
365156 TGAATAAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.18
Consensus pattern (25 bp):
AAATATGAAAACAACAAAAAAATAA
Found at i:365140 original size:18 final size:18
Alignment explanation
Indices: 365093--365153 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 18
365083 GTCAAAAGAA
365093 AAAAATATT-AAATAAAT
1 AAAAATATTAAAATAAAT
*
365110 ATGAAAACA--AAAATAAAT
1 A--AAAATATTAAAATAAAT
*
365128 AAAAATATTAAAATAACAA
1 AAAAATATTAAAATAA-AT
365147 AAAAATA
1 AAAAATA
365154 AATGAATAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
16 5 0.14
17 1 0.03
18 16 0.46
19 13 0.37
ACGTcount: A:0.74, C:0.03, G:0.02, T:0.21
Consensus pattern (18 bp):
AAAAATATTAAAATAAAT
Found at i:365219 original size:41 final size:38
Alignment explanation
Indices: 365145--365233 Score: 94
Period size: 42 Copynumber: 2.3 Consensus size: 38
365135 TTAAAATAAC
* * *
365145 AAAAAAAT-AAATGAATAAAGATAAGTAAATTTG-AGT
1 AAAAAAATGAAATGAATAAAAAAAAGTAAATTTGAAAT
365181 AAAAAAATGAAATAGAATAAAAAAAAAGTTAAATTTTGAAAT
1 AAAAAAATGAAAT-GAAT-AAAAAAAAG-TAAA-TTTGAAAT
365223 AAAAAAA-GAAA
1 AAAAAAATGAAA
365234 AAAATAATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
36 8 0.18
37 4 0.09
38 4 0.09
39 7 0.16
40 4 0.09
41 8 0.18
42 9 0.20
ACGTcount: A:0.67, C:0.00, G:0.11, T:0.21
Consensus pattern (38 bp):
AAAAAAATGAAATGAATAAAAAAAAGTAAATTTGAAAT
Found at i:366470 original size:18 final size:19
Alignment explanation
Indices: 366438--366473 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
366428 CAGTCTTAAA
*
366438 GAATGATCATCTCCTATCT
1 GAATGATCATATCCTATCT
366457 GAAT-ATCATATCCTATC
1 GAATGATCATATCCTATC
366474 ATATATATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.31, C:0.25, G:0.08, T:0.36
Consensus pattern (19 bp):
GAATGATCATATCCTATCT
Found at i:369907 original size:28 final size:28
Alignment explanation
Indices: 369876--369963 Score: 83
Period size: 28 Copynumber: 3.1 Consensus size: 28
369866 GTTATATTAT
369876 ATATATATATATATTATTTTATGTCTTA
1 ATATATATATATATTATTTTATGTCTTA
* * * *
369904 ATATTTTTCTATTTTTATTTATATG--TT-
1 ATATATATATA-TATTATTT-TATGTCTTA
*
369931 ATATTATATATATATTATTTTATTTCTTA
1 ATA-TATATATATATTATTTTATGTCTTA
369960 ATAT
1 ATAT
369964 TTTTCTATTT
Statistics
Matches: 45, Mismatches: 9, Indels: 12
0.68 0.14 0.18
Matches are distributed among these distances:
26 3 0.07
27 10 0.22
28 18 0.40
29 10 0.22
30 4 0.09
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.62
Consensus pattern (28 bp):
ATATATATATATATTATTTTATGTCTTA
Found at i:369925 original size:62 final size:61
Alignment explanation
Indices: 369751--369976 Score: 201
Period size: 56 Copynumber: 3.8 Consensus size: 61
369741 TTTTTTATTA
* * * *
369751 TATTATAATATTTATATATATATATTTTATAGTATTATTA-TTTT-TAGTTTT-TTTATAT-TT
1 TATTAT-ATATATATATATAT-TATTTTAT-GTCTTAATATTTTTCTATTTTTATTTATATGTT
* * * * * *
369811 TATT-TTTACATACATGTATTATTAGTAT-T-TTATTATTTATTC-A-TTTTATTTATATGTT
1 TATTATATATATATATATATTATT-TTATGTCTTAATATTT-TTCTATTTTTATTTATATGTT
369869 ATATTATATATATATATATATTATTTTATGTCTTAATATTTTTCTATTTTTATTTATATG--
1 -TATTATATATATATATATATTATTTTATGTCTTAATATTTTTCTATTTTTATTTATATGTT
*
369929 --TTATAT-TATATATATATTATTTTATTTCTTAATATTTTTCTATTTTTA
1 TATTATATATATATATATATTATTTTATGTCTTAATATTTTTCTATTTTTA
369977 GTCTACAAGC
Statistics
Matches: 141, Mismatches: 13, Indels: 28
0.77 0.07 0.15
Matches are distributed among these distances:
55 6 0.04
56 48 0.34
57 20 0.14
58 14 0.10
59 8 0.06
60 23 0.16
61 9 0.06
62 13 0.09
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (61 bp):
TATTATATATATATATATATTATTTTATGTCTTAATATTTTTCTATTTTTATTTATATGTT
Found at i:369963 original size:18 final size:18
Alignment explanation
Indices: 369886--369973 Score: 60
Period size: 18 Copynumber: 4.8 Consensus size: 18
369876 ATATATATAT
*
369886 ATATTATTTTATGTCTTA
1 ATATTATTTTATTTCTTA
369904 ATATT-TTTCTATTT-TT-
1 ATATTATTT-TATTTCTTA
*
369920 AT-TTATATGTTATATTATATA
1 ATATTAT-T-TTAT-TTCT-TA
369941 TATATTATTTTATTTCTTA
1 -ATATTATTTTATTTCTTA
369960 ATATT-TTTCTATTT
1 ATATTATTT-TATTT
369974 TTAGTCTACA
Statistics
Matches: 57, Mismatches: 2, Indels: 22
0.70 0.02 0.27
Matches are distributed among these distances:
15 2 0.04
16 3 0.05
17 12 0.21
18 22 0.39
19 3 0.05
20 4 0.07
21 4 0.07
22 3 0.05
23 4 0.07
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (18 bp):
ATATTATTTTATTTCTTA
Found at i:370125 original size:52 final size:53
Alignment explanation
Indices: 370034--370135 Score: 120
Period size: 51 Copynumber: 1.9 Consensus size: 53
370024 TTCCCTCGTT
* * *
370034 TTTGTTTATTTATTTTATTTTGATTTATTTTTTCGTA-TTTTATTTATTTATC
1 TTTGTTTATTTATTTTATCTTGATTTATTTTGTCGTATTTTTATTCATTTATC
* *
370086 TTTGTTTCTTTA-TTTATCTT-ATTCTATTTTGTCTTTATTTTTATTCATTT
1 TTTGTTTATTTATTTTATCTTGATT-TATTTTGTC-GTATTTTTATTCATTT
370136 CAGTTTCACT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
50 3 0.07
51 15 0.36
52 13 0.31
53 11 0.26
ACGTcount: A:0.16, C:0.07, G:0.05, T:0.73
Consensus pattern (53 bp):
TTTGTTTATTTATTTTATCTTGATTTATTTTGTCGTATTTTTATTCATTTATC
Found at i:370222 original size:14 final size:14
Alignment explanation
Indices: 370203--370238 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
370193 TTGTTATTTA
370203 TTTATTTT-CTCTTC
1 TTTATTTTACT-TTC
370217 TTTATTTTACTTTC
1 TTTATTTTACTTTC
370231 TTTATTTT
1 TTTATTTT
370239 TAATTTATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 19 0.90
15 2 0.10
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.75
Consensus pattern (14 bp):
TTTATTTTACTTTC
Found at i:374004 original size:30 final size:31
Alignment explanation
Indices: 373965--374031 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 31
373955 AGAGGACCTA
* * *
373965 TCCAGAGGTCATAAAGAACCTCGG-AAAATG
1 TCCATAGGTCACAAAGAACCTAGGTAAAATG
* *
373995 TCCATAGGTCCCGAAGAACCTAGGTAAAATG
1 TCCATAGGTCACAAAGAACCTAGGTAAAATG
374026 TCCATA
1 TCCATA
374032 TGTTCCTTAG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
30 19 0.61
31 12 0.39
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.19
Consensus pattern (31 bp):
TCCATAGGTCACAAAGAACCTAGGTAAAATG
Found at i:374044 original size:31 final size:31
Alignment explanation
Indices: 373978--374071 Score: 100
Period size: 31 Copynumber: 3.1 Consensus size: 31
373968 AGAGGTCATA
* *
373978 AAGAACCTCGG-AAAATGTCCATAGGTCCCG
1 AAGAACCTAGGTAAAATGTCCATATGTCCCG
* *
374008 AAGAACCTAGGTAAAATGTCCATATGTTCCT
1 AAGAACCTAGGTAAAATGTCCATATGTCCCG
* * * * *
374039 TAGAACATAGGTATACTGTCCATATATCCCG
1 AAGAACCTAGGTAAAATGTCCATATGTCCCG
374070 AA
1 AA
374072 AGATAGGTAA
Statistics
Matches: 51, Mismatches: 12, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
30 10 0.20
31 41 0.80
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.24
Consensus pattern (31 bp):
AAGAACCTAGGTAAAATGTCCATATGTCCCG
Found at i:374112 original size:32 final size:32
Alignment explanation
Indices: 373993--374113 Score: 97
Period size: 31 Copynumber: 3.9 Consensus size: 32
373983 CCTCGGAAAA
** * * *
373993 TGTCCATAGGTCCCGAAGAACCTAGGTAA-AA
1 TGTCCATATATCCCGTAGAACATAGGTAATAC
* * *
374024 TGTCCATATGTTCCTTAGAACATAGGT-ATAC
1 TGTCCATATATCCCGTAGAACATAGGTAATAC
* *
374055 TGTCCATATATCCCG-A-AAGATAGGTAATTC
1 TGTCCATATATCCCGTAGAACATAGGTAATAC
* **
374085 TGTTCATATATTTCGTAGAACATAGGTAA
1 TGTCCATATATCCCGTAGAACATAGGTAA
374114 ACCCTCGACT
Statistics
Matches: 71, Mismatches: 15, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
29 8 0.11
30 17 0.24
31 36 0.51
32 10 0.14
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (32 bp):
TGTCCATATATCCCGTAGAACATAGGTAATAC
Found at i:374500 original size:2 final size:2
Alignment explanation
Indices: 374410--374487 Score: 147
Period size: 2 Copynumber: 38.5 Consensus size: 2
374400 CACATAAACC
374410 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
374452 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TCA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA T
374488 TGTTCACATA
Statistics
Matches: 75, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 73 0.97
3 2 0.03
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:374783 original size:19 final size:20
Alignment explanation
Indices: 374742--374785 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
374732 GTCATGTAAG
* * *
374742 CATGTATGTCATATCTTATT
1 CATGTATGTCATATATAAAT
374762 CATGTAT-TCATATATAAAT
1 CATGTATGTCATATATAAAT
374781 CATGT
1 CATGT
374786 CACATAAGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.32, C:0.14, G:0.09, T:0.45
Consensus pattern (20 bp):
CATGTATGTCATATATAAAT
Found at i:376210 original size:15 final size:17
Alignment explanation
Indices: 376190--376224 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
376180 ATTCCTTGCA
376190 TTATA-TTT-CATGTTT
1 TTATATTTTCCATGTTT
376205 TTATATTTTCCATGTTT
1 TTATATTTTCCATGTTT
376222 TTA
1 TTA
376225 CATTCATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.28
16 3 0.17
17 10 0.56
ACGTcount: A:0.20, C:0.09, G:0.06, T:0.66
Consensus pattern (17 bp):
TTATATTTTCCATGTTT
Found at i:377891 original size:21 final size:21
Alignment explanation
Indices: 377865--377925 Score: 86
Period size: 21 Copynumber: 2.9 Consensus size: 21
377855 TGAGGGTTTT
377865 ATAGGTCCTTCGGGACAACTC
1 ATAGGTCCTTCGGGACAACTC
*
377886 ATAGGTCCTTCGGGACATATTC
1 ATAGGTCCTTCGGGACA-ACTC
* *
377908 ACATGTCCTTCGGGACAA
1 ATAGGTCCTTCGGGACAA
377926 AAATTTCGTA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 18 0.50
22 18 0.50
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (21 bp):
ATAGGTCCTTCGGGACAACTC
Found at i:377918 original size:22 final size:21
Alignment explanation
Indices: 377867--377925 Score: 82
Period size: 22 Copynumber: 2.8 Consensus size: 21
377857 AGGGTTTTAT
*
377867 AGGTCCTTCGGGACAACTCAT
1 AGGTCCTTCGGGACAACTCAC
*
377888 AGGTCCTTCGGGACATATTCAC
1 AGGTCCTTCGGGACA-ACTCAC
*
377910 ATGTCCTTCGGGACAA
1 AGGTCCTTCGGGACAA
377926 AAATTTCGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 16 0.47
22 18 0.53
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (21 bp):
AGGTCCTTCGGGACAACTCAC
Found at i:378533 original size:22 final size:21
Alignment explanation
Indices: 378488--378534 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
378478 TACGGAAGTA
*
378488 CTGTAGCAGGGTATCAGTTCC
1 CTGTAGCAGGGAATCAGTTCC
378509 CTGTAGCAGGGGAATC-GATTCC
1 CTGTAGCA-GGGAATCAG-TTCC
378531 CTGT
1 CTGT
378535 CAATAATCTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 9 0.39
22 14 0.61
ACGTcount: A:0.19, C:0.23, G:0.30, T:0.28
Consensus pattern (21 bp):
CTGTAGCAGGGAATCAGTTCC
Found at i:378604 original size:22 final size:22
Alignment explanation
Indices: 378576--378619 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
378566 TGTAGCAGGG
* *
378576 TACTGTTCACGGTATTGTTCAT
1 TACTGTTCAAGGTACTGTTCAT
378598 TACTGTTCAAGGTACTGTTCAT
1 TACTGTTCAAGGTACTGTTCAT
378620 ACCGTATAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.18, G:0.18, T:0.43
Consensus pattern (22 bp):
TACTGTTCAAGGTACTGTTCAT
Found at i:382449 original size:22 final size:23
Alignment explanation
Indices: 382435--382477 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
382425 CATTTTATTT
382435 GGCACTTCGGTACATTTCTACTC
1 GGCACTTCGGTACATTTCTACTC
*
382458 GGCACTTCGGTGCA-TTCTAC
1 GGCACTTCGGTACATTTCTAC
382478 GTAGCACTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.16, C:0.30, G:0.21, T:0.33
Consensus pattern (23 bp):
GGCACTTCGGTACATTTCTACTC
Found at i:382484 original size:22 final size:22
Alignment explanation
Indices: 382436--382495 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
382426 ATTTTATTTG
* *
382436 GCACTTCGGTACATTTCTACTCG
1 GCACTTCGGTGCA-TTCTACTCA
382459 GCACTTCGGTGCATTCTACGT-A
1 GCACTTCGGTGCATTCTAC-TCA
*
382481 GCACTTCTGTGCATT
1 GCACTTCGGTGCATT
382496 TATACGAGCT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
22 20 0.61
23 13 0.39
ACGTcount: A:0.17, C:0.28, G:0.20, T:0.35
Consensus pattern (22 bp):
GCACTTCGGTGCATTCTACTCA
Found at i:383842 original size:22 final size:24
Alignment explanation
Indices: 383817--383873 Score: 84
Period size: 22 Copynumber: 2.5 Consensus size: 24
383807 TTCCTTTCCC
383817 CTTTCTT-TCATTTGTTTA-TTTT
1 CTTTCTTATCATTTGTTTATTTTT
383839 CTTT-TTATCATTTGTTTATTTTT
1 CTTTCTTATCATTTGTTTATTTTT
383862 CTTTCTTGATCA
1 CTTTCTT-ATCA
383874 CAGCACCTCG
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
21 2 0.06
22 15 0.48
23 8 0.26
24 2 0.06
25 4 0.13
ACGTcount: A:0.12, C:0.14, G:0.05, T:0.68
Consensus pattern (24 bp):
CTTTCTTATCATTTGTTTATTTTT
Found at i:389081 original size:13 final size:12
Alignment explanation
Indices: 389055--389088 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
389045 GCCCTAAATT
*
389055 GAAAAAAGAAGA
1 GAAAAAAAAAGA
389067 GAAAGAAAAAAGA
1 GAAA-AAAAAAGA
389080 GAAAAAAAA
1 GAAAAAAAA
389089 TAAGGTAGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (12 bp):
GAAAAAAAAAGA
Found at i:392322 original size:14 final size:15
Alignment explanation
Indices: 392305--392333 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
392295 ATTGTTATTA
392305 TTAT-TTTTAGTTTT
1 TTATATTTTAGTTTT
392319 TTATATTTTAGTTTT
1 TTATATTTTAGTTTT
392334 ACATACTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.76
Consensus pattern (15 bp):
TTATATTTTAGTTTT
Found at i:392390 original size:20 final size:21
Alignment explanation
Indices: 392353--392415 Score: 58
Period size: 20 Copynumber: 3.0 Consensus size: 21
392343 TTTTATTAGT
*
392353 ATTTTATTATTTATTTAT-TC
1 ATTTTATTATATATTTATATC
392373 ATTTTATT-TATATGTTATATC
1 ATTTTATTATATAT-TTATATC
* *
392394 ATATATATATATATATATATAT
1 AT-TTTAT-TATATATTTATAT
392416 ATATATACTA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
19 4 0.11
20 12 0.34
21 4 0.11
22 4 0.11
23 6 0.17
24 5 0.14
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (21 bp):
ATTTTATTATATATTTATATC
Found at i:392401 original size:2 final size:2
Alignment explanation
Indices: 392388--392493 Score: 73
Period size: 2 Copynumber: 55.5 Consensus size: 2
392378 ATTTATATGT
*
392388 TA TA TCA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CTA T- TT TA
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
* * * * * * *
392431 TC TC T- TA -A TA T- TA T- TC TA TT TT TA TT TA TA TG T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
392468 T- 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 TA T
392494 TTATTTTTTT
Statistics
Matches: 87, Mismatches: 8, Indels: 18
0.77 0.07 0.16
Matches are distributed among these distances:
1 7 0.08
2 76 0.87
3 4 0.05
ACGTcount: A:0.39, C:0.05, G:0.01, T:0.56
Consensus pattern (2 bp):
TA
Found at i:392498 original size:4 final size:4
Alignment explanation
Indices: 392491--392588 Score: 50
Period size: 4 Copynumber: 25.2 Consensus size: 4
392481 TATATATATA
* *
392491 TATT TATT T-TT T-TT TA-T T-TT TATTT TTTT TATT TATA TATT TATT
1 TATT TATT TATT TATT TATT TATT TA-TT TATT TATT TATT TATT TATT
* * *
392536 T-TT T-TCG TATTT TATT TATT TA-- TATT TGTT TCTT TATT TATCT TATTT
1 TATT TAT-T TA-TT TATT TATT TATT TATT TATT TATT TATT TAT-T TA-TT
392584 TATT T
1 TATT T
392589 TGTCTTTATT
Statistics
Matches: 74, Mismatches: 9, Indels: 22
0.70 0.09 0.21
Matches are distributed among these distances:
2 2 0.03
3 14 0.19
4 45 0.61
5 11 0.15
6 2 0.03
ACGTcount: A:0.18, C:0.03, G:0.02, T:0.77
Consensus pattern (4 bp):
TATT
Found at i:392518 original size:15 final size:15
Alignment explanation
Indices: 392493--392604 Score: 66
Period size: 15 Copynumber: 7.0 Consensus size: 15
392483 TATATATATA
392493 TTTATTTTTTTTTATT
1 TTTA-TTTTTTTTATT
392509 TTTATTTTTTTTATT
1 TTTATTTTTTTTATT
392524 TATATATTTATTTTT-TT
1 T-T-TATTT-TTTTTATT
** *
392541 CGTATTTTATTTATT
1 TTTATTTTTTTTATT
* *
392556 TATATTTGTTTCTT-TA
1 TTTATTT-TTT-TTATT
*
392572 TTTATCTTATTTTATT
1 TTTAT-TTTTTTTATT
*
392588 TTGTCTTTATTTTTATT
1 TT-TATTT-TTTTTATT
392605 CATTCCAGTT
Statistics
Matches: 74, Mismatches: 12, Indels: 19
0.70 0.11 0.18
Matches are distributed among these distances:
14 4 0.05
15 26 0.35
16 19 0.26
17 20 0.27
18 5 0.07
ACGTcount: A:0.17, C:0.04, G:0.03, T:0.77
Consensus pattern (15 bp):
TTTATTTTTTTTATT
Found at i:392530 original size:37 final size:38
Alignment explanation
Indices: 392481--392562 Score: 114
Period size: 37 Copynumber: 2.2 Consensus size: 38
392471 TATATATATA
* *
392481 TATATATATATATTTATTTTTTT-TTATTTTTATTT-TT
1 TATATTTATATATTTATTTTTTTCGTA-TTTTATTTATT
*
392518 TTTATTTATATATTTATTTTTTTCGTATTTTATTTATT
1 TATATTTATATATTTATTTTTTTCGTATTTTATTTATT
392556 TATATTT
1 TATATTT
392563 GTTTCTTTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
37 29 0.74
38 10 0.26
ACGTcount: A:0.23, C:0.01, G:0.01, T:0.74
Consensus pattern (38 bp):
TATATTTATATATTTATTTTTTTCGTATTTTATTTATT
Found at i:392597 original size:47 final size:44
Alignment explanation
Indices: 392481--392601 Score: 122
Period size: 46 Copynumber: 2.7 Consensus size: 44
392471 TATATATATA
* *
392481 TATATATATATATTTATTTT-TTTTTA-TTTTTATTTTTTTTATT
1 TATATATTTAT-TTTATTTTGTTTTTATTTTTTATTTTGTTTATT
* *
392524 TATATATTTATTTT-TTTCGTATTTTATTTATTTATATTTGTTTCTT
1 TATATATTTATTTTATTTTGT-TTTTATTT-TTTAT-TTTGTTTATT
* *
392570 TATTTATCTTATTTTATTTTGTCTTTATTTTT
1 TATATAT-TTATTTTATTTTGTTTTTATTTTT
392602 ATTCATTCCA
Statistics
Matches: 64, Mismatches: 7, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
41 3 0.05
42 4 0.06
43 15 0.23
44 2 0.03
45 5 0.08
46 16 0.25
47 14 0.22
48 5 0.08
ACGTcount: A:0.20, C:0.03, G:0.02, T:0.74
Consensus pattern (44 bp):
TATATATTTATTTTATTTTGTTTTTATTTTTTATTTTGTTTATT
Found at i:392603 original size:27 final size:27
Alignment explanation
Indices: 392543--392600 Score: 77
Period size: 26 Copynumber: 2.2 Consensus size: 27
392533 ATTTTTTTCG
*
392543 TATTTTATTTATTTATATTTGTTTCTT
1 TATTTTATTTATTTATATTTGTGTCTT
392570 TA-TTTATCTTATTT-TATTT-TGTCTT
1 TATTTTAT-TTATTTATATTTGTGTCTT
392595 TATTTT
1 TATTTT
392601 TATTCATTCC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 7 0.25
26 13 0.46
27 8 0.29
ACGTcount: A:0.17, C:0.05, G:0.03, T:0.74
Consensus pattern (27 bp):
TATTTTATTTATTTATATTTGTGTCTT
Found at i:392680 original size:23 final size:22
Alignment explanation
Indices: 392654--392711 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 22
392644 GCTTTTTGTC
392654 TTTATTTTATCTGT-TGTTATTTA
1 TTTATTTTATCT-TCT-TTATTTA
* *
392677 TTTATTTTCTCTTCTTTATTTT
1 TTTATTTTATCTTCTTTATTTA
392699 TTTA-TTTATCTTC
1 TTTATTTTATCTTC
392712 ATCACCTTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 8 0.26
22 11 0.35
23 12 0.39
ACGTcount: A:0.14, C:0.10, G:0.03, T:0.72
Consensus pattern (22 bp):
TTTATTTTATCTTCTTTATTTA
Found at i:395155 original size:16 final size:16
Alignment explanation
Indices: 395123--395157 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
395113 TTTAGGATTA
395123 TTTACTATTATAGTAT
1 TTTACTATTATAGTAT
395139 TTTACATATTATA-TAT
1 TTTAC-TATTATAGTAT
395155 TTT
1 TTT
395158 GTAATAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (16 bp):
TTTACTATTATAGTAT
Found at i:402603 original size:20 final size:20
Alignment explanation
Indices: 402575--402613 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
402565 TTTCCCACAA
*
402575 ATTTATAAAACCTTCGGGTC
1 ATTTATAAAACCTCCGGGTC
*
402595 ATTTGTAAAACCTCCGGGT
1 ATTTATAAAACCTCCGGGT
402614 AGGATGTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (20 bp):
ATTTATAAAACCTCCGGGTC
Found at i:402875 original size:3 final size:3
Alignment explanation
Indices: 402867--402892 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
402857 TATATATTTA
402867 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
402893 CAAATGTTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:409854 original size:21 final size:21
Alignment explanation
Indices: 409828--409867 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
409818 CCCCCTTTGA
*
409828 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
409849 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
409868 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:413783 original size:16 final size:16
Alignment explanation
Indices: 413751--413785 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
413741 TTTAGGATTA
413751 TTTACTATTATAGTAT
1 TTTACTATTATAGTAT
413767 TTTACATATTATA-TAT
1 TTTAC-TATTATAGTAT
413783 TTT
1 TTT
413786 GTAATAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (16 bp):
TTTACTATTATAGTAT
Found at i:416897 original size:30 final size:31
Alignment explanation
Indices: 416847--416919 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 31
416837 ATATTATTAT
* * *
416847 AATATAATTGATTATTTTATTATAATATTAA-A
1 AATATAA-T-ATTATATTATTAGAACATTAATA
416879 AATATAATATTATATTATTAGAACATTAATA
1 AATATAATATTATATTATTAGAACATTAATA
416910 AATAT-ATATT
1 AATATAATATT
416920 TTAAATATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
30 23 0.62
31 7 0.19
32 7 0.19
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (31 bp):
AATATAATATTATATTATTAGAACATTAATA
Found at i:419753 original size:12 final size:12
Alignment explanation
Indices: 419736--419763 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
419726 GAGCTGGGGA
419736 TTCTACTGTTGT
1 TTCTACTGTTGT
419748 TTCTACTGTTGT
1 TTCTACTGTTGT
419760 TTCT
1 TTCT
419764 TTACCTGCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.18, G:0.14, T:0.61
Consensus pattern (12 bp):
TTCTACTGTTGT
Found at i:424937 original size:229 final size:227
Alignment explanation
Indices: 424532--424980 Score: 785
Period size: 229 Copynumber: 2.0 Consensus size: 227
424522 GTAAATTATC
* * *
424532 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
**
424597 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
66 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
424662 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAA-AAATTT
131 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAA-TT
424726 GAAACATAAATTACATAACTTTCAAAAAAGTATA
195 GAAACATAAATTACATAACTTT-AAAAAAGTATA
*
424760 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATATTTAG
424825 TTAATATTGTTAAATTT-AAATGCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAAT
65 TTAATATTGTTAAATTTAAAAT-CTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAAT
*
424889 TTTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAAT
129 TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAAT
424954 TGAAACATAAATTACATAACTTTAAAA
194 TGAAACATAAATTACATAACTTTAAAA
424981 GCAGTTTTAA
Statistics
Matches: 211, Mismatches: 7, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
228 44 0.21
229 164 0.78
230 3 0.01
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (227 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAATTG
AAACATAAATTACATAACTTTAAAAAAGTATA
Found at i:425069 original size:20 final size:19
Alignment explanation
Indices: 425046--425091 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
425036 CGATATACCA
425046 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
425066 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
425086 GGTAAA
1 GGTAAA
425092 TTTAAAAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.54, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:425236 original size:20 final size:19
Alignment explanation
Indices: 425213--425259 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
425203 CGATATAACA
*
425213 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAAAC
*
425233 GGTATCAAAATGATAAAAAC
1 GGTA-AAAAATGATAAAAAC
425253 GGTAAAA
1 GGTAAAA
425260 TGATACCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.55, C:0.09, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAAAC
Found at i:427433 original size:184 final size:184
Alignment explanation
Indices: 427124--427611 Score: 895
Period size: 184 Copynumber: 2.7 Consensus size: 184
427114 CTTTCAACAT
**
427124 ATTATAATAAAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
427189 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
*
427254 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATTGGAACCCATA
131 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
427308 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
427373 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
* *
427438 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTATACATCGGAACCCATA
131 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
* * *
427492 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGAGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
*
427557 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCATA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATA
427612 CCATTTAAAA
Statistics
Matches: 295, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
184 295 1.00
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.35
Consensus pattern (184 bp):
ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
Found at i:428125 original size:23 final size:23
Alignment explanation
Indices: 428094--428157 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
428084 ATAGGTAAAC
*
428094 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
428117 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
428140 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
428158 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:428164 original size:23 final size:23
Alignment explanation
Indices: 428094--428166 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
428084 ATAGGTAAAC
* **
428094 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
428117 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
428140 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
428163 ATAT
1 ATAT
428167 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:428556 original size:23 final size:23
Alignment explanation
Indices: 428525--428588 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
428515 ATAGGTAAAC
* *
428525 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCACTT
* *
428548 ATATAATGTAATAGGTATCATTT
1 ATATAATGTAATAGGTAGCACTT
428571 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
428589 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.06, G:0.19, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCACTT
Found at i:428798 original size:431 final size:431
Alignment explanation
Indices: 427995--429449 Score: 2892
Period size: 431 Copynumber: 3.4 Consensus size: 431
427985 AATTCGCAGT
427995 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
428060 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
428125 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
428190 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
428255 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
261 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
428320 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
326 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
428385 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
391 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
428426 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
428491 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
*
428556 TAATAGGTATCATTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
428621 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
428686 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
261 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
428751 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
326 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
428816 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
391 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
428857 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
428922 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
428987 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
429052 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
429117 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
261 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
429182 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
326 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
429247 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
391 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
429288 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
*
429353 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
429418 TAATAGGTATCGTTTATATAATGTAATAGGTA
131 TAATAGGTATCGTTTATATAATGTAATAGGTA
429450 TCTATCTCGC
Statistics
Matches: 1021, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
431 1021 1.00
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.38
Consensus pattern (431 bp):
ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
Found at i:428987 original size:23 final size:23
Alignment explanation
Indices: 428956--429019 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
428946 ATAGGTAAAC
*
428956 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
428979 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
429002 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
429020 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:429026 original size:23 final size:23
Alignment explanation
Indices: 428956--429028 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
428946 ATAGGTAAAC
* **
428956 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
428979 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
429002 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
429025 ATAT
1 ATAT
429029 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:429450 original size:23 final size:23
Alignment explanation
Indices: 429387--429451 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
429377 ATAGGTAAAC
* *
429387 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTATCCCTT
**
429410 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCCCTT
429433 ATATAATGTAATAGGTATC
1 ATATAATGTAATAGGTATC
429452 TATCTCGCAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCCCTT
Found at i:429676 original size:18 final size:18
Alignment explanation
Indices: 429655--429691 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
429645 GTAATTGGAG
429655 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
429673 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
429691 T
1 T
429692 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:429699 original size:24 final size:24
Alignment explanation
Indices: 429647--429693 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
429637 TTTCATATGT
* *
429647 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
429671 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
429694 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:438137 original size:31 final size:29
Alignment explanation
Indices: 438102--438177 Score: 91
Period size: 28 Copynumber: 2.6 Consensus size: 29
438092 AAAAAAATAT
*
438102 AAGTTTTGGTCACTTAAGTTATCGTTTTATA
1 AAGTTTTGGTCACTTAA--TATCATTTTATA
* * *
438133 AAGTTTTAGTCACTT-ATATCATTTTTTT
1 AAGTTTTGGTCACTTAATATCATTTTATA
438161 AAGTTTTGGTCACTTAA
1 AAGTTTTGGTCACTTAA
438178 ACGTTGAATA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
28 23 0.59
29 1 0.03
30 1 0.03
31 14 0.36
ACGTcount: A:0.26, C:0.11, G:0.13, T:0.50
Consensus pattern (29 bp):
AAGTTTTGGTCACTTAATATCATTTTATA
Found at i:446221 original size:14 final size:14
Alignment explanation
Indices: 446204--446253 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
446194 ATTTCAAAAT
446204 ATATTATAATTATA
1 ATATTATAATTATA
446218 ATATTATTAATTAT-
1 ATATTA-TAATTATA
* *
446232 TTATTATATTTA-A
1 ATATTATAATTATA
446245 TATATTATA
1 -ATATTATA
446254 CATATAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
13 5 0.17
14 18 0.60
15 7 0.23
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
ATATTATAATTATA
Found at i:446307 original size:13 final size:13
Alignment explanation
Indices: 446289--446414 Score: 65
Period size: 13 Copynumber: 9.8 Consensus size: 13
446279 ATAAAAGATA
446289 TTATAATTATTAT
1 TTATAATTATTAT
*
446302 TTATAAAATATCTAT
1 TTAT-AATTAT-TAT
446317 TT-TAATTACTATAT
1 TTATAATTA-T-TAT
446331 TTAT--TTATTA-
1 TTATAATTATTAT
446341 TTAT-ATT-TTAAT
1 TTATAATTATT-AT
*
446353 TTATTATTA-TAT
1 TTATAATTATTAT
*
446365 TTAATAATTAATA-
1 TT-ATAATTATTAT
446378 TTATTAATTATTA-
1 TTA-TAATTATTAT
*
446391 TTATATTTATT-T
1 TTATAATTATTAT
*
446403 ATTATATTTATT
1 -TTATAATTATT
446415 TGTTATTAAT
Statistics
Matches: 93, Mismatches: 6, Indels: 28
0.73 0.05 0.22
Matches are distributed among these distances:
10 6 0.06
11 5 0.05
12 17 0.18
13 45 0.48
14 14 0.15
15 6 0.06
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (13 bp):
TTATAATTATTAT
Found at i:446345 original size:16 final size:16
Alignment explanation
Indices: 446321--446426 Score: 96
Period size: 16 Copynumber: 6.8 Consensus size: 16
446311 ATCTATTTTA
*
446321 ATTACTATATTTATTT
1 ATTATTATATTTATTT
446337 ATTATTATATTTTAATTT
1 ATTATTATA-TTT-ATTT
* *
446355 ATTATTATATTTAATA
1 ATTATTATATTTATTT
*
446371 ATTA--ATA-TTATTA
1 ATTATTATATTTATTT
*
446384 ATTATTAT-TATATTT
1 ATTATTATATTTATTT
446399 ATTTATTATATTTATTT
1 A-TTATTATATTTATTT
*
446416 GTTATTA-ATTT
1 ATTATTATATTT
446427 CAATTTGAAA
Statistics
Matches: 75, Mismatches: 8, Indels: 15
0.77 0.08 0.15
Matches are distributed among these distances:
13 9 0.12
14 3 0.04
15 11 0.15
16 27 0.36
17 12 0.16
18 13 0.17
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.63
Consensus pattern (16 bp):
ATTATTATATTTATTT
Found at i:446415 original size:13 final size:13
Alignment explanation
Indices: 446328--446420 Score: 74
Period size: 13 Copynumber: 7.5 Consensus size: 13
446318 TTAATTACTA
446328 TATT-TATTTA-T
1 TATTATATTTATT
446339 TATTATATTTTAATT
1 TATTATA-TTT-ATT
*
446354 TATTAT-TATATT
1 TATTATATTTATT
* *
446366 TAATA-ATTAATAT
1 TATTATATTTAT-T
446379 TATTA-A-TTA-T
1 TATTATATTTATT
446389 TATTATATTTATT
1 TATTATATTTATT
446402 TATTATATTTATT
1 TATTATATTTATT
*
446415 TGTTAT
1 TATTAT
446421 TAATTTCAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
10 6 0.09
11 5 0.08
12 17 0.26
13 30 0.45
14 1 0.02
15 7 0.11
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.65
Consensus pattern (13 bp):
TATTATATTTATT
Found at i:446421 original size:32 final size:32
Alignment explanation
Indices: 446298--446422 Score: 112
Period size: 32 Copynumber: 3.8 Consensus size: 32
446288 ATTATAATTA
* * * *
446298 TTATTTATAAAATATCTATTTTAATTACTATAT
1 TTATTTATTATATAT-TATTTTTATTATTATAT
446331 TTATTTATTATTATATT-TTAATTTATTATTATAT
1 TTATTTATTA-TATATTATT--TTTATTATTATAT
* * *
446365 TTAATAATTA-ATATTATTAATTATTATTATAT
1 TTATTTATTATATATTATT-TTTATTATTATAT
446397 TTATTTATTATAT-TTATTTGTTATTA
1 TTATTTATTATATATTATTT-TTATTA
446423 ATTTCAATTT
Statistics
Matches: 76, Mismatches: 10, Indels: 13
0.77 0.10 0.13
Matches are distributed among these distances:
32 39 0.51
33 14 0.18
34 23 0.30
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.62
Consensus pattern (32 bp):
TTATTTATTATATATTATTTTTATTATTATAT
Found at i:447744 original size:16 final size:17
Alignment explanation
Indices: 447723--447755 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
447713 GCAGCAGTCA
447723 CTGGAAA-AATGTTTGC
1 CTGGAAATAATGTTTGC
447739 CTGGAAATTAATGTTTG
1 CTGGAAA-TAATGTTTG
447756 TGTTGTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.30, C:0.09, G:0.24, T:0.36
Consensus pattern (17 bp):
CTGGAAATAATGTTTGC
Found at i:449255 original size:2 final size:2
Alignment explanation
Indices: 449248--449275 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
449238 AGACGAGAGG
449248 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
449276 CTTGATCAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:456315 original size:13 final size:13
Alignment explanation
Indices: 456274--456315 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
456264 ATATCTTCGC
456274 TTATTTT-TAATT
1 TTATTTTCTAATT
* *
456286 TTATTTTTCAAAAT
1 TTA-TTTTCTAATT
456300 TTATTTTCTAATT
1 TTATTTTCTAATT
456313 TTA
1 TTA
456316 CAGTCAAACA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
12 3 0.12
13 15 0.62
14 6 0.25
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.67
Consensus pattern (13 bp):
TTATTTTCTAATT
Found at i:456900 original size:60 final size:60
Alignment explanation
Indices: 456798--456968 Score: 170
Period size: 60 Copynumber: 2.8 Consensus size: 60
456788 GTATCATATG
* * * * **
456798 TCCTCAAAGTATGACTATCATTTTACATTAGTCCTTAAACTTTTGAATGTTAC-AATTTCAT
1 TCCT-AAACTATGACTATCATTCTAAATTAATCCTTAAACTTTTGAACATT-CTAATTTCAT
456859 TCCTAAACTATGACTATCATTCTAAATTAAT-CTTCAAACTTTTGAACATTCTAATTTCAT
1 TCCTAAACTATGACTATCATTCTAAATTAATCCTT-AAACTTTTGAACATTCTAATTTCAT
* * ** *
456919 ACCTAAATTATGACCT-TCATTCTAAATCGATCC-CAAACTTTATGAACATT
1 TCCTAAACTATGA-CTATCATTCTAAATTAATCCTTAAACTTT-TGAACATT
456969 TCAATTTTAT
Statistics
Matches: 94, Mismatches: 11, Indels: 11
0.81 0.09 0.09
Matches are distributed among these distances:
59 11 0.12
60 76 0.81
61 7 0.07
ACGTcount: A:0.34, C:0.20, G:0.06, T:0.40
Consensus pattern (60 bp):
TCCTAAACTATGACTATCATTCTAAATTAATCCTTAAACTTTTGAACATTCTAATTTCAT
Found at i:457563 original size:37 final size:37
Alignment explanation
Indices: 457513--457601 Score: 160
Period size: 37 Copynumber: 2.4 Consensus size: 37
457503 TAAAAGACGG
457513 TACTAAGTTTGAGTTTAAATATATATAAATATATTAA
1 TACTAAGTTTGAGTTTAAATATATATAAATATATTAA
457550 TACTAAGTTTGAGTTTAAATATATATAAATATATTAA
1 TACTAAGTTTGAGTTTAAATATATATAAATATATTAA
* *
457587 TACTAAATTAGAGTT
1 TACTAAGTTTGAGTT
457602 CATTCAATTT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 50 1.00
ACGTcount: A:0.45, C:0.03, G:0.09, T:0.43
Consensus pattern (37 bp):
TACTAAGTTTGAGTTTAAATATATATAAATATATTAA
Found at i:462564 original size:16 final size:16
Alignment explanation
Indices: 462545--462597 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
462535 TTTAGTAAAA
462545 TATTAATAAATTTAAG
1 TATTAATAAATTTAAG
** * * *
462561 TATTTAATTTAGTAAAA
1 TA-TTAATAAATTTAAG
462578 TATTAATAAATTTAAG
1 TATTAATAAATTTAAG
462594 TATT
1 TATT
462598 TAAAATTATT
Statistics
Matches: 26, Mismatches: 10, Indels: 2
0.68 0.26 0.05
Matches are distributed among these distances:
16 15 0.58
17 11 0.42
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (16 bp):
TATTAATAAATTTAAG
Found at i:462567 original size:33 final size:33
Alignment explanation
Indices: 462529--462600 Score: 144
Period size: 33 Copynumber: 2.2 Consensus size: 33
462519 TAAATATATA
462529 ATTTAATTTAGTAAAATATTAATAAATTTAAGT
1 ATTTAATTTAGTAAAATATTAATAAATTTAAGT
462562 ATTTAATTTAGTAAAATATTAATAAATTTAAGT
1 ATTTAATTTAGTAAAATATTAATAAATTTAAGT
462595 ATTTAA
1 ATTTAA
462601 AATTATTTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.46
Consensus pattern (33 bp):
ATTTAATTTAGTAAAATATTAATAAATTTAAGT
Found at i:462600 original size:17 final size:17
Alignment explanation
Indices: 462547--462600 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
462537 TAGTAAAATA
462547 TTAATAAATTTAAGTAT
1 TTAATAAATTTAAGTAT
** * * *
462564 TTAATTTAGTAAAATA-
1 TTAATAAATTTAAGTAT
462580 TTAATAAATTTAAGTAT
1 TTAATAAATTTAAGTAT
462597 TTAA
1 TTAA
462601 AATTATTTTA
Statistics
Matches: 26, Mismatches: 10, Indels: 2
0.68 0.26 0.05
Matches are distributed among these distances:
16 11 0.42
17 15 0.58
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (17 bp):
TTAATAAATTTAAGTAT
Found at i:462730 original size:29 final size:29
Alignment explanation
Indices: 462690--462767 Score: 124
Period size: 29 Copynumber: 2.7 Consensus size: 29
462680 ATAATTATTT
462690 AAAAT-AATCTTTAACATTAAGTTATTAG
1 AAAATAAATCTTTAACATTAAGTTATTAG
*
462718 AAAATAAATCTTTAACTTTAAGTTATTAG
1 AAAATAAATCTTTAACATTAAGTTATTAG
462747 AAAATAAATC-TTATACATTAA
1 AAAATAAATCTTTA-ACATTAA
462768 AAAAAATGAT
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
28 8 0.17
29 38 0.83
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.38
Consensus pattern (29 bp):
AAAATAAATCTTTAACATTAAGTTATTAG
Found at i:464240 original size:18 final size:19
Alignment explanation
Indices: 464213--464252 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
464203 AATAAATACC
*
464213 ATAAACATTAATATA-ATA
1 ATAAAAATTAATATATATA
*
464231 ATAAAAATTAATTTATATA
1 ATAAAAATTAATATATATA
464250 ATA
1 ATA
464253 GGGTAAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (19 bp):
ATAAAAATTAATATATATA
Found at i:471529 original size:2 final size:2
Alignment explanation
Indices: 471522--471551 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
471512 TTGTGTTGAC
471522 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
471552 CATGTCGGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:475912 original size:30 final size:31
Alignment explanation
Indices: 475874--475982 Score: 82
Period size: 32 Copynumber: 3.5 Consensus size: 31
475864 TAGTGGTAAG
* * *
475874 AAAT-TTATTTTTATGTTAGTAT-TTT-TTT
1 AAATATTATTTTTATATTAATATATTTATGT
475902 AAATAGTTATTATTTTATATTAATATATTTATGT
1 AAATA-TTA-T-TTTTATATTAATATATTTATGT
* *
475936 AAATATTATTTTTAT-TAAAATAATATTTATAT
1 AAATATTATTTTTATAT-TAAT-ATATTTATGT
*
475968 AATTATTATTATTTA
1 AAATATTATT-TTTA
475983 GAATTATTAA
Statistics
Matches: 66, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
28 4 0.06
30 4 0.06
31 10 0.15
32 31 0.47
33 10 0.15
34 7 0.11
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.59
Consensus pattern (31 bp):
AAATATTATTTTTATATTAATATATTTATGT
Found at i:475953 original size:29 final size:31
Alignment explanation
Indices: 475909--475982 Score: 89
Period size: 32 Copynumber: 2.4 Consensus size: 31
475899 TTTAAATAGT
*
475909 TATTATTTTATATT-AAT-ATATTTATGTAAA
1 TATTATTTT-TATTAAATAATATTTATATAAA
*
475939 TATTATTTTTATTAAAATAATATTTATATAAT
1 TATTATTTTTATT-AAATAATATTTATATAAA
475971 TATTATTATTTA
1 TATTATT-TTTA
475983 GAATTATTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
29 4 0.11
30 9 0.24
31 3 0.08
32 18 0.47
33 4 0.11
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (31 bp):
TATTATTTTTATTAAATAATATTTATATAAA
Found at i:475975 original size:32 final size:29
Alignment explanation
Indices: 475899--475982 Score: 87
Period size: 32 Copynumber: 2.7 Consensus size: 29
475889 TTAGTATTTT
* *
475899 TTTAAATAGTTATTATTTTATATTAATATA
1 TTTATATAATTATTATTTT-TATTAATATA
* *
475929 TTTATGTAAATATTATTTTTATTAAAATAATA
1 TTTATATAATTATTATTTTTATT--AAT-ATA
475961 TTTATATAATTATTATTATTTA
1 TTTATATAATTATTATT-TTTA
475983 GAATTATTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
29 4 0.09
30 15 0.34
31 3 0.07
32 18 0.41
33 4 0.09
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (29 bp):
TTTATATAATTATTATTTTTATTAATATA
Found at i:476700 original size:15 final size:15
Alignment explanation
Indices: 476680--476711 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
476670 CAGGTGCATT
476680 ATATGTGGTTGCGGC
1 ATATGTGGTTGCGGC
476695 ATATGTGGTTGCGGC
1 ATATGTGGTTGCGGC
476710 AT
1 AT
476712 CTGATCGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.16, C:0.12, G:0.38, T:0.34
Consensus pattern (15 bp):
ATATGTGGTTGCGGC
Found at i:477746 original size:21 final size:21
Alignment explanation
Indices: 477716--477763 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
477706 GCAGGGGTAC
* *
477716 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
* *
477737 ATGCCAAGCCCACCAGTTTAT
1 ATGCCAAGCCCACCACTTCAT
477758 ATGCCA
1 ATGCCA
477764 TCTCCGCAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.40, G:0.12, T:0.23
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:477822 original size:21 final size:21
Alignment explanation
Indices: 477767--477862 Score: 131
Period size: 21 Copynumber: 4.5 Consensus size: 21
477757 TATGCCATCT
477767 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCGAGC
*
477788 CCGCACATGGTTACATTCCGAGC
1 CCG--CAGGGTTACATTCCGAGC
477811 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCGAGC
* *
477832 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATTCCGAGC
477853 CCGCAGGGTT
1 CCGCAGGGTT
477863 TTATACCATA
Statistics
Matches: 67, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.03
21 43 0.64
22 2 0.03
23 20 0.30
ACGTcount: A:0.19, C:0.34, G:0.27, T:0.20
Consensus pattern (21 bp):
CCGCAGGGTTACATTCCGAGC
Found at i:477855 original size:42 final size:44
Alignment explanation
Indices: 477767--477862 Score: 160
Period size: 44 Copynumber: 2.2 Consensus size: 44
477757 TATGCCATCT
*
477767 CCGCAGGGTTACATTCCGAGCCCGCACATGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCGAGCCCGCACATGGTTACATGCCGAGC
*
477811 CCGCAGGGTTACATTCCGAGCCCGC-CA-GGTTACATGCCTAGC
1 CCGCAGGGTTACATTCCGAGCCCGCACATGGTTACATGCCGAGC
477853 CCGCAGGGTT
1 CCGCAGGGTT
477863 TTATACCATA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
42 23 0.46
43 2 0.04
44 25 0.50
ACGTcount: A:0.19, C:0.34, G:0.27, T:0.20
Consensus pattern (44 bp):
CCGCAGGGTTACATTCCGAGCCCGCACATGGTTACATGCCGAGC
Found at i:478377 original size:28 final size:28
Alignment explanation
Indices: 478345--478423 Score: 88
Period size: 28 Copynumber: 2.8 Consensus size: 28
478335 GATAAATGTT
* *
478345 TTTAAAATACAAATTATATTATTCAAAA
1 TTTAAAATAAAAATAATATTATTCAAAA
* *
478373 TTTAAAATAAAAATAATATTCTTCGAAA
1 TTTAAAATAAAAATAATATTATTCAAAA
*
478401 TTTAAATTTAAAATATAA-ATTAT
1 TTTAAA-ATAAAA-ATAATATTAT
478424 AGTATTCGAA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
28 30 0.70
29 9 0.21
30 4 0.09
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.41
Consensus pattern (28 bp):
TTTAAAATAAAAATAATATTATTCAAAA
Found at i:478408 original size:34 final size:34
Alignment explanation
Indices: 478370--478439 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 34
478360 ATATTATTCA
* *
478370 AAATTTAAAATAAAAATAATATTCTTCGAAATTT
1 AAATTTAAAATAAAAATAATAGTATTCGAAATTT
* *
478404 AAATTTAAAATATAAATTATAGTATTCGAAATTT
1 AAATTTAAAATAAAAATAATAGTATTCGAAATTT
478438 AA
1 AA
478440 CATTAAATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.39
Consensus pattern (34 bp):
AAATTTAAAATAAAAATAATAGTATTCGAAATTT
Found at i:478435 original size:28 final size:28
Alignment explanation
Indices: 478345--478448 Score: 84
Period size: 28 Copynumber: 3.5 Consensus size: 28
478335 GATAAATGTT
* *
478345 TTTAAAATACAAATTATATTATTCAAAA
1 TTTAAAATATAAATTATATTATTCGAAA
* * *
478373 TTTAAAATAAAAATAATATTCTTCGAAATTTAAA
1 TTTAAAATATAAATTATATTATTCG------AAA
*
478407 TTTAAAATATAAATTATAGTATTCGAAA
1 TTTAAAATATAAATTATATTATTCGAAA
*
478435 TTTAACAT-TAAATT
1 TTTAAAATATAAATT
478449 TCAACTTAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
27 6 0.10
28 31 0.51
34 24 0.39
ACGTcount: A:0.51, C:0.06, G:0.03, T:0.40
Consensus pattern (28 bp):
TTTAAAATATAAATTATATTATTCGAAA
Found at i:478446 original size:34 final size:32
Alignment explanation
Indices: 478346--478446 Score: 102
Period size: 34 Copynumber: 3.2 Consensus size: 32
478336 ATAAATGTTT
* *
478346 TTAAAATACAAATTATATTATTCAAAATTTAAA
1 TTAAAATATAAATTATA-TATTCGAAATTTAAA
* *
478379 ATAAAA-AT-AA-TAT-TCTTCGAAATTTAAA
1 TTAAAATATAAATTATATATTCGAAATTTAAA
478407 TTTAAAATATAAATTATAGTATTCGAAATTTAACA
1 -TTAAAATATAAATTATA-TATTCGAAATTTAA-A
478442 TTAAA
1 TTAAA
478447 TTTCAACTTA
Statistics
Matches: 55, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
28 13 0.24
29 5 0.09
30 5 0.09
31 4 0.07
32 4 0.07
33 5 0.09
34 18 0.33
35 1 0.02
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (32 bp):
TTAAAATATAAATTATATATTCGAAATTTAAA
Found at i:481550 original size:23 final size:20
Alignment explanation
Indices: 481524--481574 Score: 68
Period size: 19 Copynumber: 2.5 Consensus size: 20
481514 TAATTAATAT
481524 ATAAAATATTATTAATTTATTAA
1 ATAAAATATT-TT-A-TTATTAA
481547 ATAAAATA-TTTATTATTAA
1 ATAAAATATTTTATTATTAA
481566 ATAAAATAT
1 ATAAAATAT
481575 GTGGCAGTCG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 15 0.56
20 1 0.04
21 2 0.07
22 1 0.04
23 8 0.30
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
ATAAAATATTTTATTATTAA
Found at i:481572 original size:24 final size:23
Alignment explanation
Indices: 481514--481573 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 23
481504 AAATCGATAA
*
481514 TAATTAAT-ATATAAAATATTAT
1 TAATTAATAAAATAAAATATTAT
* *
481536 TAATTTATTAAATAAAATATTTAT
1 TAATTAATAAAATAAAATA-TTAT
481560 T-ATTAAATAAAATA
1 TAATT-AATAAAATA
481574 TGTGGCAGTC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
22 7 0.23
23 12 0.39
24 12 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TAATTAATAAAATAAAATATTAT
Found at i:484884 original size:35 final size:35
Alignment explanation
Indices: 484840--484919 Score: 94
Period size: 35 Copynumber: 2.3 Consensus size: 35
484830 ATATTTCAGT
484840 TAATTTTGTT-T-A-TCACCATTTAATATCAGTTATTG
1 TAATTTTGTTATCATTCACCATTTAATA-C--TTATTG
*
484875 TAATTTTGTTATCATTTACCATTTAATACTTATTG
1 TAATTTTGTTATCATTCACCATTTAATACTTATTG
*
484910 TAAGTTTGTT
1 TAATTTTGTT
484920 GTATTTAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
35 25 0.62
36 1 0.03
37 2 0.05
38 12 0.30
ACGTcount: A:0.28, C:0.10, G:0.09, T:0.54
Consensus pattern (35 bp):
TAATTTTGTTATCATTCACCATTTAATACTTATTG
Found at i:489110 original size:2 final size:2
Alignment explanation
Indices: 489103--489153 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
489093 TTTAGTTTAC
489103 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
489145 GT AT AT AT A
1 AT AT AT AT A
489154 ATCAATTTTG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:489231 original size:15 final size:15
Alignment explanation
Indices: 489211--489240 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
489201 TTGTTTTACA
*
489211 GATTTAAATATTAAT
1 GATTTAAACATTAAT
489226 GATTTAAACATTAAT
1 GATTTAAACATTAAT
489241 AGTATTCAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (15 bp):
GATTTAAACATTAAT
Found at i:490744 original size:31 final size:31
Alignment explanation
Indices: 490708--490784 Score: 127
Period size: 31 Copynumber: 2.5 Consensus size: 31
490698 GCTAGTTTTA
* * *
490708 AAAGTTGGGTTACCAAAATATAAGCACCCTT
1 AAAGTTTGGTAACCAAAATACAAGCACCCTT
490739 AAAGTTTGGTAACCAAAATACAAGCACCCTT
1 AAAGTTTGGTAACCAAAATACAAGCACCCTT
490770 AAAGTTTGGTAACCA
1 AAAGTTTGGTAACCA
490785 TTTCTGTAGG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (31 bp):
AAAGTTTGGTAACCAAAATACAAGCACCCTT
Found at i:495443 original size:43 final size:42
Alignment explanation
Indices: 495369--495456 Score: 122
Period size: 43 Copynumber: 2.1 Consensus size: 42
495359 ATCTAAGTCT
* * *
495369 ATTCATTATTTTTTTTGGCTGAGGGAGAAAATAAATACCTCA
1 ATTCATTATTTATTTTGCCTGAAGGAGAAAATAAATACCTCA
* *
495411 ATTCATTTATTTATTTTGCCTGAAGGATAAAATAAATACCTTA
1 ATTCA-TTATTTATTTTGCCTGAAGGAGAAAATAAATACCTCA
495454 ATT
1 ATT
495457 ATATATTAGT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
42 5 0.12
43 35 0.88
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.41
Consensus pattern (42 bp):
ATTCATTATTTATTTTGCCTGAAGGAGAAAATAAATACCTCA
Found at i:500939 original size:24 final size:24
Alignment explanation
Indices: 500912--501041 Score: 102
Period size: 24 Copynumber: 5.4 Consensus size: 24
500902 ATCAAAGCAT
*
500912 AATTCATGTCAAATATCATATTAA
1 AATTCATGTCAAATATCATATCAA
* * *
500936 AATTCAGGTCCAATATCAGATCAA
1 AATTCATGTCAAATATCATATCAA
* * * * *
500960 AATCCAAGTCAAGTATCAGATCAG
1 AATTCATGTCAAATATCATATCAA
* *
500984 AA-TCTATGTCAGATATCATATCAG
1 AATTC-ATGTCAAATATCATATCAA
* *
501008 AATTCAAGTCGAAA-ATCATATAAA
1 AATTCATGTC-AAATATCATATCAA
501032 ATATTCATGT
1 A-ATTCATGT
501042 GAGTAGGGAA
Statistics
Matches: 83, Mismatches: 19, Indels: 7
0.76 0.17 0.06
Matches are distributed among these distances:
23 1 0.01
24 71 0.86
25 11 0.13
ACGTcount: A:0.43, C:0.16, G:0.11, T:0.30
Consensus pattern (24 bp):
AATTCATGTCAAATATCATATCAA
Found at i:511093 original size:22 final size:22
Alignment explanation
Indices: 511066--511135 Score: 140
Period size: 22 Copynumber: 3.2 Consensus size: 22
511056 GGTCTTGTTG
511066 CGTCTATCTGTGCTATGCAACT
1 CGTCTATCTGTGCTATGCAACT
511088 CGTCTATCTGTGCTATGCAACT
1 CGTCTATCTGTGCTATGCAACT
511110 CGTCTATCTGTGCTATGCAACT
1 CGTCTATCTGTGCTATGCAACT
511132 CGTC
1 CGTC
511136 CATATTGTGA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.17, C:0.29, G:0.19, T:0.36
Consensus pattern (22 bp):
CGTCTATCTGTGCTATGCAACT
Found at i:512505 original size:17 final size:18
Alignment explanation
Indices: 512481--512523 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
512471 AAAAAATAAT
512481 TAAA-TAAAATA-TTAAA
1 TAAATTAAAATACTTAAA
512497 TAAATT-AAATACTTAAA
1 TAAATTAAAATACTTAAA
512514 TAAATTAAAA
1 TAAATTAAAA
512524 ACAAAATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 9 0.38
17 12 0.50
18 3 0.12
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (18 bp):
TAAATTAAAATACTTAAA
Found at i:512754 original size:49 final size:49
Alignment explanation
Indices: 512689--512800 Score: 224
Period size: 49 Copynumber: 2.3 Consensus size: 49
512679 TAATTAAACC
512689 TAAGGCGCGCCGCAAGAGGCGCATTTCTGATGCGTGTCAGATTTAAAGG
1 TAAGGCGCGCCGCAAGAGGCGCATTTCTGATGCGTGTCAGATTTAAAGG
512738 TAAGGCGCGCCGCAAGAGGCGCATTTCTGATGCGTGTCAGATTTAAAGG
1 TAAGGCGCGCCGCAAGAGGCGCATTTCTGATGCGTGTCAGATTTAAAGG
512787 TAAGGCGCGCCGCA
1 TAAGGCGCGCCGCA
512801 GGGGCCGCGC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 63 1.00
ACGTcount: A:0.24, C:0.22, G:0.33, T:0.21
Consensus pattern (49 bp):
TAAGGCGCGCCGCAAGAGGCGCATTTCTGATGCGTGTCAGATTTAAAGG
Found at i:520876 original size:42 final size:42
Alignment explanation
Indices: 520825--520915 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
520815 AGTGAAATTC
520825 TAAT-TATTTAAATAAAAATTATTTATATAAAAATTCATCGA
1 TAATATATTTAAATAAAAATTATTTATATAAAAATTCATCGA
* *
520866 TAATATATTTAAATAAAAATTATTTATATGAAAATTTATCGA
1 TAATATATTTAAATAAAAATTATTTATATAAAAATTCATCGA
520908 TAATATAT
1 TAATATAT
520916 CATTTTATTA
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
41 4 0.09
42 43 0.91
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (42 bp):
TAATATATTTAAATAAAAATTATTTATATAAAAATTCATCGA
Found at i:520904 original size:16 final size:15
Alignment explanation
Indices: 520826--520901 Score: 61
Period size: 15 Copynumber: 5.3 Consensus size: 15
520816 GTGAAATTCT
520826 AATTATTTAAATAAA
1 AATTATTTAAATAAA
*
520841 AATTATTTATATAAA
1 AATTATTTAAATAAA
**
520856 AATTCA--TCGAT-AA
1 AATT-ATTTAAATAAA
*
520869 TA-TATTTAAATAAA
1 AATTATTTAAATAAA
* *
520883 AATTATTTATATGAA
1 AATTATTTAAATAAA
520898 AATT
1 AATT
520902 TATCGATAAT
Statistics
Matches: 47, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
11 1 0.02
12 1 0.02
13 6 0.13
14 6 0.13
15 32 0.68
16 1 0.02
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (15 bp):
AATTATTTAAATAAA
Found at i:520951 original size:21 final size:21
Alignment explanation
Indices: 520909--520948 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
520899 ATTTATCGAT
*
520909 AATATATCATTTTATTATTTA
1 AATATATCATTGTATTATTTA
520930 AATATATCA-TGTATTATTT
1 AATATATCATTGTATTATTT
520949 TAATTTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.55
Consensus pattern (21 bp):
AATATATCATTGTATTATTTA
Found at i:523116 original size:69 final size:69
Alignment explanation
Indices: 523033--523172 Score: 253
Period size: 69 Copynumber: 2.0 Consensus size: 69
523023 ATGAACACAA
523033 TTCCAGAACAGGATAAATAACCATAATTTCCACAAACAAATCTCAAAGACAAATTAATGAAGTAA
1 TTCCAGAACAGGATAAATAACCATAATTTCCACAAACAAATCTCAAAGACAAATTAATGAAGTAA
523098 ACTC
66 ACTC
* * *
523102 TTCCAGAACAGGATAAATAGCCATAATTTCTACAAACAAATCTCAAAGACAAATTAATGAAGTGA
1 TTCCAGAACAGGATAAATAACCATAATTTCCACAAACAAATCTCAAAGACAAATTAATGAAGTAA
523167 ACTC
66 ACTC
523171 TT
1 TT
523173 ATGTCAAACA
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.47, C:0.19, G:0.10, T:0.24
Consensus pattern (69 bp):
TTCCAGAACAGGATAAATAACCATAATTTCCACAAACAAATCTCAAAGACAAATTAATGAAGTAA
ACTC
Found at i:524593 original size:18 final size:19
Alignment explanation
Indices: 524558--524594 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
524548 CATTGAATGT
524558 AAGATTATCAGTGGGAATAA
1 AAGATTATCAG-GGGAATAA
524578 AAGATTATCA-GGGAATA
1 AAGATTATCAGGGGAATA
524595 GGATTACTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.05, G:0.24, T:0.24
Consensus pattern (19 bp):
AAGATTATCAGGGGAATAA
Found at i:525264 original size:9 final size:9
Alignment explanation
Indices: 525242--525270 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
525232 GTAGGTAAAT
525242 ATTATTTT-
1 ATTATTTTA
525250 ATTATTTTA
1 ATTATTTTA
525259 ATTATTTTA
1 ATTATTTTA
525268 ATT
1 ATT
525271 TGGTTTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
ATTATTTTA
Found at i:525786 original size:2 final size:2
Alignment explanation
Indices: 525781--525847 Score: 134
Period size: 2 Copynumber: 33.5 Consensus size: 2
525771 AAATAAATTT
525781 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
525823 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
525848 TCATGATTCA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 65 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:525980 original size:30 final size:29
Alignment explanation
Indices: 525932--525988 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 29
525922 AATTTTAATT
525932 ATTTTTTTAATATGAATTTATTAATTTACA
1 ATTTTTTTAATATGAATTT-TTAATTTACA
* *
525962 ATTTTTTT-ATAATTAATTTTTTATTTA
1 ATTTTTTTAAT-ATGAATTTTTAATTTA
525989 ATTGTACATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (29 bp):
ATTTTTTTAATATGAATTTTTAATTTACA
Found at i:528899 original size:23 final size:23
Alignment explanation
Indices: 528873--528920 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
528863 ATAAAGTACA
*
528873 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
528896 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
528919 AT
1 AT
528921 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:529327 original size:21 final size:20
Alignment explanation
Indices: 529297--529350 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
529287 GATAGACACT
*
529297 TTACAATATAACCATTACCTA
1 TTACATTATAACCA-TACCTA
*
529318 TTACATTATATAAACGATACCTA
1 TTACA-T-TAT-AACCATACCTA
529341 TTACATTATA
1 TTACATTATA
529351 TAAGGGCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 1 0.04
21 8 0.29
22 1 0.04
23 14 0.50
24 4 0.14
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.37
Consensus pattern (20 bp):
TTACATTATAACCATACCTA
Done.