Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr4
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: 30015117
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1306243 characters in sequence are not A, C, G, or T
File 70 of 85
Found at i:24272900 original size:22 final size:20
Alignment explanation
Indices: 24272858--24272898 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
24272848 TAAGTGACAT
24272858 TTAATATCTCAAAATATATA
1 TTAATATCTCAAAATATATA
24272878 TTAATATCTCAAAATATATA
1 TTAATATCTCAAAATATATA
24272898 T
1 T
24272899 ATCTCCTTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (20 bp):
TTAATATCTCAAAATATATA
Found at i:24277636 original size:11 final size:11
Alignment explanation
Indices: 24277620--24277650 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
24277610 AAATTAATCA
24277620 TTCTCTTCGCT
1 TTCTCTTCGCT
24277631 TTCTCTTCGCT
1 TTCTCTTCGCT
24277642 TTCATCTTC
1 TTC-TCTTC
24277651 ATCTAAGTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.74
12 5 0.26
ACGTcount: A:0.03, C:0.35, G:0.06, T:0.55
Consensus pattern (11 bp):
TTCTCTTCGCT
Found at i:24277776 original size:17 final size:17
Alignment explanation
Indices: 24277754--24277787 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
24277744 GGGAGGTTTT
24277754 CCTTTTCTGTCTTTCCC
1 CCTTTTCTGTCTTTCCC
* *
24277771 CCTTTTGTTTCTTTCCC
1 CCTTTTCTGTCTTTCCC
24277788 TTCTATTTTT
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:0.00, C:0.38, G:0.06, T:0.56
Consensus pattern (17 bp):
CCTTTTCTGTCTTTCCC
Found at i:24283628 original size:16 final size:16
Alignment explanation
Indices: 24283607--24283640 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
24283597 TTTCTTCAAC
*
24283607 TACATAATGATACATA
1 TACATAATCATACATA
*
24283623 TACATATTCATACATA
1 TACATAATCATACATA
24283639 TA
1 TA
24283641 TTCATCACAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.15, G:0.03, T:0.35
Consensus pattern (16 bp):
TACATAATCATACATA
Found at i:24283877 original size:23 final size:22
Alignment explanation
Indices: 24283829--24283881 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 22
24283819 TGGAATTGAT
* *
24283829 TCAACTAGTTTTTTAACTCGAT
1 TCAACTAGTTTTTTAACTCAAG
*
24283851 TCAACTAGTTTTTTTGACTCAAG
1 TCAACTAG-TTTTTTAACTCAAG
24283874 TCAACTAG
1 TCAACTAG
24283882 CTTGTACTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 8 0.30
23 19 0.70
ACGTcount: A:0.28, C:0.19, G:0.11, T:0.42
Consensus pattern (22 bp):
TCAACTAGTTTTTTAACTCAAG
Found at i:24284037 original size:18 final size:19
Alignment explanation
Indices: 24283995--24284049 Score: 69
Period size: 18 Copynumber: 2.9 Consensus size: 19
24283985 TAAATTTTGA
24283995 CTTTTTTATATTTTTAAATT
1 CTTTTTTAT-TTTTTAAATT
24284015 CTTTTTTATTTTTTCAAA-T
1 CTTTTTTATTTTTT-AAATT
*
24284034 -TTTTATATTTTTTAAA
1 CTTTTTTATTTTTTAAA
24284050 AATTATAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
17 3 0.09
18 12 0.36
19 6 0.18
20 12 0.36
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.69
Consensus pattern (19 bp):
CTTTTTTATTTTTTAAATT
Found at i:24284838 original size:18 final size:18
Alignment explanation
Indices: 24284800--24284840 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
24284790 TTTTTTTTTC
*
24284800 TTTATAATTTTTTAGTAT
1 TTTATAATTTTTTAATAT
24284818 TTTATATATTTTTTAAT-T
1 TTTATA-ATTTTTTAATAT
24284836 TTTAT
1 TTTAT
24284841 GTTAAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (18 bp):
TTTATAATTTTTTAATAT
Found at i:24284850 original size:20 final size:20
Alignment explanation
Indices: 24284794--24284881 Score: 72
Period size: 21 Copynumber: 4.3 Consensus size: 20
24284784 CTGCCTTTTT
* *
24284794 TTTTTCTTTATAATTTTTTAG
1 TTTTTATTTA-AATTTTTTAA
*
24284815 TATTTTA--TATATTTTTTAA
1 T-TTTTATTTAAATTTTTTAA
*
24284834 TTTTTATGTTAAATTTTTAAA
1 TTTTTAT-TTAAATTTTTTAA
**
24284855 TTTAAATTTAAATTTTCTTAA
1 TTTTTATTTAAATTTT-TTAA
24284876 TTTTTA
1 TTTTTA
24284882 GAATCATGAC
Statistics
Matches: 52, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
18 5 0.10
19 9 0.17
20 11 0.21
21 23 0.44
22 4 0.08
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (20 bp):
TTTTTATTTAAATTTTTTAA
Found at i:24284929 original size:59 final size:60
Alignment explanation
Indices: 24284865--24284995 Score: 142
Period size: 61 Copynumber: 2.2 Consensus size: 60
24284855 TTTAAATTTA
* * * *
24284865 AATTTTCTTA-ATTTTT-AGAATCATGACCAAATTGGAAT-ATTGTGTAAATATTAAGGGTT
1 AATTTTCTTATATTTTTCAAAATAATGACCAAATT--AATAAATGGGTAAATATTAAGGGTT
* * *
24284924 AATTTTGTTATTTTTTTCAAAATAATGATCAAATTAATAAAATGGGTAAATATTAAGGGTT
1 AATTTTCTTATATTTTTCAAAATAATGACCAAATTAAT-AAATGGGTAAATATTAAGGGTT
*
24284985 AATTTTGTTAT
1 AATTTTCTTAT
24284996 TATACCAGGT
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
59 12 0.20
60 5 0.08
61 44 0.72
ACGTcount: A:0.37, C:0.05, G:0.14, T:0.44
Consensus pattern (60 bp):
AATTTTCTTATATTTTTCAAAATAATGACCAAATTAATAAATGGGTAAATATTAAGGGTT
Found at i:24288417 original size:3 final size:3
Alignment explanation
Indices: 24288409--24288437 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
24288399 CAAATTTTAT
24288409 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
24288438 GAAACTATAA
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):
TAA
Found at i:24290026 original size:18 final size:16
Alignment explanation
Indices: 24289972--24290031 Score: 57
Period size: 18 Copynumber: 3.4 Consensus size: 16
24289962 CGATGCAATC
24289972 AAAATATAAAATATAAA
1 AAAAT-TAAAATATAAA
*
24289989 TATAAATTAAAATCTAAA
1 -A-AAATTAAAATATAAA
24290007 AAAACTTAAAAATATAAA
1 AAAA-TT-AAAATATAAA
24290025 AATAATT
1 AA-AATT
24290032 TTTAATAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
16 3 0.08
17 3 0.08
18 24 0.67
19 6 0.17
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.28
Consensus pattern (16 bp):
AAAATTAAAATATAAA
Found at i:24291332 original size:20 final size:21
Alignment explanation
Indices: 24291303--24291341 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
24291293 ATTTTAACAT
24291303 TAATAATTTTAA-ATTTTAAG
1 TAATAATTTTAATATTTTAAG
*
24291323 TAATATTTTTAATATTTTA
1 TAATAATTTTAATATTTTA
24291342 TTGACAATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (21 bp):
TAATAATTTTAATATTTTAAG
Found at i:24292322 original size:2 final size:2
Alignment explanation
Indices: 24292315--24292340 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
24292305 AGTTTTTATG
24292315 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
24292341 GAAATCCTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:24296141 original size:30 final size:31
Alignment explanation
Indices: 24296089--24296146 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
24296079 AAAAATAAAA
24296089 AAAATTGAATTTTAACCCCTAAA-TTTTCCT
1 AAAATTGAATTTTAACCCCTAAACTTTTCCT
* *
24296119 AAAATT-ATATTTTAAGCGCTAAACTTTT
1 AAAATTGA-ATTTTAACCCCTAAACTTTT
24296147 TTAAATTACA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 1 0.04
30 19 0.79
31 4 0.17
ACGTcount: A:0.38, C:0.16, G:0.05, T:0.41
Consensus pattern (31 bp):
AAAATTGAATTTTAACCCCTAAACTTTTCCT
Found at i:24296160 original size:59 final size:58
Alignment explanation
Indices: 24296097--24296249 Score: 155
Period size: 59 Copynumber: 2.6 Consensus size: 58
24296087 AAAAAATTGA
* * *
24296097 ATTTTAACCCCTAAATTTTCCTAAAATTATATTTTAAGCGC-TAAACTTTTTTAAATTAC
1 ATTTTGACCCCTAAATTTT-CTAAAATTATATTTTAA-CCCATAAACTTTTTGAAATTAC
* * * * * * *
24296156 ATTTTGACCCATCAAATTTTTTGAAATTACATTTTGACCCATCAAGTTTTTGAAATTAC
1 ATTTTGACCCCT-AAATTTTCTAAAATTATATTTTAACCCATAAACTTTTTGAAATTAC
* *
24296215 ATTTTGACCCCTATATTTTCTCAAAATTATGTTTT
1 ATTTTGACCCCTAAATTTTCT-AAAATTATATTTT
24296250 GGCCCCATAA
Statistics
Matches: 75, Mismatches: 16, Indels: 6
0.77 0.16 0.06
Matches are distributed among these distances:
58 9 0.12
59 59 0.79
60 7 0.09
ACGTcount: A:0.32, C:0.17, G:0.06, T:0.45
Consensus pattern (58 bp):
ATTTTGACCCCTAAATTTTCTAAAATTATATTTTAACCCATAAACTTTTTGAAATTAC
Found at i:24296175 original size:29 final size:29
Alignment explanation
Indices: 24296143--24296224 Score: 137
Period size: 30 Copynumber: 2.8 Consensus size: 29
24296133 AGCGCTAAAC
24296143 TTTTTTAAATTACATTTTGACCCATCAAA
1 TTTTTTAAATTACATTTTGACCCATCAAA
*
24296172 TTTTTTGAAATTACATTTTGACCCATCAAG
1 TTTTTT-AAATTACATTTTGACCCATCAAA
*
24296202 TTTTTGAAATTACATTTTGACCC
1 TTTTTTAAATTACATTTTGACCC
24296225 CTATATTTTC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
29 23 0.46
30 27 0.54
ACGTcount: A:0.30, C:0.17, G:0.07, T:0.45
Consensus pattern (29 bp):
TTTTTTAAATTACATTTTGACCCATCAAA
Found at i:24296183 original size:30 final size:29
Alignment explanation
Indices: 24296143--24296224 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
24296133 AGCGCTAAAC
24296143 TTTTTT-AAATTACATTTTGACCCATCAAA
1 TTTTTTGAAATTACATTTTGACCCATC-AA
24296172 TTTTTTGAAATTACATTTTGACCCATCAA
1 TTTTTTGAAATTACATTTTGACCCATCAA
*
24296201 GTTTTTGAAATTACATTTTGACCC
1 TTTTTTGAAATTACATTTTGACCC
24296225 CTATATTTTC
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
29 31 0.61
30 20 0.39
ACGTcount: A:0.30, C:0.17, G:0.07, T:0.45
Consensus pattern (29 bp):
TTTTTTGAAATTACATTTTGACCCATCAA
Found at i:24296250 original size:59 final size:59
Alignment explanation
Indices: 24296143--24296264 Score: 140
Period size: 59 Copynumber: 2.1 Consensus size: 59
24296133 AGCGCTAAAC
* **
24296143 TTTTTTAAATTACATTTTGACCCATCAAATTTTTTGAAATTACATTTT-GACCCATCAAG
1 TTTTTGAAATTACATTTTGACCCATCAAATTTTTCAAAATTACATTTTGGACCCAT-AAG
* * ** *
24296202 TTTTTGAAATTACATTTTGACCCCT-ATATTTTCTCAAAATTATGTTTTGGCCCCATAAG
1 TTTTTGAAATTACATTTTGACCCATCAAATTTT-TCAAAATTACATTTTGGACCCATAAG
24296261 TTTT
1 TTTT
24296265 GTTACATTTT
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
58 6 0.11
59 41 0.77
60 6 0.11
ACGTcount: A:0.29, C:0.17, G:0.08, T:0.46
Consensus pattern (59 bp):
TTTTTGAAATTACATTTTGACCCATCAAATTTTTCAAAATTACATTTTGGACCCATAAG
Found at i:24296616 original size:15 final size:14
Alignment explanation
Indices: 24296597--24296662 Score: 68
Period size: 13 Copynumber: 4.8 Consensus size: 14
24296587 GTGAAGAGGG
24296597 AAGAAGAAAAAGAA
1 AAGAAGAAAAAGAA
24296611 GAAGAAAGAAATAA-AA
1 -AAG-AAGAAA-AAGAA
*
24296627 AAGAA-AAAAGGAA
1 AAGAAGAAAAAGAA
24296640 AA-AAGAAAAAGAA
1 AAGAAGAAAAAGAA
24296653 AA-AAGAAAAA
1 AAGAAGAAAAA
24296663 ATTAATAGTT
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
12 3 0.07
13 24 0.53
14 2 0.04
15 6 0.13
16 8 0.18
17 2 0.04
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (14 bp):
AAGAAGAAAAAGAA
Found at i:24296619 original size:7 final size:7
Alignment explanation
Indices: 24296603--24296663 Score: 72
Period size: 7 Copynumber: 8.7 Consensus size: 7
24296593 AGGGAAGAAG
24296603 AAAAAG-
1 AAAAAGA
*
24296609 AAGAAGA
1 AAAAAGA
*
24296616 AAGAAATA
1 AA-AAAGA
24296624 AAAAAGA
1 AAAAAGA
24296631 AAAAAGGA
1 AAAAA-GA
24296639 AAAAAG-
1 AAAAAGA
24296645 AAAAAGA
1 AAAAAGA
24296652 AAAAAGA
1 AAAAAGA
24296659 AAAAA
1 AAAAA
24296664 TTAATAGTTG
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
6 11 0.23
7 24 0.51
8 12 0.26
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (7 bp):
AAAAAGA
Found at i:24296629 original size:21 final size:19
Alignment explanation
Indices: 24296603--24296663 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 19
24296593 AGGGAAGAAG
24296603 AAAAAGAAGAAGAAAGAAATA
1 AAAAAGAAGAA-AAAGAAA-A
*
24296624 AAAAAGAA-AAAAGGAAAA
1 AAAAAGAAGAAAAAGAAAA
24296642 AAGAAA-AAGAAAAAAGAAAA
1 AA-AAAGAAG-AAAAAGAAAA
24296662 AA
1 AA
24296664 TTAATAGTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
18 5 0.14
19 9 0.26
20 13 0.37
21 8 0.23
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (19 bp):
AAAAAGAAGAAAAAGAAAA
Found at i:24296633 original size:6 final size:6
Alignment explanation
Indices: 24296600--24296662 Score: 51
Period size: 6 Copynumber: 10.3 Consensus size: 6
24296590 AAGAGGGAAG
* *
24296600 AAGAAA AAGAAG AAG--A AAGAAA TA-AAA AAGAAAA AAGGAAAA AAGAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAG-AAA AA-G-AAA AAGAAA
24296648 AAGAAAA AAGAAA AA
1 AAG-AAA AAGAAA AA
24296663 ATTAATAGTT
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
4 3 0.06
5 4 0.09
6 21 0.45
7 12 0.26
8 7 0.15
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (6 bp):
AAGAAA
Found at i:24296663 original size:15 final size:15
Alignment explanation
Indices: 24296597--24296663 Score: 68
Period size: 15 Copynumber: 4.6 Consensus size: 15
24296587 GTGAAGAGGG
*
24296597 AAGAAGAAAAAG-AAG
1 AAGAA-AAAAAGAAAA
* *
24296612 AAGAAAGAAATAAAA
1 AAGAAAAAAAGAAAA
*
24296627 AAGAAAAAAGGAAAA
1 AAGAAAAAAAGAAAA
24296642 AAG--AAAAAGAAAA
1 AAGAAAAAAAGAAAA
24296655 AAGAAAAAA
1 AAGAAAAAA
24296664 TTAATAGTTG
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
13 12 0.29
14 4 0.10
15 26 0.62
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.01
Consensus pattern (15 bp):
AAGAAAAAAAGAAAA
Found at i:24296819 original size:25 final size:25
Alignment explanation
Indices: 24296791--24296867 Score: 88
Period size: 24 Copynumber: 3.1 Consensus size: 25
24296781 AAGTAGCTGC
24296791 CCAACAGGCCCAACAGCCTAGCAGG
1 CCAACAGGCCCAACAGCCTAGCAGG
* *
24296816 CCAACA-GCCCAACAGCTTGGCAGG
1 CCAACAGGCCCAACAGCCTAGCAGG
*
24296840 CCAGCAGGCCCATCACAG-C-AGCAGG
1 CCAACAGGCCCA--ACAGCCTAGCAGG
24296865 CCA
1 CCA
24296868 GCAGATTTGG
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
24 21 0.48
25 19 0.43
27 4 0.09
ACGTcount: A:0.30, C:0.40, G:0.25, T:0.05
Consensus pattern (25 bp):
CCAACAGGCCCAACAGCCTAGCAGG
Found at i:24296829 original size:8 final size:8
Alignment explanation
Indices: 24296789--24296831 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
24296779 CAAAGTAGCT
24296789 GCCCAACA
1 GCCCAACA
24296797 GGCCCAACA
1 -GCCCAACA
* *
24296806 GCCTAGCA
1 GCCCAACA
*
24296814 GGCCAACA
1 GCCCAACA
24296822 GCCCAACA
1 GCCCAACA
24296830 GC
1 GC
24296832 TTGGCAGGCC
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
8 20 0.71
9 8 0.29
ACGTcount: A:0.33, C:0.44, G:0.21, T:0.02
Consensus pattern (8 bp):
GCCCAACA
Found at i:24296954 original size:11 final size:11
Alignment explanation
Indices: 24296938--24296987 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
24296928 GCCCAGTCCA
*
24296938 AAAAAAGGAAG
1 AAAAAAGAAAG
24296949 AAAAAAGAAAAG
1 AAAAAAG-AAAG
*
24296961 AAAAAAAAAAG
1 AAAAAAGAAAG
*
24296972 AAGAAA-AAAG
1 AAAAAAGAAAG
24296982 AAAAAA
1 AAAAAA
24296988 ATCAAGCACG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
10 9 0.26
11 16 0.47
12 9 0.26
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAG
Found at i:24296958 original size:7 final size:7
Alignment explanation
Indices: 24296946--24296987 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
24296936 CAAAAAAAGG
24296946 AAGAAAA
1 AAGAAAA
24296953 AAG--AA
1 AAGAAAA
24296958 AAGAAAA
1 AAGAAAA
24296965 AA-AAAA
1 AAGAAAA
24296971 GAAGAAAA
1 -AAGAAAA
24296979 AAGAAAA
1 AAGAAAA
24296986 AA
1 AA
24296988 ATCAAGCACG
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
5 5 0.16
6 4 0.13
7 18 0.58
8 4 0.13
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (7 bp):
AAGAAAA
Found at i:24296964 original size:10 final size:9
Alignment explanation
Indices: 24296937--24296988 Score: 54
Period size: 10 Copynumber: 5.8 Consensus size: 9
24296927 AGCCCAGTCC
*
24296937 AAAAAAAGG
1 AAAAAAAAG
24296946 AAGAAAAAAG
1 AA-AAAAAAG
*
24296956 -AAAAGAA-
1 AAAAAAAAG
24296963 AAAAAAAAG
1 AAAAAAAAG
24296972 AAGAAAAAAG
1 AA-AAAAAAG
24296982 AAAAAAA
1 AAAAAAA
24296989 TCAAGCACGT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
8 11 0.31
9 10 0.28
10 15 0.42
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:24296966 original size:14 final size:14
Alignment explanation
Indices: 24296937--24296985 Score: 57
Period size: 13 Copynumber: 3.6 Consensus size: 14
24296927 AGCCCAGTCC
*
24296937 AAAAAAAGGAAG-A
1 AAAAAAAAGAAGAA
*
24296950 AAAAAGAA-AAGAA
1 AAAAAAAAGAAGAA
24296963 AAAAAAAAGAAGAA
1 AAAAAAAAGAAGAA
24296977 AAAAGAAAA
1 AAAA-AAAA
24296986 AAATCAAGCA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
12 3 0.10
13 14 0.47
14 9 0.30
15 4 0.13
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (14 bp):
AAAAAAAAGAAGAA
Found at i:24296968 original size:16 final size:17
Alignment explanation
Indices: 24296946--24296987 Score: 61
Period size: 16 Copynumber: 2.5 Consensus size: 17
24296936 CAAAAAAAGG
24296946 AAGAAAAAAGAA-AAGAA
1 AAGAAAAAAGAAGAA-AA
24296963 AA-AAAAAAGAAGAAAA
1 AAGAAAAAAGAAGAAAA
24296979 AAGAAAAAA
1 AAGAAAAAA
24296988 ATCAAGCACG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (17 bp):
AAGAAAAAAGAAGAAAA
Found at i:24296975 original size:19 final size:18
Alignment explanation
Indices: 24296938--24296988 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
24296928 GCCCAGTCCA
* *
24296938 AAAAAAGGAAGAAAAAAG
1 AAAAAAGAAAAAAAAAAG
24296956 AAAAGAA-AAAAAAAAGAAG
1 AAAA-AAGAAAAAAAA-AAG
24296975 AAAAAAGAAAAAAA
1 AAAAAAGAAAAAAA
24296989 TCAAGCACGT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
18 12 0.43
19 16 0.57
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (18 bp):
AAAAAAGAAAAAAAAAAG
Found at i:24297275 original size:17 final size:17
Alignment explanation
Indices: 24297253--24297312 Score: 68
Period size: 17 Copynumber: 3.5 Consensus size: 17
24297243 CTTTTAAAAA
24297253 AAAAATTTCGTGTTTTC
1 AAAAATTTCGTGTTTTC
* *
24297270 AAAAATTTTCGGGCTTTC
1 AAAAA-TTTCGTGTTTTC
*
24297288 AAAAATTT-TTGTGTTTC
1 AAAAATTTCGTGT-TTTC
24297305 AAAAATTT
1 AAAAATTT
24297313 TCGTATTAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
16 1 0.03
17 20 0.56
18 15 0.42
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (17 bp):
AAAAATTTCGTGTTTTC
Found at i:24297313 original size:17 final size:18
Alignment explanation
Indices: 24297252--24297316 Score: 87
Period size: 18 Copynumber: 3.7 Consensus size: 18
24297242 CCTTTTAAAA
* *
24297252 AAAAAATTTCGTGTTTTC
1 AAAAATTTTCGTGCTTTC
*
24297270 AAAAATTTTCGGGCTTTC
1 AAAAATTTTCGTGCTTTC
*
24297288 AAAAATTTTTGTG-TTTC
1 AAAAATTTTCGTGCTTTC
24297305 AAAAATTTTCGT
1 AAAAATTTTCGT
24297317 ATTAAATTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
17 15 0.37
18 26 0.63
ACGTcount: A:0.32, C:0.11, G:0.12, T:0.45
Consensus pattern (18 bp):
AAAAATTTTCGTGCTTTC
Found at i:24297411 original size:18 final size:18
Alignment explanation
Indices: 24297365--24297451 Score: 77
Period size: 18 Copynumber: 4.7 Consensus size: 18
24297355 TGTTTTTGTA
* *
24297365 TTTTCAACAAATTCTCGTG
1 TTTTCAAAAAAAT-TCGTG
*
24297384 TTTTTAAAAAAAATTCGTG
1 -TTTTCAAAAAAATTCGTG
* *
24297403 TTTTGAAAAAATTTCCGTG
1 TTTTCAAAAAAATT-CGTG
* *
24297422 -TTTCAAAAATATTCTTG
1 TTTTCAAAAAAATTCGTG
24297439 TTTTCAAAAAAAT
1 TTTTCAAAAAAAT
24297452 ATTCTCGTGT
Statistics
Matches: 55, Mismatches: 10, Indels: 6
0.77 0.14 0.08
Matches are distributed among these distances:
17 3 0.05
18 33 0.60
19 9 0.16
20 10 0.18
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.43
Consensus pattern (18 bp):
TTTTCAAAAAAATTCGTG
Found at i:24297479 original size:38 final size:37
Alignment explanation
Indices: 24297390--24297480 Score: 96
Period size: 38 Copynumber: 2.5 Consensus size: 37
24297380 CGTGTTTTTA
* * *
24297390 AAAAAAATTCGTGTTTT-GAAAAAATTTCCGTGTTTC
1 AAAAATATTCATGTTTTCAAAAAAATTTCCGTGTTTC
*
24297426 AAAAATATTCTTGTTTTCAAAAAAATATTCTCGTGTTTC
1 AAAAATATTCATGTTTTCAAAAAAAT-TTC-CGTGTTTC
* *
24297465 -AACATTTTCATGTTTT
1 AAAAATATTCATGTTTT
24297481 AAAGATTTGG
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
36 15 0.33
37 7 0.15
38 16 0.35
39 8 0.17
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.44
Consensus pattern (37 bp):
AAAAATATTCATGTTTTCAAAAAAATTTCCGTGTTTC
Found at i:24297535 original size:33 final size:34
Alignment explanation
Indices: 24297456--24297541 Score: 97
Period size: 34 Copynumber: 2.6 Consensus size: 34
24297446 AAAAATATTC
* * *
24297456 TCGTG-TTTC-AACATTTTCATGTTTTAAAGATT
1 TCGTGTTTTCAAAAATTCTCATGTTCTAAAGATT
* *
24297488 TGGTGTTTTCAAAAATTCTCATGTTCTAAA-TTT
1 TCGTGTTTTCAAAAATTCTCATGTTCTAAAGATT
24297521 TCGTGTTTTCAAAAAATTCTC
1 TCGTGTTTTC-AAAAATTCTC
24297542 GTATTTCAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
32 4 0.09
33 15 0.33
34 26 0.58
ACGTcount: A:0.27, C:0.14, G:0.12, T:0.48
Consensus pattern (34 bp):
TCGTGTTTTCAAAAATTCTCATGTTCTAAAGATT
Found at i:24298760 original size:40 final size:40
Alignment explanation
Indices: 24298703--24298795 Score: 136
Period size: 40 Copynumber: 2.3 Consensus size: 40
24298693 TAAACAAAAA
*
24298703 AAAAATTAGAAAA-TTTAAAAAAGTATTTTAAAAGTA-TCTT
1 AAAAA-TAAAAAATTTTAAAAAAGTATTTTAAAA-TATTCTT
*
24298743 AAAAATAAAAAATTTTAAAAAAGTATTTTAAAATATTTTT
1 AAAAATAAAAAATTTTAAAAAAGTATTTTAAAATATTCTT
24298783 AAAAATAAAAAAT
1 AAAAATAAAAAAT
24298796 ATATTTATTA
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
39 8 0.16
40 41 0.84
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.34
Consensus pattern (40 bp):
AAAAATAAAAAATTTTAAAAAAGTATTTTAAAATATTCTT
Found at i:24308296 original size:288 final size:288
Alignment explanation
Indices: 24307777--24308396 Score: 1051
Period size: 288 Copynumber: 2.2 Consensus size: 288
24307767 GGATCCAAAA
* * *
24307777 ATAAAGAAGTATGTCATTTTCATAGATGTTTTCGATAAATTATCATCCTATTATCAAAAGTTGTT
1 ATAAAGAAGTATGTCATTTTCATAGATGTTTTCGATAAAGTATCATCATATTATCAAAAGTTATT
* *
24307842 CATGATGATAAGAAAAGTAGCTTACAACTACTTCCTGAAAGAAACATGGAAGCTCTAAATGATGA
66 CATAATGATAAGAAAAGTAGCTTACAACTACTTCCTGAAAGAAACATAGAAGCTCTAAATGATGA
24307907 AGACCCTTTAACATCTGATACCTCAAATGTGGAAGGTGGTGAGCAAGAACCCCAAAAGAAATCCA
131 AGACCCTTTAACATCTGATACCTCAAATGTGGAAGGTGGTGAGCAAGAACCCCAAAAGAAATCCA
*
24307972 CAAGGGAGAAGAGGCAACCACAATACTTGAAAGATTATGAGGTGCAAACCAACAATTGCTCAATT
196 CAAGGGAGAAGAGGCAACCACAATACCTGAAAGATTATGAGGTGCAAACCAACAATTGCTCAATT
* * *
24308037 ACTTTATACTTCTTTATTGGAGAAATGG
261 ACTTCATACTTCTTTATTAGAGAAATAG
* *
24308065 ATGAAGAAGTATGTCATTTTTATAGATGTTTTCGATAAAGTATCATCATATTATCAAAAGTTATT
1 ATAAAGAAGTATGTCATTTTCATAGATGTTTTCGATAAAGTATCATCATATTATCAAAAGTTATT
* *
24308130 CATAATGATGAGAAAAGTAGCTTACAACTACTTCCTGAAAGCAACATAGAAGCTCTAAATGATGA
66 CATAATGATAAGAAAAGTAGCTTACAACTACTTCCTGAAAGAAACATAGAAGCTCTAAATGATGA
* * * * *
24308195 AGATCCTTTAACATCTGATACCTTAGATGTGGAAGGTGGTGAGCAAGAACTCCAAAGGAAATCCA
131 AGACCCTTTAACATCTGATACCTCAAATGTGGAAGGTGGTGAGCAAGAACCCCAAAAGAAATCCA
* *
24308260 CAAGGGAGAAGAGGCAACCACAATACCTGAAAGATTATGTGGTGCAAACCAACAATTGTTCAATT
196 CAAGGGAGAAGAGGCAACCACAATACCTGAAAGATTATGAGGTGCAAACCAACAATTGCTCAATT
24308325 ACTTCATACTTCTTTATTAGAGAAATAG
261 ACTTCATACTTCTTTATTAGAGAAATAG
*
24308353 ATAAAGAAGTATGTCATTTTCATAGATGTTTTCAATAAAGTATC
1 ATAAAGAAGTATGTCATTTTCATAGATGTTTTCGATAAAGTATC
24308397 TGTTGAGATT
Statistics
Matches: 309, Mismatches: 23, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
288 309 1.00
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (288 bp):
ATAAAGAAGTATGTCATTTTCATAGATGTTTTCGATAAAGTATCATCATATTATCAAAAGTTATT
CATAATGATAAGAAAAGTAGCTTACAACTACTTCCTGAAAGAAACATAGAAGCTCTAAATGATGA
AGACCCTTTAACATCTGATACCTCAAATGTGGAAGGTGGTGAGCAAGAACCCCAAAAGAAATCCA
CAAGGGAGAAGAGGCAACCACAATACCTGAAAGATTATGAGGTGCAAACCAACAATTGCTCAATT
ACTTCATACTTCTTTATTAGAGAAATAG
Found at i:24315281 original size:2 final size:2
Alignment explanation
Indices: 24315274--24315299 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
24315264 CGCAAAAGTA
24315274 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
24315300 GAAATATGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24317925 original size:126 final size:127
Alignment explanation
Indices: 24317769--24317998 Score: 428
Period size: 126 Copynumber: 1.8 Consensus size: 127
24317759 TTTGCCCAAG
24317769 CCCGACTTGGCTCGAAATAGGATCTAAAATTTTGCCCAAACCCACCCTTTTTTGCAAAAGACTAA
1 CCCGACTTGGC-CGAAATAGGATCTAAAATTTTGCCCAAACCCACCCTTTTTTGCAAAAGACTAA
24317834 CCCAAGCCCATTTTAGGCCCATCTATATTATTT-TTTAATTATTAAAAAAATATTTATATTGTC
65 CCCAAGCCCATTTTAGGCCCATCTATA-TATTTATTTAATTATTAAAAAAATATTTATATTGTC
24317897 CCCGACTTGG-CGAAATAGGATCTAAAATTTTGCCCAAACCCACCCTTTTTTGCAAAAGACTAAC
1 CCCGACTTGGCCGAAATAGGATCTAAAATTTTGCCCAAACCCACCCTTTTTTGCAAAAGACTAAC
24317961 CCAAGCCCATTTTAGGCCCATCTATATATTTATTTAAT
66 CCAAGCCCATTTTAGGCCCATCTATATATTTATTTAAT
24317999 AATTTCTTCG
Statistics
Matches: 101, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
125 5 0.05
126 86 0.85
128 10 0.10
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.33
Consensus pattern (127 bp):
CCCGACTTGGCCGAAATAGGATCTAAAATTTTGCCCAAACCCACCCTTTTTTGCAAAAGACTAAC
CCAAGCCCATTTTAGGCCCATCTATATATTTATTTAATTATTAAAAAAATATTTATATTGTC
Found at i:24320132 original size:17 final size:18
Alignment explanation
Indices: 24320110--24320144 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
24320100 TTATATCTTC
*
24320110 TTATAATTAAAT-TTTTG
1 TTATAAATAAATATTTTG
24320127 TTATAAATAAATATTTTG
1 TTATAAATAAATATTTTG
24320145 GGTACAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (18 bp):
TTATAAATAAATATTTTG
Found at i:24322187 original size:21 final size:22
Alignment explanation
Indices: 24322161--24322204 Score: 81
Period size: 21 Copynumber: 2.0 Consensus size: 22
24322151 GGTTTTAACG
24322161 TTCAAGTTCATCCAT-AAAGGT
1 TTCAAGTTCATCCATAAAAGGT
24322182 TTCAAGTTCATCCATAAAAGGT
1 TTCAAGTTCATCCATAAAAGGT
24322204 T
1 T
24322205 AGCCATATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (22 bp):
TTCAAGTTCATCCATAAAAGGT
Found at i:24339858 original size:30 final size:29
Alignment explanation
Indices: 24339824--24339916 Score: 87
Period size: 30 Copynumber: 3.1 Consensus size: 29
24339814 GCCAGGGGGG
24339824 CCAAAATTTTTTGAAAATTTTAATTAGGCC
1 CCAAAATTTTTT-AAAATTTTAATTAGGCC
* * *
24339854 CCAAAATTATTTAAAAGTTCTAATTAAGCC
1 CCAAAATTTTTTAAAA-TTTTAATTAGGCC
* * * *
24339884 TTCCAAAAGTTCTAAAAATTTTAATTAGACC
1 --CCAAAATTTTTTAAAATTTTAATTAGGCC
24339915 CC
1 CC
24339917 TTCAGTTTTT
Statistics
Matches: 50, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
29 6 0.12
30 22 0.44
31 10 0.20
32 12 0.24
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.35
Consensus pattern (29 bp):
CCAAAATTTTTTAAAATTTTAATTAGGCC
Found at i:24341344 original size:36 final size:36
Alignment explanation
Indices: 24341297--24341368 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
24341287 AAGGAGAGTA
24341297 AATCTGACCTGAATTATCAAATTCTCAAACGTAGTT
1 AATCTGACCTGAATTATCAAATTCTCAAACGTAGTT
24341333 AATCTGACCTGAATTATCAAATTCTCAAACGTAGTT
1 AATCTGACCTGAATTATCAAATTCTCAAACGTAGTT
24341369 TTCTATTATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.33
Consensus pattern (36 bp):
AATCTGACCTGAATTATCAAATTCTCAAACGTAGTT
Found at i:24342401 original size:10 final size:11
Alignment explanation
Indices: 24342365--24342431 Score: 88
Period size: 11 Copynumber: 6.4 Consensus size: 11
24342355 TAAAAATTAA
24342365 AAAAAGTATTTT
1 AAAAA-TATTTT
24342377 AAAAATATTTT
1 AAAAATATTTT
24342388 --AAA-ATTTT
1 AAAAATATTTT
*
24342396 AAAAA-AATTT
1 AAAAATATTTT
24342406 AAAAATATTTT
1 AAAAATATTTT
24342417 AAAAATATTTT
1 AAAAATATTTT
24342428 AAAA
1 AAAA
24342432 TTAAAAAAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
8 5 0.10
9 3 0.06
10 12 0.24
11 25 0.50
12 5 0.10
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.40
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:24342415 original size:40 final size:40
Alignment explanation
Indices: 24342356--24342480 Score: 180
Period size: 40 Copynumber: 3.1 Consensus size: 40
24342346 AATTTATTTT
24342356 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTTTAA
1 AAAAATT-AAAAAAGTATTTTAAAAATATTTTAAAA-TTTAA
* *
24342398 AAAAATTTAAAAA-TATTTTAAAAATATTTTAAAATTAAA
1 AAAAATTAAAAAAGTATTTTAAAAATATTTTAAAATTTAA
** *
24342437 AAAAATTAAAAAAGTAAGTAAAAAATATTTTAAAATTTAA
1 AAAAATTAAAAAAGTATTTTAAAAATATTTTAAAATTTAA
24342477 AAAA
1 AAAA
24342481 TAAATATATT
Statistics
Matches: 75, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
39 16 0.21
40 47 0.63
41 5 0.07
42 7 0.09
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (40 bp):
AAAAATTAAAAAAGTATTTTAAAAATATTTTAAAATTTAA
Found at i:24342432 original size:10 final size:10
Alignment explanation
Indices: 24342366--24342432 Score: 73
Period size: 10 Copynumber: 6.5 Consensus size: 10
24342356 AAAAATTAAA
24342366 AAAAGTATTTT
1 AAAA-TATTTT
24342377 AAAAATATTTT
1 -AAAATATTTT
*
24342388 AAAAT-TTTA
1 AAAATATTTT
* *
24342397 AAAAAATTTA
1 AAAATATTTT
24342407 AAAATATTTT
1 AAAATATTTT
24342417 AAAAATATTTT
1 -AAAATATTTT
24342428 AAAAT
1 AAAAT
24342433 TAAAAAAAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
9 7 0.14
10 22 0.45
11 16 0.33
12 4 0.08
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (10 bp):
AAAATATTTT
Found at i:24352696 original size:20 final size:19
Alignment explanation
Indices: 24352671--24352715 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
24352661 AAATATGTAA
24352671 ATTTAA-CCTTAAATCTTAT
1 ATTTAATCCTTAAAT-TTAT
*
24352690 ATATTAATGCTTAAATTTAT
1 AT-TTAATCCTTAAATTTAT
24352710 ATTTAA
1 ATTTAA
24352716 GGATTAAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 6 0.26
20 10 0.43
21 7 0.30
ACGTcount: A:0.40, C:0.09, G:0.02, T:0.49
Consensus pattern (19 bp):
ATTTAATCCTTAAATTTAT
Found at i:24355246 original size:92 final size:92
Alignment explanation
Indices: 24355089--24355273 Score: 361
Period size: 92 Copynumber: 2.0 Consensus size: 92
24355079 AAATTAAAAG
24355089 TAATACGATATACTAAATTAAAGAAAAAAGACAATTATGTGAAAAAATTAAAGGAAATAAAATTA
1 TAATACGATATACTAAATTAAAGAAAAAAGACAATTATGTGAAAAAATTAAAGGAAATAAAATTA
24355154 TAACTACTTCAATTAGAATTTGATCTA
66 TAACTACTTCAATTAGAATTTGATCTA
*
24355181 TAATACTATATACTAAATTAAAGAAAAAAGACAATTATGTGAAAAAATTAAAGGAAATAAAATTA
1 TAATACGATATACTAAATTAAAGAAAAAAGACAATTATGTGAAAAAATTAAAGGAAATAAAATTA
24355246 TAACTACTTCAATTAGAATTTGATCTA
66 TAACTACTTCAATTAGAATTTGATCTA
24355273 T
1 T
24355274 CTAAAAACTA
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
92 92 1.00
ACGTcount: A:0.53, C:0.08, G:0.09, T:0.30
Consensus pattern (92 bp):
TAATACGATATACTAAATTAAAGAAAAAAGACAATTATGTGAAAAAATTAAAGGAAATAAAATTA
TAACTACTTCAATTAGAATTTGATCTA
Found at i:24355886 original size:23 final size:23
Alignment explanation
Indices: 24355844--24355887 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
24355834 TAATTAATTT
* *
24355844 TGAAGATAAAAAAGATAAAAAGG
1 TGAAGATAAAAAAAAAAAAAAGG
24355867 TGAAGATAAAAAAAAAAAAAA
1 TGAAGATAAAAAAAAAAAAAA
24355888 TCCTTTTTGG
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:0.73, C:0.00, G:0.16, T:0.11
Consensus pattern (23 bp):
TGAAGATAAAAAAAAAAAAAAGG
Found at i:24367366 original size:12 final size:13
Alignment explanation
Indices: 24367335--24367360 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24367325 TGATTATTTG
24367335 AATATAAATTTTT
1 AATATAAATTTTT
24367348 AATATAAATTTTT
1 AATATAAATTTTT
24367361 TTATAACATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
AATATAAATTTTT
Found at i:24369333 original size:13 final size:13
Alignment explanation
Indices: 24369315--24369339 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24369305 CTAAATCATA
24369315 ATTTTAGTAAAAT
1 ATTTTAGTAAAAT
24369328 ATTTTAGTAAAA
1 ATTTTAGTAAAA
24369340 CCTTTTTGGT
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:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (13 bp):
ATTTTAGTAAAAT
Found at i:24377031 original size:12 final size:13
Alignment explanation
Indices: 24377000--24377025 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24376990 TGATTATTTG
24377000 AATATAAATTTTT
1 AATATAAATTTTT
24377013 AATATAAATTTTT
1 AATATAAATTTTT
24377026 TTATAACATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
AATATAAATTTTT
Found at i:24378909 original size:967 final size:967
Alignment explanation
Indices: 24377030--24378975 Score: 3874
Period size: 967 Copynumber: 2.0 Consensus size: 967
24377020 ATTTTTTTAT
24377030 AACATATAAATATCACATAAATATATGTTTTTGATATTTAAGTATAAAAAAATATTTAATAATGA
1 AACA-ATAAATATCACATAAATATATGTTTTTGATATTTAAGTATAAAAAAATATTTAATAATGA
24377095 TATTTTTTAAAATAAGATTTTTAAATAATAATGTAATTTAATAATTTTTAAATAATATTTTGTTT
65 TATTTTTTAAAATAAGATTTTTAAATAATAATGTAATTTAATAATTTTTAAATAATATTTTGTTT
24377160 GATAAAAAAAAGTTTTAAATGTCTATAATCTGTATAAAAGTAGTTTTGAGAATTTTTTGTACATA
130 GATAAAAAAAAGTTTTAAATGTCTATAATCTGTATAAAAGTAGTTTTGAGAATTTTTTGTACATA
24377225 TCAATATAGCTTTTATTCCTCGTTATATTAGTAAATACCTTTTCTCATATTAGATTCTGATCATA
195 TCAATATAGCTTTTATTCCTCGTTATATTAGTAAATACCTTTTCTCATATTAGATTCTGATCATA
24377290 TCTGTTTTTTTTATATAATACCTAGAATTATTCATAGTCCCTCGTCAACTCTTAGATAGGAGGAT
260 TCTGTTTTTTTTATATAATACCTAGAATTATTCATAGTCCCTCGTCAACTCTTAGATAGGAGGAT
24377355 AATGTGGTTCTACGTAGTTGAACCCACGTCCTCCTACATTGGTAACAATATTGATGCCAATCCAG
325 AATGTGGTTCTACGTAGTTGAACCCACGTCCTCCTACATTGGTAACAATATTGATGCCAATCCAG
24377420 CTAAAAATCAATTGACTAGTAAATATCATTTTTAAATATACTTTTTTTTTGTTTTTCTAAGATTT
390 CTAAAAATCAATTGACTAGTAAATATCATTTTTAAATATACTTTTTTTTTGTTTTTCTAAGATTT
24377485 ATCACATTTATAAATAATAATTTTATTTTTACTAAAATAATTGGTTAAAAAGATTACTTGATAAA
455 ATCACATTTATAAATAATAATTTTATTTTTACTAAAATAATTGGTTAAAAAGATTACTTGATAAA
24377550 AAGATTTATGTACTTATAAATAAAAATTATGATTAATTTTATTAAATGAATTTATATAATAAATA
520 AAGATTTATGTACTTATAAATAAAAATTATGATTAATTTTATTAAATGAATTTATATAATAAATA
24377615 ATAAATTTGATATTAAATTACTTTGTATTTAAATTATCATGTTTCAATTGACTGAAAATTTTAAA
585 ATAAATTTGATATTAAATTACTTTGTATTTAAATTATCATGTTTCAATTGACTGAAAATTTTAAA
24377680 GGAAAAAAATGATATTACTTTAGTTTTAAATTGCAAGTTTTAGTTATTTATTTATTAATTTTATA
650 GGAAAAAAATGATATTACTTTAGTTTTAAATTGCAAGTTTTAGTTATTTATTTATTAATTTTATA
24377745 TTTCATATATAAATTTTTATGGTTAAAGTGTAAATTTACCATCATAGGTGATGAATATTAAAATT
715 TTTCATATATAAATTTTTATGGTTAAAGTGTAAATTTACCATCATAGGTGATGAATATTAAAATT
24377810 TGTCGCTATACTTTACTTTCGTGGATATTTACCATTATATTTTAAAAACATGAGTAAATTTTTTA
780 TGTCGCTATACTTTACTTTCGTGGATATTTACCATTATATTTTAAAAACATGAGTAAATTTTTTA
24377875 TTCAAACTCTAATGTGATTTAATTTTATTACTAAGCTTTAAATTTTATTAAATTTTGAAACAATT
845 TTCAAACTCTAATGTGATTTAATTTTATTACTAAGCTTTAAATTTTATTAAATTTTGAAACAATT
24377940 TTATTTTTTAAATTAAATTTTATCACTTTAAAACATATTAATTTTAATGATTTGTAAA
910 TTATTTTTTAAATTAAATTTTATCACTTTAAAACATATTAATTTTAATGATTTGTAAA
24377998 AACAATAAATATCACATAAATATATGTTTTTGATATTTAAGTATAAAAAAATATTTAATAATGAT
1 AACAATAAATATCACATAAATATATGTTTTTGATATTTAAGTATAAAAAAATATTTAATAATGAT
24378063 ATTTTTTAAAATAAGATTTTTAAATAATAATGTAATTTAATAATTTTTAAATAATATTTTGTTTG
66 ATTTTTTAAAATAAGATTTTTAAATAATAATGTAATTTAATAATTTTTAAATAATATTTTGTTTG
24378128 ATAAAAAAAAGTTTTAAATGTCTATAATCTGTATAAAAGTAGTTTTGAGAATTTTTTGTACATAT
131 ATAAAAAAAAGTTTTAAATGTCTATAATCTGTATAAAAGTAGTTTTGAGAATTTTTTGTACATAT
24378193 CAATATAGCTTTTATTCCTCGTTATATTAGTAAATACCTTTTCTCATATTAGATTCTGATCATAT
196 CAATATAGCTTTTATTCCTCGTTATATTAGTAAATACCTTTTCTCATATTAGATTCTGATCATAT
24378258 CTGTTTTTTTTATATAATACCTAGAATTATTCATAGTCCCTCGTCAACTCTTAGATAGGAGGATA
261 CTGTTTTTTTTATATAATACCTAGAATTATTCATAGTCCCTCGTCAACTCTTAGATAGGAGGATA
24378323 ATGTGGTTCTACGTAGTTGAACCCACGTCCTCCTACATTGGTAACAATATTGATGCCAATCCAGC
326 ATGTGGTTCTACGTAGTTGAACCCACGTCCTCCTACATTGGTAACAATATTGATGCCAATCCAGC
24378388 TAAAAATCAATTGACTAGTAAATATCATTTTTAAATATACTTTTTTTTTGTTTTTCTAAGATTTA
391 TAAAAATCAATTGACTAGTAAATATCATTTTTAAATATACTTTTTTTTTGTTTTTCTAAGATTTA
24378453 TCACATTTATAAATAATAATTTTATTTTTACTAAAATAATTGGTTAAAAAGATTACTTGATAAAA
456 TCACATTTATAAATAATAATTTTATTTTTACTAAAATAATTGGTTAAAAAGATTACTTGATAAAA
24378518 AGATTTATGTACTTATAAATAAAAATTATGATTAATTTTATTAAATGAATTTATATAATAAATAA
521 AGATTTATGTACTTATAAATAAAAATTATGATTAATTTTATTAAATGAATTTATATAATAAATAA
24378583 TAAATTTGATATTAAATTACTTTGTATTTAAATTATCATGTTTCAATTGACTGAAAATTTTAAAG
586 TAAATTTGATATTAAATTACTTTGTATTTAAATTATCATGTTTCAATTGACTGAAAATTTTAAAG
24378648 GAAAAAAATGATATTACTTTAGTTTTAAATTGCAAGTTTTAGTTATTTATTTATTAATTTTATAT
651 GAAAAAAATGATATTACTTTAGTTTTAAATTGCAAGTTTTAGTTATTTATTTATTAATTTTATAT
24378713 TTCATATATAAATTTTTATGGTTAAAGTGTAAATTTACCATCATAGGTGATGAATATTAAAATTT
716 TTCATATATAAATTTTTATGGTTAAAGTGTAAATTTACCATCATAGGTGATGAATATTAAAATTT
24378778 GTCGCTATACTTTACTTTCGTGGATATTTACCATTATATTTTAAAAACATGAGTAAATTTTTTAT
781 GTCGCTATACTTTACTTTCGTGGATATTTACCATTATATTTTAAAAACATGAGTAAATTTTTTAT
24378843 TCAAACTCTAATGTGATTTAATTTTATTACTAAGCTTTAAATTTTATTAAATTTTGAAACAATTT
846 TCAAACTCTAATGTGATTTAATTTTATTACTAAGCTTTAAATTTTATTAAATTTTGAAACAATTT
24378908 TATTTTTTAAATTAAATTTTATCACTTTAAAACATATTAATTTTAATGATTTGTAAA
911 TATTTTTTAAATTAAATTTTATCACTTTAAAACATATTAATTTTAATGATTTGTAAA
*
24378965 AACAATTAATA
1 AACAATAAATA
24378976 AAAAAATTAT
Statistics
Matches: 977, Mismatches: 1, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
967 973 1.00
968 4 0.00
ACGTcount: A:0.38, C:0.08, G:0.09, T:0.44
Consensus pattern (967 bp):
AACAATAAATATCACATAAATATATGTTTTTGATATTTAAGTATAAAAAAATATTTAATAATGAT
ATTTTTTAAAATAAGATTTTTAAATAATAATGTAATTTAATAATTTTTAAATAATATTTTGTTTG
ATAAAAAAAAGTTTTAAATGTCTATAATCTGTATAAAAGTAGTTTTGAGAATTTTTTGTACATAT
CAATATAGCTTTTATTCCTCGTTATATTAGTAAATACCTTTTCTCATATTAGATTCTGATCATAT
CTGTTTTTTTTATATAATACCTAGAATTATTCATAGTCCCTCGTCAACTCTTAGATAGGAGGATA
ATGTGGTTCTACGTAGTTGAACCCACGTCCTCCTACATTGGTAACAATATTGATGCCAATCCAGC
TAAAAATCAATTGACTAGTAAATATCATTTTTAAATATACTTTTTTTTTGTTTTTCTAAGATTTA
TCACATTTATAAATAATAATTTTATTTTTACTAAAATAATTGGTTAAAAAGATTACTTGATAAAA
AGATTTATGTACTTATAAATAAAAATTATGATTAATTTTATTAAATGAATTTATATAATAAATAA
TAAATTTGATATTAAATTACTTTGTATTTAAATTATCATGTTTCAATTGACTGAAAATTTTAAAG
GAAAAAAATGATATTACTTTAGTTTTAAATTGCAAGTTTTAGTTATTTATTTATTAATTTTATAT
TTCATATATAAATTTTTATGGTTAAAGTGTAAATTTACCATCATAGGTGATGAATATTAAAATTT
GTCGCTATACTTTACTTTCGTGGATATTTACCATTATATTTTAAAAACATGAGTAAATTTTTTAT
TCAAACTCTAATGTGATTTAATTTTATTACTAAGCTTTAAATTTTATTAAATTTTGAAACAATTT
TATTTTTTAAATTAAATTTTATCACTTTAAAACATATTAATTTTAATGATTTGTAAA
Found at i:24379965 original size:13 final size:13
Alignment explanation
Indices: 24379947--24379971 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24379937 CTAAATCATA
24379947 ATTTTAGTAAAAT
1 ATTTTAGTAAAAT
24379960 ATTTTAGTAAAA
1 ATTTTAGTAAAA
24379972 CCTTTTTGGT
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:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (13 bp):
ATTTTAGTAAAAT
Found at i:24384642 original size:16 final size:16
Alignment explanation
Indices: 24384621--24384669 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 16
24384611 CGCTGTATTG
*
24384621 GAATAGAGGCGTAATA
1 GAATAGAGGTGTAATA
*
24384637 GAATAGAGGTGTAATG
1 GAATAGAGGTGTAATA
*
24384653 GATTAGAGGTGTAATA
1 GAATAGAGGTGTAATA
24384669 G
1 G
24384670 CAAATCAATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.39, C:0.02, G:0.35, T:0.24
Consensus pattern (16 bp):
GAATAGAGGTGTAATA
Found at i:24395172 original size:6 final size:6
Alignment explanation
Indices: 24395161--24395191 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
24395151 CCTTTCCTTT
24395161 CGATGC CGATGC CGATGC CGATGC CGATGC C
1 CGATGC CGATGC CGATGC CGATGC CGATGC C
24395192 TCTGATTCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.35, G:0.32, T:0.16
Consensus pattern (6 bp):
CGATGC
Found at i:24395619 original size:23 final size:24
Alignment explanation
Indices: 24395581--24395627 Score: 87
Period size: 23 Copynumber: 2.0 Consensus size: 24
24395571 CTCAACTTAA
24395581 TTTCAACAAAATTTTGTTCTAAAG
1 TTTCAACAAAATTTTGTTCTAAAG
24395605 TTTCAAC-AAATTTTGTTCTAAAG
1 TTTCAACAAAATTTTGTTCTAAAG
24395628 CTTTTAAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.36, C:0.13, G:0.09, T:0.43
Consensus pattern (24 bp):
TTTCAACAAAATTTTGTTCTAAAG
Found at i:24398273 original size:27 final size:28
Alignment explanation
Indices: 24398214--24398273 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 28
24398204 AATGCTGAAA
* * *
24398214 ATTTTGAAAAATTATCGGATTAGGTGTG
1 ATTTTCAAAAATTATCAGATTAGATGTG
* *
24398242 TTTTTCAAAATTTATCAGATTAGAT-TG
1 ATTTTCAAAAATTATCAGATTAGATGTG
24398269 ATTTT
1 ATTTT
24398274 GGGAGAGAAG
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
27 6 0.23
28 20 0.77
ACGTcount: A:0.32, C:0.05, G:0.17, T:0.47
Consensus pattern (28 bp):
ATTTTCAAAAATTATCAGATTAGATGTG
Found at i:24398452 original size:19 final size:19
Alignment explanation
Indices: 24398400--24398453 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
24398390 AAATATCATA
*
24398400 AAAAAAATTCTAAAGAATAT
1 AAAAAAATACTAAA-AATAT
* * *
24398420 ATAAAAATATTAAAAATTT
1 AAAAAAATACTAAAAATAT
*
24398439 AAAAAAATCCTAAAA
1 AAAAAAATACTAAAA
24398454 TAATAATTTC
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
19 16 0.59
20 11 0.41
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.26
Consensus pattern (19 bp):
AAAAAAATACTAAAAATAT
Found at i:24401647 original size:3 final size:3
Alignment explanation
Indices: 24401639--24401666 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
24401629 GAGTAAATTT
24401639 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
24401667 ACTTCCTCCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:24402576 original size:158 final size:162
Alignment explanation
Indices: 24402272--24402569 Score: 433
Period size: 158 Copynumber: 1.9 Consensus size: 162
24402262 ACTTTTGAGG
* *
24402272 AAGATTGGTAGAAGCATGCAAAATTTCAAATGAGGGGAAAAGTATTGCATATATATGTTTCAAAT
1 AAGATTGGTAGAAGCATGCAAAATTTCAAATGAGGGGAAAAATATTGCATAGATATGTTTCAAAT
* **
24402337 TAACTAGGGAAAAATATTAATTTTGTCATTGTTAGAAAAATATTTGTTAATTTTACAAGATATAT
66 T-A-TAGGGAAAAATATTAATTTTGTCATTGTTAGAAAAAGATTTAATAATTTTACAAGATATAT
24402402 TTGATTAAACCATATCTTGACATTGTCTTGTTAA
129 TTGATTAAACCATATCTTGACATTGTCTTGTTAA
*
24402436 AAGATTGGTAGAAGCATGCAAAATTTCAAATGAGGGGAAAAATATTGGATAGA-AT-TTTCAAA-
1 AAGATTGGTAGAAGCATGCAAAATTTCAAATGAGGGGAAAAATATTGCATAGATATGTTTCAAAT
* * * *** *
24402498 T-TAGGGGAAAATATTAATTTTGTCATTGTTGGAAAAAGATTTAATAGTTTTATGTGTTATATTT
66 TATAGGGAAAAATATTAATTTTGTCATTGTTAGAAAAAGATTTAATAATTTTACAAGATATATTT
24402562 GATTAAAC
131 GATTAAAC
24402570 GGTATCTAAT
Statistics
Matches: 121, Mismatches: 13, Indels: 6
0.86 0.09 0.04
Matches are distributed among these distances:
158 61 0.50
161 1 0.01
162 7 0.06
163 2 0.02
164 50 0.41
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.37
Consensus pattern (162 bp):
AAGATTGGTAGAAGCATGCAAAATTTCAAATGAGGGGAAAAATATTGCATAGATATGTTTCAAAT
TATAGGGAAAAATATTAATTTTGTCATTGTTAGAAAAAGATTTAATAATTTTACAAGATATATTT
GATTAAACCATATCTTGACATTGTCTTGTTAA
Found at i:24406203 original size:25 final size:26
Alignment explanation
Indices: 24406170--24406230 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 26
24406160 TCATGAAATC
*
24406170 CATTAAAAATTATAAAA-AATAA-ATT
1 CATTAAAAATGA-AAAACAATAATATT
* *
24406195 TATTTAAAATGAAAAACAATAATATT
1 CATTAAAAATGAAAAACAATAATATT
24406221 CATTAAAAAT
1 CATTAAAAAT
24406231 CATTAAGGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
24 4 0.14
25 14 0.48
26 11 0.38
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.33
Consensus pattern (26 bp):
CATTAAAAATGAAAAACAATAATATT
Found at i:24406666 original size:22 final size:21
Alignment explanation
Indices: 24406631--24406671 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
24406621 ATTTGGAAAT
*
24406631 TTTTATTGAATTTCTTTAGAG
1 TTTTATTGAATTTCCTTAGAG
*
24406652 TTTTATTGGATTTTCCTTAG
1 TTTTATT-GAATTTCCTTAG
24406672 TCTCCGCAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.20, C:0.07, G:0.15, T:0.59
Consensus pattern (21 bp):
TTTTATTGAATTTCCTTAGAG
Found at i:24408094 original size:11 final size:11
Alignment explanation
Indices: 24408072--24408101 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
24408062 ATAAAATTAT
24408072 TAAATAATAAAA
1 TAAAT-ATAAAA
24408084 TAAATATAAAA
1 TAAATATAAAA
24408095 TAAATAT
1 TAAATAT
24408102 TTAAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
TAAATATAAAA
Found at i:24410025 original size:18 final size:19
Alignment explanation
Indices: 24409990--24410026 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
24409980 AAGTGGTTTA
24409990 TTTTCAACTATCACATTCAC
1 TTTTCAACTA-CACATTCAC
24410010 TTTTCAACTA-ACATTCA
1 TTTTCAACTACACATTCA
24410027 TTTCTTATGT
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:0.32, C:0.27, G:0.00, T:0.41
Consensus pattern (19 bp):
TTTTCAACTACACATTCAC
Found at i:24412112 original size:15 final size:15
Alignment explanation
Indices: 24412092--24412123 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
24412082 TCATGTGAAA
24412092 GTACTGTTTCCAGTT
1 GTACTGTTTCCAGTT
*
24412107 GTACTGTTTCTAGTT
1 GTACTGTTTCCAGTT
24412122 GT
1 GT
24412124 GCGTTTGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.12, C:0.16, G:0.22, T:0.50
Consensus pattern (15 bp):
GTACTGTTTCCAGTT
Found at i:24416712 original size:27 final size:26
Alignment explanation
Indices: 24416682--24416741 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 26
24416672 TTGATTTTTT
24416682 AAAATATAA-AATT-TTAAAAAATTACTA
1 AAAATATAAGAATTATT-AAAAA-TA-TA
24416709 AAAATATAAGAATTATTAAAAATATA
1 AAAATATAAGAATTATTAAAAATATA
24416735 AAAATAT
1 AAAATAT
24416742 TTATTAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
26 9 0.29
27 11 0.35
28 9 0.29
29 2 0.06
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (26 bp):
AAAATATAAGAATTATTAAAAATATA
Found at i:24416728 original size:18 final size:18
Alignment explanation
Indices: 24416701--24416735 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
24416691 AATTTTAAAA
24416701 AATTACTAAAAATATAAG
1 AATTACTAAAAATATAAG
*
24416719 AATTATTAAAAATATAA
1 AATTACTAAAAATATAA
24416736 AAATATTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (18 bp):
AATTACTAAAAATATAAG
Found at i:24423078 original size:3 final size:3
Alignment explanation
Indices: 24423061--24423098 Score: 60
Period size: 3 Copynumber: 12.7 Consensus size: 3
24423051 TATTTAAATC
24423061 AAT AATT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
24423099 CGAGACGTGG
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:24423710 original size:7 final size:7
Alignment explanation
Indices: 24423698--24423722 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
24423688 TTAAATTTAA
24423698 TATATTT
1 TATATTT
24423705 TATATTT
1 TATATTT
24423712 TATATTT
1 TATATTT
24423719 TATA
1 TATA
24423723 CCATTAATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (7 bp):
TATATTT
Found at i:24432520 original size:11 final size:11
Alignment explanation
Indices: 24432504--24432528 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
24432494 AAAACTTTCA
24432504 AATAATTTAAT
1 AATAATTTAAT
24432515 AATAATTTAAT
1 AATAATTTAAT
24432526 AAT
1 AAT
24432529 TTTTTAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
AATAATTTAAT
Found at i:24433874 original size:23 final size:24
Alignment explanation
Indices: 24433848--24433892 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
24433838 TTTAAAAAAT
*
24433848 ATAAAT-GCTTTATTTTTTTATAA
1 ATAAATAGCTTTATTTTATTATAA
*
24433871 ATAAATATCTTTATTTTATTAT
1 ATAAATAGCTTTATTTTATTAT
24433893 TGTCATTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (24 bp):
ATAAATAGCTTTATTTTATTATAA
Found at i:24440009 original size:16 final size:17
Alignment explanation
Indices: 24439990--24440022 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
24439980 ATATATATAT
24439990 ATACATA-AGCATGAAC
1 ATACATACAGCATGAAC
24440006 ATACATATCAGCATGAA
1 ATACATA-CAGCATGAA
24440023 AATTAGGAAA
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:0.48, C:0.18, G:0.12, T:0.21
Consensus pattern (17 bp):
ATACATACAGCATGAAC
Found at i:24440546 original size:5 final size:5
Alignment explanation
Indices: 24440536--24440560 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
24440526 AACAACAGAC
24440536 AGAGA AGAGA AGAGA AGAGA AGAGA
1 AGAGA AGAGA AGAGA AGAGA AGAGA
24440561 CGTACAAAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (5 bp):
AGAGA
Found at i:24440639 original size:3 final size:3
Alignment explanation
Indices: 24440631--24440679 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
24440621 TCTTTTACCT
24440631 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
24440678 TT
1 TT
24440680 TTTCTTAAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 43 0.96
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:24451319 original size:109 final size:108
Alignment explanation
Indices: 24451166--24451366 Score: 325
Period size: 109 Copynumber: 1.9 Consensus size: 108
24451156 ATATTTGGCT
*
24451166 ATTTGGTTAAACGAGAAATCGAAACCCAGCACCTTAGGGTACGTTC-CTCAAATTT-CCAAACGC
1 ATTTGGTTAAACGAGAAATCGAAACCCAGCACCTTAGGGCACGTTCTCTCAAATTTCCCAAACGC
24451229 AAAACATTGCCTTATTTTGAAAATTTTTAAAATGATATTAAGCC
66 AAAACATTGCCTTA-TTTGAAAATTTTTAAAATGATATTAAGCC
* * *
24451273 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTCTCTCGAATTTCCCAAAC
1 ATTTGGTTAAACGAG--AAATCGAAACCCAGCACCTTAGGGCACGTTCTCTCAAATTTCCCAAAC
24451338 GCAAAACATTGCCTTATTTGAAAATTTTT
64 GCAAAACATTGCCTTATTTGAAAATTTTT
24451367 GTTTTTGATA
Statistics
Matches: 86, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
107 14 0.16
109 29 0.34
110 21 0.24
111 22 0.26
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.29
Consensus pattern (108 bp):
ATTTGGTTAAACGAGAAATCGAAACCCAGCACCTTAGGGCACGTTCTCTCAAATTTCCCAAACGC
AAAACATTGCCTTATTTGAAAATTTTTAAAATGATATTAAGCC
Found at i:24451505 original size:18 final size:17
Alignment explanation
Indices: 24451474--24451509 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
24451464 ATATATAATG
*
24451474 AAAAGAAATCAACAAAT
1 AAAAGAAATAAACAAAT
24451491 AAAAGTAAATAAACAAAT
1 AAAAG-AAATAAACAAAT
24451509 A
1 A
24451510 TAAAATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.72, C:0.08, G:0.06, T:0.14
Consensus pattern (17 bp):
AAAAGAAATAAACAAAT
Found at i:24451872 original size:22 final size:22
Alignment explanation
Indices: 24451829--24451876 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
24451819 TGTGTGTAAG
* *
24451829 TATATAAAAAAATATATGTATA
1 TATATAAAAAAACATATATATA
*
24451851 TATATAAAAAAACGTATATATA
1 TATATAAAAAAACATATATATA
24451873 TATA
1 TATA
24451877 AGGGCAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.35
Consensus pattern (22 bp):
TATATAAAAAAACATATATATA
Found at i:24451894 original size:3 final size:3
Alignment explanation
Indices: 24451886--24451927 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
24451876 AAGGGCAATT
* *
24451886 ATA ATA ATA ATG ATA ATA ATA ATA ATA ATA ACA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
24451928 TTATTATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:24452020 original size:3 final size:3
Alignment explanation
Indices: 24452012--24452063 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
24452002 AAATAAAAAC
*
24452012 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
24452060 AAT A
1 AAT A
24452064 TGAAATTTAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:24453725 original size:44 final size:42
Alignment explanation
Indices: 24453677--24453965 Score: 140
Period size: 44 Copynumber: 6.6 Consensus size: 42
24453667 ATTTTAATCC
24453677 GCTCCACTGCAACTTCAAGGAGATAGGATTAGTAGCTTCAGTCT
1 GCTCCACTGCAACTTC-AGGAGATAGGATTAGTAGCTTC-GTCT
* * * * *
24453721 GCTCCACTGCAACTTTAGGAGATA--A-TACTGGATGCGATCT
1 GCTCCACTGCAACTTCAGGAGATAGGATTAGTAGCTTCG-TCT
* * * * ** *
24453761 GCTCTACTGCCACTTCAGAGAGATAAGATCT-GTAGTTTTAATCC
1 GCTCCACTGCAACTTCAG-GAGATAGGAT-TAGTAG-CTTCGTCT
* *
24453805 GCTCCACTGCAACTTCAGGGAGATAGGAGATAATA-CTGGATGCGATCT
1 GCTCCACTGCAACTTCA-GGAGATAGGA-TTAGTAGCT---T-CG-TCT
* * * * ** *
24453853 GCTCTACTGCCACTTCAGAGAGATAAGATCT-GTAGTTTTAATCC
1 GCTCCACTGCAACTTCAG-GAGATAGGAT-TAGTAG-CTTCGTCT
* * **
24453897 GCTCCACTGTAACTTCAGGAAGATAGGATTAATTTCTTTCGTCT
1 GCTCCACTGCAACTTCAGG-AGATAGGATTAGTAGC-TTCGTCT
24453941 GCTCCACTGCAACTTCAGGGAGATA
1 GCTCCACTGCAACTTCA-GGAGATA
24453966 AGACCTGATG
Statistics
Matches: 177, Mismatches: 45, Indels: 46
0.66 0.17 0.17
Matches are distributed among these distances:
39 1 0.01
40 24 0.14
41 7 0.04
43 12 0.07
44 94 0.53
45 7 0.04
46 2 0.01
47 3 0.02
48 26 0.15
49 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (42 bp):
GCTCCACTGCAACTTCAGGAGATAGGATTAGTAGCTTCGTCT
Found at i:24453893 original size:92 final size:92
Alignment explanation
Indices: 24453736--24453924 Score: 360
Period size: 92 Copynumber: 2.1 Consensus size: 92
24453726 ACTGCAACTT
24453736 TAGGAGATAATACTGGATGCGATCTGCTCTACTGCCACTTCAGAGAGATAAGATCTGTAGTTTTA
1 TAGGAGATAATACTGGATGCGATCTGCTCTACTGCCACTTCAGAGAGATAAGATCTGTAGTTTTA
*
24453801 ATCCGCTCCACTGCAACTTCAGGGAGA
66 ATCCGCTCCACTGCAACTTCAGGAAGA
24453828 TAGGAGATAATACTGGATGCGATCTGCTCTACTGCCACTTCAGAGAGATAAGATCTGTAGTTTTA
1 TAGGAGATAATACTGGATGCGATCTGCTCTACTGCCACTTCAGAGAGATAAGATCTGTAGTTTTA
*
24453893 ATCCGCTCCACTGTAACTTCAGGAAGA
66 ATCCGCTCCACTGCAACTTCAGGAAGA
24453920 TAGGA
1 TAGGA
24453925 TTAATTTCTT
Statistics
Matches: 95, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
92 95 1.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.28
Consensus pattern (92 bp):
TAGGAGATAATACTGGATGCGATCTGCTCTACTGCCACTTCAGAGAGATAAGATCTGTAGTTTTA
ATCCGCTCCACTGCAACTTCAGGAAGA
Found at i:24454009 original size:129 final size:133
Alignment explanation
Indices: 24453805--24454055 Score: 368
Period size: 129 Copynumber: 1.9 Consensus size: 133
24453795 GTTTTAATCC
* *
24453805 GCTCCACTGCAACTTCAGGGAGATAGGAGATAATACTGGATGCGATCTGCTCTACTGCCACTTCA
1 GCTCCACTGCAACTTCAGGGAGATA-GAG--AATACTGGATGCGATCTACTCTACTGCAACTTCA
*
24453870 GAGAGATAAGATC-TGTAGTTTTAATCCGCTCCACTGTAACTTCAGGAAGATAGGATTAATTTCT
63 GAGAGATAAGATCTTGTA-TTTTAATCCACTCCACTGTAACTTCAGGAAGATAGGATTAATTTCT
24453934 TTCGTCT
127 TTCGTCT
* *
24453941 GCTCCACTGCAACTTCAGGGAGATA-AG-A-CCT-GATGCGATCTACTCTACTGTAACTTCAGAG
1 GCTCCACTGCAACTTCAGGGAGATAGAGAATACTGGATGCGATCTACTCTACTGCAACTTCAGAG
* *
24454002 AGATAAGATCTTTTATTTTAATCCACTCCACTGTAACTTCAGGGAGATAGGATT
66 AGATAAGATCTTGTATTTTAATCCACTCCACTGTAACTTCAGGAAGATAGGATT
24454056 GTCGGCTTCA
Statistics
Matches: 107, Mismatches: 7, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
129 74 0.69
130 5 0.05
131 1 0.01
134 2 0.02
136 25 0.23
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (133 bp):
GCTCCACTGCAACTTCAGGGAGATAGAGAATACTGGATGCGATCTACTCTACTGCAACTTCAGAG
AGATAAGATCTTGTATTTTAATCCACTCCACTGTAACTTCAGGAAGATAGGATTAATTTCTTTCG
TCT
Found at i:24454040 original size:44 final size:44
Alignment explanation
Indices: 24453864--24454630 Score: 262
Period size: 44 Copynumber: 17.4 Consensus size: 44
24453854 CTCTACTGCC
* **
24453864 ACTTCAGAGAGATAAGATC-TGTAGTTTTAATCCGCTCCACTGTA
1 ACTTCAGAGAGATAAGATCTTTTA-TTTTAATCTACTCCACTGTA
* * ** * *
24453908 ACTTCAG-GAAGATAGGAT-TAATTT-CTTTCGTCTGCTCCACTGCA
1 ACTTCAGAG-AGATAAGATCT--TTTATTTTAATCTACTCCACTGTA
* * * *** *
24453952 ACTTCAGGGAGATAAGA-C-CTGA-TGCGATCTACTCTACTGTA
1 ACTTCAGAGAGATAAGATCTTTTATTTTAATCTACTCCACTGTA
*
24453993 ACTTCAGAGAGATAAGATCTTTTATTTTAATCCACTCCACTGTA
1 ACTTCAGAGAGATAAGATCTTTTATTTTAATCTACTCCACTGTA
* * * * *
24454037 ACTTCAGGGAGATAGGAT-TGTCGGCTTCAACCTGATGTGATCTACTCTACTGTA
1 ACTTCAGAGAGATAAGATCT-T----TT--A--T--TTTAATCTACTCCACTGTA
*
24454091 ACTTCAGAGAGATAAGATCTTTTATTTTAATCCACTCCACTGTA
1 ACTTCAGAGAGATAAGATCTTTTATTTTAATCTACTCCACTGTA
* * * ** * *
24454135 ACTTCAGAAAGATAGGAT-TACTTT-CTTTCGTCTGCTCCGCTGTA
1 ACTTCAGAGAGATAAGATCT--TTTATTTTAATCTACTCCACTGTA
* * * * *** *
24454179 ACCTCAGGGAGATAAGA-C-CTGA-TGCGATCTACTCTACTGTA
1 ACTTCAGAGAGATAAGATCTTTTATTTTAATCTACTCCACTGTA
* * *
24454220 ACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCCACTGTA
1 ACTTCAGAGAGATAAGATCTTTTATTTTAATCTACTCCACTGTA
* ** * * * * *
24454264 ACTTCAGGGAGATAAGATAGTGT-CTTTGATCTGCTCCGCTGTA
1 ACTTCAGAGAGATAAGATCTTTTATTTTAATCTACTCCACTGTA
* * *** * * *
24454307 A-TCTCAGGGAGATAAGATC-CTGGCTTCAATCTGCTCCATTGTA
1 ACT-TCAGAGAGATAAGATCTTTTATTTTAATCTACTCCACTGTA
* * * ** ***
24454350 ACCTCAGGGAGACAAGATCTTAAATTCTTCGGCCTACTCCACTGTA
1 ACTTCAGAGAGATAAGATCTTTTATT-TT-AATCTACTCCACTGTA
* * * *** **
24454396 ACCTCAGAGAGATAAGA-C-CTGA-TGCGATCTACTCTGCTGTA
1 ACTTCAGAGAGATAAGATCTTTTATTTTAATCTACTCCACTGTA
* * *
24454437 ACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTATA
1 ACTTCAGAGAGATAAGATCTTTTATTTTAATCTACTCCACTGTA
* * ** * * ** * *
24454481 ACTTCAGGGAGATAGGATAGTGT-CTTCGATCTGCTCCGCTGTA
1 ACTTCAGAGAGATAAGATCTTTTATTTTAATCTACTCCACTGTA
* * *** * **
24454524 A-TCTCAGGGAGATAAGATCTCTGGCTTCAATCTGTTCCACTGTA
1 ACT-TCAGAGAGATAAGATCTTTTATTTTAATCTACTCCACTGTA
* * *** **
24454568 ACATCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTA
1 ACTTCAGAGAGATAAGATCTTTTATT-TT-AATCTACTCCACTGTA
*
24454614 ACCTCAGAGAGATAAGA
1 ACTTCAGAGAGATAAGA
24454631 CCTGATGCGA
Statistics
Matches: 527, Mismatches: 153, Indels: 84
0.69 0.20 0.11
Matches are distributed among these distances:
41 85 0.16
42 5 0.01
43 102 0.19
44 232 0.44
45 7 0.01
46 56 0.11
48 3 0.01
50 3 0.01
52 1 0.00
54 32 0.06
55 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (44 bp):
ACTTCAGAGAGATAAGATCTTTTATTTTAATCTACTCCACTGTA
Found at i:24454137 original size:98 final size:98
Alignment explanation
Indices: 24453968--24454153 Score: 345
Period size: 98 Copynumber: 1.9 Consensus size: 98
24453958 GGGAGATAAG
24453968 ACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTTTTATTTTAATCCACTCCAC
1 ACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTTTTATTTTAATCCACTCCAC
**
24454033 TGTAACTTCAGGGAGATAGGATTGTCGGCTTCA
66 TGTAACTTCAGAAAGATAGGATTGTCGGCTTCA
*
24454066 ACCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTTTTATTTTAATCCACTCCAC
1 ACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTTTTATTTTAATCCACTCCAC
24454131 TGTAACTTCAGAAAGATAGGATT
66 TGTAACTTCAGAAAGATAGGATT
24454154 ACTTTCTTTC
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 85 1.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (98 bp):
ACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTTTTATTTTAATCCACTCCAC
TGTAACTTCAGAAAGATAGGATTGTCGGCTTCA
Found at i:24454170 original size:227 final size:220
Alignment explanation
Indices: 24453635--24454679 Score: 1059
Period size: 227 Copynumber: 4.7 Consensus size: 220
24453625 TCTAATTCAA
* * * * *
24453635 TCTACTGCAACTTCAGAG-GTATATGAT-TTATCATTTTAATCCGCTCCACTGCAACTTCAAGGA
1 TCTACTGTAACTTCAGAGAG-ATAAGATCTT-TGATTTTAATCCGCTCCACTGTAACTTCAGGGA
* ** * * * * *
24453698 GATAGGATTAGTAGCTTCAGTCTGCTCCACTGCAACTTTA-GGAGATAATA-CTGGATGCGATCT
64 GATAGGATTAATTTCTTCGGTCTGCTCCACTGTAACCTCAGGGAGATAAGACCT-GATGCGATCT
* ** * * *
24453761 GCTCTACTGCCACTTCAGAGAGATAAGATC-TGTAGTTTTAATCCGCTCCACTGCAACTTCAGGG
128 ACTCTACTGTAACTTCAGAGAGATAAGATCTTTTA-TTTTAATCCACTCCACTGTAACTTCAGGG
* * * *
24453825 AGATAGGAGA-TAATACTGGATGCGATCTGC
192 AGATAGGATAGT-GTTCT-GATGTGATCTGC
** * *
24453855 TCTACTGCCACTTCAGAGAGATAAGATCTGT-AGTTTTAATCCGCTCCACTGTAACTTCAGGAAG
1 TCTACTGTAACTTCAGAGAGATAAGATCTTTGA-TTTTAATCCGCTCCACTGTAACTTCAGGGAG
* *
24453919 ATAGGATTAATTTCTTTC-GTCTGCTCCACTGCAACTTCAGGGAGATAAGACCTGATGCGATCTA
65 ATAGGATTAATTTC-TTCGGTCTGCTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTA
24453983 CTCTACTGTAACTTCAGAGAGATAAGATCTTTTATTTTAATCCACTCCACTGTAACTTCAGGGAG
129 CTCTACTGTAACTTCAGAGAGATAAGATCTTTTATTTTAATCCACTCCACTGTAACTTCAGGGAG
* *
24454048 ATAGGATTGTCGGCTTCAACCTGATGTGATCTAC
194 ATAGGATAGT--G-TT----CTGATGTGATCTGC
* * **
24454082 TCTACTGTAACTTCAGAGAGATAAGATCTTTTATTTTAATCCACTCCACTGTAACTTCAGAAAGA
1 TCTACTGTAACTTCAGAGAGATAAGATCTTTGATTTTAATCCGCTCCACTGTAACTTCAGGGAGA
* *
24454147 TAGGATTACTTTCTTTC-GTCTGCTCCGCTGTAACCTCAGGGAGATAAGACCTGATGCGATCTAC
66 TAGGATTAATTTC-TTCGGTCTGCTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTAC
* *
24454211 TCTACTGTAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCCACTGTAACTTCAGGGAGA
130 TCTACTGTAACTTCAGAGAGATAAGATCTTTTATTTTAATCCACTCCACTGTAACTTCAGGGAGA
*
24454276 TAAGATAGTG-TCT--T-TGATCTGC
195 TAGGATAGTGTTCTGATGTGATCTGC
** * * ** * * * *
24454298 TCCGCTGTAA-TCTCAGGGAGATAAGATC-CTGGCTTCAATCTGCTCCATTGTAACCTCAGGGAG
1 TCTACTGTAACT-TCAGAGAGATAAGATCTTTGATTTTAATCCGCTCCACTGTAACTTCAGGGAG
* * * * * *
24454361 ACAAGATCTTAAATTCTTCGGCCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGATCT
65 ATAGGA--TTAATTTCTTCGGTCTGCTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCT
* * *
24454426 ACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTATAACTTCAGGGA
128 ACTCTACTGTAACTTCAGAGAGATAAGATCTTTTATTTTAATCCACTCCACTGTAACTTCAGGGA
*
24454491 GATAGGATAGTG-TCT--T-CGATCTGC
193 GATAGGATAGTGTTCTGATGTGATCTGC
** * * ** * * * *
24454515 TCCGCTGTAA-TCTCAGGGAGATAAGATCTCTGGCTTCAATCTGTTCCACTGTAACATCAGGGAG
1 TCTACTGTAACT-TCAGAGAGATAAGATCTTTGATTTTAATCCGCTCCACTGTAACTTCAGGGAG
* * * * *
24454579 ATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGATCC
65 ATAGGAT-T-AATTTCTTCGGTCTGCTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCT
* *
24454644 ACTCTGCTGTAACTTCAGAGAGATAAGATCATTTAT
128 ACTCTACTGTAACTTCAGAGAGATAAGATCTTTTAT
24454680 AGACATGTGG
Statistics
Matches: 729, Mismatches: 74, Indels: 46
0.86 0.09 0.05
Matches are distributed among these distances:
215 29 0.04
216 34 0.05
217 159 0.22
218 125 0.17
219 3 0.00
220 83 0.11
221 86 0.12
222 6 0.01
223 1 0.00
224 1 0.00
225 1 0.00
227 198 0.27
228 3 0.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (220 bp):
TCTACTGTAACTTCAGAGAGATAAGATCTTTGATTTTAATCCGCTCCACTGTAACTTCAGGGAGA
TAGGATTAATTTCTTCGGTCTGCTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACT
CTACTGTAACTTCAGAGAGATAAGATCTTTTATTTTAATCCACTCCACTGTAACTTCAGGGAGAT
AGGATAGTGTTCTGATGTGATCTGC
Found at i:24454232 original size:129 final size:128
Alignment explanation
Indices: 24454066--24454328 Score: 411
Period size: 129 Copynumber: 2.0 Consensus size: 128
24454056 GTCGGCTTCA
* * *
24454066 ACCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTTTTATTTTAATCCACTCCAC
1 ACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCCAC
* *
24454131 TGTAACTTCAGAAAGATAGGATTACTTTCTTTCG-TCTGCTCCGCTGTAACCTCAGGGAGATAAG
66 TGTAACTTCAGAAAGATAAGA-TACTGTCTTT-GATCTGCTCCGCTGTAACCTCAGGGAGATAAG
24454195 ACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCCAC
1 ACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCCAC
** * *
24454260 TGTAACTTCAGGGAGATAAGATAGTGTCTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAG
66 TGTAACTTCAGAAAGATAAGATACTGTCTTTGATCTGCTCCGCTGTAACCTCAGGGAGATAAG
24454323 ATCCTG
1 A-CCTG
24454329 GCTTCAATCT
Statistics
Matches: 123, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
127 1 0.01
128 38 0.31
129 84 0.68
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (128 bp):
ACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCCAC
TGTAACTTCAGAAAGATAAGATACTGTCTTTGATCTGCTCCGCTGTAACCTCAGGGAGATAAG
Found at i:24454314 original size:43 final size:43
Alignment explanation
Indices: 24454125--24454630 Score: 267
Period size: 44 Copynumber: 11.6 Consensus size: 43
24454115 TTTTAATCCA
** * *
24454125 CTCCACTGTAACTTCAGAAAGATAGGATTACTTTCTTTCG-TCTG
1 CTCCACTGTAACTTCAGGGAGATAAGA-TACTGTC-TTCGATCTG
* * * * * *
24454169 CTCCGCTGTAACCTCAGGGAGATAAGA-CCTG-ATGCGATCTA
1 CTCCACTGTAACTTCAGGGAGATAAGATACTGTCTTCGATCTG
* * * ** **
24454210 CTCTACTGTAACTTCAGAGAGATAAGAT-CTGTGATTTTAATCCA
1 CTCCACTGTAACTTCAGGGAGATAAGATACTGT--CTTCGATCTG
* *
24454254 CTCCACTGTAACTTCAGGGAGATAAGATAGTGTCTTTGATCTG
1 CTCCACTGTAACTTCAGGGAGATAAGATACTGTCTTCGATCTG
* * * *
24454297 CTCCGCTGTAA-TCTCAGGGAGATAAGATCCTGGCTTCAATCTG
1 CTCCACTGTAACT-TCAGGGAGATAAGATACTGTCTTCGATCTG
* * * * ** *
24454340 CTCCATTGTAACCTCAGGGAGACAAGAT-CTTAAATTCTTCGGCCTA
1 CTCCACTGTAACTTCAGGGAGATAAGATAC-T---GTCTTCGATCTG
* * * * * *
24454386 CTCCACTGTAACCTCAGAGAGATAAGA-CCTG-ATGCGATCTA
1 CTCCACTGTAACTTCAGGGAGATAAGATACTGTCTTCGATCTG
** * * * * ** **
24454427 CTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCA
1 CTCCACTGTAACTTCAGGGAGATAAGATACTGT-CTTCGATCTG
* * *
24454471 CTCCACTATAACTTCAGGGAGATAGGATAGTGTCTTCGATCTG
1 CTCCACTGTAACTTCAGGGAGATAAGATACTGTCTTCGATCTG
* * * *
24454514 CTCCGCTGTAA-TCTCAGGGAGATAAGATCTCTGGCTTCAATCTG
1 CTCCACTGTAACT-TCAGGGAGATAAGAT-ACTGTCTTCGATCTG
* * * *
24454558 TTCCACTGTAACATCAGGGAGATAAGAT-CTGAAATTCTTCGGTCTA
1 CTCCACTGTAACTTCAGGGAGATAAGATACTG----TCTTCGATCTG
* *
24454604 CTCCACTGTAACCTCAGAGAGATAAGA
1 CTCCACTGTAACTTCAGGGAGATAAGA
24454631 CCTGATGCGA
Statistics
Matches: 350, Mismatches: 89, Indels: 44
0.72 0.18 0.09
Matches are distributed among these distances:
40 3 0.01
41 59 0.17
42 11 0.03
43 93 0.27
44 118 0.34
45 4 0.01
46 62 0.18
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (43 bp):
CTCCACTGTAACTTCAGGGAGATAAGATACTGTCTTCGATCTG
Found at i:24454466 original size:217 final size:218
Alignment explanation
Indices: 24454169--24454679 Score: 864
Period size: 217 Copynumber: 2.3 Consensus size: 218
24454159 CTTTCGTCTG
* * *
24454169 CTCCGCTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATA
1 CTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATA
* * *
24454234 AGAT-CTGTGATTTTAATCCACTCCACTGTAACTTCAGGGAGATAAGATAGTGTCTTTGATCTGC
66 AGATCCT-TTATTTTAATCCACTCCACTATAACTTCAGGGAGATAAGATAGTGTCTTCGATCTGC
* *
24454298 TCCGCTGTAATCTCAGGGAGATAAGATC-CTGGCTTCAATCTGCTCCATTGTAACCTCAGGGAGA
130 TCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACATCAGGGAGA
*
24454362 CAAGATCTTAAATTCTTCGGCCTA
195 CAAGATCTGAAATTCTTCGGCCTA
24454386 CTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATA
1 CTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATA
*
24454451 AGATCCTTTATTTTAATCCACTCCACTATAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCT
66 AGATCCTTTATTTTAATCCACTCCACTATAACTTCAGGGAGATAAGATAGTGTCTTCGATCTGCT
* *
24454516 CCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGTTCCACTGTAACATCAGGGAGAT
131 CCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACATCAGGGAGAC
*
24454581 AAGATCTGAAATTCTTCGGTCTA
196 AAGATCTGAAATTCTTCGGCCTA
*
24454604 CTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGATCCACTCTGCTGTAACTTCAGAGAGATA
1 CTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATA
*
24454669 AGATCATTTAT
66 AGATCCTTTAT
24454680 AGACATGTGG
Statistics
Matches: 277, Mismatches: 15, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
217 147 0.53
218 130 0.47
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (218 bp):
CTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATA
AGATCCTTTATTTTAATCCACTCCACTATAACTTCAGGGAGATAAGATAGTGTCTTCGATCTGCT
CCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACATCAGGGAGAC
AAGATCTGAAATTCTTCGGCCTA
Found at i:24456495 original size:5 final size:5
Alignment explanation
Indices: 24456482--24456535 Score: 65
Period size: 5 Copynumber: 10.8 Consensus size: 5
24456472 GACCTCTCCC
* * *
24456482 TTTTC TTTTT TTTTG TTTTG TTTTG TTTTT TTTTG TTTTTG TTTTG -TTTG
1 TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG -TTTTG TTTTG TTTTG
24456532 TTTT
1 TTTT
24456536 TTTAGTCTGT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
4 4 0.09
5 34 0.79
6 5 0.12
ACGTcount: A:0.00, C:0.02, G:0.13, T:0.85
Consensus pattern (5 bp):
TTTTG
Found at i:24456513 original size:21 final size:21
Alignment explanation
Indices: 24456482--24456537 Score: 87
Period size: 20 Copynumber: 2.7 Consensus size: 21
24456472 GACCTCTCCC
*
24456482 TTTTCTTTTTTTTTG-TTTTG
1 TTTTGTTTTTTTTTGTTTTTG
24456502 TTTTGTTTTTTTTTGTTTTTG
1 TTTTGTTTTTTTTTGTTTTTG
24456523 TTTTGTTTGTTTTTT
1 TTTTGTTT-TTTTTT
24456538 TAGTCTGTAC
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
20 14 0.42
21 13 0.39
22 6 0.18
ACGTcount: A:0.00, C:0.02, G:0.12, T:0.86
Consensus pattern (21 bp):
TTTTGTTTTTTTTTGTTTTTG
Found at i:24456537 original size:26 final size:25
Alignment explanation
Indices: 24456482--24456538 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
24456472 GACCTCTCCC
*
24456482 TTTTCTTTTTTTTTGTTTTGTTTTG
1 TTTTTTTTTTTTTTGTTTTGTTTTG
24456507 TTTTTTTTTGTTTTTGTTTTG-TTTG
1 TTTTTTTTT-TTTTTGTTTTGTTTTG
24456532 TTTTTTT
1 TTTTTTT
24456539 AGTCTGTACT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 19 0.63
26 11 0.37
ACGTcount: A:0.00, C:0.02, G:0.12, T:0.86
Consensus pattern (25 bp):
TTTTTTTTTTTTTTGTTTTGTTTTG
Found at i:24461719 original size:16 final size:16
Alignment explanation
Indices: 24461688--24461724 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
24461678 ATGCGAAGAA
24461688 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
24461704 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
24461720 TATTA
1 TATTA
24461725 AATAAAATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:24463761 original size:15 final size:16
Alignment explanation
Indices: 24463729--24463767 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
24463719 AGCCATATTA
*
24463729 TGGAAATAGAGTTTTG
1 TGGAAGTAGAGTTTTG
*
24463745 TGGTAGTAGAG-TTTG
1 TGGAAGTAGAGTTTTG
24463760 TGGAAGTA
1 TGGAAGTA
24463768 AGTGGTAAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.28, C:0.00, G:0.36, T:0.36
Consensus pattern (16 bp):
TGGAAGTAGAGTTTTG
Found at i:24464075 original size:20 final size:20
Alignment explanation
Indices: 24464050--24464089 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
24464040 ACTGCATATA
*
24464050 GAGCAAATTAGACCTGATCT
1 GAGCAAACTAGACCTGATCT
24464070 GAGCAAACTAGACCTGATCT
1 GAGCAAACTAGACCTGATCT
24464090 TATGATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.23
Consensus pattern (20 bp):
GAGCAAACTAGACCTGATCT
Found at i:24464583 original size:46 final size:46
Alignment explanation
Indices: 24464516--24464634 Score: 211
Period size: 46 Copynumber: 2.6 Consensus size: 46
24464506 TAAAAAATTC
*
24464516 ATTAGTATATATTAACGAAATTATCTTAAAACTCGTTTATTGTTCT
1 ATTAGTATATATTAATGAAATTATCTTAAAACTCGTTTATTGTTCT
*
24464562 ATTAGTATATATTAATGAAATTATCTTAAAACTCGTTTATTTTTCT
1 ATTAGTATATATTAATGAAATTATCTTAAAACTCGTTTATTGTTCT
*
24464608 ATTAGTATATATTAATAAAATTATCTT
1 ATTAGTATATATTAATGAAATTATCTT
24464635 GGTTTGTATT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 70 1.00
ACGTcount: A:0.37, C:0.08, G:0.07, T:0.48
Consensus pattern (46 bp):
ATTAGTATATATTAATGAAATTATCTTAAAACTCGTTTATTGTTCT
Found at i:24464792 original size:23 final size:23
Alignment explanation
Indices: 24464765--24464829 Score: 78
Period size: 23 Copynumber: 2.8 Consensus size: 23
24464755 TTATTAACAT
24464765 TGTTCGTGAACATGTTTGTTTAA
1 TGTTCGTGAACATGTTTGTTTAA
* *
24464788 TGTTCGTGAACATGTTCGATTAA
1 TGTTCGTGAACATGTTTGTTTAA
**
24464811 -GTTAAATGAACATGTTTGT
1 TGTT-CGTGAACATGTTTGT
24464830 GAACTTAAAC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 3 0.09
23 32 0.91
ACGTcount: A:0.26, C:0.09, G:0.22, T:0.43
Consensus pattern (23 bp):
TGTTCGTGAACATGTTTGTTTAA
Found at i:24465034 original size:9 final size:9
Alignment explanation
Indices: 24465020--24465050 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
24465010 GTTAAACGAA
24465020 TCGAGTTAT
1 TCGAGTTAT
*
24465029 TCGAGTTAA
1 TCGAGTTAT
24465038 TCGAGTTAT
1 TCGAGTTAT
24465047 TCGA
1 TCGA
24465051 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:24465120 original size:9 final size:9
Alignment explanation
Indices: 24465103--24465148 Score: 83
Period size: 9 Copynumber: 5.1 Consensus size: 9
24465093 TGAGTTTTCG
24465103 AATTCGAAT
1 AATTCGAAT
*
24465112 AACTCGAAT
1 AATTCGAAT
24465121 AATTCGAAT
1 AATTCGAAT
24465130 AATTCGAAT
1 AATTCGAAT
24465139 AATTCGAAT
1 AATTCGAAT
24465148 A
1 A
24465149 TCAAAATATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.46, C:0.13, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:24467028 original size:9 final size:9
Alignment explanation
Indices: 24467011--24467040 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
24467001 CGGCTCGATT
24467011 ATTAATCGA
1 ATTAATCGA
*
24467020 ATTAGTCGA
1 ATTAATCGA
24467029 ATTAATCGA
1 ATTAATCGA
24467038 ATT
1 ATT
24467041 GTATAATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.37
Consensus pattern (9 bp):
ATTAATCGA
Found at i:24473447 original size:21 final size:22
Alignment explanation
Indices: 24473421--24473469 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
24473411 GATGTACCTC
*
24473421 TGTCTCGAGA-CAAAGACCACT
1 TGTCTCGAGATCAAAGACCAAT
* *
24473442 TGTCTCGAGATCTAAGATCAAT
1 TGTCTCGAGATCAAAGACCAAT
24473464 TGTCTC
1 TGTCTC
24473470 AAAACTGTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 10 0.42
22 14 0.58
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (22 bp):
TGTCTCGAGATCAAAGACCAAT
Found at i:24481149 original size:27 final size:27
Alignment explanation
Indices: 24481117--24481168 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
24481107 CATTTTAGTC
*
24481117 CTTTGGCACCATTGGTGCCGCCAATCT
1 CTTTGGCACCATTGGTGCCACCAATCT
*
24481144 CTTTGGCACCTTTGGTGCCACCAAT
1 CTTTGGCACCATTGGTGCCACCAAT
24481169 GTGATTGGCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.15, C:0.33, G:0.21, T:0.31
Consensus pattern (27 bp):
CTTTGGCACCATTGGTGCCACCAATCT
Found at i:24481176 original size:27 final size:27
Alignment explanation
Indices: 24481119--24481177 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
24481109 TTTTAGTCCT
* *
24481119 TTGGCACCATTGGTGCCGCCAATCTCT
1 TTGGCACCATTGGTGCCACCAATCTCA
* * *
24481146 TTGGCACCTTTGGTGCCACCAATGTGA
1 TTGGCACCATTGGTGCCACCAATCTCA
24481173 TTGGC
1 TTGGC
24481178 CTGATCAGGC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.15, C:0.29, G:0.25, T:0.31
Consensus pattern (27 bp):
TTGGCACCATTGGTGCCACCAATCTCA
Found at i:24481279 original size:28 final size:28
Alignment explanation
Indices: 24481215--24481280 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 28
24481205 ATTTTTTTGT
* **
24481215 ATATTTTGATAAATAAAAAAATTTTATA
1 ATATTTTGGTAAATAAAAAAAAGTTATA
24481243 ATATTTTGGTAAATAAAAAAAAGTTATA
1 ATATTTTGGTAAATAAAAAAAAGTTATA
24481271 ATATTTTGGT
1 ATATTTTGGT
24481281 TATTTTTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (28 bp):
ATATTTTGGTAAATAAAAAAAAGTTATA
Found at i:24482271 original size:19 final size:19
Alignment explanation
Indices: 24482244--24482281 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
24482234 CTATTTTTTC
24482244 TTTTATTGTTTTGTTGCTA
1 TTTTATTGTTTTGTTGCTA
* *
24482263 TTTTCTTGTTTTTTTGCTA
1 TTTTATTGTTTTGTTGCTA
24482282 CTATTTTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.08, C:0.08, G:0.13, T:0.71
Consensus pattern (19 bp):
TTTTATTGTTTTGTTGCTA
Found at i:24482290 original size:19 final size:19
Alignment explanation
Indices: 24482249--24482314 Score: 55
Period size: 19 Copynumber: 3.4 Consensus size: 19
24482239 TTTTCTTTTA
*
24482249 TTGTTTTGTTGCTATTTTC
1 TTGTTTTGTTGCTATATTC
*
24482268 TTGTTTTTTTGCTACTATT-
1 TTGTTTTGTTGCTA-TATTC
* *
24482287 TTGTTGTTCTTG-TATAACTC
1 TTGTT-TTGTTGCTAT-ATTC
24482307 TTGTTTTG
1 TTGTTTTG
24482315 CTGTTAATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 24 0.63
20 13 0.34
ACGTcount: A:0.09, C:0.11, G:0.15, T:0.65
Consensus pattern (19 bp):
TTGTTTTGTTGCTATATTC
Found at i:24482992 original size:21 final size:22
Alignment explanation
Indices: 24482940--24482994 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
24482930 GTCTTATCGA
*
24482940 TTAAAATTAAAATTAAAATTAAT
1 TTAAAA-TAAAATTAAAATAAAT
**
24482963 TTATTATAAAA-TAAAATAAAT
1 TTAAAATAAAATTAAAATAAAT
24482984 TTAAAATAAAA
1 TTAAAATAAAA
24482995 AATATTCGGA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 18 0.67
22 5 0.19
23 4 0.15
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
TTAAAATAAAATTAAAATAAAT
Found at i:24483576 original size:71 final size:72
Alignment explanation
Indices: 24483495--24483637 Score: 243
Period size: 72 Copynumber: 2.0 Consensus size: 72
24483485 ACCAAATTCA
*
24483495 TTTGAATTTGATTGAGTTGAAATCATTTATT-CAATCAAATTCGTACTATTCATTTAATTGGATT
1 TTTGAATTTGATTGAGTTGAAATCATTTATTGCAATCAAATTCGTACTACTCATTTAATTGGATT
24483559 TCAACTT
66 TCAACTT
* * *
24483566 TTTGAATTTGATTGAGTTGAAATTATTTATTGGAATCAAATTCGTACTACTCATTTAATTGGGTT
1 TTTGAATTTGATTGAGTTGAAATCATTTATTGCAATCAAATTCGTACTACTCATTTAATTGGATT
24483631 TCAACTT
66 TCAACTT
24483638 GTTGGAATCA
Statistics
Matches: 67, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 30 0.45
72 37 0.55
ACGTcount: A:0.30, C:0.10, G:0.13, T:0.46
Consensus pattern (72 bp):
TTTGAATTTGATTGAGTTGAAATCATTTATTGCAATCAAATTCGTACTACTCATTTAATTGGATT
TCAACTT
Found at i:24484234 original size:18 final size:18
Alignment explanation
Indices: 24484213--24484262 Score: 57
Period size: 21 Copynumber: 2.6 Consensus size: 18
24484203 AATACATTAT
24484213 TTATTCTTAA-ATTTAATA
1 TTATT-TTAATATTTAATA
24484231 TTATTAATATAATATTTAATA
1 TTATT--T-TAATATTTAATA
24484252 TTATTTTAATA
1 TTATTTTAATA
24484263 ATTTTGGATA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
18 10 0.36
19 2 0.07
20 3 0.11
21 13 0.46
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (18 bp):
TTATTTTAATATTTAATA
Found at i:24485719 original size:30 final size:30
Alignment explanation
Indices: 24485666--24485723 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
24485656 ATTTGTGGAA
*
24485666 ACTAGGTTGTTAGGCTACAAGCTTTCCACT
1 ACTAGGTTGTTAGGCAACAAGCTTTCCACT
**
24485696 ACTAGGTTGTTAGGCAATTAGCTTTCCA
1 ACTAGGTTGTTAGGCAACAAGCTTTCCA
24485724 AATATGTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (30 bp):
ACTAGGTTGTTAGGCAACAAGCTTTCCACT
Found at i:24490676 original size:16 final size:17
Alignment explanation
Indices: 24490655--24490686 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
24490645 TAGAATTGAG
24490655 TTGAGAAATT-ATTTAA
1 TTGAGAAATTAATTTAA
24490671 TTGAGAAATTAATTTA
1 TTGAGAAATTAATTTA
24490687 GTTAATTAAA
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:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (17 bp):
TTGAGAAATTAATTTAA
Found at i:24496634 original size:15 final size:15
Alignment explanation
Indices: 24496608--24496642 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
24496598 GTAAAAGTAC
24496608 AATTTGATAATTTACT
1 AATTTGATAATTTA-T
24496624 AATTT-ATAATTTAT
1 AATTTGATAATTTAT
24496638 AATTT
1 AATTT
24496643 TCTCATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.32
15 8 0.42
16 5 0.26
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (15 bp):
AATTTGATAATTTAT
Found at i:24496635 original size:7 final size:7
Alignment explanation
Indices: 24496608--24496642 Score: 52
Period size: 7 Copynumber: 4.7 Consensus size: 7
24496598 GTAAAAGTAC
24496608 AATTTGAT
1 AATTT-AT
24496616 AATTTACT
1 AATTTA-T
24496624 AATTTAT
1 AATTTAT
24496631 AATTTAT
1 AATTTAT
24496638 AATTT
1 AATTT
24496643 TCTCATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 14 0.54
8 12 0.46
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (7 bp):
AATTTAT
Found at i:24497425 original size:21 final size:21
Alignment explanation
Indices: 24497387--24497427 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
24497377 AAAGCATGTT
* **
24497387 ATTAAATATATATTTAAAAAG
1 ATTAAATAAATAAATAAAAAG
24497408 ATTAAATAAATAAATAAAAA
1 ATTAAATAAATAAATAAAAA
24497428 TTAAGTTTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (21 bp):
ATTAAATAAATAAATAAAAAG
Found at i:24499848 original size:3 final size:3
Alignment explanation
Indices: 24499840--24499871 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
24499830 AAAATGGTCC
24499840 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
24499872 CATTACTAAT
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:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:24500066 original size:6 final size:6
Alignment explanation
Indices: 24500051--24500080 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
24500041 GTAATTACGC
*
24500051 GGTTGA GGTTGG GGTTGG GGTTGG GGTTGG
1 GGTTGG GGTTGG GGTTGG GGTTGG GGTTGG
24500081 CGACCGAACC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.03, C:0.00, G:0.63, T:0.33
Consensus pattern (6 bp):
GGTTGG
Found at i:24511174 original size:102 final size:105
Alignment explanation
Indices: 24511049--24511248 Score: 291
Period size: 106 Copynumber: 1.9 Consensus size: 105
24511039 AAAATTATTT
*
24511049 TTTGGGTGCTGGCCTGTCAATGGCCGGCACCC-TAC-A-GTAAAAAAAATTTCCTTTTTTTTTTG
1 TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCATACAATGTAAAAAAAATTT-CTTTTTTTTTCG
* * *
24511111 -GTTAGAATAATATATAAATATACGAAAAAAATAAAAAAAA
65 TGTCAGAATAAGATATAAATATACAAAAAAAATAAAAAAAA
*
24511151 TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAATTTCTTTTTTTTTCG
1 TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCA-TACAATGTAAAAAAAATTTCTTTTTTTTTCG
* *
24511216 TGTCAGAGTCAGATATAAATATACAAAAAAAAT
65 TGTCAGAATAAGATATAAATATACAAAAAAAAT
24511249 TTTGGCCAGT
Statistics
Matches: 86, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
102 32 0.37
104 3 0.03
105 12 0.14
106 39 0.45
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (105 bp):
TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCATACAATGTAAAAAAAATTTCTTTTTTTTTCGT
GTCAGAATAAGATATAAATATACAAAAAAAATAAAAAAAA
Found at i:24511317 original size:73 final size:73
Alignment explanation
Indices: 24511181--24511320 Score: 237
Period size: 72 Copynumber: 1.9 Consensus size: 73
24511171 TGGCCGGCAC
* *
24511181 CCAGTACAATTTAAAAAAAATTTCTTTTTTTTTCGTGTCAGAGTCAGATATAAATATACAAAAAA
1 CCAGTACAACTTAAAAAAAATTACTTTTTTTTTCGTGTCAGAGTCAGATATAAATATACAAAAAA
24511246 AATTTTGG
66 AATTTTGG
* *
24511254 CCAGTACAACTTAAAAAAAATTAC-TTTTTTTTCGTGTCAGAGTCAGATATAAATGTACGAAAAA
1 CCAGTACAACTTAAAAAAAATTACTTTTTTTTTCGTGTCAGAGTCAGATATAAATATACAAAAAA
24511318 AAT
66 AAT
24511321 AAATAAAAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
72 41 0.65
73 22 0.35
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.34
Consensus pattern (73 bp):
CCAGTACAACTTAAAAAAAATTACTTTTTTTTTCGTGTCAGAGTCAGATATAAATATACAAAAAA
AATTTTGG
Found at i:24511487 original size:108 final size:105
Alignment explanation
Indices: 24511254--24511670 Score: 599
Period size: 108 Copynumber: 3.9 Consensus size: 105
24511244 AAAATTTTGG
* * *
24511254 CCAGTACAACTTAAAAAAAATTACTTTTTTTTCGTGTCAGAGTCAGATATAAATGTACGAAAAAA
1 CCAGTACAAATTAAAAAAAATT-CTTTTTTTTCGTGTCAGAATCAGATATAAATATACGAAAAAA
* * *
24511319 ATAAATAAAAAAATTTCGGGTGCTGGCCTATCAATGGCCGGCAC
65 AT-TA-AAAAAAATTT-GGGTGCTGGCCTGTCAATGGTCGGCAC
* *
24511363 CCAGTACAAATTAAAAAAAAATCTTTTTTTTCGTGTCAGAATCAGATATAAATATGCGAAAAAAA
1 CCAGTACAAATTAAAAAAAATTCTTTTTTTTCGTGTCAGAATCAGATATAAATATACGAAAAAAA
24511428 TTAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGTCGGCAC
66 TT-AAAAAAAATTTGGGTGCTGGCCTGTCAATGGTCGGCAC
* * *
24511469 CTAGTACAAATTCAAAAAAAAATTTTTTTTTTTCGTGTCAGAGTCAGATATAAATATACG-AAAA
1 CCAGTACAAATT--AAAAAAAATTCTTTTTTTTCGTGTCAGAATCAGATATAAATATACGAAAAA
*
24511533 AA-TAAAAAAATTTTGGGTGCTGGCCTGTCAATGGTCGGCAC
64 AATTAAAAAAAATTTGGGTGCTGGCCTGTCAATGGTCGGCAC
24511574 CCAGTACAAATT-AAAAAAATTCTTTTTTTTTCGTGTCAGAATCAGATATAAATATACGAAAAAA
1 CCAGTACAAATTAAAAAAAATTC-TTTTTTTTCGTGTCAGAATCAGATATAAATATACGAAAAAA
* * *
24511638 ATTAAAAAAAATTT-GTTGATGGCCTGTTAATGG
65 ATTAAAAAAAATTTGGGTGCTGGCCTGTCAATGG
24511671 CTGACACTCA
Statistics
Matches: 281, Mismatches: 21, Indels: 17
0.88 0.07 0.05
Matches are distributed among these distances:
102 9 0.03
103 34 0.12
104 22 0.08
105 59 0.21
106 37 0.13
107 16 0.06
108 84 0.30
109 20 0.07
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (105 bp):
CCAGTACAAATTAAAAAAAATTCTTTTTTTTCGTGTCAGAATCAGATATAAATATACGAAAAAAA
TTAAAAAAAATTTGGGTGCTGGCCTGTCAATGGTCGGCAC
Done.