Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 36 of 153
Found at i:12334646 original size:120 final size:120
Alignment explanation
Indices: 12334341--12334624 Score: 446
Period size: 120 Copynumber: 2.4 Consensus size: 120
12334331 ATTTAATCAT
*
12334341 ATTTAAACATAATTTTTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAAT-
* * * *
12334406 ATT-AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATA
64 ATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
* *
12334462 AATTAACATAATTACTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAT
1 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAT
* *
12334527 TAAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATGAAATATA
66 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
*
12334582 ATTTAACATAATTATTATTAAATATAATTTAA-TAAAATATATA
1 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATA
12334625 TTTTCAATTA
Statistics
Matches: 150, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
119 14 0.09
120 133 0.89
121 3 0.02
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAT
TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
Found at i:12337341 original size:16 final size:16
Alignment explanation
Indices: 12337322--12337352 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12337312 AAATCTTCAA
*
12337322 AAAAAATTAAAAAATC
1 AAAAAATAAAAAAATC
12337338 AAAAAATAAAAAAAT
1 AAAAAATAAAAAAAT
12337353 ACATTTTGAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (16 bp):
AAAAAATAAAAAAATC
Found at i:12337391 original size:29 final size:29
Alignment explanation
Indices: 12337352--12337459 Score: 112
Period size: 29 Copynumber: 3.8 Consensus size: 29
12337342 AATAAAAAAA
*
12337352 TACATTTTGACCCCTAAACTTTTTGAAAT
1 TACATATTGACCCCTAAACTTTTTGAAAT
* *
12337381 TATATATTGACCCCTAAACCTTTTGAAAT
1 TACATATTGACCCCTAAACTTTTTGAAAT
* * * * *
12337410 TACATTTTAACCCATAACCTTTTTAAAAT
1 TACATATTGACCCCTAAACTTTTTGAAAT
* *
12337439 TACATTTTTA-CCCTAAA-TTTT
1 TACATATTGACCCCTAAACTTTT
12337460 CTCAAAATTA
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
27 4 0.06
28 5 0.08
29 57 0.86
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (29 bp):
TACATATTGACCCCTAAACTTTTTGAAAT
Found at i:12337466 original size:29 final size:29
Alignment explanation
Indices: 12337401--12337476 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 29
12337391 CCCCTAAACC
* *
12337401 TTTTGAAATTACATTTTAACCCATAACCT
1 TTTTAAAATTACATTTTAACCCATAACAT
*
12337430 TTTTAAAATTACATTTTTACCC-TAA-AT
1 TTTTAAAATTACATTTTAACCCATAACAT
*
12337457 TTTCTCAAAATTACGTTTTA
1 TTT-T-AAAATTACATTTTA
12337477 GCCCCAGAAG
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
27 4 0.10
28 4 0.10
29 32 0.80
ACGTcount: A:0.34, C:0.17, G:0.03, T:0.46
Consensus pattern (29 bp):
TTTTAAAATTACATTTTAACCCATAACAT
Found at i:12337736 original size:22 final size:22
Alignment explanation
Indices: 12337711--12337756 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
12337701 AAAAGAAATA
* *
12337711 GAAGAGAAAAGAGAA-AGGAGAG
1 GAAGA-AAAAAAGAAGAGAAGAG
12337733 GAAGAAAAAAAGAAGAGAAGAG
1 GAAGAAAAAAAGAAGAGAAGAG
12337755 GA
1 GA
12337757 GAGCCTCTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (22 bp):
GAAGAAAAAAAGAAGAGAAGAG
Found at i:12337845 original size:15 final size:15
Alignment explanation
Indices: 12337821--12337852 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
12337811 GGTTTTGAAG
*
12337821 AAGAAGAAAGAAAAA
1 AAGAAAAAAGAAAAA
12337836 AAGAAAAAAGAAAAA
1 AAGAAAAAAGAAAAA
12337851 AA
1 AA
12337853 AAATAAAATA
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:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (15 bp):
AAGAAAAAAGAAAAA
Found at i:12337848 original size:19 final size:18
Alignment explanation
Indices: 12337824--12337860 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
12337814 TTTGAAGAAG
12337824 AAGAAAGAAAAAAAGAAAA
1 AAGAAA-AAAAAAAGAAAA
*
12337843 AAGAAAAAAAAAATAAAA
1 AAGAAAAAAAAAAGAAAA
12337861 TATTATAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (18 bp):
AAGAAAAAAAAAAGAAAA
Found at i:12337942 original size:6 final size:6
Alignment explanation
Indices: 12337923--12337958 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
12337913 CCAGCAGCCC
12337923 AAAA-A AAAAC- AAAACA AAAACA AAAACA AAAA-A AAA
1 AAAACA AAAACA AAAACA AAAACA AAAACA AAAACA AAA
12337959 GAGAAAAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 13 0.45
6 16 0.55
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAACA
Found at i:12337965 original size:17 final size:17
Alignment explanation
Indices: 12337923--12337958 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
12337913 CCAGCAGCCC
12337923 AAAA-AAAAACAAAACA
1 AAAACAAAAACAAAACA
12337939 AAAACAAAAACAAAA-A
1 AAAACAAAAACAAAACA
12337955 AAAA
1 AAAA
12337959 GAGAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (17 bp):
AAAACAAAAACAAAACA
Found at i:12338155 original size:21 final size:21
Alignment explanation
Indices: 12338118--12338169 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
12338108 GGCCCAGCAG
*
12338118 AGAAAAAA-AAAG-AAAAAGA
1 AGAAAAAAGAAGGAAAAAAGA
*
12338137 AGAAAAAGAGAAGGAAAAAAGG
1 AGAAAAA-AGAAGGAAAAAAGA
12338159 AGAAAAAAGAA
1 AGAAAAAAGAA
12338170 AAAAGAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 7 0.25
20 1 0.04
21 7 0.25
22 13 0.46
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (21 bp):
AGAAAAAAGAAGGAAAAAAGA
Found at i:12338163 original size:31 final size:28
Alignment explanation
Indices: 12338119--12338176 Score: 71
Period size: 31 Copynumber: 2.0 Consensus size: 28
12338109 GCCCAGCAGA
12338119 GAAAAAAAAAGAAAAAGAAGAAAAAGAGAAG
1 GAAAAAAAAAG-AAAA-AAGAAAAA-AGAAG
**
12338150 GAAAAAAGGAGAAAAAAGAAAAAAGAA
1 GAAAAAAAAAGAAAAAAGAAAAAAGAA
12338177 AAAAGAGGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 4 0.16
29 8 0.32
30 4 0.16
31 9 0.36
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (28 bp):
GAAAAAAAAAGAAAAAAGAAAAAAGAAG
Found at i:12338168 original size:29 final size:28
Alignment explanation
Indices: 12338122--12338176 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 28
12338112 CAGCAGAGAA
12338122 AAAAAAAGAAAAAGAAGAAAAAGAGAAGG
1 AAAAAAAGAAAAAGAAGAAAAA-AGAAGG
*
12338151 AAAAAAGGAGAAAA-AAGAAAAAAGAA
1 AAAAAAAGA-AAAAGAAGAAAAAAGAA
12338177 AAAAGAGGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 4 0.17
29 16 0.67
30 4 0.17
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (28 bp):
AAAAAAAGAAAAAGAAGAAAAAAGAAGG
Found at i:12338178 original size:6 final size:7
Alignment explanation
Indices: 12338123--12338182 Score: 50
Period size: 7 Copynumber: 8.1 Consensus size: 7
12338113 AGCAGAGAAA
12338123 AAAAAAG
1 AAAAAAG
12338130 AAAAAGAAG
1 -AAAA-AAG
12338139 AAAAAGAG
1 AAAAA-AG
*
12338147 AAGGAAA-
1 AA-AAAAG
**
12338154 AAAGGAG
1 AAAAAAG
12338161 AAAAAAG
1 AAAAAAG
12338168 AAAAAAG
1 AAAAAAG
12338175 AAAAAAG
1 AAAAAAG
12338182 A
1 A
12338183 GGTTCAATTC
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
6 1 0.02
7 23 0.55
8 13 0.31
9 5 0.12
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:12338180 original size:9 final size:9
Alignment explanation
Indices: 12338121--12338173 Score: 52
Period size: 9 Copynumber: 5.7 Consensus size: 9
12338111 CCAGCAGAGA
12338121 AAAAAAAAG
1 AAAAAAAAG
*
12338130 AAAAAGAAG
1 AAAAAAAAG
12338139 AAAAAGAGAAG
1 AAAAA-A-AAG
* *
12338150 GAAAAAAGG
1 AAAAAAAAG
*
12338159 AGAAAAAAG
1 AAAAAAAAG
12338168 AAAAAA
1 AAAAAA
12338174 GAAAAAAGAG
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
9 26 0.76
10 1 0.03
11 7 0.21
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:12338352 original size:16 final size:16
Alignment explanation
Indices: 12338331--12338374 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
12338321 TATTTTTATC
12338331 TTTAATTTAATTTCAT
1 TTTAATTTAATTTCAT
* *
12338347 TTTAATTTTATTTTAT
1 TTTAATTTAATTTCAT
12338363 TTTAA-TTAATTT
1 TTTAATTTAATTT
12338375 TAATAAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
15 6 0.24
16 19 0.76
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTAATTTAATTTCAT
Found at i:12338531 original size:15 final size:16
Alignment explanation
Indices: 12338499--12338531 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
12338489 AAATATTCTA
*
12338499 AAATTCTCGCTTTTTT
1 AAATTCTCGCTATTTT
12338515 AAATTCTCG-TATTTT
1 AAATTCTCGCTATTTT
12338530 AA
1 AA
12338532 TAGAATCACG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.27, C:0.15, G:0.06, T:0.52
Consensus pattern (16 bp):
AAATTCTCGCTATTTT
Found at i:12340913 original size:4 final size:4
Alignment explanation
Indices: 12340904--12340943 Score: 62
Period size: 4 Copynumber: 10.0 Consensus size: 4
12340894 CATTTACTTG
* *
12340904 TCAT TCAT TCAT TCAT TCAT TCAT TAAT TCAT TTAT TCAT
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
12340944 GTATTGCATG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.28, C:0.20, G:0.00, T:0.53
Consensus pattern (4 bp):
TCAT
Found at i:12344622 original size:10 final size:10
Alignment explanation
Indices: 12344602--12344632 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
12344592 ATTATGCTTG
12344602 AACAA-AAAA
1 AACAACAAAA
12344611 AACAACAAAA
1 AACAACAAAA
12344621 AACAACAAAA
1 AACAACAAAA
12344631 AA
1 AA
12344633 AGAAAAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 5 0.24
10 16 0.76
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (10 bp):
AACAACAAAA
Found at i:12345645 original size:81 final size:81
Alignment explanation
Indices: 12345506--12346175 Score: 1129
Period size: 81 Copynumber: 8.3 Consensus size: 81
12345496 CAAGAAATAT
* *
12345506 TTTTCAATTTCTATTTTTC-AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCG
1 TTTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCG
12345570 CACGCTGTGGTATTTC
66 CACGCTGTGGTATTTC
12345586 TTTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCG
1 TTTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCG
12345651 CACGCTGTGGTATTTC
66 CACGCTGTGGTATTTC
12345667 TTTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCG
1 TTTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCG
12345732 CACGCTGTGGTATTTC
66 CACGCTGTGGTATTTC
12345748 TTTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCG
1 TTTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCG
12345813 CACGCTGTGGTATTTC
66 CACGCTGTGGTATTTC
12345829 TTTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCG
1 TTTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCG
12345894 CACGCTGTGGTATTTC
66 CACGCTGTGGTATTTC
* *
12345910 TTTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGGTCT
1 TTTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCG
*
12345975 CACGCTGAGGTATTTC
66 CACGCTGTGGTATTTC
*
12345991 TTTTAAATTTCTGTCTTTTCAAAAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCGGGT
1 TTTTAAATTTCTGT-TTTTC-AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGT
*
12346056 CGCACGCTGAGGTATTTC
64 CGCACGCTGTGGTATTTC
** * * *
12346074 TTTTAAATTTCTGTTTTTC--AAAAATCAACTCATATTGTTAGAGGTGAGTTGAGCCTCGGGCCA
1 TTTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCG
* *
12346137 CACGCCGAGGTA----
66 CACGCTGTGGTATTTC
*
12346149 TTTTCAATTTCTGTTTTTCAAATAAAA
1 TTTTAAATTTCTGTTTTTCAAA-AAAA
12346176 AGAAAATTTT
Statistics
Matches: 569, Mismatches: 15, Indels: 14
0.95 0.03 0.02
Matches are distributed among these distances:
75 18 0.03
77 1 0.00
78 4 0.01
79 50 0.09
80 17 0.03
81 396 0.70
82 10 0.02
83 73 0.13
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (81 bp):
TTTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCG
CACGCTGTGGTATTTC
Found at i:12346342 original size:7 final size:8
Alignment explanation
Indices: 12346323--12346353 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
12346313 AAAATCTTCA
*
12346323 AAAAAATT
1 AAAAAATC
12346331 AAAAAATC
1 AAAAAATC
12346339 AAAAAATC
1 AAAAAATC
12346347 AAAAAAT
1 AAAAAAT
12346354 ACATTTTGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.16
Consensus pattern (8 bp):
AAAAAATC
Found at i:12346391 original size:29 final size:29
Alignment explanation
Indices: 12346353--12346418 Score: 114
Period size: 29 Copynumber: 2.3 Consensus size: 29
12346343 AATCAAAAAA
*
12346353 TACATTTTGACCCCTAAACTTTTTGAAAT
1 TACATTTTGACCCCTAAACCTTTTGAAAT
*
12346382 TATATTTTGACCCCTAAACCTTTTGAAAT
1 TACATTTTGACCCCTAAACCTTTTGAAAT
12346411 TACATTTT
1 TACATTTT
12346419 AACACACAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.30, C:0.20, G:0.06, T:0.44
Consensus pattern (29 bp):
TACATTTTGACCCCTAAACCTTTTGAAAT
Found at i:12346434 original size:29 final size:29
Alignment explanation
Indices: 12346353--12346447 Score: 88
Period size: 29 Copynumber: 3.3 Consensus size: 29
12346343 AATCAAAAAA
* *
12346353 TACATTTTGACCCCTAAA-CTTTTTGAAAT
1 TACATTTTAACCAC-AAACCTTTTTGAAAT
* * *
12346382 TATATTTTGACCCCTAAACC-TTTTGAAAT
1 TACATTTTAACCAC-AAACCTTTTTGAAAT
*
12346411 TACATTTTAA-CACACAACCTTTTTAAAAT
1 TACATTTTAACCACA-AACCTTTTTGAAAT
12346440 TACATTTT
1 TACATTTT
12346448 TGCCCTAAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
27 1 0.02
28 6 0.10
29 50 0.86
30 1 0.02
ACGTcount: A:0.34, C:0.20, G:0.04, T:0.42
Consensus pattern (29 bp):
TACATTTTAACCACAAACCTTTTTGAAAT
Found at i:12346829 original size:3 final size:3
Alignment explanation
Indices: 12346821--12346893 Score: 72
Period size: 3 Copynumber: 27.0 Consensus size: 3
12346811 CTAGGGTTTT
12346821 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA -AA -AA GAA -AA -AA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* *
12346865 GAA AAA GAA -AA -AA GAA -AA -AA GAA AAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
12346894 AAAAAATAAT
Statistics
Matches: 62, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
2 16 0.26
3 46 0.74
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:12346861 original size:7 final size:7
Alignment explanation
Indices: 12346849--12346897 Score: 84
Period size: 7 Copynumber: 7.3 Consensus size: 7
12346839 GAAGAAGAAG
12346849 AAGAAAA
1 AAGAAAA
12346856 AAGAAAA
1 AAGAAAA
12346863 AAG-AAA
1 AAGAAAA
12346869 AAGAAAA
1 AAGAAAA
12346876 AAGAAAA
1 AAGAAAA
12346883 AAG-AAA
1 AAGAAAA
12346889 AAGAAAA
1 AAGAAAA
12346896 AA
1 AA
12346898 AATAATAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
6 12 0.30
7 28 0.70
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (7 bp):
AAGAAAA
Found at i:12346910 original size:20 final size:20
Alignment explanation
Indices: 12346843--12346897 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
12346833 GAAGAAGAAG
*
12346843 AAGAAGAAGAAAAAAGAAAA
1 AAGAAAAAGAAAAAAGAAAA
12346863 AAGAAAAAGAAAAAAGAAAA
1 AAGAAAAAGAAAAAAGAAAA
12346883 AAGAAAAAGAAAAAA
1 AAGAAAAAGAAAAAA
12346898 AATAATAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (20 bp):
AAGAAAAAGAAAAAAGAAAA
Found at i:12347013 original size:16 final size:16
Alignment explanation
Indices: 12346972--12347006 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
12346962 CCCAGCAGCC
12346972 CAAAA-AAAAACAAAA
1 CAAAACAAAAACAAAA
12346987 CAAAACAAAAACAAAA
1 CAAAACAAAAACAAAA
12347003 -AAAA
1 CAAAA
12347007 GAGAAAAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (16 bp):
CAAAACAAAAACAAAA
Found at i:12347208 original size:21 final size:21
Alignment explanation
Indices: 12347171--12347222 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
12347161 GGCCCAGCAG
*
12347171 AGAAAAAA-AAAG-AAAAAGA
1 AGAAAAAAGAAGGAAAAAAGA
*
12347190 AGAAAAAGAGAAGGAAAAAAGG
1 AGAAAAA-AGAAGGAAAAAAGA
12347212 AGAAAAAAGAA
1 AGAAAAAAGAA
12347223 AAAAGAGGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 7 0.25
20 1 0.04
21 7 0.25
22 13 0.46
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (21 bp):
AGAAAAAAGAAGGAAAAAAGA
Found at i:12347407 original size:16 final size:16
Alignment explanation
Indices: 12347386--12347428 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
12347376 TATTTTTATC
12347386 TTTAATTTAATTCCAT
1 TTTAATTTAATTCCAT
* **
12347402 TTTAATTTTATTTTAT
1 TTTAATTTAATTCCAT
12347418 TTTAA-TTAATT
1 TTTAATTTAATT
12347429 TTAATAAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 5 0.22
16 18 0.78
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTAATTTAATTCCAT
Found at i:12347587 original size:15 final size:16
Alignment explanation
Indices: 12347555--12347587 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
12347545 AAATATTCTA
*
12347555 AAATTCTCGCTTTTTT
1 AAATTCTCGCTGTTTT
12347571 AAATTCTCG-TGTTTT
1 AAATTCTCGCTGTTTT
12347586 AA
1 AA
12347588 TAGAATCACG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.24, C:0.15, G:0.09, T:0.52
Consensus pattern (16 bp):
AAATTCTCGCTGTTTT
Found at i:12347810 original size:32 final size:33
Alignment explanation
Indices: 12347734--12347818 Score: 95
Period size: 32 Copynumber: 2.6 Consensus size: 33
12347724 TGTTTCAAAA
*
12347734 AAAAATCTCGTGTTTC-AAAATTTTCATGTTTTTT
1 AAAAAT-TCGTGTTTCTAAAA-TTTCATGTATTTT
** *
12347768 TTAAATTCGTGTTTCTAAAA-TTCTTGTATTTT
1 AAAAATTCGTGTTTCTAAAATTTCATGTATTTT
12347800 AAAAATTCGTGTTT-TAAAA
1 AAAAATTCGTGTTTCTAAAA
12347819 AAAAGTTGTA
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
31 5 0.11
32 22 0.50
33 9 0.20
34 8 0.18
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.49
Consensus pattern (33 bp):
AAAAATTCGTGTTTCTAAAATTTCATGTATTTT
Found at i:12347819 original size:15 final size:15
Alignment explanation
Indices: 12347770--12347819 Score: 57
Period size: 15 Copynumber: 3.2 Consensus size: 15
12347760 TGTTTTTTTT
12347770 AAATTCGTGTTTCT-A
1 AAATTCGTGTTT-TAA
*
12347785 AAATTCTTGTATTTTAA
1 AAATTC--GTGTTTTAA
12347802 AAATTCGTGTTTTAA
1 AAATTCGTGTTTTAA
12347817 AAA
1 AAA
12347820 AAAGTTGTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
15 17 0.57
16 1 0.03
17 12 0.40
ACGTcount: A:0.36, C:0.08, G:0.10, T:0.46
Consensus pattern (15 bp):
AAATTCGTGTTTTAA
Found at i:12349124 original size:11 final size:11
Alignment explanation
Indices: 12349108--12349165 Score: 55
Period size: 11 Copynumber: 5.1 Consensus size: 11
12349098 GTTAGACTTA
12349108 ATAAATAATTT
1 ATAAATAATTT
12349119 ATAAATAATTT
1 ATAAATAATTT
12349130 ATAATTTATAATTT
1 ATAA---ATAATTT
* *
12349144 TTTAA-AATTT
1 ATAAATAATTT
*
12349154 ATAATTAATTT
1 ATAAATAATTT
12349165 A
1 A
12349166 ATTAAGAAAC
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
10 7 0.18
11 22 0.58
14 9 0.24
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
ATAAATAATTT
Found at i:12349152 original size:17 final size:17
Alignment explanation
Indices: 12349127--12349159 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
12349117 TTATAAATAA
*
12349127 TTTATAATTTATAATTT
1 TTTAAAATTTATAATTT
12349144 TTTAAAATTTATAATT
1 TTTAAAATTTATAATT
12349160 AATTTAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTAAAATTTATAATTT
Found at i:12349379 original size:40 final size:41
Alignment explanation
Indices: 12349304--12349401 Score: 103
Period size: 40 Copynumber: 2.4 Consensus size: 41
12349294 GAAAGTGCTT
* *
12349304 CCTCAAGGAAGTG-CTT-TGTCCACGTGGACACAAAGCGCGC
1 CCTCAAGGAAGCGTTTTCTGTCCACGTGGA-ACAAAGCGCGC
* *
12349344 CCTCAAGGAAGCGTTTTCTGTCCACGTGG-ATAAAGCGCGT
1 CCTCAAGGAAGCGTTTTCTGTCCACGTGGAACAAAGCGCGC
***
12349384 CCTTGGGGAAGCGTTTTC
1 CCTCAAGGAAGCGTTTTC
12349402 CTGCTTTATC
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
40 36 0.73
41 2 0.04
42 11 0.22
ACGTcount: A:0.21, C:0.27, G:0.29, T:0.23
Consensus pattern (41 bp):
CCTCAAGGAAGCGTTTTCTGTCCACGTGGAACAAAGCGCGC
Found at i:12354917 original size:35 final size:35
Alignment explanation
Indices: 12354871--12354939 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
12354861 ACCCAAATTT
12354871 TAAGAGATTGCTTGCAAG-TCAAGTTAAACAAAATC
1 TAAGAGATTGCTTGCAAGCT-AAGTTAAACAAAATC
12354906 TAAGAGATTGCTTGCAAGCTAAGTTAAACAAAAT
1 TAAGAGATTGCTTGCAAGCTAAGTTAAACAAAAT
12354940 ATATTTTCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
35 32 0.97
36 1 0.03
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.26
Consensus pattern (35 bp):
TAAGAGATTGCTTGCAAGCTAAGTTAAACAAAATC
Found at i:12355013 original size:24 final size:24
Alignment explanation
Indices: 12354968--12355014 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
12354958 ATTTAGTAGT
*
12354968 ATAATATATTTAACATTTATTAGC
1 ATAATATATTTAACATTGATTAGC
* *
12354992 ATAATATATTTTATATTGATTAG
1 ATAATATATTTAACATTGATTAG
12355015 AATTAGGCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.49
Consensus pattern (24 bp):
ATAATATATTTAACATTGATTAGC
Found at i:12361209 original size:25 final size:25
Alignment explanation
Indices: 12361160--12361298 Score: 138
Period size: 25 Copynumber: 5.6 Consensus size: 25
12361150 CAGACACACC
* **
12361160 ACAGCTCTCATGAGCTTCCCATTAT
1 ACAGCTCGCATGAGCTTCCTGTTAT
** *
12361185 TTAGCTCGCATGAGCTTTCTGTTAT
1 ACAGCTCGCATGAGCTTCCTGTTAT
*
12361210 ACAACTCGCATGAGCTTCCTGTTAT
1 ACAGCTCGCATGAGCTTCCTGTTAT
* *
12361235 ACAGCTCGCATGAGCTTCCCGATAT
1 ACAGCTCGCATGAGCTTCCTGTTAT
* *
12361260 TCAGCTCGGCA-GAGCTTCCCGTT-T
1 ACAGCTC-GCATGAGCTTCCTGTTAT
* *
12361284 ACAACTCGTATGAGC
1 ACAGCTCGCATGAGC
12361299 ATATATGAAT
Statistics
Matches: 94, Mismatches: 18, Indels: 5
0.80 0.15 0.04
Matches are distributed among these distances:
23 2 0.02
24 10 0.11
25 79 0.84
26 3 0.03
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.31
Consensus pattern (25 bp):
ACAGCTCGCATGAGCTTCCTGTTAT
Found at i:12368071 original size:41 final size:41
Alignment explanation
Indices: 12368013--12368193 Score: 256
Period size: 41 Copynumber: 4.4 Consensus size: 41
12368003 AGTAAGATGA
* * *
12368013 TTCAGACTTTACGTCTAGTAGGCTTGATGCTGGTGAAATGT
1 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATAT
* * *
12368054 TTCAGACTTTACATCTAGCATGCTTGATGCCGGAGAAATAT
1 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATAT
* * *
12368095 TTC-GAACTTTATGTCTAGCAGGCTTGATGCAGGTGAAATGT
1 TTCAG-ACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATAT
*
12368136 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAAATAT
1 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATAT
12368177 TTCAGACTTTACGTCTA
1 TTCAGACTTTACGTCTA
12368194 ACTGGCTAAT
Statistics
Matches: 123, Mismatches: 15, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
40 1 0.01
41 121 0.98
42 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (41 bp):
TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATAT
Found at i:12368155 original size:82 final size:82
Alignment explanation
Indices: 12368013--12368193 Score: 283
Period size: 82 Copynumber: 2.2 Consensus size: 82
12368003 AGTAAGATGA
* * *
12368013 TTCAGACTTTACGTCTAGTAGGCTTGATGCTGGTGAAATGTTTCAGACTTTACATCTAGCATGCT
1 TTCAGACTTTACGTCTAGCAGGCTTGATGCAGGTGAAATGTTTCAGACTTTACATCTAGCAGGCT
12368078 TGATGCCGGAGAAATAT
66 TGATGCCGGAGAAATAT
* **
12368095 TTC-GAACTTTATGTCTAGCAGGCTTGATGCAGGTGAAATGTTTCAGACTTTATGTCTAGCAGGC
1 TTCAG-ACTTTACGTCTAGCAGGCTTGATGCAGGTGAAATGTTTCAGACTTTACATCTAGCAGGC
*
12368159 TTGATGCCGGTGAAATAT
65 TTGATGCCGGAGAAATAT
12368177 TTCAGACTTTACGTCTA
1 TTCAGACTTTACGTCTA
12368194 ACTGGCTAAT
Statistics
Matches: 89, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
81 1 0.01
82 87 0.98
83 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (82 bp):
TTCAGACTTTACGTCTAGCAGGCTTGATGCAGGTGAAATGTTTCAGACTTTACATCTAGCAGGCT
TGATGCCGGAGAAATAT
Found at i:12368566 original size:34 final size:34
Alignment explanation
Indices: 12368526--12368593 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
12368516 AGGTTAAAAG
*
12368526 TTTATGATTGGTATATATATATACATATATATAT
1 TTTATGATTGGTATATATATATACATATAGATAT
12368560 TTTATGATTGGTATATATATATACATATAGATAT
1 TTTATGATTGGTATATATATATACATATAGATAT
12368594 GAAATGTGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.49
Consensus pattern (34 bp):
TTTATGATTGGTATATATATATACATATAGATAT
Found at i:12368604 original size:36 final size:34
Alignment explanation
Indices: 12368528--12368609 Score: 110
Period size: 34 Copynumber: 2.4 Consensus size: 34
12368518 GTTAAAAGTT
* **
12368528 TATGATTGGTATATATATATACATATATATATTT
1 TATGATTGGTATATATATATACATATAGATATAA
12368562 TATGATTGGTATATATATATACATATAGATATGAAA
1 TATGATTGGTATATATATATACATATAGATAT--AA
*
12368598 TGTGATTGGTAT
1 TATGATTGGTAT
12368610 TTTTGTATAG
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
34 31 0.74
36 11 0.26
ACGTcount: A:0.38, C:0.02, G:0.15, T:0.45
Consensus pattern (34 bp):
TATGATTGGTATATATATATACATATAGATATAA
Found at i:12368666 original size:35 final size:35
Alignment explanation
Indices: 12368627--12368700 Score: 85
Period size: 35 Copynumber: 2.1 Consensus size: 35
12368617 TAGGTTTGAT
* * * *
12368627 TATATGTACATGTTAAGTACATATATGCATTTGGA
1 TATATGCACATGATAAATACATATATACATTTGGA
** *
12368662 TATATGCAGGTGATAAATACATATATACATTTGGT
1 TATATGCACATGATAAATACATATATACATTTGGA
12368697 TATA
1 TATA
12368701 ATATTTGTTA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.39
Consensus pattern (35 bp):
TATATGCACATGATAAATACATATATACATTTGGA
Found at i:12368759 original size:71 final size:70
Alignment explanation
Indices: 12368683--12368834 Score: 207
Period size: 71 Copynumber: 2.1 Consensus size: 70
12368673 GATAAATACA
** *
12368683 TATATACATTTGGTTATAATATTTGTTAAG-TATATGTATATATATGCATTCGGCTATTCATGTT
1 TATATACATTTGGAGATAATATCTGTTAAGATATATGTATATA-A-GCATTCGGCTATTCATGTT
12368747 CAAAGTG
64 CAAAGTG
* *
12368754 TATATACATTTGGAGCTAATATCTGTTAAGCATATATGTATATAAGCATTCGGCTATTCATGTTT
1 TATATACATTTGGAGATAATATCTGTTAAG-ATATATGTATATAAGCATTCGGCTATTCATGTTC
*
12368819 ATAGTG
65 AAAGTG
*
12368825 AATATACATT
1 TATATACATT
12368835 CGGTGTTAAG
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
71 59 0.82
72 1 0.01
73 12 0.17
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.43
Consensus pattern (70 bp):
TATATACATTTGGAGATAATATCTGTTAAGATATATGTATATAAGCATTCGGCTATTCATGTTCA
AAGTG
Found at i:12373805 original size:41 final size:41
Alignment explanation
Indices: 12373748--12373853 Score: 176
Period size: 41 Copynumber: 2.6 Consensus size: 41
12373738 AATGAGATAA
* *
12373748 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATGT
1 TTCAGACTTTACGTCTAGCAGGCTTGACGCCGGTGAAATAT
*
12373789 TTCAGACTTTACGTCTAGCAGACTTGACGCCGGTGAAATAT
1 TTCAGACTTTACGTCTAGCAGGCTTGACGCCGGTGAAATAT
*
12373830 TTCGGACTTTACGTCTAGCAGGCT
1 TTCAGACTTTACGTCTAGCAGGCT
12373854 AATTGCCAGT
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 60 1.00
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.31
Consensus pattern (41 bp):
TTCAGACTTTACGTCTAGCAGGCTTGACGCCGGTGAAATAT
Found at i:12374984 original size:25 final size:25
Alignment explanation
Indices: 12374949--12375061 Score: 93
Period size: 25 Copynumber: 4.6 Consensus size: 25
12374939 TCACCAATTT
* *
12374949 CAGCTCTTATGAGCTTCCCGTTCTA
1 CAGCTCATATGAGCTTCCCGTTATA
* ** * *
12374974 CAGCTCATATGAGTTTCTTGTGATT
1 CAGCTCATATGAGCTTCCCGTTATA
* *
12374999 CAGCTCACATGAGCTTCCCGTTATT
1 CAGCTCATATGAGCTTCCCGTTATA
** * *
12375024 CAGCTCGGAAGAGCTTCCCATT-TA
1 CAGCTCATATGAGCTTCCCGTTATA
*
12375048 CAGCTCGTATGAGC
1 CAGCTCATATGAGC
12375062 ATATATGACT
Statistics
Matches: 69, Mismatches: 19, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
24 13 0.19
25 56 0.81
ACGTcount: A:0.20, C:0.27, G:0.19, T:0.33
Consensus pattern (25 bp):
CAGCTCATATGAGCTTCCCGTTATA
Found at i:12376235 original size:43 final size:43
Alignment explanation
Indices: 12376172--12376263 Score: 157
Period size: 43 Copynumber: 2.1 Consensus size: 43
12376162 TGAGACATGG
12376172 GCGTGTCTCTTGACCGTGTGAGTCACACGACCTGGCCACACGA
1 GCGTGTCTCTTGACCGTGTGAGTCACACGACCTGGCCACACGA
* * *
12376215 GTGTGTCTTTTGACCGTGTGAGTCACACGGCCTGGCCACACGA
1 GCGTGTCTCTTGACCGTGTGAGTCACACGACCTGGCCACACGA
12376258 GCGTGT
1 GCGTGT
12376264 GTCCCCGCAT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.16, C:0.29, G:0.30, T:0.24
Consensus pattern (43 bp):
GCGTGTCTCTTGACCGTGTGAGTCACACGACCTGGCCACACGA
Found at i:12377528 original size:16 final size:16
Alignment explanation
Indices: 12377507--12377545 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
12377497 AAATTGAAAT
12377507 ATTAAATTATGTCA-AA
1 ATTAAATTATGT-ATAA
*
12377523 ATTAAAATATGTATAA
1 ATTAAATTATGTATAA
12377539 ATTAAAT
1 ATTAAAT
12377546 CTTAAATTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 1 0.05
16 19 0.95
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (16 bp):
ATTAAATTATGTATAA
Found at i:12381445 original size:13 final size:15
Alignment explanation
Indices: 12381415--12381446 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
12381405 AATTTAATTT
12381415 TTTTTTGTTCTTTAA
1 TTTTTTGTTCTTTAA
12381430 TTTTTT-TTCTTT-A
1 TTTTTTGTTCTTTAA
12381443 TTTT
1 TTTT
12381447 CCATTATCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 5 0.29
14 6 0.35
15 6 0.35
ACGTcount: A:0.09, C:0.06, G:0.03, T:0.81
Consensus pattern (15 bp):
TTTTTTGTTCTTTAA
Found at i:12384783 original size:15 final size:17
Alignment explanation
Indices: 12384763--12384796 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
12384753 ATTTCTATCA
12384763 CTTACC-AT-TAACCAT
1 CTTACCAATATAACCAT
12384778 CTTACCAATATAACCAT
1 CTTACCAATATAACCAT
12384795 CT
1 CT
12384797 ATAAGTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 2 0.12
17 9 0.53
ACGTcount: A:0.35, C:0.32, G:0.00, T:0.32
Consensus pattern (17 bp):
CTTACCAATATAACCAT
Found at i:12390636 original size:21 final size:20
Alignment explanation
Indices: 12390612--12390669 Score: 53
Period size: 21 Copynumber: 2.8 Consensus size: 20
12390602 TTATATTTTT
12390612 TAAAAATTTTAAAAAATATA
1 TAAAAATTTTAAAAAATATA
*** *
12390632 CTAAAAAAACTAAAGAATATA
1 -TAAAAATTTTAAAAAATATA
12390653 TAAAAAATTTTATAAAA
1 T-AAAAATTTTA-AAAA
12390670 CTCTATAATA
Statistics
Matches: 27, Mismatches: 8, Indels: 3
0.71 0.21 0.08
Matches are distributed among these distances:
20 1 0.04
21 23 0.85
22 3 0.11
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.29
Consensus pattern (20 bp):
TAAAAATTTTAAAAAATATA
Found at i:12392854 original size:32 final size:32
Alignment explanation
Indices: 12392813--12392876 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
12392803 AAGATCGCAA
12392813 GATGTCTATTTACTCTTGATTATAGGTTTATC
1 GATGTCTATTTACTCTTGATTATAGGTTTATC
12392845 GATGTCTATTTACTCTTGATTATAGGTTTATC
1 GATGTCTATTTACTCTTGATTATAGGTTTATC
12392877 TAGTGTAATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.22, C:0.12, G:0.16, T:0.50
Consensus pattern (32 bp):
GATGTCTATTTACTCTTGATTATAGGTTTATC
Found at i:12403290 original size:109 final size:109
Alignment explanation
Indices: 12403116--12403563 Score: 785
Period size: 109 Copynumber: 4.1 Consensus size: 109
12403106 TGGATTAAGA
*
12403116 TTTAAGAGGATATTTGGCTATTTGGTCGAACGAG--AAATCGAAACCCAGCACATTAGGGCACGT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
*
12403179 TTTCTCGAATTTCCAAACGTAAAACATTGCCTTATTTTGAAATT
66 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
*
12403223 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGTAACCCAGCACATTAGGGCACGT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
* *
12403288 TTTCTCGAATTTCTAAACGCAAAACATTGTCTTATTTTGAAATT
66 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
*
12403332 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCC-GACACATTAGAGCACG
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAG-CACATTAGGGCACG
*
12403396 TTTTCTCGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAATT
65 TTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
12403441 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
* *
12403506 TTTCTCGAATTTCCAAATGCAAAACATTGCCTTATTTTGAGATT
66 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
12403550 TTTAAAAGGATATT
1 TTTAAAAGGATATT
12403564 AGTATGCGTA
Statistics
Matches: 323, Mismatches: 14, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
107 33 0.10
108 1 0.00
109 288 0.89
110 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (109 bp):
TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
Found at i:12404164 original size:3 final size:3
Alignment explanation
Indices: 12404156--12404185 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
12404146 AAAAAGTATA
12404156 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
12404186 GGTATAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:12406344 original size:23 final size:23
Alignment explanation
Indices: 12406314--12406361 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
12406304 ACAAGACGAG
12406314 TCGTGAGCTAATATTTGTAAACA
1 TCGTGAGCTAATATTTGTAAACA
12406337 TCGTGAGCTAATATTTGTAAACA
1 TCGTGAGCTAATATTTGTAAACA
12406360 TC
1 TC
12406362 ACTGTGGTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (23 bp):
TCGTGAGCTAATATTTGTAAACA
Found at i:12409731 original size:19 final size:19
Alignment explanation
Indices: 12409701--12409751 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
12409691 TCTCACTACC
12409701 ACCCCTAAATCA-AATCATAA
1 ACCCC-AAATCACAA-CATAA
*
12409721 ACCCCAAATCACAACCTAA
1 ACCCCAAATCACAACATAA
*
12409740 ACCCAAAATCAC
1 ACCCCAAATCAC
12409752 TCAACCCTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 21 0.75
20 7 0.25
ACGTcount: A:0.49, C:0.37, G:0.00, T:0.14
Consensus pattern (19 bp):
ACCCCAAATCACAACATAA
Found at i:12418406 original size:19 final size:20
Alignment explanation
Indices: 12418360--12418411 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 20
12418350 AAAGAAAAAA
* *
12418360 ATTTTAATTTTCCTATTATT
1 ATTTTATTTTTACTATTATT
12418380 ATTATTTATTTTTACTATT-TT
1 A-T-TTTATTTTTACTATTATT
12418401 ATTTTATTTTT
1 ATTTTATTTTT
12418412 GTAGGAAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
19 9 0.32
20 2 0.07
21 4 0.14
22 13 0.46
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (20 bp):
ATTTTATTTTTACTATTATT
Found at i:12419627 original size:17 final size:17
Alignment explanation
Indices: 12419592--12419626 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
12419582 TAGTGGGAGA
*
12419592 TTATTTTGGGATTTATT
1 TTATTATGGGATTTATT
12419609 TTATTATGGGATTT-TT
1 TTATTATGGGATTTATT
12419625 TT
1 TT
12419627 TCTTAATTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.66
Consensus pattern (17 bp):
TTATTATGGGATTTATT
Found at i:12420979 original size:11 final size:11
Alignment explanation
Indices: 12420963--12421029 Score: 61
Period size: 11 Copynumber: 6.5 Consensus size: 11
12420953 CCTCTGTTAA
12420963 ATAAAATATTT
1 ATAAAATATTT
*
12420974 ATAAAATA--A
1 ATAAAATATTT
**
12420983 AT-AAATAAAT
1 ATAAAATATTT
12420993 ATAAAATATTT
1 ATAAAATATTT
**
12421004 AT-AAATAAAT
1 ATAAAATATTT
12421014 ATAAAATATTT
1 ATAAAATATTT
12421025 ATAAA
1 ATAAA
12421030 TAAATAAATA
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
8 5 0.11
9 2 0.05
10 10 0.23
11 27 0.61
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
ATAAAATATTT
Found at i:12420998 original size:30 final size:28
Alignment explanation
Indices: 12420963--12421022 Score: 93
Period size: 30 Copynumber: 2.1 Consensus size: 28
12420953 CCTCTGTTAA
12420963 ATAAAATATTTATAAAATAAATAAATAAAT
1 ATAAAATATTTAT-AAATAAATAAA-AAAT
*
12420993 ATAAAATATTTATAAATAAATATAAAAT
1 ATAAAATATTTATAAATAAATAAAAAAT
12421021 AT
1 AT
12421023 TTATAAATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 6 0.21
29 10 0.34
30 13 0.45
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (28 bp):
ATAAAATATTTATAAATAAATAAAAAAT
Found at i:12421011 original size:25 final size:24
Alignment explanation
Indices: 12420979--12421040 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 24
12420969 TATTTATAAA
12420979 ATAAATAAATAAATATAAAATATT
1 ATAAATAAATAAATATAAAATATT
12421003 -T--ATAAATAAATATAAAATATTT
1 ATAAATAAATAAATATAAAATA-TT
12421025 ATAAATAAATAAATAT
1 ATAAATAAATAAATAT
12421041 CATTTTTCTC
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
21 18 0.53
22 2 0.06
23 2 0.06
25 12 0.35
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (24 bp):
ATAAATAAATAAATATAAAATATT
Found at i:12421045 original size:21 final size:21
Alignment explanation
Indices: 12420983--12421035 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
12420973 TATAAAATAA
12420983 ATAAATAAATATAAAATATTT
1 ATAAATAAATATAAAATATTT
12421004 ATAAATAAATATAAAATATTT
1 ATAAATAAATATAAAATATTT
12421025 ATAAATAAATA
1 ATAAATAAATA
12421036 AATATCATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
ATAAATAAATATAAAATATTT
Found at i:12421588 original size:17 final size:17
Alignment explanation
Indices: 12421558--12421599 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
12421548 TGCTTTTGGG
12421558 TTTTTTTATGAAAAATA
1 TTTTTTTATGAAAAATA
*
12421575 TTTTATTTAT-AAAAGTA
1 TTTT-TTTATGAAAAATA
*
12421592 TTATTTTA
1 TTTTTTTA
12421600 ATAAATAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 4 0.18
17 13 0.59
18 5 0.23
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (17 bp):
TTTTTTTATGAAAAATA
Found at i:12421721 original size:15 final size:16
Alignment explanation
Indices: 12421701--12421730 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12421691 AAAAATAAAC
12421701 TTTT-AAATTTTTTAT
1 TTTTAAAATTTTTTAT
12421716 TTTTAAAATTTTTTA
1 TTTTAAAATTTTTTA
12421731 AACTTTTAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTTAAAATTTTTTAT
Found at i:12423821 original size:20 final size:20
Alignment explanation
Indices: 12423784--12423823 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
12423774 TTTAAATAGC
*
12423784 TTTACTTTAGGTAAAATATA
1 TTTACTTTAGATAAAATATA
12423804 TTTACTTTA-ATAATAATATA
1 TTTACTTTAGATAA-AATATA
12423824 AAGGGCTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.47
Consensus pattern (20 bp):
TTTACTTTAGATAAAATATA
Found at i:12437532 original size:23 final size:22
Alignment explanation
Indices: 12437480--12437532 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
12437470 TCCTCGTCTT
*
12437480 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
12437502 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
12437525 TTTCTTTT
1 TTTCTTTT
12437533 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:12441272 original size:26 final size:26
Alignment explanation
Indices: 12441243--12441292 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
12441233 AAATAAATAA
12441243 AAATATAAAAATACATAA-ATATTTTC
1 AAATATAAAAATA-ATAATATATTTTC
* *
12441269 AAATATATATATAATAATATATTT
1 AAATATAAAAATAATAATATATTT
12441293 GAATTTTACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (26 bp):
AAATATAAAAATAATAATATATTTTC
Found at i:12441550 original size:17 final size:17
Alignment explanation
Indices: 12441521--12441553 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
12441511 ACTACTACAA
12441521 TTAAAAATAAAATATTT
1 TTAAAAATAAAATATTT
12441538 TTAAATAAT-AAATATT
1 TTAAA-AATAAAATATT
12441554 ATATATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TTAAAAATAAAATATTT
Found at i:12459530 original size:18 final size:19
Alignment explanation
Indices: 12459504--12459544 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
12459494 ATTAATTATT
12459504 TATAAAATTTA-ATTTGAA
1 TATAAAATTTATATTTGAA
*
12459522 TATATAATTTATATTTGAA
1 TATAAAATTTATATTTGAA
12459541 -ATAA
1 TATAA
12459545 TATTAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (19 bp):
TATAAAATTTATATTTGAA
Found at i:12466122 original size:26 final size:26
Alignment explanation
Indices: 12466086--12466137 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
12466076 CGTAGGAGCT
12466086 GAACGAAAACCCATAAGGGTTAAAAA
1 GAACGAAAACCCATAAGGGTTAAAAA
12466112 GAACGAAAACCCATAAGGGTTAAAAA
1 GAACGAAAACCCATAAGGGTTAAAAA
12466138 TAAGCTCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.54, C:0.15, G:0.19, T:0.12
Consensus pattern (26 bp):
GAACGAAAACCCATAAGGGTTAAAAA
Found at i:12469843 original size:9 final size:9
Alignment explanation
Indices: 12469831--12469880 Score: 64
Period size: 9 Copynumber: 5.6 Consensus size: 9
12469821 TCAATTTGGT
12469831 TAATTCGGG
1 TAATTCGGG
*
12469840 TAATTCAGG
1 TAATTCGGG
* *
12469849 TAATTCAGT
1 TAATTCGGG
12469858 TAATTCGGG
1 TAATTCGGG
*
12469867 TAATTCGGT
1 TAATTCGGG
12469876 TAATT
1 TAATT
12469881 TTTAACCAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.28, C:0.10, G:0.22, T:0.40
Consensus pattern (9 bp):
TAATTCGGG
Found at i:12469852 original size:18 final size:18
Alignment explanation
Indices: 12469831--12469880 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
12469821 TCAATTTGGT
*
12469831 TAATTCGGGTAATTCAGG
1 TAATTCGGTTAATTCAGG
* *
12469849 TAATTCAGTTAATTCGGG
1 TAATTCGGTTAATTCAGG
12469867 TAATTCGGTTAATT
1 TAATTCGGTTAATT
12469881 TTTAACCAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.28, C:0.10, G:0.22, T:0.40
Consensus pattern (18 bp):
TAATTCGGTTAATTCAGG
Found at i:12469859 original size:27 final size:27
Alignment explanation
Indices: 12469829--12469880 Score: 88
Period size: 27 Copynumber: 1.9 Consensus size: 27
12469819 ATTCAATTTG
12469829 GTTAATTCGGGTAATTCAGG-TAATTCA
1 GTTAATTCGGGTAATTC-GGTTAATTCA
12469856 GTTAATTCGGGTAATTCGGTTAATT
1 GTTAATTCGGGTAATTCGGTTAATT
12469881 TTTAACCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 2 0.08
27 22 0.92
ACGTcount: A:0.27, C:0.10, G:0.23, T:0.40
Consensus pattern (27 bp):
GTTAATTCGGGTAATTCGGTTAATTCA
Found at i:12473570 original size:9 final size:9
Alignment explanation
Indices: 12473556--12473580 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
12473546 TCAGAAGGAG
12473556 ATAAAATAA
1 ATAAAATAA
12473565 ATAAAATAA
1 ATAAAATAA
12473574 ATAAAAT
1 ATAAAAT
12473581 TTAATATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
ATAAAATAA
Found at i:12477614 original size:271 final size:271
Alignment explanation
Indices: 12477126--12477678 Score: 953
Period size: 271 Copynumber: 2.0 Consensus size: 271
12477116 ATTTTTGGAG
*
12477126 GTTCTAGTGCTTGAAACATTTTTAGAGCCTTTTGATGTTTTAGACTATAGGAACTATTCCTTTGT
1 GTTCAAGTGCTTGAAACATTTTTAGAGCCTTTTGATGTTTTAGACTATAGGAACTATTCCTTTGT
* *
12477191 ACCTCTTTACTGTTTACAGGGTAGCATCCTTGTGCTTGTTAGTATCGTCTCTGTATTTCTTTACT
66 ACCTCTTTACTGTTTACAGGGTAGCACCCTTGTGCATGTTAGTATCGTCTCTGTATTTCTTTACT
* *
12477256 AAAAATGGTATTGTTTCTTCTAAATTCTTTAAGCAGTCTTCAATAAAAATGTTGTGAAATTTCTT
131 AAAAATGGTATTATTTCTTCTAAATTCTTTAAGAAGTCTTCAATAAAAATGTTGTGAAATTTCTT
* *
12477321 ATTGAATGTATAAAATAGTTTTTGGCATAACTTCTGTATAATGTCTCCACTTTTGTTTGTTTTTC
196 ATTGAATGTATAAAATAGTTTTTGGCATAACTTCTGTATAATGTCTCCACTTTTGGTTATTTTTC
*
12477386 TTATAGGACGA
261 TTATAGGACAA
12477397 GTTCAAGTGCTTGAAACATTTTTAGAGCCTTTTGATGTTTTAGACTATAGGAACTATTCCTTTGT
1 GTTCAAGTGCTTGAAACATTTTTAGAGCCTTTTGATGTTTTAGACTATAGGAACTATTCCTTTGT
*
12477462 ACCTCTTTACTGTTTACAGGGTAGCACCCTTGTGCATGTTATTATCGTCTCTGTATTTCTTTACT
66 ACCTCTTTACTGTTTACAGGGTAGCACCCTTGTGCATGTTAGTATCGTCTCTGTATTTCTTTACT
* * *
12477527 AAAAATGTTATTATTTCTTCTATATTCTTTAAGAAGTCTTCAATAAAAATGTTGTTAAATTTCTT
131 AAAAATGGTATTATTTCTTCTAAATTCTTTAAGAAGTCTTCAATAAAAATGTTGTGAAATTTCTT
* ** * *
12477592 ATTGAATGTATGAAATAGTTTTTGGTTTAACTTCTTTATAATGTTTCCACTTTTGGTTATTTTTC
196 ATTGAATGTATAAAATAGTTTTTGGCATAACTTCTGTATAATGTCTCCACTTTTGGTTATTTTTC
12477657 TTATAGGACAA
261 TTATAGGACAA
12477668 GTTCAAGTGCT
1 GTTCAAGTGCT
12477679 ACTGCTGCAG
Statistics
Matches: 265, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
271 265 1.00
ACGTcount: A:0.25, C:0.14, G:0.15, T:0.46
Consensus pattern (271 bp):
GTTCAAGTGCTTGAAACATTTTTAGAGCCTTTTGATGTTTTAGACTATAGGAACTATTCCTTTGT
ACCTCTTTACTGTTTACAGGGTAGCACCCTTGTGCATGTTAGTATCGTCTCTGTATTTCTTTACT
AAAAATGGTATTATTTCTTCTAAATTCTTTAAGAAGTCTTCAATAAAAATGTTGTGAAATTTCTT
ATTGAATGTATAAAATAGTTTTTGGCATAACTTCTGTATAATGTCTCCACTTTTGGTTATTTTTC
TTATAGGACAA
Found at i:12481411 original size:13 final size:13
Alignment explanation
Indices: 12481395--12481432 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
12481385 TATAAAATAA
12481395 TTTTTAATTATAT
1 TTTTTAATTATAT
12481408 TTTTTACA-TA-AT
1 TTTTTA-ATTATAT
12481420 TTTTTAATTATAT
1 TTTTTAATTATAT
12481433 CTTAATGGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
11 1 0.05
12 10 0.45
13 10 0.45
14 1 0.05
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (13 bp):
TTTTTAATTATAT
Found at i:12486065 original size:33 final size:30
Alignment explanation
Indices: 12485989--12486069 Score: 78
Period size: 33 Copynumber: 2.7 Consensus size: 30
12485979 ATTTTTAAGC
12485989 AATA-AATATT-AATTATTTATAAATTTTA
1 AATATAATATTAAATTATTTATAAATTTTA
* * *
12486017 ATTAGAATATATAAATTATATTTTAAATATTTA
1 AATATAATAT-TAAATTAT-TTATAAAT-TTTA
12486050 AATATAACTATTAAA-TATTT
1 AATATAA-TATTAAATTATTT
12486070 GTAATTAATA
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
28 3 0.07
29 5 0.12
30 1 0.02
31 8 0.19
32 10 0.23
33 13 0.30
34 3 0.07
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (30 bp):
AATATAATATTAAATTATTTATAAATTTTA
Found at i:12493881 original size:23 final size:23
Alignment explanation
Indices: 12493855--12493926 Score: 62
Period size: 23 Copynumber: 3.2 Consensus size: 23
12493845 GAAAAATTAC
12493855 AAAATAAATCAAAATAATTTTTT
1 AAAATAAATCAAAATAATTTTTT
12493878 AAAAT---TCAAAGATTTAATTTTTT
1 AAAATAAATCAAA-A--TAATTTTTT
* * *
12493901 AAAAGAAATTATAA-AATTTTTT
1 AAAATAAATCAAAATAATTTTTT
12493923 AAAA
1 AAAA
12493927 AATTTCTAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 13
0.71 0.05 0.23
Matches are distributed among these distances:
20 5 0.12
21 1 0.03
22 12 0.30
23 18 0.45
25 1 0.03
26 3 0.08
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (23 bp):
AAAATAAATCAAAATAATTTTTT
Found at i:12496175 original size:21 final size:21
Alignment explanation
Indices: 12496136--12496175 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
12496126 CTTTATAAAC
*
12496136 AAAGAAAGACAATATTATAGT
1 AAAGAAAGACAATAGTATAGT
12496157 AAAGAAA-ACATATAGTATA
1 AAAGAAAGACA-ATAGTATA
12496176 ATTTATTTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.60, C:0.05, G:0.12, T:0.23
Consensus pattern (21 bp):
AAAGAAAGACAATAGTATAGT
Found at i:12498760 original size:112 final size:110
Alignment explanation
Indices: 12498644--12499214 Score: 724
Period size: 112 Copynumber: 5.2 Consensus size: 110
12498634 ATACGAAAAA
12498644 GAAAAAACAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACGCAGTACAA
1 GAAAAAA-AAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACGCAGTACAA
**********
12498709 TTTTTTTTTTTATTTTTGTTTTTCGTGTCAGAATCAGAT-AAAAATAC
65 -AGAAAAAAAAATTTTT-TTTTTCGTGTCAGAATCAGATAAAAAATAC
* *
12498756 GAAAAAAATAAAAAAAAAAAATTTTGGGTGCTGGCCTATCAATGGCCGGCACCCAGTACACAGTA
1 G---AAAA-AAAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACGCAGTA
12498821 CAAAGAAAAAAAAATTATTTTTTTTCGTGTCAGAATCAGATAAAAAAATAC
62 CAAAGAAAAAAAAATT-TTTTTTTTCGTGTCAGAATCAGAT-AAAAAATAC
** * *
12498872 GAAAAAAATTAAAAAAATTTTGGATGCTGGCCTGTCAATGGCCGACACCCAGTACGCAGTACAAA
1 GAAAAAAAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACGCAGTACAAA
* *
12498937 GAAAAAAAATTTATTTTTTTTCGTGTCAAAATCAGATAAAAAATAC
66 GAAAAAAAAATT-TTTTTTTTCGTGTCAGAATCAGATAAAAAATAC
12498983 G------AAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAG-AGTACAA
1 GAAAAAAAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTAC-GCAGTACAA
*
12499041 AGAAAAAAAAATTATTTTTTTCGTGTCAGAATCAGATAAAAAATAC
65 AGAAAAAAAAATTTTTTTTTTCGTGTCAGAATCAGATAAAAAATAC
**
12499087 GAAAAAATTTAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACGCAGTACAA
1 GAAAAAA-AAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACGCAGTACAA
12499152 AG-AAAAAAAA-------TTTCGTGTCAGAATCAGATAAAAAATAC
65 AGAAAAAAAAATTTTTTTTTTCGTGTCAGAATCAGATAAAAAATAC
12499190 GAAAAAAATAAAAAAAAATTTTGGG
1 GAAAAAAA-AAAAAAAAATTTTGGG
12499215 AATGGCCAGC
Statistics
Matches: 411, Mismatches: 31, Indels: 43
0.85 0.06 0.09
Matches are distributed among these distances:
103 50 0.12
104 32 0.08
105 63 0.15
106 1 0.00
110 9 0.02
111 65 0.16
112 90 0.22
113 4 0.01
114 24 0.06
115 62 0.15
116 11 0.03
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.25
Consensus pattern (110 bp):
GAAAAAAAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACGCAGTACAAA
GAAAAAAAAATTTTTTTTTTCGTGTCAGAATCAGATAAAAAATAC
Found at i:12499120 original size:216 final size:216
Alignment explanation
Indices: 12498758--12499164 Score: 728
Period size: 216 Copynumber: 1.9 Consensus size: 216
12498748 AAAAATACGA
12498758 AAAAAATAAAAAAAAAAAATTTTGGGTGCTGGCCTATCAATGGCCGGCACCCAGTACACAGTACA
1 AAAAAATAAAAAAAAAAAATTTTGGGTGCTGGCCTATCAATGGCCGGCACCCAGTACACAGTACA
12498823 AAGAAAAAAAAATTATTTTTTTTCGTGTCAGAATCAGATAAAAAAATACGAAAAAAATTAAAAAA
66 AAGAAAAAAAAATTATTTTTTTTCGTGTCAGAATCAGATAAAAAAATACGAAAAAAATTAAAAAA
12498888 ATTTTGGATGCTGGCCTGTCAATGGCCGACACCCAGTACGCAGTACAAAGAAAAAAAATTTATTT
131 ATTTTGGATGCTGGCCTGTCAATGGCCGACACCCAGTACGCAGTACAAAGAAAAAAAATTTATTT
12498953 TTTTTCGTGTCAAAATCAGAT
196 TTTTTCGTGTCAAAATCAGAT
* * *
12498974 AAAAAATACGAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAGAGTAC
1 AAAAAATA-AAAAAAAAAAATTTTGGGTGCTGGCCTATCAATGGCCGGCACCCAGTACACAGTAC
*
12499039 AAAGAAAAAAAAATTA-TTTTTTTCGTGTCAGAATCAGAT-AAAAAATACGAAAAAATTTAAAAA
65 AAAGAAAAAAAAATTATTTTTTTTCGTGTCAGAATCAGATAAAAAAATACGAAAAAAATT-AAAA
* *
12499102 AAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACGCAGTACAAAGAAAAAAAATTT
129 AAATTTTGGATGCTGGCCTGTCAATGGCCGACACCCAGTACGCAGTACAAAGAAAAAAAATTT
12499165 CGTGTCAGAA
Statistics
Matches: 183, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
215 18 0.10
216 96 0.52
217 69 0.38
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.24
Consensus pattern (216 bp):
AAAAAATAAAAAAAAAAAATTTTGGGTGCTGGCCTATCAATGGCCGGCACCCAGTACACAGTACA
AAGAAAAAAAAATTATTTTTTTTCGTGTCAGAATCAGATAAAAAAATACGAAAAAAATTAAAAAA
ATTTTGGATGCTGGCCTGTCAATGGCCGACACCCAGTACGCAGTACAAAGAAAAAAAATTTATTT
TTTTTCGTGTCAAAATCAGAT
Found at i:12499206 original size:216 final size:216
Alignment explanation
Indices: 12498729--12499214 Score: 727
Period size: 216 Copynumber: 2.2 Consensus size: 216
12498719 TATTTTTGTT
12498729 TTTCGTGTCAGAATCAGATAAAAATACGAAAAAAATAAAAAAAAAAAATTTTGGGTGCTGGCCTA
1 TTTCGTGTCAGAATCAGATAAAAATACGAAAAAAAT-AAAAAAAAAAATTTTGGGTGCTGGCCTA
12498794 TCAATGGCCGGCACCCAGTACACAGTACAAAGAAAAAAAAATTATTTTTTTTCGTGTCAGAATCA
65 TCAATGGCCGGCACCCAGTACACAGTACAAAGAAAAAAAAATTATTTTTTTTCGTGTCAGAATCA
12498859 GATAAAAAAATACGAAAAAAATTAAAAAAATTTTGGATGCTGGCCTGTCAATGGCCGACACCCAG
130 GATAAAAAAATACGAAAAAAATTAAAAAAATTTTGGATGCTGGCCTGTCAATGGCCGACACCCAG
12498924 TACGCAGTACAAAGAAAAAAAA
195 TACGCAGTACAAAGAAAAAAAA
* ***** * *
12498946 TTT-AT-TTTTTTTC-GTGTCAAAAT-CAGATAAAAAATACGAAAAAAAAAATTTTGGGTGCTGG
1 TTTCGTGTCAGAATCAG-ATAAAAATAC-GA-AAAAAATA--AAAAAAAAAATTTTGGGTGCTGG
* *
12499007 CCTGTCAATGGCCGGCACCCAGTACAGAGTACAAAGAAAAAAAAATTA-TTTTTTTCGTGTCAGA
61 CCTATCAATGGCCGGCACCCAGTACACAGTACAAAGAAAAAAAAATTATTTTTTTTCGTGTCAGA
* * *
12499071 ATCAGAT-AAAAAATACGAAAAAATTTAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCA
126 ATCAGATAAAAAAATACGAAAAAAATT-AAAAAAATTTTGGATGCTGGCCTGTCAATGGCCGACA
12499135 CCCAGTACGCAGTACAAAGAAAAAAAA
190 CCCAGTACGCAGTACAAAGAAAAAAAA
12499162 TTTCGTGTCAGAATCAGATAAAAAATACGAAAAAAAT--AAAAAAAAATTTTGGG
1 TTTCGTGTCAGAATCAGAT-AAAAATACGAAAAAAATAAAAAAAAAAATTTTGGG
12499215 AATGGCCAGC
Statistics
Matches: 237, Mismatches: 21, Indels: 25
0.84 0.07 0.09
Matches are distributed among these distances:
214 18 0.08
215 30 0.13
216 96 0.41
217 73 0.31
218 11 0.05
219 8 0.03
220 1 0.00
ACGTcount: A:0.44, C:0.15, G:0.17, T:0.24
Consensus pattern (216 bp):
TTTCGTGTCAGAATCAGATAAAAATACGAAAAAAATAAAAAAAAAAATTTTGGGTGCTGGCCTAT
CAATGGCCGGCACCCAGTACACAGTACAAAGAAAAAAAAATTATTTTTTTTCGTGTCAGAATCAG
ATAAAAAAATACGAAAAAAATTAAAAAAATTTTGGATGCTGGCCTGTCAATGGCCGACACCCAGT
ACGCAGTACAAAGAAAAAAAA
Found at i:12501140 original size:19 final size:19
Alignment explanation
Indices: 12501116--12501190 Score: 105
Period size: 19 Copynumber: 3.9 Consensus size: 19
12501106 ATAATCTTCA
*
12501116 ATGATATGCAATATTATAT
1 ATGATATGCAATATTAGAT
* *
12501135 ATGATATGTAATCTTAGAT
1 ATGATATGCAATATTAGAT
*
12501154 ATGATATGCAATCTTAGAT
1 ATGATATGCAATATTAGAT
*
12501173 ATGATATGTAATATTAGA
1 ATGATATGCAATATTAGA
12501191 AGATATGATT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 50 1.00
ACGTcount: A:0.40, C:0.05, G:0.15, T:0.40
Consensus pattern (19 bp):
ATGATATGCAATATTAGAT
Found at i:12501160 original size:38 final size:37
Alignment explanation
Indices: 12501115--12501197 Score: 123
Period size: 38 Copynumber: 2.2 Consensus size: 37
12501105 CATAATCTTC
* *
12501115 AATGATATGCAATATTATATATGATATGTAATCTTAG
1 AATGATATGCAATATTAGATATGATATGTAATATTAG
*
12501152 ATATGATATGCAATCTTAGATATGATATGTAATATTAG
1 A-ATGATATGCAATATTAGATATGATATGTAATATTAG
12501190 AA-GATATG
1 AATGATATG
12501198 ATTTTGTAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
36 6 0.14
37 2 0.05
38 34 0.81
ACGTcount: A:0.41, C:0.05, G:0.16, T:0.39
Consensus pattern (37 bp):
AATGATATGCAATATTAGATATGATATGTAATATTAG
Found at i:12501212 original size:23 final size:22
Alignment explanation
Indices: 12501133--12501213 Score: 66
Period size: 19 Copynumber: 3.9 Consensus size: 22
12501123 GCAATATTAT
*
12501133 ATATGATATGTAATCTT---AG
1 ATATGATATGTAATATTAGAAG
* *
12501152 ATATGATATGCAATCTTAG-A-
1 ATATGATATGTAATATTAGAAG
12501172 -TATGATATGTAATATTAGAAG
1 ATATGATATGTAATATTAGAAG
* *
12501193 ATATGATTTTGTAATCTTAGA
1 ATATGA-TATGTAATATTAGA
12501214 GATTTAATTT
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
19 32 0.63
20 1 0.02
21 1 0.02
22 5 0.10
23 12 0.24
ACGTcount: A:0.38, C:0.05, G:0.16, T:0.41
Consensus pattern (22 bp):
ATATGATATGTAATATTAGAAG
Found at i:12501223 original size:22 final size:23
Alignment explanation
Indices: 12501179--12501223 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
12501169 AGATATGATA
*
12501179 TGTAATATTAGAAGATATGATTT
1 TGTAATATTAGAAGATATAATTT
* *
12501202 TGTAATCTTAG-AGATTTAATTT
1 TGTAATATTAGAAGATATAATTT
12501224 GTAGATACCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.36, C:0.02, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATATTAGAAGATATAATTT
Found at i:12501441 original size:23 final size:23
Alignment explanation
Indices: 12501397--12501441 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
12501387 TCTTATTTTG
* *
12501397 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
12501420 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
12501442 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:12501674 original size:3 final size:3
Alignment explanation
Indices: 12501666--12501697 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
12501656 ATCTTGTATC
12501666 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
12501698 ATTCATGTGC
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:12504568 original size:15 final size:15
Alignment explanation
Indices: 12504548--12504625 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
12504538 TTTATGGAAA
12504548 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
12504563 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
12504577 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* ***
12504593 ATCAAATAT-TGAAA
1 ATCAAAGATATGGGT
12504607 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
12504623 ATC
1 ATC
12504626 GAGATATTGG
Statistics
Matches: 45, Mismatches: 14, Indels: 8
0.67 0.21 0.12
Matches are distributed among these distances:
14 7 0.16
15 31 0.69
16 7 0.16
ACGTcount: A:0.44, C:0.08, G:0.22, T:0.27
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:12504576 original size:30 final size:30
Alignment explanation
Indices: 12504542--12504635 Score: 145
Period size: 30 Copynumber: 3.1 Consensus size: 30
12504532 TCCATATTTA
12504542 TGGAAAATCAAAGATATGGGTATCAAATAT
1 TGGAAAATCAAAGATATGGGTATCAAATAT
*
12504572 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAATCAAAGATATGGGTATCAAATAT
*
12504602 T-GAAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAA-TCAAAGATATGGGTATC-AAATAT
12504633 TGG
1 TGG
12504636 CATAATAAAA
Statistics
Matches: 58, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
29 4 0.07
30 47 0.81
31 6 0.10
32 1 0.02
ACGTcount: A:0.43, C:0.06, G:0.24, T:0.27
Consensus pattern (30 bp):
TGGAAAATCAAAGATATGGGTATCAAATAT
Found at i:12509231 original size:15 final size:15
Alignment explanation
Indices: 12509211--12509288 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
12509201 TTTATGGAAA
12509211 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
12509226 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
12509240 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
12509256 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
12509270 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
12509286 ATC
1 ATC
12509289 GAGATATTGG
Statistics
Matches: 45, Mismatches: 14, Indels: 8
0.67 0.21 0.12
Matches are distributed among these distances:
14 8 0.18
15 29 0.64
16 8 0.18
ACGTcount: A:0.45, C:0.08, G:0.22, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:12509248 original size:30 final size:30
Alignment explanation
Indices: 12509207--12509288 Score: 137
Period size: 30 Copynumber: 2.7 Consensus size: 30
12509197 CATATTTATG
*
12509207 GAAAATCAAAGATATGGGTATCAAATAATA
1 GAAAGTCAAAGATATGGGTATCAAATAATA
* *
12509237 GAAAGTCAAAGATATGGGTATCAAATATTG
1 GAAAGTCAAAGATATGGGTATCAAATAATA
12509267 GAAAGTCAAAGATATGGGTATC
1 GAAAGTCAAAGATATGGGTATC
12509289 GAGATATTGG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.46, C:0.07, G:0.22, T:0.24
Consensus pattern (30 bp):
GAAAGTCAAAGATATGGGTATCAAATAATA
Found at i:12510570 original size:15 final size:17
Alignment explanation
Indices: 12510539--12510571 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
12510529 TTGAAATTTA
12510539 TATATTCTTACTATATT
1 TATATTCTTACTATATT
12510556 TATATT-TTA-TATATT
1 TATATTCTTACTATATT
12510571 T
1 T
12510572 TTAAAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 3 0.19
17 6 0.38
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (17 bp):
TATATTCTTACTATATT
Found at i:12513135 original size:26 final size:24
Alignment explanation
Indices: 12513106--12513163 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 24
12513096 AGTACAATTA
*
12513106 AATTAAGATGAAATTTTTATATGTGC
1 AATTAA-AT-AAATTTTTATATGTAC
* *
12513132 AATTAAATAATTTTTTATATTTAC
1 AATTAAATAAATTTTTATATGTAC
12513156 AATTAAAT
1 AATTAAAT
12513164 TAGTTTAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 21 0.72
25 2 0.07
26 6 0.21
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (24 bp):
AATTAAATAAATTTTTATATGTAC
Found at i:12519114 original size:17 final size:17
Alignment explanation
Indices: 12519086--12519119 Score: 52
Period size: 16 Copynumber: 2.0 Consensus size: 17
12519076 TAGTTCATAT
12519086 TATTATTTTTAAAATTTA
1 TATTATTTTT-AAATTTA
12519104 TATTA-TTTTAAATTTA
1 TATTATTTTTAAATTTA
12519120 AGATTTCTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TATTATTTTTAAATTTA
Found at i:12526673 original size:16 final size:16
Alignment explanation
Indices: 12526652--12526703 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
12526642 TTTGGTTCGC
12526652 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
12526668 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
12526684 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
12526700 TGTA
1 TGTA
12526704 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.29, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:12526750 original size:45 final size:44
Alignment explanation
Indices: 12526684--12526778 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
12526674 GGATTAGAGG
* *
12526684 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
12526729 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
12526773 TGTAAT
1 TGTAAT
12526779 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:12526961 original size:18 final size:17
Alignment explanation
Indices: 12526940--12526974 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
12526930 TTATTATTTA
*
12526940 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
12526958 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
12526975 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:12526968 original size:28 final size:27
Alignment explanation
Indices: 12526898--12526970 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
12526888 TTTATTATCA
*
12526898 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
12526926 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
12526953 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
12526971 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:12527087 original size:144 final size:147
Alignment explanation
Indices: 12526859--12527130 Score: 487
Period size: 144 Copynumber: 1.9 Consensus size: 147
12526849 ATGATTATTG
12526859 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTA--TATTATCAAAAATAAATAATTTAATCATATTTAA
*
12526924 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
64 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
12526989 AGAAATTTGTTTTGGTAAA
129 AGAAATTTGTTTTGGTAAA
*
12527008 TTATT-TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAAC
1 TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
12527070 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
12527131 ATATTCTTAT
Statistics
Matches: 121, Mismatches: 2, Indels: 5
0.95 0.02 0.04
Matches are distributed among these distances:
144 92 0.76
145 1 0.01
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAG
AAATTTGTTTTGGTAAA
Found at i:12527105 original size:18 final size:17
Alignment explanation
Indices: 12527084--12527118 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
12527074 TTATTATTAA
*
12527084 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
12527102 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
12527119 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:12527210 original size:16 final size:16
Alignment explanation
Indices: 12527167--12527212 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
12527157 CATAATATAG
*
12527167 ATAATTTAACATA-ATT
1 ATAA-TTAAAATATATT
*
12527183 ATTATT-AAATATATT
1 ATAATTAAAATATATT
12527198 ATAATTAAAATATAT
1 ATAATTAAAATATAT
12527213 AATNAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 4 0.16
15 10 0.40
16 11 0.44
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATTAAAATATATT
Found at i:12529321 original size:14 final size:14
Alignment explanation
Indices: 12529296--12529330 Score: 61
Period size: 14 Copynumber: 2.4 Consensus size: 14
12529286 AAGAAGAAGC
12529296 AGAAATATGGAGAAA
1 AGAAA-ATGGAGAAA
12529311 AGAAAATGGAGAAA
1 AGAAAATGGAGAAA
12529325 AGAAAA
1 AGAAAA
12529331 GAAATGTGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.66, C:0.00, G:0.26, T:0.09
Consensus pattern (14 bp):
AGAAAATGGAGAAA
Found at i:12529328 original size:19 final size:18
Alignment explanation
Indices: 12529306--12529350 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
12529296 AGAAATATGG
12529306 AGAAAAGAAAATG-GAGAAA
1 AGAAAAGAAAATGTGAG--A
12529325 AGAAAAG-AAATGTGAGA
1 AGAAAAGAAAATGTGAGA
12529342 AGAAAAGAA
1 AGAAAAGAA
12529351 GCGTACCGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 8 0.33
18 6 0.25
19 10 0.42
ACGTcount: A:0.67, C:0.00, G:0.27, T:0.07
Consensus pattern (18 bp):
AGAAAAGAAAATGTGAGA
Found at i:12533529 original size:57 final size:58
Alignment explanation
Indices: 12533467--12533589 Score: 185
Period size: 57 Copynumber: 2.1 Consensus size: 58
12533457 ATTTCCAGGT
* *
12533467 CATTTTCATTTTCATTTTGGAGAAAATTACATTCATTTTCAAATG-ATTCCATTTCTC
1 CATTTTCATTTTCATTTTGGAGAAAATCACATTCATTTTCAAATGTATTCCATTTATC
* * * *
12533524 CATTTTCATTTTTATTTTGGAGAAAATCACATTCATTTTTAAATGTTTTTCATTTATC
1 CATTTTCATTTTCATTTTGGAGAAAATCACATTCATTTTCAAATGTATTCCATTTATC
12533582 CATTTTCA
1 CATTTTCA
12533590 CAATTTCTAT
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
57 42 0.71
58 17 0.29
ACGTcount: A:0.28, C:0.15, G:0.07, T:0.50
Consensus pattern (58 bp):
CATTTTCATTTTCATTTTGGAGAAAATCACATTCATTTTCAAATGTATTCCATTTATC
Found at i:12544953 original size:105 final size:105
Alignment explanation
Indices: 12544771--12544975 Score: 374
Period size: 105 Copynumber: 2.0 Consensus size: 105
12544761 CTGATACCAC
*
12544771 TGTTGGATCGCCGGCACCCCTACGGCGCAGCGGAAAAATTTAATAATCGGCGACCCTAACCACGG
1 TGTTGGATCGCCGGCACCCCTACGGCGCAGCGGAAAAATTTAATAATCGGCGACCCTAACCACAG
12544836 ATCCATGTGTGAGGAACGAATCGGGGTGAAAAGGGATACA
66 ATCCATGTGTGAGGAACGAATCGGGGTGAAAAGGGATACA
** *
12544876 TGTTGGATCTTCGGCACCCCTACGGCGCAGCGGAAAAATTTAATAATCGGCGACCCTAACCATAG
1 TGTTGGATCGCCGGCACCCCTACGGCGCAGCGGAAAAATTTAATAATCGGCGACCCTAACCACAG
12544941 ATCCATGTGTGAGGAACGAATCGGGGTGAAAAGGG
66 ATCCATGTGTGAGGAACGAATCGGGGTGAAAAGGG
12544976 TTACGAAATT
Statistics
Matches: 96, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
105 96 1.00
ACGTcount: A:0.29, C:0.23, G:0.29, T:0.19
Consensus pattern (105 bp):
TGTTGGATCGCCGGCACCCCTACGGCGCAGCGGAAAAATTTAATAATCGGCGACCCTAACCACAG
ATCCATGTGTGAGGAACGAATCGGGGTGAAAAGGGATACA
Found at i:12546215 original size:30 final size:30
Alignment explanation
Indices: 12546127--12546216 Score: 135
Period size: 30 Copynumber: 3.0 Consensus size: 30
12546117 GAGCATTTGT
* * **
12546127 ACAAGACCATAATTACAAATTTGCTATGGT
1 ACAAGACCATAAGTACCAATTTGCTATGAC
12546157 ACAAGACCATAAGTACCAATTTGCTATGAC
1 ACAAGACCATAAGTACCAATTTGCTATGAC
*
12546187 ATAAGACCATAAGTACCAATTTGCTATGAC
1 ACAAGACCATAAGTACCAATTTGCTATGAC
12546217 TGGCATGGTC
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 55 1.00
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (30 bp):
ACAAGACCATAAGTACCAATTTGCTATGAC
Found at i:12547402 original size:34 final size:35
Alignment explanation
Indices: 12547344--12547410 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
12547334 CAAACACCAG
12547344 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
12547379 AAAATATTTTCTAG-AAATCATTTTACGGAAAA
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAA
12547411 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.34
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:12554522 original size:33 final size:33
Alignment explanation
Indices: 12554485--12554551 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
12554475 TAGATTAAGA
* *
12554485 TTAGAATT-TTTAATTTGGTTATTTATCCAACCC
1 TTAG-ATTCTTTAATTTAGTTATTTATCAAACCC
12554518 TTAGATTCTTTAATTTAGTTATTTATCAAACCC
1 TTAGATTCTTTAATTTAGTTATTTATCAAACCC
12554551 T
1 T
12554552 AATATTTACG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 3 0.10
33 28 0.90
ACGTcount: A:0.28, C:0.15, G:0.07, T:0.49
Consensus pattern (33 bp):
TTAGATTCTTTAATTTAGTTATTTATCAAACCC
Found at i:12554695 original size:23 final size:25
Alignment explanation
Indices: 12554646--12554695 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 25
12554636 TTGACCTGAC
* *
12554646 TTATTTTTAATATATAATATATTATT
1 TTATTTTTAATATAT-ATACATAATT
12554672 TTATTTTT-ATATAT-TACATAATT
1 TTATTTTTAATATATATACATAATT
12554695 T
1 T
12554696 ATATAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 8 0.36
25 6 0.27
26 8 0.36
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (25 bp):
TTATTTTTAATATATATACATAATT
Found at i:12560722 original size:19 final size:17
Alignment explanation
Indices: 12560698--12560735 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
12560688 TATAAAATAT
*
12560698 AAAT-TTTTGATTTTTA
1 AAATATTTTGAATTTTA
12560714 TAAATATTTTGAATTTTA
1 -AAATATTTTGAATTTTA
12560732 AAAT
1 AAAT
12560736 TTGTTTTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (17 bp):
AAATATTTTGAATTTTA
Found at i:12560723 original size:18 final size:17
Alignment explanation
Indices: 12560695--12560737 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
12560685 TTTTATAAAA
*
12560695 TATAAATTTTTGATTTT
1 TATAAATTTTTGAATTT
12560712 TATAAATATTTTGAATTT
1 TATAAAT-TTTTGAATTT
12560730 TA-AAATTT
1 TATAAATTT
12560738 GTTTTGAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 2 0.08
17 11 0.46
18 11 0.46
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (17 bp):
TATAAATTTTTGAATTT
Found at i:12560742 original size:19 final size:20
Alignment explanation
Indices: 12560720--12560757 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
12560710 TTTATAAATA
12560720 TTTTGAA-TTTTAAAATTTG
1 TTTTGAACTTTTAAAATTTG
*
12560739 TTTTGAACTTTTGAAATTT
1 TTTTGAACTTTTAAAATTT
12560758 ATATTGAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.29, C:0.03, G:0.11, T:0.58
Consensus pattern (20 bp):
TTTTGAACTTTTAAAATTTG
Found at i:12560764 original size:20 final size:19
Alignment explanation
Indices: 12560722--12560766 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
12560712 TATAAATATT
* *
12560722 TTGAATTTTAAAATTTGTT
1 TTGAATTTTAAAATTTATA
*
12560741 TTGAACTTTTGAAATTTATA
1 TTGAA-TTTTAAAATTTATA
12560761 TTGAAT
1 TTGAAT
12560767 ATTTTTGTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.33, C:0.02, G:0.11, T:0.53
Consensus pattern (19 bp):
TTGAATTTTAAAATTTATA
Found at i:12565719 original size:17 final size:16
Alignment explanation
Indices: 12565687--12565730 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
12565677 ATATAAATAT
12565687 ATAAT-TATTATTTAAC
1 ATAATATATT-TTTAAC
12565703 ATAATATATTTTATAAC
1 ATAATATATTTT-TAAC
*
12565720 ATTATATATTT
1 ATAATATATTT
12565731 GAATAGGCCG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 7 0.28
17 18 0.72
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (16 bp):
ATAATATATTTTTAAC
Found at i:12567792 original size:4 final size:4
Alignment explanation
Indices: 12567783--12567843 Score: 122
Period size: 4 Copynumber: 15.2 Consensus size: 4
12567773 CTTTTGAATT
12567783 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12567831 TATG TATG TATG T
1 TATG TATG TATG T
12567844 CCTCGTTGTG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 57 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:12569466 original size:4 final size:4
Alignment explanation
Indices: 12569457--12569551 Score: 147
Period size: 4 Copynumber: 23.8 Consensus size: 4
12569447 CTTGAATTGT
12569457 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* * *
12569505 TGTA TGTA TGTA TGTA TGCA TGCT- TGCA TGTA TGTA CGTA TGTA TGT
1 TGTA TGTA TGTA TGTA TGTA TG-TA TGTA TGTA TGTA TGTA TGTA TGT
12569552 CCTTGTTGTG
Statistics
Matches: 83, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
4 83 1.00
ACGTcount: A:0.23, C:0.04, G:0.25, T:0.47
Consensus pattern (4 bp):
TGTA
Found at i:12570153 original size:13 final size:14
Alignment explanation
Indices: 12570113--12570153 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
12570103 AATCCAAATC
*
12570113 AAATAAAA-AATTA
1 AAATAAAATAACTA
12570126 AAAT-AAATAACTA
1 AAATAAAATAACTA
12570139 AAATAAAATAA-TA
1 AAATAAAATAACTA
12570152 AA
1 AA
12570154 TCAAAGATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 3 0.12
13 16 0.64
14 6 0.24
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (14 bp):
AAATAAAATAACTA
Found at i:12570383 original size:40 final size:40
Alignment explanation
Indices: 12570339--12570418 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
12570329 AAAAAGATTG
12570339 TTAAAACTCT-TCTAAAAGAAACTCAAGAGAAATTCTTGAA
1 TTAAAACTCTCT-TAAAAGAAACTCAAGAGAAATTCTTGAA
12570379 TTAAAACTCTCTTAAAAGAAACTCAAGAGAAATTCTTGAA
1 TTAAAACTCTCTTAAAAGAAACTCAAGAGAAATTCTTGAA
12570419 AAGAAAAACT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
40 38 0.97
41 1 0.03
ACGTcount: A:0.47, C:0.15, G:0.10, T:0.28
Consensus pattern (40 bp):
TTAAAACTCTCTTAAAAGAAACTCAAGAGAAATTCTTGAA
Found at i:12571105 original size:16 final size:17
Alignment explanation
Indices: 12571072--12571105 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
12571062 AGATTTTTCT
*
12571072 TCAAATCTTGTCTTTGA
1 TCAAATCTTGTATTTGA
12571089 TCAAATCTTG-ATTTGA
1 TCAAATCTTGTATTTGA
12571105 T
1 T
12571106 TTGCTTAACC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.26, C:0.15, G:0.12, T:0.47
Consensus pattern (17 bp):
TCAAATCTTGTATTTGA
Found at i:12575633 original size:23 final size:23
Alignment explanation
Indices: 12575588--12575633 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
12575578 ATTGGCAATT
* *
12575588 TAAAACAAATAATTAAACGAATA
1 TAAAACAAATAAATAAACAAATA
* *
12575611 TAAAATAAATAAATAAATAAATA
1 TAAAACAAATAAATAAACAAATA
12575634 AAATTAATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.24
Consensus pattern (23 bp):
TAAAACAAATAAATAAACAAATA
Done.