Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, 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: 22724830
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82000 characters in sequence are not A, C, G, or T
File 74 of 109
Found at i:14765419 original size:24 final size:25
Alignment explanation
Indices: 14765368--14765420 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
14765358 TCACACACAC
* *
14765368 AAATATATTAGGTAATCATGCAAAT
1 AAATATATTAGATAATCATGAAAAT
14765393 AAATATATTA-ATAATCAT-AAAATT
1 AAATATATTAGATAATCATGAAAA-T
14765417 AAAT
1 AAAT
14765421 TAATAAATCG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 3 0.12
24 12 0.48
25 10 0.40
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.34
Consensus pattern (25 bp):
AAATATATTAGATAATCATGAAAAT
Found at i:14765452 original size:18 final size:18
Alignment explanation
Indices: 14765425--14765460 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
14765415 TTAAATTAAT
* *
14765425 AAATCGTGCAATTAAATA
1 AAATCATGCAAATAAATA
14765443 AAATCATGCAAATAAATA
1 AAATCATGCAAATAAATA
14765461 TATTAGACAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.11, G:0.08, T:0.25
Consensus pattern (18 bp):
AAATCATGCAAATAAATA
Found at i:14765488 original size:16 final size:17
Alignment explanation
Indices: 14765445--14765495 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
14765435 ATTAAATAAA
*
14765445 ATCATGCAAATAAATAT
1 ATCATACAAATAAATAT
* *
14765462 ATTAGACAAATAAAT-T
1 ATCATACAAATAAATAT
14765478 ATCATACAAATATAATAT
1 ATCATACAAATA-AATAT
14765496 TAGTCATGTA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
16 11 0.41
17 15 0.56
18 1 0.04
ACGTcount: A:0.55, C:0.10, G:0.04, T:0.31
Consensus pattern (17 bp):
ATCATACAAATAAATAT
Found at i:14765495 original size:122 final size:121
Alignment explanation
Indices: 14765258--14765475 Score: 273
Period size: 122 Copynumber: 1.8 Consensus size: 121
14765248 AAATTAAATA
* *
14765258 TAATCATACAAATAAATATATTAATAATCATGCAAATATATTAATAAATCACACAAATAAATATA
1 TAATCATACAAATAAATATATTAATAATCATGAAAATAAATTAATAAATCACACAAATAAATATA
* ** *
14765323 TTAATCATGCAAATAAATACATTAATAACATGCAATCACACACACAAATATATTAGG
66 -TAATCATGCAAATAAATACATTAACAACATAAAATCACACAAACAAATATATTAGG
* *** *
14765380 TAATCATGCAAATAAATATATTAATAATCAT-AAAATTAAATTAATAAATCGTGCAATTAAATA-
1 TAATCATACAAATAAATATATTAATAATCATGAAAA-TAAATTAATAAATCACACAAATAAATAT
*
14765443 A-AATCATGCAAATAAATATATTAGACAA-ATAAA
65 ATAATCATGCAAATAAATACATTA-ACAACATAAA
14765476 TTATCATACA
Statistics
Matches: 83, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
119 24 0.29
120 3 0.04
121 4 0.05
122 52 0.63
ACGTcount: A:0.55, C:0.11, G:0.05, T:0.29
Consensus pattern (121 bp):
TAATCATACAAATAAATATATTAATAATCATGAAAATAAATTAATAAATCACACAAATAAATATA
TAATCATGCAAATAAATACATTAACAACATAAAATCACACAAACAAATATATTAGG
Found at i:14766066 original size:12 final size:12
Alignment explanation
Indices: 14766050--14766083 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
14766040 CACATTTTTC
14766050 TTTTTTTTTT-A
1 TTTTTTTTTTAA
14766061 TCTTTTTTTTTAA
1 T-TTTTTTTTTAA
14766074 TTTTTTTTTT
1 TTTTTTTTTT
14766084 TTACTAATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 1 0.05
12 18 0.86
13 2 0.10
ACGTcount: A:0.09, C:0.03, G:0.00, T:0.88
Consensus pattern (12 bp):
TTTTTTTTTTAA
Found at i:14766066 original size:13 final size:13
Alignment explanation
Indices: 14766044--14766086 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
14766034 AAATCCCACA
14766044 TTTT-TCTTTTTT
1 TTTTATCTTTTTT
14766056 TTTTATCTTTTTT
1 TTTTATCTTTTTT
* *
14766069 TTTAATTTTTTTT
1 TTTTATCTTTTTT
14766082 TTTTA
1 TTTTA
14766087 CTAATTGACT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
12 4 0.15
13 23 0.85
ACGTcount: A:0.09, C:0.05, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTTATCTTTTTT
Found at i:14774780 original size:26 final size:26
Alignment explanation
Indices: 14774751--14774800 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
14774741 CCAAACTGAG
*
14774751 AGTGATCTTTTATTTTCTGTAAATAA
1 AGTGATCTTTTATTTTCTATAAATAA
14774777 AGTGATCTTTTATTTTCTATAAAT
1 AGTGATCTTTTATTTTCTATAAAT
14774801 GGTATCCATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.30, C:0.08, G:0.10, T:0.52
Consensus pattern (26 bp):
AGTGATCTTTTATTTTCTATAAATAA
Found at i:14776871 original size:15 final size:15
Alignment explanation
Indices: 14776851--14776881 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
14776841 AAAAGCAATT
14776851 ATGACTCAAATGAAA
1 ATGACTCAAATGAAA
14776866 ATGACTCAAATGAAA
1 ATGACTCAAATGAAA
14776881 A
1 A
14776882 ATAAAGTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.13, G:0.13, T:0.19
Consensus pattern (15 bp):
ATGACTCAAATGAAA
Found at i:14777704 original size:6 final size:6
Alignment explanation
Indices: 14777689--14777734 Score: 67
Period size: 6 Copynumber: 7.8 Consensus size: 6
14777679 AAACCAGTTG
* *
14777689 AAAAAA AAAAAC AAAAA- AAAAAC AAAAAC AAAAAC AAAAGC AAAAA
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAA
14777735 TATACAACAC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
5 5 0.14
6 31 0.86
ACGTcount: A:0.87, C:0.11, G:0.02, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:14777706 original size:11 final size:11
Alignment explanation
Indices: 14777690--14777727 Score: 67
Period size: 11 Copynumber: 3.4 Consensus size: 11
14777680 AACCAGTTGA
14777690 AAAAAAAAAAC
1 AAAAAAAAAAC
14777701 AAAAAAAAAAC
1 AAAAAAAAAAC
14777712 AAAAACAAAAAC
1 AAAAA-AAAAAC
14777724 AAAA
1 AAAA
14777728 GCAAAAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 16 0.62
12 10 0.38
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:14779160 original size:12 final size:12
Alignment explanation
Indices: 14779145--14779174 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
14779135 GAAAAGGAAA
14779145 AAAAAAAAAAAC
1 AAAAAAAAAAAC
*
14779157 AAAAACAAAAAC
1 AAAAAAAAAAAC
14779169 AAAAAA
1 AAAAAA
14779175 CTTAGGGTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAC
Found at i:14784441 original size:34 final size:34
Alignment explanation
Indices: 14784383--14784447 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
14784373 AGTTTTATAT
*
14784383 CTTTAAAAAATTTATTCTTAAAAAATTATAATAC
1 CTTTAAAAAATATATTCTTAAAAAATTATAATAC
*
14784417 CTTTTAAAAATATATT-TTAGAAAAATTATAA
1 CTTTAAAAAATATATTCTTA-AAAAATTATAA
14784448 CATTTTTTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 3 0.11
34 25 0.89
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.42
Consensus pattern (34 bp):
CTTTAAAAAATATATTCTTAAAAAATTATAATAC
Found at i:14789491 original size:17 final size:17
Alignment explanation
Indices: 14789471--14789504 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
14789461 TTATCATTTA
*
14789471 AAAAAAATTTTTTTATT
1 AAAAAAATTATTTTATT
*
14789488 AAAAATATTATTTTATT
1 AAAAAAATTATTTTATT
14789505 CATAAATCAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AAAAAAATTATTTTATT
Found at i:14789923 original size:14 final size:15
Alignment explanation
Indices: 14789893--14789926 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
14789883 CTTTTTTCTT
*
14789893 TTTTATGAAAATGTA
1 TTTTATGAAAATATA
14789908 TTTTAT-AAAATATA
1 TTTTATGAAAATATA
14789922 TTTTA
1 TTTTA
14789927 AAAGAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (15 bp):
TTTTATGAAAATATA
Found at i:14791307 original size:31 final size:30
Alignment explanation
Indices: 14791246--14791312 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 30
14791236 CACCAAAATA
*
14791246 ACCTCGTGTAAATCATCTCAGCACATATTC
1 ACCTCGTGTAAATCATCTCAGCACAGATTC
* *
14791276 ACCTCAGTGTAAATCA-CTTAGGCATAGATTC
1 ACCTC-GTGTAAATCATCTCA-GCACAGATTC
14791307 ACCTCG
1 ACCTCG
14791313 ATATAAGTCA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 9 0.28
31 23 0.72
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.28
Consensus pattern (30 bp):
ACCTCGTGTAAATCATCTCAGCACAGATTC
Found at i:14796439 original size:21 final size:21
Alignment explanation
Indices: 14796413--14796459 Score: 73
Period size: 18 Copynumber: 2.4 Consensus size: 21
14796403 GAGGATATAC
14796413 TTAAGGATGATACATTTGTGG
1 TTAAGGATGATACATTTGTGG
14796434 TTAA-G--GATACATTTGTGG
1 TTAAGGATGATACATTTGTGG
14796452 TTAAGGAT
1 TTAAGGAT
14796460 ACATTTATGG
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
18 17 0.74
19 1 0.04
20 1 0.04
21 4 0.17
ACGTcount: A:0.30, C:0.04, G:0.28, T:0.38
Consensus pattern (21 bp):
TTAAGGATGATACATTTGTGG
Found at i:14796444 original size:18 final size:18
Alignment explanation
Indices: 14796421--14796525 Score: 104
Period size: 18 Copynumber: 5.8 Consensus size: 18
14796411 ACTTAAGGAT
*
14796421 GATACATTTGTGGTTAAG
1 GATACATTTGTGGTGAAG
*
14796439 GATACATTTGTGGTTAAG
1 GATACATTTGTGGTGAAG
* * *
14796457 GATACATTTATGGTAAAT
1 GATACATTTGTGGTGAAG
** *
14796475 GATACATTTAAGGTGGAG
1 GATACATTTGTGGTGAAG
*
14796493 GATACATTTGAGGTGGAA-
1 GATACATTTGTGGT-GAAG
*
14796511 GATACATTTGAGGTG
1 GATACATTTGTGGTG
14796526 GATGACAACT
Statistics
Matches: 77, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
17 1 0.01
18 74 0.96
19 2 0.03
ACGTcount: A:0.31, C:0.06, G:0.29, T:0.34
Consensus pattern (18 bp):
GATACATTTGTGGTGAAG
Found at i:14801877 original size:16 final size:16
Alignment explanation
Indices: 14801853--14801887 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
14801843 CTTGATGACA
*
14801853 TATCTTTAACAATTGG
1 TATCCTTAACAATTGG
*
14801869 TATCCTTAATAATTGG
1 TATCCTTAACAATTGG
14801885 TAT
1 TAT
14801888 GAGCTTGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.46
Consensus pattern (16 bp):
TATCCTTAACAATTGG
Found at i:14802575 original size:37 final size:38
Alignment explanation
Indices: 14802501--14802576 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
14802491 TTAAGTTGTG
* *
14802501 TTGGATTAGGATGCATAAATTGAGGGGGAGTTTTGCCA
1 TTGGATTAGGATGCACAAATTGAAGGGGAGTTTTGCCA
14802539 TTGGATTAGGATGCACAAATT-AAGGGGAGTTTTGCCA
1 TTGGATTAGGATGCACAAATTGAAGGGGAGTTTTGCCA
14802576 T
1 T
14802577 GCATTGATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
37 16 0.44
38 20 0.56
ACGTcount: A:0.28, C:0.09, G:0.32, T:0.32
Consensus pattern (38 bp):
TTGGATTAGGATGCACAAATTGAAGGGGAGTTTTGCCA
Found at i:14810526 original size:21 final size:20
Alignment explanation
Indices: 14810488--14810526 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
14810478 ATATGTTTTT
* *
14810488 AAAAGGTATTAAATTTTTAA
1 AAAAGGAATTAAAATTTTAA
14810508 AAAAGGAATTTAAAATTTT
1 AAAAGGAA-TTAAAATTTT
14810527 TAACTTAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.38
Consensus pattern (20 bp):
AAAAGGAATTAAAATTTTAA
Found at i:14811416 original size:24 final size:24
Alignment explanation
Indices: 14811375--14811421 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
14811365 TGGTAATCTA
*
14811375 AAACACAACAAGATAATACGACAC
1 AAACACAACAAGAAAATACGACAC
* * *
14811399 AAACACAATATGAAAATAGGACA
1 AAACACAACAAGAAAATACGACA
14811422 TGAAGGTAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.60, C:0.19, G:0.11, T:0.11
Consensus pattern (24 bp):
AAACACAACAAGAAAATACGACAC
Found at i:14815931 original size:13 final size:13
Alignment explanation
Indices: 14815913--14815937 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14815903 AAGGGGTCAT
14815913 AGGATTTGATCAC
1 AGGATTTGATCAC
14815926 AGGATTTGATCA
1 AGGATTTGATCA
14815938 ACAGTGAGTT
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:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (13 bp):
AGGATTTGATCAC
Found at i:14821420 original size:127 final size:129
Alignment explanation
Indices: 14821287--14821575 Score: 365
Period size: 132 Copynumber: 2.2 Consensus size: 129
14821277 CCTTTTTTAA
*
14821287 ATTAAATCATATTAAATATTTAAACTATATAAATATTGATTTGA-A-GT-TTCTAT-TTTTTATC
1 ATTAAATCATATTAAATATTTAAA-TATATAAATATTGATTT-ATATGTATTCT-TCTTTTAAT-
* *
14821348 CAA-ATA-ATCAAAATCCAATTATATATTATTCAAAATAATCAATAACAAAAACTTTCCAATTAA
62 CAACATATATCAAAATCCAATTATATATTATTCAAAATAATCAATAACAAAAAATTTCCAAATAA
*
14821411 ATT
127 ATC
* * *
14821414 ATTAAATTAAATTAAATATTTAGAATATATAAATATTGATTTATATTTAAATTCTTCTTTTAATC
1 ATTAAATCATATTAAATATTTA-AATATATAAATATTGATTTATATGT--ATTCTTCTTTTAATC
* * *
14821479 AACATATATCTAAATCCAATTATATATTATTCAAAATAATCAATAATAAAAAATTTTCAAATAAA
63 AACATATATCAAAATCCAATTATATATTATTCAAAATAATCAATAACAAAAAATTTCCAAATAAA
14821544 TC
128 TC
*
14821546 ATTAACTCATATTAAATATTCTAAATATAT
1 ATTAAATCATATTAAATATT-TAAATATAT
14821576 CTAAATATAT
Statistics
Matches: 139, Mismatches: 13, Indels: 15
0.83 0.08 0.09
Matches are distributed among these distances:
126 1 0.01
127 38 0.27
128 3 0.02
130 4 0.03
131 13 0.09
132 78 0.56
133 2 0.01
ACGTcount: A:0.47, C:0.10, G:0.02, T:0.41
Consensus pattern (129 bp):
ATTAAATCATATTAAATATTTAAATATATAAATATTGATTTATATGTATTCTTCTTTTAATCAAC
ATATATCAAAATCCAATTATATATTATTCAAAATAATCAATAACAAAAAATTTCCAAATAAATC
Found at i:14821578 original size:10 final size:10
Alignment explanation
Indices: 14821554--14821585 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
14821544 TCATTAACTC
14821554 ATAT-TAAAT
1 ATATCTAAAT
14821563 AT-TCTAAAT
1 ATATCTAAAT
14821572 ATATCTAAAT
1 ATATCTAAAT
14821582 ATAT
1 ATAT
14821586 TTTTAAATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 1 0.05
9 9 0.43
10 11 0.52
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (10 bp):
ATATCTAAAT
Found at i:14821615 original size:28 final size:27
Alignment explanation
Indices: 14821569--14821621 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
14821559 AAATATTCTA
*
14821569 AATATATCTAAATATATTTTTAAATTCG
1 AATATATCTAAATACA-TTTTAAATTCG
*
14821597 AATATATCTAAATCCATTTTAAATT
1 AATATATCTAAATACATTTTAAATT
14821622 TAACATTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 9 0.39
28 14 0.61
ACGTcount: A:0.43, C:0.09, G:0.02, T:0.45
Consensus pattern (27 bp):
AATATATCTAAATACATTTTAAATTCG
Found at i:14821859 original size:20 final size:20
Alignment explanation
Indices: 14821821--14821860 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
14821811 ATTGATTTAT
* * *
14821821 AAAATCTTATATTTCAAAAA
1 AAAATATTATATCTAAAAAA
14821841 AAAATATTATATCTAAAAAA
1 AAAATATTATATCTAAAAAA
14821861 GTGTTATATG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAATATTATATCTAAAAAA
Found at i:14822871 original size:19 final size:19
Alignment explanation
Indices: 14822849--14822890 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
14822839 TTATAAAAAA
14822849 TTTTAAATTTTAT-TTTTGT
1 TTTTAAATTTTATCTTTT-T
* *
14822868 TTTTTATTTTTATCTTTTT
1 TTTTAAATTTTATCTTTTT
14822887 TTTT
1 TTTT
14822891 TTAGTTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.14, C:0.02, G:0.02, T:0.81
Consensus pattern (19 bp):
TTTTAAATTTTATCTTTTT
Found at i:14822872 original size:13 final size:13
Alignment explanation
Indices: 14822856--14822899 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
14822846 AAATTTTAAA
14822856 TTTTATTTTTGTT
1 TTTTATTTTTGTT
*
14822869 TTTTATTTTTATCT
1 TTTTATTTTTGT-T
*
14822883 TTTTTTTTTTAGTT
1 TTTTATTTTT-GTT
14822897 TTT
1 TTT
14822900 AAATTTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
13 11 0.42
14 14 0.54
15 1 0.04
ACGTcount: A:0.09, C:0.02, G:0.05, T:0.84
Consensus pattern (13 bp):
TTTTATTTTTGTT
Found at i:14822891 original size:21 final size:22
Alignment explanation
Indices: 14822860--14822911 Score: 65
Period size: 20 Copynumber: 2.5 Consensus size: 22
14822850 TTTAAATTTT
*
14822860 ATTTTTGTTTTTTA-TTTTT--
1 ATTTTTTTTTTTTAGTTTTTAA
14822879 ATCTTTTTTTTTTTAGTTTTTAA
1 AT-TTTTTTTTTTTAGTTTTTAA
14822902 ATTTTTTTTT
1 ATTTTTTTTT
14822912 AATTAGATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 2 0.07
20 11 0.39
21 5 0.18
22 8 0.29
23 2 0.07
ACGTcount: A:0.13, C:0.02, G:0.04, T:0.81
Consensus pattern (22 bp):
ATTTTTTTTTTTTAGTTTTTAA
Found at i:14825173 original size:2 final size:2
Alignment explanation
Indices: 14825166--14825193 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
14825156 TGAAGTCTTA
14825166 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
14825194 CCACACACTA
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:14826612 original size:13 final size:13
Alignment explanation
Indices: 14826594--14826651 Score: 64
Period size: 13 Copynumber: 4.5 Consensus size: 13
14826584 TCACTTAGGG
*
14826594 TTTAGGGTTTTAT
1 TTTAGGGTTTCAT
14826607 TTTAGGGTTTCA-
1 TTTAGGGTTTCAT
* *
14826619 TTTAGGATTTAATT
1 TTTAGGGTTTCA-T
14826633 TTTAGGGTTTCAT
1 TTTAGGGTTTCAT
*
14826646 CTTAGG
1 TTTAGG
14826652 ATTTTAGAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
12 10 0.27
13 17 0.46
14 10 0.27
ACGTcount: A:0.19, C:0.05, G:0.22, T:0.53
Consensus pattern (13 bp):
TTTAGGGTTTCAT
Found at i:14826816 original size:3 final size:3
Alignment explanation
Indices: 14826775--14826799 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
14826765 TTCTTTTTTA
14826775 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
14826800 CTTAGCCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:14827228 original size:22 final size:25
Alignment explanation
Indices: 14827201--14827245 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
14827191 AGTTTTTACC
14827201 TACTA-TT-TTTA-TTTTTATTTAT
1 TACTATTTCTTTATTTTTTATTTAT
14827223 TACTATTTCTTTATTTTTTATTT
1 TACTATTTCTTTATTTTTTATTT
14827246 CGTTAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 5 0.25
23 2 0.10
24 4 0.20
25 9 0.45
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (25 bp):
TACTATTTCTTTATTTTTTATTTAT
Found at i:14828301 original size:14 final size:14
Alignment explanation
Indices: 14828284--14828312 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
14828274 CAGGTATCAT
14828284 TTTTTTTTTTTTGC
1 TTTTTTTTTTTTGC
14828298 TTTTTTTTTTTTGC
1 TTTTTTTTTTTTGC
14828312 T
1 T
14828313 ACAAGTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.86
Consensus pattern (14 bp):
TTTTTTTTTTTTGC
Found at i:14829650 original size:19 final size:20
Alignment explanation
Indices: 14829628--14829667 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
14829618 TTCGTTCATA
*
14829628 TTTTTGTTT-TTTGGTTTTT
1 TTTTTGTTTATTTAGTTTTT
14829647 TTTTTGTTTATTTAGTTTTT
1 TTTTTGTTTATTTAGTTTTT
14829667 T
1 T
14829668 ACTTTTTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.05, C:0.00, G:0.12, T:0.82
Consensus pattern (20 bp):
TTTTTGTTTATTTAGTTTTT
Found at i:14829835 original size:31 final size:31
Alignment explanation
Indices: 14829800--14829880 Score: 90
Period size: 31 Copynumber: 2.6 Consensus size: 31
14829790 TGATTGGGAC
* *
14829800 TGAACCGTAAGTCAAATGAGGTGATCAAGAT
1 TGAACCGCAAGTCAAATGAAGTGATCAAGAT
* *
14829831 TGAACCGCATGTCAAATGAAGTGATTAAGAT
1 TGAACCGCAAGTCAAATGAAGTGATCAAGAT
* * * *
14829862 TAAATCACAAGTTAAATGA
1 TGAACCGCAAGTCAAATGA
14829881 GGTAATTGCT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.42, C:0.12, G:0.21, T:0.25
Consensus pattern (31 bp):
TGAACCGCAAGTCAAATGAAGTGATCAAGAT
Found at i:14830166 original size:32 final size:32
Alignment explanation
Indices: 14830106--14830176 Score: 97
Period size: 32 Copynumber: 2.2 Consensus size: 32
14830096 AATTGGACTT
* * * *
14830106 AATTTTCATAAATGCTAGTTAAATTGAGCTTA
1 AATTTTTATAAATGCCAGCTAAACTGAGCTTA
*
14830138 AATTTTTATAAGTGCCAGCTAAACTGAGCTTA
1 AATTTTTATAAATGCCAGCTAAACTGAGCTTA
14830170 AATTTTT
1 AATTTTT
14830177 TTCATAGGTG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.41
Consensus pattern (32 bp):
AATTTTTATAAATGCCAGCTAAACTGAGCTTA
Found at i:14830195 original size:35 final size:33
Alignment explanation
Indices: 14830125--14830210 Score: 95
Period size: 35 Copynumber: 2.5 Consensus size: 33
14830115 AAATGCTAGT
*
14830125 TAAATTGAGCTTAAA--TTTTTATAAGTGCCAGC
1 TAAA-TGAGCTTAAATTTTTTTATAAGTGCCAAC
*
14830157 TAAACTGAGCTTAAATTTTTTTCATAGGTGCCAAC
1 TAAA-TGAGCTTAAATTTTTTT-ATAAGTGCCAAC
*
14830192 TAAATTAGTCTTAAATTTT
1 TAAATGAG-CTTAAATTTT
14830211 CATAATGACT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
32 14 0.30
34 8 0.17
35 24 0.52
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.41
Consensus pattern (33 bp):
TAAATGAGCTTAAATTTTTTTATAAGTGCCAAC
Found at i:14830957 original size:19 final size:19
Alignment explanation
Indices: 14830909--14830967 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
14830899 AGTTTCACAA
* *
14830909 TTTAGGGTTTCACCTCGACC
1 TTTAGGGTTTCACCTAGA-G
* *
14830929 TTTCGGGTTTTACCTAGAG
1 TTTAGGGTTTCACCTAGAG
*
14830948 TTTAGGGTTTCACTTAGAG
1 TTTAGGGTTTCACCTAGAG
14830967 T
1 T
14830968 CACTTTTAGG
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.17, C:0.19, G:0.24, T:0.41
Consensus pattern (19 bp):
TTTAGGGTTTCACCTAGAG
Found at i:14833437 original size:23 final size:23
Alignment explanation
Indices: 14833401--14833444 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
14833391 TTTTTTGGTA
*
14833401 TTTTTTATTATTAATTATTATCC
1 TTTTTAATTATTAATTATTATCC
*
14833424 TTTTTAATTTTTAATTATTAT
1 TTTTTAATTATTAATTATTAT
14833445 TTTTATGGCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (23 bp):
TTTTTAATTATTAATTATTATCC
Found at i:14833447 original size:20 final size:20
Alignment explanation
Indices: 14833399--14833449 Score: 57
Period size: 23 Copynumber: 2.4 Consensus size: 20
14833389 ATTTTTTTGG
*
14833399 TATTTTTTATTATTAATTAT
1 TATTTTTAATTATTAATTAT
*
14833419 TATCCTTTTTAATTTTTAATTAT
1 TA---TTTTTAATTATTAATTAT
14833442 TATTTTTA
1 TATTTTTA
14833450 TGGCCAACGA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 8 0.31
23 18 0.69
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (20 bp):
TATTTTTAATTATTAATTAT
Found at i:14834139 original size:13 final size:13
Alignment explanation
Indices: 14834077--14834130 Score: 65
Period size: 13 Copynumber: 4.2 Consensus size: 13
14834067 CTCTAAAATA
*
14834077 AAACTCTAATCCCT
1 AAAC-CTAAACCCT
14834091 AAACCTAAACCCT
1 AAACCTAAACCCT
*
14834104 -AACCTAAACCTT
1 AAACCTAAACCCT
*
14834116 AAATCTAAACCCT
1 AAACCTAAACCCT
14834129 AA
1 AA
14834131 CCCTTAACCT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
12 11 0.31
13 20 0.57
14 4 0.11
ACGTcount: A:0.44, C:0.33, G:0.00, T:0.22
Consensus pattern (13 bp):
AAACCTAAACCCT
Found at i:14834146 original size:26 final size:25
Alignment explanation
Indices: 14834090--14834153 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 25
14834080 CTCTAATCCC
*
14834090 TAAACCTAAACCCTAACCTAAACCT
1 TAAATCTAAACCCTAACCTAAACCT
*
14834115 TAAATCTAAACCCTAACCCTTAACCT
1 TAAATCTAAACCCTAA-CCTAAACCT
* *
14834141 TCAATCTTAACCC
1 TAAATCTAAACCC
14834154 AAAAACTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 15 0.44
26 19 0.56
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (25 bp):
TAAATCTAAACCCTAACCTAAACCT
Found at i:14834162 original size:26 final size:26
Alignment explanation
Indices: 14834110--14834163 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
14834100 CCCTAACCTA
* **
14834110 AACCTTAAATCTAAACCCTAACCCTT
1 AACCTTAAATCTAAACCCAAAAACTT
* *
14834136 AACCTTCAATCTTAACCCAAAAACTT
1 AACCTTAAATCTAAACCCAAAAACTT
14834162 AA
1 AA
14834164 ACCTAAACCT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.43, C:0.31, G:0.00, T:0.26
Consensus pattern (26 bp):
AACCTTAAATCTAAACCCAAAAACTT
Found at i:14834300 original size:23 final size:24
Alignment explanation
Indices: 14834250--14834300 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
14834240 TTTGCATTTC
*
14834250 ATTTTATATTGTCATCATATACAT
1 ATTTTATATTATCATCATATACAT
14834274 -TTTTATATTATCATACAT-T-CAT
1 ATTTTATATTATCAT-CATATACAT
14834296 ATTTT
1 ATTTT
14834301 GTCATTCATA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
22 3 0.12
23 18 0.75
24 3 0.12
ACGTcount: A:0.31, C:0.12, G:0.02, T:0.55
Consensus pattern (24 bp):
ATTTTATATTATCATCATATACAT
Found at i:14834693 original size:24 final size:24
Alignment explanation
Indices: 14834650--14834699 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
14834640 TAAAAAAATG
*
14834650 AAGAAAAAAAAGAAAGAAAAGTAA
1 AAGAAAAAAAAGAAAGAAAAGGAA
*
14834674 AAGAAAAAAACAGAGA-AAAAGGAA
1 AAGAAAAAAA-AGAAAGAAAAGGAA
14834698 AA
1 AA
14834700 AAGAAATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.78, C:0.02, G:0.18, T:0.02
Consensus pattern (24 bp):
AAGAAAAAAAAGAAAGAAAAGGAA
Found at i:14839431 original size:21 final size:21
Alignment explanation
Indices: 14839373--14839434 Score: 72
Period size: 21 Copynumber: 2.8 Consensus size: 21
14839363 TTTGGTTCAA
14839373 TTTAAAATTAATAAGATATTATTT
1 TTTAAAA-T-ATAA-ATATTATTT
*
14839397 TTT-AAATGTAAAATATTATTT
1 TTTAAAATAT-AAATATTATTT
14839418 TTTAAAATATAAATATT
1 TTTAAAATATAAATATT
14839435 TAAATATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
21 20 0.59
22 8 0.24
23 3 0.09
24 3 0.09
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (21 bp):
TTTAAAATATAAATATTATTT
Found at i:14839445 original size:16 final size:16
Alignment explanation
Indices: 14839418--14839460 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
14839408 AATATTATTT
14839418 TTTAAA-ATATAAATA
1 TTTAAATATATAAATA
*
14839433 TTTAAATATATAATTA
1 TTTAAATATATAAATA
*
14839449 TCTAAATATATA
1 TTTAAATATATA
14839461 TAAATAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 6 0.24
16 19 0.76
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
TTTAAATATATAAATA
Found at i:14840927 original size:7 final size:7
Alignment explanation
Indices: 14840915--14840960 Score: 62
Period size: 7 Copynumber: 7.0 Consensus size: 7
14840905 TACTCATAAT
14840915 TTTTAAA
1 TTTTAAA
14840922 TTTTAAA
1 TTTTAAA
14840929 TTTTAAA
1 TTTTAAA
14840936 --TTAAA
1 TTTTAAA
*
14840941 TTTT-AT
1 TTTTAAA
14840947 TTTTAAA
1 TTTTAAA
14840954 TTTTAAA
1 TTTTAAA
14840961 AATTATTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
5 5 0.15
6 5 0.15
7 24 0.71
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
TTTTAAA
Found at i:14840941 original size:19 final size:18
Alignment explanation
Indices: 14840917--14840955 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
14840907 CTCATAATTT
14840917 TTAAATTTTAAATTTTAAA
1 TTAAATTTT-AATTTTAAA
*
14840936 TTAAATTTTATTTTTAAA
1 TTAAATTTTAATTTTAAA
14840954 TT
1 TT
14840956 TTAAAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTAAATTTTAATTTTAAA
Found at i:14841147 original size:29 final size:28
Alignment explanation
Indices: 14841096--14841154 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
14841086 TTAGGGATCA
*
14841096 AAATAAAATTCTCTTAAAGTTTAAGGAAT
1 AAATAAAATTCTCTTAAAATTTAA-GAAT
*
14841125 AAATTAAATTCT-TTCAAAATTTAAGAAT
1 AAATAAAATTCTCTT-AAAATTTAAGAAT
14841153 AA
1 AA
14841155 GACACAAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 8 0.30
29 19 0.70
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.36
Consensus pattern (28 bp):
AAATAAAATTCTCTTAAAATTTAAGAAT
Found at i:14841254 original size:24 final size:24
Alignment explanation
Indices: 14841209--14841254 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
14841199 TAAATTTAAA
* * * *
14841209 AATATATTTTTATATTTTTATTGT
1 AATATAATTTAATAGTTATATTGT
14841233 AATATAATTTAATAGTTATATT
1 AATATAATTTAATAGTTATATT
14841255 TTTATTTTAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (24 bp):
AATATAATTTAATAGTTATATTGT
Found at i:14842183 original size:31 final size:30
Alignment explanation
Indices: 14842109--14842218 Score: 103
Period size: 31 Copynumber: 3.5 Consensus size: 30
14842099 TTAAAATTAC
* *
14842109 ATATCATTTTAAAAAAATAAAGTAAAATTTTT
1 ATATCATTTT-AAAAATTAAA-TAAAAATTTT
***
14842141 ATATTGCTTTAAGAAATTAAATAAAAATTTT
1 ATATCATTTTAA-AAATTAAATAAAAATTTT
**
14842172 ATATCATTTTAAAATATTATGTAAAAATTTT
1 ATATCATTTTAAAA-ATTAAATAAAAATTTT
*
14842203 CAGATCATTTTAAAAA
1 -ATATCATTTTAAAAA
14842219 AATGATATAA
Statistics
Matches: 64, Mismatches: 11, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
30 2 0.03
31 35 0.55
32 27 0.42
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.42
Consensus pattern (30 bp):
ATATCATTTTAAAAATTAAATAAAAATTTT
Found at i:14843423 original size:18 final size:18
Alignment explanation
Indices: 14843402--14843436 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14843392 TATTAAAATA
*
14843402 ATTAATTTTATTTTTATT
1 ATTAATTTTAATTTTATT
*
14843420 ATTATTTTTAATTTTAT
1 ATTAATTTTAATTTTAT
14843437 CAAAATCAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
ATTAATTTTAATTTTATT
Found at i:14843436 original size:12 final size:12
Alignment explanation
Indices: 14843403--14843436 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
14843393 ATTAAAATAA
14843403 TTAATTTTATTT
1 TTAATTTTATTT
14843415 TT-ATTATTATTT
1 TTAATT-TTATTT
14843427 TTAATTTTAT
1 TTAATTTTAT
14843437 CAAAATCAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 3 0.15
12 14 0.70
13 3 0.15
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (12 bp):
TTAATTTTATTT
Found at i:14843548 original size:17 final size:18
Alignment explanation
Indices: 14843507--14843552 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
14843497 ATGAATGGAT
*
14843507 CAAAATTCAAA-ATCTTG
1 CAAAATTGAAATATCTTG
14843524 -AAATATTGAAATA-CTTG
1 CAAA-ATTGAAATATCTTG
14843541 CAAAATTGAAAT
1 CAAAATTGAAAT
14843553 TAATATAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
16 3 0.12
17 18 0.72
18 4 0.16
ACGTcount: A:0.50, C:0.11, G:0.09, T:0.30
Consensus pattern (18 bp):
CAAAATTGAAATATCTTG
Found at i:14845676 original size:21 final size:21
Alignment explanation
Indices: 14845652--14845692 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
14845642 TTGGTCTTTG
14845652 GGAAGTTGTTTGACAAAGATT
1 GGAAGTTGTTTGACAAAGATT
14845673 GGAAGTTGTTTGACAAAGAT
1 GGAAGTTGTTTGACAAAGAT
14845693 CATTATTTTT
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:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (21 bp):
GGAAGTTGTTTGACAAAGATT
Found at i:14846861 original size:21 final size:21
Alignment explanation
Indices: 14846835--14846874 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
14846825 ATGTTACTGT
* *
14846835 AATAACAATGATAATAATATC
1 AATAACAATAACAATAATATC
14846856 AATAACAATAACAATAATA
1 AATAACAATAACAATAATA
14846875 AAACAATTAG
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:0.62, C:0.10, G:0.03, T:0.25
Consensus pattern (21 bp):
AATAACAATAACAATAATATC
Found at i:14849212 original size:3 final size:3
Alignment explanation
Indices: 14849204--14849249 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
14849194 TGTCAAATCT
14849204 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
14849250 CAACTTAATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:14850148 original size:14 final size:14
Alignment explanation
Indices: 14850131--14850187 Score: 62
Period size: 14 Copynumber: 4.1 Consensus size: 14
14850121 AAAAATGAAG
14850131 ATTAAAATCATAAA
1 ATTAAAATCATAAA
* *
14850145 ATTAAGAT-ATAATG
1 ATTAAAATCATAA-A
14850159 ATTAAAATCATAAA
1 ATTAAAATCATAAA
* *
14850173 ATTAAGATGATAAA
1 ATTAAAATCATAAA
14850187 A
1 A
14850188 GAATTAAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
13 4 0.11
14 27 0.77
15 4 0.11
ACGTcount: A:0.60, C:0.04, G:0.07, T:0.30
Consensus pattern (14 bp):
ATTAAAATCATAAA
Found at i:14850167 original size:28 final size:29
Alignment explanation
Indices: 14850130--14850185 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 29
14850120 AAAAAATGAA
14850130 GATTAAAATCATAAAATTAAGAT-ATAAT
1 GATTAAAATCATAAAATTAAGATGATAAT
14850158 GATTAAAATCATAAAATTAAGATGATAA
1 GATTAAAATCATAAAATTAAGATGATAA
14850186 AAGAATTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
28 23 0.85
29 4 0.15
ACGTcount: A:0.57, C:0.04, G:0.09, T:0.30
Consensus pattern (29 bp):
GATTAAAATCATAAAATTAAGATGATAAT
Found at i:14850443 original size:22 final size:22
Alignment explanation
Indices: 14850415--14850462 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
14850405 AAACTAATCT
* *
14850415 AAAAAAAAAACTAATAATTTAA
1 AAAAAAAAAACTAAAAACTTAA
* *
14850437 AAAAAAAATAGTAAAAACTTAA
1 AAAAAAAAAACTAAAAACTTAA
14850459 AAAA
1 AAAA
14850463 CTTCCCAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.19
Consensus pattern (22 bp):
AAAAAAAAAACTAAAAACTTAA
Found at i:14850624 original size:21 final size:20
Alignment explanation
Indices: 14850591--14850633 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
14850581 TTTTAATTAC
14850591 AAAATTTTAAAAAAA-TCTG
1 AAAATTTTAAAAAAATTCTG
14850610 AAAATATTTATAAAAAATTCTG
1 AAAAT-TTTA-AAAAAATTCTG
14850632 AA
1 AA
14850634 CAAGGAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.24
20 4 0.19
21 6 0.29
22 6 0.29
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.33
Consensus pattern (20 bp):
AAAATTTTAAAAAAATTCTG
Found at i:14851069 original size:15 final size:16
Alignment explanation
Indices: 14851049--14851079 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
14851039 AATTTTATTG
14851049 AAATTTTCA-ATTTTT
1 AAATTTTCATATTTTT
14851064 AAATTTTCATATTTTT
1 AAATTTTCATATTTTT
14851080 TATTTTTTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.61
Consensus pattern (16 bp):
AAATTTTCATATTTTT
Found at i:14851081 original size:17 final size:16
Alignment explanation
Indices: 14851032--14851081 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 16
14851022 AAATTTCAGA
14851032 AAATTTT-AATTTTATT
1 AAATTTTCAATTTT-TT
14851048 GAAATTTTCAA-TTTTT
1 -AAATTTTCAATTTTTT
14851064 AAATTTTCATATTTTTT
1 AAATTTTCA-ATTTTTT
14851081 A
1 A
14851082 TTTTTTGGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 9 0.30
16 3 0.10
17 16 0.53
18 2 0.07
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (16 bp):
AAATTTTCAATTTTTT
Found at i:14851271 original size:21 final size:20
Alignment explanation
Indices: 14851232--14851270 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14851222 GAAAACGTTT
*
14851232 AAAAATTTTTGGGCTTTTTA
1 AAAAAATTTTGGGCTTTTTA
*
14851252 AAAAAATTTTGGGATTTTT
1 AAAAAATTTTGGGCTTTTT
14851271 TTTGAAAGGA
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:0.33, C:0.03, G:0.15, T:0.49
Consensus pattern (20 bp):
AAAAAATTTTGGGCTTTTTA
Found at i:14853367 original size:28 final size:28
Alignment explanation
Indices: 14853327--14853386 Score: 104
Period size: 28 Copynumber: 2.1 Consensus size: 28
14853317 ATCCCAAAGA
14853327 TTTATTCATAGCTATCATAAAA-TCGTTC
1 TTTATTCATAGCTATCATAAAACT-GTTC
14853355 TTTATTCATAGCTATCATAAAACTGTTC
1 TTTATTCATAGCTATCATAAAACTGTTC
14853383 TTTA
1 TTTA
14853387 AGCATAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 30 0.97
29 1 0.03
ACGTcount: A:0.32, C:0.17, G:0.07, T:0.45
Consensus pattern (28 bp):
TTTATTCATAGCTATCATAAAACTGTTC
Found at i:14856364 original size:21 final size:21
Alignment explanation
Indices: 14856339--14856381 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
14856329 TTTAATCACT
14856339 AGAATCAACCATGGTTTGACC
1 AGAATCAACCATGGTTTGACC
14856360 AGAATCAACCATGGTTTGACC
1 AGAATCAACCATGGTTTGACC
14856381 A
1 A
14856382 AAAATTTGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (21 bp):
AGAATCAACCATGGTTTGACC
Found at i:14859417 original size:23 final size:23
Alignment explanation
Indices: 14859391--14859446 Score: 112
Period size: 23 Copynumber: 2.4 Consensus size: 23
14859381 GGACACAATG
14859391 GAATAAAGCACCGAAAACAAGAA
1 GAATAAAGCACCGAAAACAAGAA
14859414 GAATAAAGCACCGAAAACAAGAA
1 GAATAAAGCACCGAAAACAAGAA
14859437 GAATAAAGCA
1 GAATAAAGCA
14859447 AGGAACATCC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.61, C:0.16, G:0.18, T:0.05
Consensus pattern (23 bp):
GAATAAAGCACCGAAAACAAGAA
Found at i:14859546 original size:13 final size:13
Alignment explanation
Indices: 14859523--14859597 Score: 59
Period size: 13 Copynumber: 5.9 Consensus size: 13
14859513 AACATATCAT
14859523 TTATAATTATTATA
1 TTAT-ATTATTATA
14859537 TTATATTATTACTA
1 TTATATTATTA-TA
* * *
14859551 TAAT-TTATAAGA
1 TTATATTATTATA
* *
14859563 ATATATCATT-T-
1 TTATATTATTATA
14859574 TTA-ATTATTATA
1 TTATATTATTATA
14859586 TTATATTATTAT
1 TTATATTATTAT
14859598 TAATCAATTA
Statistics
Matches: 46, Mismatches: 10, Indels: 11
0.69 0.15 0.16
Matches are distributed among these distances:
10 5 0.11
11 3 0.07
12 6 0.13
13 23 0.50
14 9 0.20
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.56
Consensus pattern (13 bp):
TTATATTATTATA
Found at i:14859590 original size:23 final size:23
Alignment explanation
Indices: 14859516--14859591 Score: 80
Period size: 23 Copynumber: 3.2 Consensus size: 23
14859506 GAATGAAAAC
14859516 ATATCATTTATAATTATTATATT
1 ATATCATTTATAATTATTATATT
* * * *
14859539 ATATTATTACTATAATTTATAAGAAT
1 ATATCATT--TATAA-TTATTATATT
*
14859565 ATATCATTTTTAATTATTATATT
1 ATATCATTTATAATTATTATATT
14859588 ATAT
1 ATAT
14859592 TATTATTAAT
Statistics
Matches: 41, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
23 18 0.44
24 4 0.10
25 5 0.12
26 14 0.34
ACGTcount: A:0.41, C:0.04, G:0.01, T:0.54
Consensus pattern (23 bp):
ATATCATTTATAATTATTATATT
Found at i:14860255 original size:26 final size:26
Alignment explanation
Indices: 14860226--14860283 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
14860216 ATGGCTAACA
*
14860226 AATTTAACAAATTTAAAATTTAAAGT
1 AATTTAACAAATTAAAAATTTAAAGT
****
14860252 AATTTTTTTAATTAAAAATTTAAAGT
1 AATTTAACAAATTAAAAATTTAAAGT
14860278 AATTTA
1 AATTTA
14860284 GAAAGATATA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (26 bp):
AATTTAACAAATTAAAAATTTAAAGT
Found at i:14861976 original size:14 final size:14
Alignment explanation
Indices: 14861954--14861985 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
14861944 TTCTAAGAAG
*
14861954 TTTTGCAAATATAT
1 TTTTACAAATATAT
14861968 TTTTACAAATATAT
1 TTTTACAAATATAT
14861982 TTTT
1 TTTT
14861986 CATGATGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.56
Consensus pattern (14 bp):
TTTTACAAATATAT
Found at i:14866387 original size:19 final size:19
Alignment explanation
Indices: 14866360--14866396 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
14866350 CCTTGCACTT
14866360 CCATACACACATCCTTCAC
1 CCATACACACATCCTTCAC
* *
14866379 CCATGCACACATCTTTCA
1 CCATACACACATCCTTCA
14866397 TATATTTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.43, G:0.03, T:0.24
Consensus pattern (19 bp):
CCATACACACATCCTTCAC
Found at i:14877594 original size:22 final size:23
Alignment explanation
Indices: 14877561--14877609 Score: 75
Period size: 22 Copynumber: 2.2 Consensus size: 23
14877551 ATTTAATATT
14877561 AAATTTATTTAAAT-ATAT-TAA
1 AAATTTATTTAAATAATATATAA
14877582 AAATTATATTTAAATAATATATAA
1 AAATT-TATTTAAATAATATATAA
14877606 AAAT
1 AAAT
14877610 AAAAAATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 5 0.20
22 9 0.36
23 4 0.16
24 7 0.28
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
AAATTTATTTAAATAATATATAA
Found at i:14881706 original size:2 final size:2
Alignment explanation
Indices: 14881699--14881726 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
14881689 TGATCTGGTC
14881699 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
14881727 GTATTGTATG
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:14885347 original size:2 final size:2
Alignment explanation
Indices: 14885340--14885378 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
14885330 AGGTGATTCT
14885340 TA TA TA TA TA TA TA 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 TA TA TA TA TA TA T
14885379 GAAATTTATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:14886075 original size:21 final size:22
Alignment explanation
Indices: 14886049--14886090 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
14886039 TCGAAACAAA
*
14886049 AAATTAA-ATATTATTTTTTTT
1 AAATTAATATATTATTCTTTTT
*
14886070 AAATTAATATTTTATTCTTTT
1 AAATTAATATATTATTCTTTT
14886091 AATAAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (22 bp):
AAATTAATATATTATTCTTTTT
Found at i:14886455 original size:22 final size:21
Alignment explanation
Indices: 14886395--14886487 Score: 82
Period size: 22 Copynumber: 4.3 Consensus size: 21
14886385 ATTTATCGTT
*
14886395 AAATTATGAATGATTTATTACTT
1 AAATTAT-AATGATTTATTA-TA
* *
14886418 AAA-TA-GATTATTTATTATA
1 AAATTATAATGATTTATTATA
*
14886437 AAATTATAATTGATTTATTATT
1 AAATTATAA-TGATTTATTATA
* *
14886459 AATTTATTAATGATTTACTATA
1 AAATTA-TAATGATTTATTATA
14886481 AAATTAT
1 AAATTAT
14886488 CAAGAATTAA
Statistics
Matches: 56, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
19 4 0.07
20 12 0.21
21 2 0.04
22 32 0.57
23 6 0.11
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.49
Consensus pattern (21 bp):
AAATTATAATGATTTATTATA
Found at i:14886548 original size:22 final size:22
Alignment explanation
Indices: 14886523--14886572 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
14886513 ATGATCACTT
** *
14886523 ATTTACAACTTAATTATTGATA
1 ATTTACAACAAAATTATTAATA
14886545 ATTTACAACAAAATTATTAATA
1 ATTTACAACAAAATTATTAATA
14886567 ATTTAC
1 ATTTAC
14886573 TATTACATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.42
Consensus pattern (22 bp):
ATTTACAACAAAATTATTAATA
Found at i:14886582 original size:22 final size:21
Alignment explanation
Indices: 14886556--14886662 Score: 83
Period size: 22 Copynumber: 4.9 Consensus size: 21
14886546 TTTACAACAA
*
14886556 AATTATTAATAATTTACTATT
1 AATTATCAATAATTTACTATT
* *
14886577 ACATTATCAGTGATTT-CTTATT
1 A-ATTATCAATAATTTAC-TATT
* *
14886599 AATTTATCAATAATTTATTACTA
1 AA-TTATCAATAATTTACTA-TT
*
14886622 AATTAGCAATAATTTACTATTT
1 AATTATCAATAATTTACTA-TT
*
14886644 TATTATC-ATACATTTACTA
1 AATTATCAATA-ATTTACTA
14886663 CTATGATATT
Statistics
Matches: 67, Mismatches: 13, Indels: 11
0.74 0.14 0.12
Matches are distributed among these distances:
21 6 0.09
22 58 0.87
23 3 0.04
ACGTcount: A:0.38, C:0.10, G:0.03, T:0.49
Consensus pattern (21 bp):
AATTATCAATAATTTACTATT
Found at i:14886985 original size:11 final size:11
Alignment explanation
Indices: 14886969--14887018 Score: 66
Period size: 11 Copynumber: 4.5 Consensus size: 11
14886959 ATGAAAATGA
14886969 TTATTATTAAG
1 TTATTATTAAG
*
14886980 TTATTA-TAATT
1 TTATTATTAA-G
14886991 TTATTATTAAG
1 TTATTATTAAG
*
14887002 TTATTATTAAT
1 TTATTATTAAG
14887013 TTATTA
1 TTATTA
14887019 CTAAATTGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
10 3 0.09
11 28 0.82
12 3 0.09
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (11 bp):
TTATTATTAAG
Found at i:14886994 original size:22 final size:22
Alignment explanation
Indices: 14886969--14887018 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
14886959 ATGAAAATGA
14886969 TTATTATTAAGTTATTA-TAATT
1 TTATTATTAAGTTATTATTAA-T
14886991 TTATTATTAAGTTATTATTAAT
1 TTATTATTAAGTTATTATTAAT
14887013 TTATTA
1 TTATTA
14887019 CTAAATTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 24 0.89
23 3 0.11
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (22 bp):
TTATTATTAAGTTATTATTAAT
Found at i:14891132 original size:3 final size:3
Alignment explanation
Indices: 14891126--14891157 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
14891116 TTTTTTTTTA
14891126 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
14891158 ATCTAAAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:14892708 original size:13 final size:13
Alignment explanation
Indices: 14892690--14892719 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
14892680 CCTTGTGGCA
*
14892690 TAAATAGCATCAT
1 TAAATAACATCAT
14892703 TAAATAACATCAT
1 TAAATAACATCAT
14892716 TAAA
1 TAAA
14892720 GGCCTAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.53, C:0.13, G:0.03, T:0.30
Consensus pattern (13 bp):
TAAATAACATCAT
Found at i:14894598 original size:91 final size:91
Alignment explanation
Indices: 14894438--14894618 Score: 310
Period size: 91 Copynumber: 2.0 Consensus size: 91
14894428 AGCATTAAAC
*
14894438 TAGAATTGGAGTATTGCTATTCTAAGTGAGAATTCCAAGCTTGAATAAGAGAGTTTTAAATTTTA
1 TAGAATTGGAGTATTGCTATTCTAAGTGAGAATTCCAAGCTTGAATAAGAGAGTTTTAAAATTTA
14894503 AAATTTAAATCTATTCCTATTTGAAG
66 AAATTTAAATCTATTCCTATTTGAAG
**
14894529 TAGAATTGGAGTATT-CTTATTCTAAGTGAGAATTCCAAGCTTGAATAAGAGTTTTTTAAAATTT
1 TAGAATTGGAGTATTGC-TATTCTAAGTGAGAATTCCAAGCTTGAATAAGAGAGTTTTAAAATTT
*
14894593 GAAATTTAAATCTATTCCTATTTGAA
65 AAAATTTAAATCTATTCCTATTTGAA
14894619 ATTTAAATCT
Statistics
Matches: 85, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
90 1 0.01
91 84 0.99
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.40
Consensus pattern (91 bp):
TAGAATTGGAGTATTGCTATTCTAAGTGAGAATTCCAAGCTTGAATAAGAGAGTTTTAAAATTTA
AAATTTAAATCTATTCCTATTTGAAG
Found at i:14894616 original size:23 final size:23
Alignment explanation
Indices: 14894589--14894637 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
14894579 GTTTTTTAAA
*
14894589 ATTTGAAATTTAAATCTATTCCT
1 ATTTGAAATTTAAATCTATTCAT
14894612 ATTTGAAATTTAAATCTATTCAT
1 ATTTGAAATTTAAATCTATTCAT
14894635 ATT
1 ATT
14894638 CTAAGTTAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.37, C:0.10, G:0.04, T:0.49
Consensus pattern (23 bp):
ATTTGAAATTTAAATCTATTCAT
Found at i:14899276 original size:23 final size:23
Alignment explanation
Indices: 14899250--14899299 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
14899240 TACAAAGTAT
14899250 AATGGAAATGTAAATATTGTGAC
1 AATGGAAATGTAAATATTGTGAC
**
14899273 AATGTTAATGTAAATATTGTGAC
1 AATGGAAATGTAAATATTGTGAC
14899296 AATG
1 AATG
14899300 TTCACTGTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.42, C:0.04, G:0.20, T:0.34
Consensus pattern (23 bp):
AATGGAAATGTAAATATTGTGAC
Found at i:14899300 original size:23 final size:24
Alignment explanation
Indices: 14899256--14899310 Score: 94
Period size: 23 Copynumber: 2.3 Consensus size: 24
14899246 GTATAATGGA
14899256 AATGTAAATATTGTGACAATGTT-
1 AATGTAAATATTGTGACAATGTTC
14899279 AATGTAAATATTGTGACAATGTTC
1 AATGTAAATATTGTGACAATGTTC
*
14899303 ACTGTAAA
1 AATGTAAA
14899311 ATAATGACAC
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 23 0.77
24 7 0.23
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.36
Consensus pattern (24 bp):
AATGTAAATATTGTGACAATGTTC
Found at i:14899318 original size:23 final size:23
Alignment explanation
Indices: 14899256--14899319 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 23
14899246 GTATAATGGA
**
14899256 AATGTAAATATTGTGACAATGTT
1 AATGTAAATATAATGACAATGTT
**
14899279 AATGTAAATATTGTGACAATGTT
1 AATGTAAATATAATGACAATGTT
*
14899302 CACTGTAAA-ATAATGACA
1 -AATGTAAATATAATGACA
14899320 CCTCATTCCA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
23 30 0.81
24 7 0.19
ACGTcount: A:0.42, C:0.08, G:0.16, T:0.34
Consensus pattern (23 bp):
AATGTAAATATAATGACAATGTT
Found at i:14905802 original size:48 final size:48
Alignment explanation
Indices: 14905745--14905838 Score: 188
Period size: 48 Copynumber: 2.0 Consensus size: 48
14905735 TTGCAACTAT
14905745 ATTCATTATTGAAGGCCAAACATAGTTTATATAAATTATCAACAAGCA
1 ATTCATTATTGAAGGCCAAACATAGTTTATATAAATTATCAACAAGCA
14905793 ATTCATTATTGAAGGCCAAACATAGTTTATATAAATTATCAACAAG
1 ATTCATTATTGAAGGCCAAACATAGTTTATATAAATTATCAACAAG
14905839 TTTAAATTCA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.32
Consensus pattern (48 bp):
ATTCATTATTGAAGGCCAAACATAGTTTATATAAATTATCAACAAGCA
Found at i:14911863 original size:7 final size:7
Alignment explanation
Indices: 14911851--14911903 Score: 70
Period size: 7 Copynumber: 7.6 Consensus size: 7
14911841 CTTAAAGAAA
*
14911851 AAAAATT
1 AAAAATC
14911858 AAAAATC
1 AAAAATC
14911865 AAAAATC
1 AAAAATC
14911872 AAAAATC
1 AAAAATC
* *
14911879 AAAAGTA
1 AAAAATC
14911886 AAAAATC
1 AAAAATC
*
14911893 AAACATC
1 AAAAATC
14911900 AAAA
1 AAAA
14911904 GTTAGAAGTC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 39 1.00
ACGTcount: A:0.72, C:0.11, G:0.02, T:0.15
Consensus pattern (7 bp):
AAAAATC
Found at i:14912320 original size:16 final size:17
Alignment explanation
Indices: 14912299--14912330 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
14912289 TTCCACATTG
14912299 TTTTTTTTTC-TTTTTT
1 TTTTTTTTTCATTTTTT
14912315 TTTTTTTTTCATTTTT
1 TTTTTTTTTCATTTTT
14912331 GCCCTCATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.03, C:0.06, G:0.00, T:0.91
Consensus pattern (17 bp):
TTTTTTTTTCATTTTTT
Found at i:14913997 original size:20 final size:20
Alignment explanation
Indices: 14913974--14914011 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14913964 GACCTTATTG
14913974 TTCTTT-TTTTTTTCTTTGCT
1 TTCTTTATTTTTTT-TTTGCT
14913994 TTCTTTATTTTTTTTTTG
1 TTCTTTATTTTTTTTTTG
14914012 TACATTCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.03, C:0.11, G:0.05, T:0.82
Consensus pattern (20 bp):
TTCTTTATTTTTTTTTTGCT
Found at i:14921995 original size:24 final size:24
Alignment explanation
Indices: 14921944--14921995 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
14921934 CATTGACATT
** * *
14921944 AAAAAATTTTAAAAATAGAATATA
1 AAAAAATTCAAAAAATAAAAGATA
*
14921968 AAAAAATTCAAAAAATAAAAGATG
1 AAAAAATTCAAAAAATAAAAGATA
14921992 AAAA
1 AAAA
14921996 TTTATTTATA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.71, C:0.02, G:0.06, T:0.21
Consensus pattern (24 bp):
AAAAAATTCAAAAAATAAAAGATA
Found at i:14926089 original size:2 final size:2
Alignment explanation
Indices: 14926082--14926118 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
14926072 AATGATCGAT
* *
14926082 TA TA TA TA TA TA TA TA TA TG TA TG TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14926119 TAATTTTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (2 bp):
TA
Found at i:14926461 original size:26 final size:26
Alignment explanation
Indices: 14926432--14926484 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
14926422 CATTACTTTC
14926432 TTGTTTTTAAAATGTTTAACATCCCA
1 TTGTTTTTAAAATGTTTAACATCCCA
14926458 TTGTTTTTAAAATGTTTAACATCCCA
1 TTGTTTTTAAAATGTTTAACATCCCA
14926484 T
1 T
14926485 CAACTCTTCG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.15, G:0.08, T:0.47
Consensus pattern (26 bp):
TTGTTTTTAAAATGTTTAACATCCCA
Found at i:14928587 original size:19 final size:19
Alignment explanation
Indices: 14928563--14928599 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
14928553 TGAAATACCC
*
14928563 AGATAAATTTAAAAAAATT
1 AGATAAATATAAAAAAATT
*
14928582 AGATAAATATAAAGAAAT
1 AGATAAATATAAAAAAAT
14928600 ACAATTAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (19 bp):
AGATAAATATAAAAAAATT
Found at i:14928940 original size:3 final size:3
Alignment explanation
Indices: 14928934--14928976 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
14928924 GTTGTTGCTG
14928934 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
14928977 ACATTAAGCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:14929329 original size:69 final size:69
Alignment explanation
Indices: 14929199--14929377 Score: 171
Period size: 69 Copynumber: 2.6 Consensus size: 69
14929189 ATCATGCCCT
* * * * * *
14929199 GAAGATTTACAAATCTTACTTAAAGGATTTGGTGATTATGCTTAGAGGTTTTATAACAGATTCAG
1 GAAGACTTACAAATCTTACTTAAAGGACTTAGTGATTATGCTGAGAGGTCTCATAACAGATTCAG
14929264 CTCA
66 CTCA
* * * *
14929268 GAAGACTTACGAATCTTACTTGAAGGACTTAGTGATTATGCTCGA-AGGTCTCATAATAGATTTA
1 GAAGACTTACAAATCTTACTTAAAGGACTTAGTGATTATGCT-GAGAGGTCTCATAACAGATTCA
* *
14929332 TCTTA
65 GCTCA
* * * * * * *
14929337 AAAAACTTATAAATATTGCTCAAAAGACTTAGTGATTATGC
1 GAAGACTTACAAATCTTACTTAAAGGACTTAGTGATTATGC
14929378 CCGAATGATT
Statistics
Matches: 88, Mismatches: 21, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
69 87 0.99
70 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (69 bp):
GAAGACTTACAAATCTTACTTAAAGGACTTAGTGATTATGCTGAGAGGTCTCATAACAGATTCAG
CTCA
Found at i:14935526 original size:357 final size:356
Alignment explanation
Indices: 14934560--14935814 Score: 1597
Period size: 357 Copynumber: 3.5 Consensus size: 356
14934550 CACCTTGGAC
* * * * * * *
14934560 ATATCGTCACACAAATTTTAACACAGTTATGGAAGGCGTACATATAAGAAAGACACATTTAATAA
1 ATATCGTCACACAAATTCTAACACTGTTATTGAAGGCGTATATCTAAGAAAGACGCTTTTAATAA
* * * * * * *
14934625 TTTTTATCACACTTTGTATATAATTAGTAAAGACGGTTGTAGAAAACAACACCTTCAATAATTTC
66 TTTCTATCACAGTTTGTATATAATTACTAAAGACGGTTGCAGATAACAACGCCTTCAATAATTTT
* * * * * *
14934690 TCTAAAAAAA-TTTCTCGGATTAGTAAAGACGTCTTTTATTATGACACGCCCTCAATATACCATG
131 TCTAAAAAAATTTTCTCGAATTATTAAAGGCGTATTTTATTATGACACGCCTTCAATATACCACG
* * * * * *
14934754 GTGGTTATAAAAAGCGTTTATTCGAAAAGGCACCTTCAGTATACCTTTAAACTTAGTAATCCATT
196 ATGGTAATGAAAGGCGTTTATTAGAAAAGGCACCTTCAATATACCTTTAAACTTAGTAATCCATT
* *
14934819 ATTGAAGGCGTTTGTTAATAACAGACGCCTTCAAAATTTTCTCACTAAAAATTTTGAAAATTATT
261 ATTGAAGGCGTTTGTTAATAACAGATGCCTTCAAAATTTTTTCACTAAAAATTTTG-AAATTATT
* * *
14934884 AAAGGCGTATTCTACTGTAAAATACTTTTTAT
325 AAAGGCATATTATACTGTAAAATACTTTCTAT
* * *
14934916 ATACCGTCATA-AAATTCTAACACTGTTATTGAAGGCGTATAT-TCAAGAAAGATGCTTTTAATA
1 ATATCGTCACACAAATTCTAACACTGTTATTGAAGGCGTATATCT-AAGAAAGACGCTTTTAATA
* * ** * *
14934979 ATTTCTATCACAGTTTGTAAATAATTACTGAAGGTGGTTGCAAATAACAATGCCTTCAATAATTT
65 ATTTCTATCACAGTTTGTATATAATTACTAAAGACGGTTGCAGATAACAACGCCTTCAATAATTT
* * * * *
14935044 TCCT--AAAAATTTTTTCGGATTATTAAAGGCATATTTTATTATGACATGCCTTCAATATACCAC
130 TTCTAAAAAAATTTTCTCGAATTATTAAAGGCGTATTTTATTATGACACGCCTTCAATATACCAC
* * *
14935107 GATGGTAATGAAAGGCGTTTATTAAAAAATGTACCTTCAATATACCTTTAAACTTAGTAATCCAT
195 GATGGTAATGAAAGGCGTTTATTAGAAAAGGCACCTTCAATATACCTTTAAACTTAGTAATCCAT
* * *
14935172 TACTGAAGGCATTTGTTAATAACAGATGCCTTCAAAATTTTTTTACTAAAAATTTTAGAAATTAT
260 TATTGAAGGCGTTTGTTAATAACAGATGCCTTCAAAATTTTTTCACTAAAAATTTT-GAAATTAT
*
14935237 TAAAGGCATATTATACTGTAAAATACCTTCTAT
324 TAAAGGCATATTATACTGTAAAATACTTTCTAT
*
14935270 ATATCGTCACACAAATTCTAACACTGTTATTGAAGGCGTATATCTAAGAAAGACGTTTTTAATAA
1 ATATCGTCACACAAATTCTAACACTGTTATTGAAGGCGTATATCTAAGAAAGACGCTTTTAATAA
* * * * * * * * * *
14935335 TTCCTATCACAGTTTGTAGATAATTATTGAGGGCGATTGTATATAACAATGCCTTCAA-AATTTT
66 TTTCTATCACAGTTTGTATATAATTACTAAAGACGGTTGCAGATAACAACGCCTTCAATAATTTT
* * * *
14935399 TCCTAAAAAAATTTTTTCGAATTATTAAAGGCGTATTTTATTATGATACACCTTCAATATATCAC
131 T-CTAAAAAAATTTTCTCGAATTATTAAAGGCGTATTTTATTATGACACGCCTTCAATATACCAC
* *
14935464 AATGGTAATGAAAGGCGTTTATTAGAAAAGGCGCCTTCAATATACCTTTAAACTTAGTAATCCAT
195 GATGGTAATGAAAGGCGTTTATTAGAAAAGGCACCTTCAATATACCTTTAAACTTAGTAATCCAT
* *
14935529 TATTGAAGGCGTTTGTTAATAACAAATGCCTTCAAAATTTTTTCACTAAATATTTTGAGAATTAT
260 TATTGAAGGCGTTTGTTAATAACAGATGCCTTCAAAATTTTTTCACTAAAAATTTTGA-AATTAT
* *
14935594 TAAAGGCATATTTTATTGTAAAATACTTTCTAT
324 TAAAGGCATATTATACTGTAAAATACTTTCTAT
*** * * * * *
14935627 ATATTACCACACAAATTTTAACACTGTTATTTAAGGCGTATATCCAAGAAAGATGCCTTTAATAA
1 ATATCGTCACACAAATTCTAACACTGTTATTGAAGGCGTATATCTAAGAAAGACGCTTTTAATAA
* * * *
14935692 TTTTTATCATAATTTGTATATAATTACTAAAGACGGTTGCAGATAACAACGCCTTTAATAATTTT
66 TTTCTATCACAGTTTGTATATAATTACTAAAGACGGTTGCAGATAACAACGCCTTCAATAATTTT
* * * * *
14935757 TCAAAAAAAATTTTCTC-AGATTATTAAAGGCGTCTTTTATTATAAAATGCCTTCAATA
131 TCTAAAAAAATTTTCTCGA-ATTATTAAAGGCGTATTTTATTATGACACGCCTTCAATA
14935815 ATTTATTATA
Statistics
Matches: 777, Mismatches: 111, Indels: 21
0.85 0.12 0.02
Matches are distributed among these distances:
353 5 0.01
354 204 0.26
355 200 0.26
356 13 0.02
357 348 0.45
358 7 0.01
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (356 bp):
ATATCGTCACACAAATTCTAACACTGTTATTGAAGGCGTATATCTAAGAAAGACGCTTTTAATAA
TTTCTATCACAGTTTGTATATAATTACTAAAGACGGTTGCAGATAACAACGCCTTCAATAATTTT
TCTAAAAAAATTTTCTCGAATTATTAAAGGCGTATTTTATTATGACACGCCTTCAATATACCACG
ATGGTAATGAAAGGCGTTTATTAGAAAAGGCACCTTCAATATACCTTTAAACTTAGTAATCCATT
ATTGAAGGCGTTTGTTAATAACAGATGCCTTCAAAATTTTTTCACTAAAAATTTTGAAATTATTA
AAGGCATATTATACTGTAAAATACTTTCTAT
Found at i:14951400 original size:87 final size:86
Alignment explanation
Indices: 14951254--14951424 Score: 252
Period size: 87 Copynumber: 2.0 Consensus size: 86
14951244 TATTGTGCAG
* * * * *
14951254 GATCCTCAAACAAGCCAGAAAGTTGGGATAAAGTGTAAGATTGGAACATTGTTTGAGCTTGAAAC
1 GATCCTCAAACAAGCCAGAAAGTTGGGACAAAGCGCAAGATTGGAACACTGCTTGAGCTTGAAAC
*
14951319 TTTGAAAATTCTACAACATTAA
66 TTT-AAAATTCCACAACATTAA
* * *
14951341 GATCCTTAAATAAGCCAGAAAGTTGGGACAAGGCGCAAGATTGGAACACTGCTTGAGCTTGAAAC
1 GATCCTCAAACAAGCCAGAAAGTTGGGACAAAGCGCAAGATTGGAACACTGCTTGAGCTTGAAAC
14951406 TTTAAAATTCCACAACATT
66 TTTAAAATTCCACAACATT
14951425 TGATTACCAC
Statistics
Matches: 75, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
86 15 0.20
87 60 0.80
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (86 bp):
GATCCTCAAACAAGCCAGAAAGTTGGGACAAAGCGCAAGATTGGAACACTGCTTGAGCTTGAAAC
TTTAAAATTCCACAACATTAA
Found at i:14954176 original size:22 final size:23
Alignment explanation
Indices: 14954109--14954176 Score: 61
Period size: 22 Copynumber: 2.9 Consensus size: 23
14954099 GTAATATCCT
14954109 AGTAATATTCTTA-ATTGATTTCAA
1 AGTAATATTC-TAGATTGATTTC-A
* *
14954133 AGATATTATTCTAGTAAT-ATTTC-
1 AG-TAATATTCTAG-ATTGATTTCA
14954156 AGTAATATTCTAGATTGATTT
1 AGTAATATTCTAGATTGATTT
14954177 GATATGATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
21 2 0.06
22 14 0.39
23 2 0.06
24 4 0.11
25 12 0.33
26 2 0.06
ACGTcount: A:0.35, C:0.07, G:0.10, T:0.47
Consensus pattern (23 bp):
AGTAATATTCTAGATTGATTTCA
Found at i:14956254 original size:22 final size:22
Alignment explanation
Indices: 14956226--14956269 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
14956216 ATTTTTACAT
14956226 TGAATATCCGAAACGGAATATC
1 TGAATATCCGAAACGGAATATC
*
14956248 TGAATATCTGAAACGGAATATC
1 TGAATATCCGAAACGGAATATC
14956270 CAGATATCAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.25
Consensus pattern (22 bp):
TGAATATCCGAAACGGAATATC
Found at i:14956276 original size:22 final size:22
Alignment explanation
Indices: 14956227--14956277 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
14956217 TTTTTACATT
*
14956227 GAATATCCGAAACGGAATATCT
1 GAATATCCGAAACGGAATATCA
*
14956249 GAATATCTGAAACGGAATATCCA
1 GAATATCCGAAACGGAATAT-CA
14956272 G-ATATC
1 GAATATC
14956278 ACCAGAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 24 0.92
23 2 0.08
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.24
Consensus pattern (22 bp):
GAATATCCGAAACGGAATATCA
Found at i:14956405 original size:2 final size:2
Alignment explanation
Indices: 14956398--14956427 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
14956388 AATACCAAAG
14956398 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
14956428 GGCTCCAATA
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:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14962622 original size:22 final size:22
Alignment explanation
Indices: 14962588--14962629 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
14962578 CATATTTATT
*
14962588 TTTGCATCTCTAGAATTAAGTA
1 TTTGCATCCCTAGAATTAAGTA
*
14962610 TTTGTATCCCTAGAATTAAG
1 TTTGCATCCCTAGAATTAAG
14962630 GACAAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.40
Consensus pattern (22 bp):
TTTGCATCCCTAGAATTAAGTA
Found at i:14962773 original size:60 final size:60
Alignment explanation
Indices: 14962680--14962801 Score: 226
Period size: 60 Copynumber: 2.0 Consensus size: 60
14962670 AGTTTTTAGG
* *
14962680 AAGATTTAGTTTCCTAGTTTAACCTCTAGTTAGTTGTATATAAACCTAAGGTTCTTGTAT
1 AAGATTTAGTTTCCTAGTTTAACCCCTAGTTAGTTGAATATAAACCTAAGGTTCTTGTAT
14962740 AAGATTTAGTTTCCTAGTTTAACCCCTAGTTAGTTGAATATAAACCTAAGGTTCTTGTAT
1 AAGATTTAGTTTCCTAGTTTAACCCCTAGTTAGTTGAATATAAACCTAAGGTTCTTGTAT
14962800 AA
1 AA
14962802 TTCTTTATGA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.41
Consensus pattern (60 bp):
AAGATTTAGTTTCCTAGTTTAACCCCTAGTTAGTTGAATATAAACCTAAGGTTCTTGTAT
Found at i:14971155 original size:13 final size:13
Alignment explanation
Indices: 14971137--14971164 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
14971127 CTAAAGGTAG
14971137 CATGTAACTATTA
1 CATGTAACTATTA
14971150 CATGTAACTATTA
1 CATGTAACTATTA
14971163 CA
1 CA
14971165 AAAACCTAGC
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:0.39, C:0.18, G:0.07, T:0.36
Consensus pattern (13 bp):
CATGTAACTATTA
Found at i:14984771 original size:18 final size:17
Alignment explanation
Indices: 14984750--14984786 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
14984740 AAAATCGTAG
*
14984750 AAAAAAGAAAGGAGAGGA
1 AAAAAAAAAAGGA-AGGA
14984768 AAAAAAAAAAGGAAGGA
1 AAAAAAAAAAGGAAGGA
14984785 AA
1 AA
14984787 GGAAATGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAGGAAGGA
Found at i:14984778 original size:22 final size:22
Alignment explanation
Indices: 14984750--14984791 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
14984740 AAAATCGTAG
*
14984750 AAAAAAGAAAGGAGAGGAAAAA
1 AAAAAAGAAAGGAAAGGAAAAA
*
14984772 AAAAAAGGAAGGAAAGGAAA
1 AAAAAAGAAAGGAAAGGAAA
14984792 TGAATGAGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (22 bp):
AAAAAAGAAAGGAAAGGAAAAA
Found at i:14985901 original size:23 final size:24
Alignment explanation
Indices: 14985871--14985920 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
14985861 CATATAATAT
14985871 TATTTATTAC-AAAATATTAAAAA
1 TATTTATTACAAAAATATTAAAAA
* *
14985894 TATTTATTTCTAAAAATATTCAAAA
1 TATTTATTAC-AAAAATATTAAAAA
14985919 TA
1 TA
14985921 GTCATATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 9 0.39
25 14 0.61
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (24 bp):
TATTTATTACAAAAATATTAAAAA
Found at i:14986065 original size:20 final size:20
Alignment explanation
Indices: 14986040--14986079 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
14986030 TCTTAGATTG
14986040 AATCAAGATAGGTATGCATA
1 AATCAAGATAGGTATGCATA
14986060 AATCAAGATAGGTATGCATA
1 AATCAAGATAGGTATGCATA
14986080 TAAAAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.10, G:0.20, T:0.25
Consensus pattern (20 bp):
AATCAAGATAGGTATGCATA
Found at i:14987744 original size:20 final size:20
Alignment explanation
Indices: 14987706--14987744 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
14987696 AGATAATGAG
**
14987706 ATATCATGATATCTCATAAT
1 ATATCATGATAAATCATAAT
*
14987726 ATATCATGATAAATTATAA
1 ATATCATGATAAATCATAA
14987745 GAATAATATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.38
Consensus pattern (20 bp):
ATATCATGATAAATCATAAT
Found at i:14988054 original size:16 final size:17
Alignment explanation
Indices: 14988033--14988067 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
14988023 TATTTTCATC
14988033 TTTTTATTT-TAATATT
1 TTTTTATTTATAATATT
*
14988049 TTTTTATTTATAATCTT
1 TTTTTATTTATAATATT
14988066 TT
1 TT
14988068 AATTTAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTTATTTATAATATT
Found at i:14988495 original size:3 final size:3
Alignment explanation
Indices: 14988487--14988515 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
14988477 ATTTATTTAT
14988487 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
14988516 TCTTTTATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:14989219 original size:19 final size:19
Alignment explanation
Indices: 14989179--14989223 Score: 58
Period size: 17 Copynumber: 2.5 Consensus size: 19
14989169 ATTCTCGCTG
*
14989179 TTTTTATTTTAAATTTTAT
1 TTTTTATTTAAAATTTTAT
*
14989198 TTTTTGTTTAAAA--TTAT
1 TTTTTATTTAAAATTTTAT
14989215 TTTTTATTT
1 TTTTTATTT
14989224 GTAACAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 12 0.52
19 11 0.48
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (19 bp):
TTTTTATTTAAAATTTTAT
Found at i:14989235 original size:23 final size:24
Alignment explanation
Indices: 14989209--14989261 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 24
14989199 TTTTGTTTAA
14989209 AATTATTTTTTAT-TTGT-AACAAT
1 AATTATTTTTTATATTGTCAAC-AT
*
14989232 AA-T-TTTTTTATATTGTCAACTT
1 AATTATTTTTTATATTGTCAACAT
14989254 AATTATTT
1 AATTATTT
14989262 ACGTTATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 8 0.32
22 8 0.32
23 6 0.24
24 3 0.12
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (24 bp):
AATTATTTTTTATATTGTCAACAT
Found at i:14990051 original size:216 final size:214
Alignment explanation
Indices: 14989682--14990090 Score: 463
Period size: 216 Copynumber: 1.9 Consensus size: 214
14989672 TTCTTTTATT
** * *
14989682 TAGAATTAATTTTACTTATAATAATAAATTTTTTTATATTGTCAACTTAATTATTACGTTATAGT
1 TAGAATTAATTTTACTTATAATAATAAATTTTTTTATATTACCAACTTAATTATTACATTATAAT
* * * *
14989747 AATATCTTTTACGTTTGTTTTTATCTTTTAATATGTTTAAAATTATCATAATTTTTTTTTTAAGT
66 AATATCTTTTACG-TTGTTGTTATCTTTTAATATGTTTAAAATTATCATAATATTTTATTAAAGT
* * * *
14989812 ATTATGACATTTTAACACATTTTATGCCAAAAAATGCCAATTTTACA-ATTATTCTTATATTTTT
130 ATTACGACATTATAACACATTTTACGCCAAAAAATACCAATTTTA-ATATTATTCTT-T-TTTTT
14989876 ATGTTACAACTTATTTTTTGGTA
192 ATGTTACAACTTATTTTTTGGTA
* * * *
14989899 TAGAATTATTTTTTATTTATAATAAT-AA-TTTTTTATATTACCAATTTAATTAATTACATTTTA
1 TAGAATTA-ATTTTACTTATAATAATAAATTTTTTTATATTACCAACTTAATT-ATTACATTATA
* * *
14989962 ATAATTTTTTTATAC-TTGTTGTTA-CTTTTTATTATG-TTAAGAATTATCATAATATTTTATTA
64 ATAATATCTTT-TACGTTGTTGTTATC-TTTTAATATGTTTAA-AATTATCATAATATTTTATTA
* * * * *
14990024 AAGTATTACGATACTTATAA-TCATTTTACGTCAAATAATACTAATTTTAATATTATTCTTTTTT
126 AAGTATTACGACA-TTATAACACATTTTACGCCAAAAAATACCAATTTTAATATTATTCTTTTTT
14990088 TTA
190 TTA
14990091 CATTAACTTT
Statistics
Matches: 161, Mismatches: 24, Indels: 17
0.80 0.12 0.08
Matches are distributed among these distances:
214 6 0.04
215 7 0.04
216 98 0.61
217 32 0.20
218 18 0.11
ACGTcount: A:0.34, C:0.08, G:0.05, T:0.53
Consensus pattern (214 bp):
TAGAATTAATTTTACTTATAATAATAAATTTTTTTATATTACCAACTTAATTATTACATTATAAT
AATATCTTTTACGTTGTTGTTATCTTTTAATATGTTTAAAATTATCATAATATTTTATTAAAGTA
TTACGACATTATAACACATTTTACGCCAAAAAATACCAATTTTAATATTATTCTTTTTTTTATGT
TACAACTTATTTTTTGGTA
Found at i:14990248 original size:41 final size:41
Alignment explanation
Indices: 14990202--14990319 Score: 139
Period size: 41 Copynumber: 2.9 Consensus size: 41
14990192 AGTAAAAAAA
*
14990202 TAATAAAAAGAAGAAGAACCCTAACAATTTTAAAATTCCTT
1 TAATAAAAAGAAGAAGAACCCTAACAGTTTTAAAATTCCTT
* * * ** * * *
14990243 TAATAAGAAGAAGAAAAACCTTAGTAGTGTCAAAATTCTTT
1 TAATAAAAAGAAGAAGAACCCTAACAGTTTTAAAATTCCTT
*
14990284 TAATAAAAAGAAAAAGAA-CCTAACAGTTTTAAAATT
1 TAATAAAAAGAAGAAGAACCCTAACAGTTTTAAAATT
14990320 ATTTTTATTT
Statistics
Matches: 60, Mismatches: 17, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
40 13 0.22
41 47 0.78
ACGTcount: A:0.52, C:0.11, G:0.10, T:0.27
Consensus pattern (41 bp):
TAATAAAAAGAAGAAGAACCCTAACAGTTTTAAAATTCCTT
Done.