Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 150 of 173
Found at i:45472233 original size:27 final size:27
Alignment explanation
Indices: 45472175--45472241 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 27
45472165 CTAATCATCC
*
45472175 GCTGCATCGCCATCGACTGTCCCCTCT
1 GCTGCATCGCCGTCGACTGTCCCCTCT
* * *
45472202 ACTGCATCGCCGTCGACTGTCCCTTTT
1 GCTGCATCGCCGTCGACTGTCCCCTCT
*
45472229 GCTGCATAGCCGT
1 GCTGCATCGCCGT
45472242 TGACATTTCT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.12, C:0.39, G:0.21, T:0.28
Consensus pattern (27 bp):
GCTGCATCGCCGTCGACTGTCCCCTCT
Found at i:45472433 original size:25 final size:25
Alignment explanation
Indices: 45472404--45472451 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
45472394 TATTAGCTCA
45472404 ATTTTTATTATTTCATTTAACAATT
1 ATTTTTATTATTTCATTTAACAATT
*
45472429 ATTTTTATTATTTGATTTAACAA
1 ATTTTTATTATTTCATTTAACAA
45472452 AATCATGTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.58
Consensus pattern (25 bp):
ATTTTTATTATTTCATTTAACAATT
Found at i:45473245 original size:22 final size:22
Alignment explanation
Indices: 45473220--45473263 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
45473210 TGTGCTGCTG
*
45473220 TTTGTAATTTTTGGATTA-TTTA
1 TTTGTAAATTTT-GATTAGTTTA
45473242 TTTGTAAATTTTGATTAGTTTA
1 TTTGTAAATTTTGATTAGTTTA
45473264 ATTATATGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.25, C:0.00, G:0.14, T:0.61
Consensus pattern (22 bp):
TTTGTAAATTTTGATTAGTTTA
Found at i:45474741 original size:116 final size:117
Alignment explanation
Indices: 45474532--45474767 Score: 411
Period size: 116 Copynumber: 2.0 Consensus size: 117
45474522 CAGTTACTAA
45474532 GCTCCAAATTATCTATTTCTTTCTCTTTTTTGGTCAGACCGTATTAAGCAAGCCAAAGTTTGTAA
1 GCTCCAAATTATCTATTTCTTTCTCTTTTTTGGTCAGACCGTATTAAGCAAGCCAAAGTTTGTAA
* *
45474597 AGGTAATAGCAGTGAATTTCACCCTTATATTTAAAACTGTTGCTTTCTCTTC
66 AGGTAATAGCAATGAATTTCACCATTATATTTAAAACTGTTGCTTTCTCTTC
* * *
45474649 GCTCCAAATTATCTATTTCTTTCTCTTTTTTGGTCAGA-TGTATTAAGTAGGCCAAAGTTTGTAA
1 GCTCCAAATTATCTATTTCTTTCTCTTTTTTGGTCAGACCGTATTAAGCAAGCCAAAGTTTGTAA
*
45474713 AGGTAATAGCAATGAATTTCACCATTATATTTAAAATTGTTGCTTTCTCTTC
66 AGGTAATAGCAATGAATTTCACCATTATATTTAAAACTGTTGCTTTCTCTTC
45474765 GCT
1 GCT
45474768 TGGAATTTAA
Statistics
Matches: 113, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
116 75 0.66
117 38 0.34
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.42
Consensus pattern (117 bp):
GCTCCAAATTATCTATTTCTTTCTCTTTTTTGGTCAGACCGTATTAAGCAAGCCAAAGTTTGTAA
AGGTAATAGCAATGAATTTCACCATTATATTTAAAACTGTTGCTTTCTCTTC
Found at i:45475451 original size:71 final size:72
Alignment explanation
Indices: 45475360--45475574 Score: 220
Period size: 71 Copynumber: 3.0 Consensus size: 72
45475350 TAATTATGTG
* *
45475360 TTTTTAAAAAGGTTAATTTAGTTCAATTTATTAAGTTTTGATATTAAGCGAAACCGTTTATTTAG
1 TTTTTAAAAAGCTTAATTTAGTTCAATTTATTAAGTTTTGATATTAAGTGAAACCGTTTATTTAG
45475425 TTATACA
66 TTATACA
* * ** ** * * * * *
45475432 -TTTTCAGAAGCTTAATTTAGTTTGATTTATTAAAATTTGATATTAAGTAAAAACGTTTGTTCAA
1 TTTTTAAAAAGCTTAATTTAGTTCAATTTATTAAGTTTTGATATTAAGTGAAACCGTTTATTTAG
*
45475496 TTCTGA-A
66 TTAT-ACA
* * * * *
45475503 TTTTTAAAAAGGTTAATTTAGTTCAACTTATTGAGTTTTGATATTAAGTGGAACCATTTATTCT-
1 TTTTTAAAAAGCTTAATTTAGTTCAATTTATTAAGTTTTGATATTAAGTGAAACCGTTTATT-TA
45475567 GTTATACA
65 GTTATACA
45475575 AAGTAAAACC
Statistics
Matches: 108, Mismatches: 31, Indels: 8
0.73 0.21 0.05
Matches are distributed among these distances:
71 56 0.52
72 52 0.48
ACGTcount: A:0.34, C:0.07, G:0.13, T:0.46
Consensus pattern (72 bp):
TTTTTAAAAAGCTTAATTTAGTTCAATTTATTAAGTTTTGATATTAAGTGAAACCGTTTATTTAG
TTATACA
Found at i:45475544 original size:72 final size:72
Alignment explanation
Indices: 45475332--45475551 Score: 237
Period size: 72 Copynumber: 3.1 Consensus size: 72
45475322 ATTAATTATC
** **
45475332 TAAGTAAATTCGTTTGTTTAATTATGTGTTTTTAAAAAGGTTAATTTAGTTCAATTTATTAAGTT
1 TAAGTAAAAACGTTTGTTTAATTATGAATTTTTAAAAAGGTTAATTTAGTTCAATTTATTAAGTT
45475397 TTGATAT
66 TTGATAT
** * * * * * * ** **
45475404 TAAGCGAAACCGTTTATTTAGTTAT-ACA-TTTTCAGAAGCTTAATTTAGTTTGATTTATTAAAA
1 TAAGTAAAAACGTTTGTTTAATTATGA-ATTTTTAAAAAGGTTAATTTAGTTCAATTTATTAAGT
45475467 TTTGATAT
65 TTTGATAT
* * * *
45475475 TAAGTAAAAACGTTTGTTCAATTCTGAATTTTTAAAAAGGTTAATTTAGTTCAACTTATTGAGTT
1 TAAGTAAAAACGTTTGTTTAATTATGAATTTTTAAAAAGGTTAATTTAGTTCAATTTATTAAGTT
45475540 TTGATAT
66 TTGATAT
45475547 TAAGT
1 TAAGT
45475552 GGAACCATTT
Statistics
Matches: 114, Mismatches: 31, Indels: 6
0.75 0.21 0.04
Matches are distributed among these distances:
71 55 0.48
72 59 0.52
ACGTcount: A:0.34, C:0.06, G:0.14, T:0.47
Consensus pattern (72 bp):
TAAGTAAAAACGTTTGTTTAATTATGAATTTTTAAAAAGGTTAATTTAGTTCAATTTATTAAGTT
TTGATAT
Found at i:45475611 original size:28 final size:28
Alignment explanation
Indices: 45475580--45475634 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
45475570 ATACAAAGTA
* *
45475580 AAACCGCTTGTTCATTTATGCCTTTTTT
1 AAACCGCTTGTTCAATTATGCATTTTTT
45475608 AAACCGCTTGTTCAATTATGCATTTTT
1 AAACCGCTTGTTCAATTATGCATTTTT
45475635 ATTTATTTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.22, C:0.20, G:0.11, T:0.47
Consensus pattern (28 bp):
AAACCGCTTGTTCAATTATGCATTTTTT
Found at i:45475760 original size:19 final size:17
Alignment explanation
Indices: 45475728--45475767 Score: 55
Period size: 19 Copynumber: 2.3 Consensus size: 17
45475718 ATTTTAGTAT
45475728 TGAAAAAATAAACAAAA
1 TGAAAAAATAAACAAAA
45475745 TGAAAAGAAGTAAACAAAA
1 TGAAAA-AA-TAAACAAAA
45475764 -GAAA
1 TGAAA
45475768 TAACAAATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 6 0.29
18 6 0.29
19 9 0.43
ACGTcount: A:0.72, C:0.05, G:0.12, T:0.10
Consensus pattern (17 bp):
TGAAAAAATAAACAAAA
Found at i:45475994 original size:19 final size:20
Alignment explanation
Indices: 45475966--45476008 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
45475956 TTTATTATTT
45475966 ATTTTAATTTTGATTCTAAA
1 ATTTTAATTTTGATTCTAAA
* *
45475986 ATTTT-ATTTTTATTTTAAA
1 ATTTTAATTTTGATTCTAAA
45476005 ATTT
1 ATTT
45476009 AAGATAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (20 bp):
ATTTTAATTTTGATTCTAAA
Found at i:45476312 original size:12 final size:12
Alignment explanation
Indices: 45476295--45476320 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
45476285 AAATTATTTT
45476295 AATATTTTCATA
1 AATATTTTCATA
45476307 AATATTTTCATA
1 AATATTTTCATA
45476319 AA
1 AA
45476321 AATAAATTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (12 bp):
AATATTTTCATA
Found at i:45476545 original size:13 final size:13
Alignment explanation
Indices: 45476529--45476555 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
45476519 ATAATTAAGG
45476529 GTTAAAATTTAAA
1 GTTAAAATTTAAA
45476542 GTTAAAATTTAAA
1 GTTAAAATTTAAA
45476555 G
1 G
45476556 ATGATAATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (13 bp):
GTTAAAATTTAAA
Found at i:45476648 original size:18 final size:17
Alignment explanation
Indices: 45476622--45476762 Score: 75
Period size: 18 Copynumber: 7.5 Consensus size: 17
45476612 AACTTACATA
45476622 ATACATAAATATATATC
1 ATACATAAATATATATC
* *
45476639 ATACCATAAATTACATAAC
1 ATA-CATAAA-TATATATC
*
45476658 TTACATAAATATATATC
1 ATACATAAATATATATC
* *
45476675 ATATCATAACTTACATAGCATACATA
1 ATA-CAT-A---A-AT---ATATATC
45476701 ATACATAAATATATATC
1 ATACATAAATATATATC
* * *
45476718 ATATCATAACTTACATAAC
1 ATA-CATAA-ATATATATC
*
45476737 TTACATAAATATATATC
1 ATACATAAATATATATC
45476754 ATATCATAA
1 ATA-CATAA
45476763 CTTACATAAA
Statistics
Matches: 92, Mismatches: 18, Indels: 27
0.67 0.13 0.20
Matches are distributed among these distances:
17 27 0.29
18 30 0.33
19 17 0.18
20 2 0.02
21 1 0.01
22 1 0.01
23 2 0.02
24 1 0.01
25 3 0.03
26 8 0.09
ACGTcount: A:0.50, C:0.16, G:0.01, T:0.34
Consensus pattern (17 bp):
ATACATAAATATATATC
Found at i:45476670 original size:36 final size:36
Alignment explanation
Indices: 45476602--45476771 Score: 227
Period size: 36 Copynumber: 4.6 Consensus size: 36
45476592 AAAACTTTGG
* *
45476602 ATCATAACTTAACTTACATAA--TACATAAATATAT
1 ATCATATCATAACTTACATAACTTACATAAATATAT
* *
45476636 ATCATACCATAAATTACATAACTTACATAAATATAT
1 ATCATATCATAACTTACATAACTTACATAAATATAT
45476672 ATCATATCATAACTTACATAGCATACATAATACATAAATATAT
1 ATCATATCATAACTTACAT---A-AC-T--TACATAAATATAT
45476715 ATCATATCATAACTTACATAACTTACATAAATATAT
1 ATCATATCATAACTTACATAACTTACATAAATATAT
45476751 ATCATATCATAACTTACATAA
1 ATCATATCATAACTTACATAA
45476772 AACTTTGGAT
Statistics
Matches: 122, Mismatches: 5, Indels: 16
0.85 0.03 0.11
Matches are distributed among these distances:
34 18 0.15
36 64 0.52
38 1 0.01
39 3 0.02
40 3 0.02
41 1 0.01
43 32 0.26
ACGTcount: A:0.49, C:0.16, G:0.01, T:0.34
Consensus pattern (36 bp):
ATCATATCATAACTTACATAACTTACATAAATATAT
Found at i:45476699 original size:79 final size:79
Alignment explanation
Indices: 45476616--45476770 Score: 292
Period size: 79 Copynumber: 2.0 Consensus size: 79
45476606 TAACTTAACT
45476616 TACATAATACATAAATATATATCATACCATAAATTACATAACTTACATAAATATATATCATATCA
1 TACATAATACATAAATATATATCATACCATAAATTACATAACTTACATAAATATATATCATATCA
45476681 TAACTTACATAGCA
66 TAACTTACATAGCA
* *
45476695 TACATAATACATAAATATATATCATATCATAACTTACATAACTTACATAAATATATATCATATCA
1 TACATAATACATAAATATATATCATACCATAAATTACATAACTTACATAAATATATATCATATCA
45476760 TAACTTACATA
66 TAACTTACATA
45476771 AAACTTTGGA
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
79 74 1.00
ACGTcount: A:0.49, C:0.16, G:0.01, T:0.34
Consensus pattern (79 bp):
TACATAATACATAAATATATATCATACCATAAATTACATAACTTACATAAATATATATCATATCA
TAACTTACATAGCA
Found at i:45485194 original size:22 final size:21
Alignment explanation
Indices: 45485164--45485206 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
45485154 AAATGATTTT
* *
45485164 AATATAAATAAAATTAAGAAAA
1 AATAAAAATAAAAATAA-AAAA
45485186 AATAAAAATAAAAATAAAAAA
1 AATAAAAATAAAAATAAAAAA
45485207 CCCAACTCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (21 bp):
AATAAAAATAAAAATAAAAAA
Found at i:45497779 original size:21 final size:22
Alignment explanation
Indices: 45497755--45497795 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
45497745 GTTTGTTTGA
*
45497755 ATCA-TAGGTTGTTGGAATTTT
1 ATCACTAGGTTATTGGAATTTT
*
45497776 ATCACTCGGTTATTGGAATT
1 ATCACTAGGTTATTGGAATT
45497796 CATGGATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.24, C:0.10, G:0.22, T:0.44
Consensus pattern (22 bp):
ATCACTAGGTTATTGGAATTTT
Found at i:45500203 original size:98 final size:98
Alignment explanation
Indices: 45500029--45500225 Score: 331
Period size: 98 Copynumber: 2.0 Consensus size: 98
45500019 GTATAATAAA
* * * *
45500029 ACTTTAAAAGAATATCCACTTATCCAAGATTTAAAAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAAAAATAACAACCAATACGTTAGGGCACAATT
*
45500094 CCTCTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
*
45500127 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATAACAACCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAAAAATAACAACCAATACGTTAGGGCACAATT
*
45500192 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
45500225 A
1 A
45500226 TAATTTTTTT
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAAAAATAACAACCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:45500958 original size:37 final size:37
Alignment explanation
Indices: 45500905--45500990 Score: 104
Period size: 37 Copynumber: 2.3 Consensus size: 37
45500895 AAAATAAAAA
* *
45500905 ATAAAAAACATGTATGTATAAAATATATGCATAT-TTAT
1 ATAAAAAATATGTATGT-TAAAA-ATATGAATATATTAT
*
45500943 A-AAAAAATATTTATGTTAAAAATATGAATATATTAT
1 ATAAAAAATATGTATGTTAAAAATATGAATATATTAT
*
45500979 ATATAAAATATG
1 ATAAAAAATATG
45500991 CGTATGTATA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
35 9 0.22
36 10 0.24
37 21 0.51
38 1 0.02
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.37
Consensus pattern (37 bp):
ATAAAAAATATGTATGTTAAAAATATGAATATATTAT
Found at i:45504325 original size:22 final size:22
Alignment explanation
Indices: 45504283--45504325 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
45504273 ATCATCGTCA
* *
45504283 CTTAAAATTATTTAATGAAATT
1 CTTAAAATAATTTAATAAAATT
45504305 CTTAAAATAAATTTAA-AAAAT
1 CTTAAAAT-AATTTAATAAAAT
45504326 AAAAGGTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (22 bp):
CTTAAAATAATTTAATAAAATT
Found at i:45513631 original size:13 final size:13
Alignment explanation
Indices: 45513610--45513650 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
45513600 CTCTTGCTTC
45513610 TTCCGTTTTCTTT
1 TTCCGTTTTCTTT
*
45513623 TTCCTTTTTTCTTT
1 TTCC-GTTTTCTTT
*
45513637 TTCGGTTTTCTTT
1 TTCCGTTTTCTTT
45513650 T
1 T
45513651 CGGTTTTGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.00, C:0.20, G:0.07, T:0.73
Consensus pattern (13 bp):
TTCCGTTTTCTTT
Found at i:45513645 original size:14 final size:14
Alignment explanation
Indices: 45513615--45513657 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
45513605 GCTTCTTCCG
**
45513615 TTTTCTTTTTCCTT
1 TTTTCTTTTTCGGT
45513629 TTTTCTTTTTCGG-
1 TTTTCTTTTTCGGT
45513642 TTTTC-TTTTCGGT
1 TTTTCTTTTTCGGT
45513655 TTT
1 TTT
45513658 GGTTTTGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 7 0.27
13 8 0.31
14 11 0.42
ACGTcount: A:0.00, C:0.16, G:0.09, T:0.74
Consensus pattern (14 bp):
TTTTCTTTTTCGGT
Found at i:45513652 original size:12 final size:13
Alignment explanation
Indices: 45513614--45513657 Score: 54
Period size: 12 Copynumber: 3.4 Consensus size: 13
45513604 TGCTTCTTCC
*
45513614 GTTTTCTTTTTCCT
1 GTTTTCTTTTT-CG
*
45513628 TTTTTCTTTTTCG
1 GTTTTCTTTTTCG
45513641 GTTTTC-TTTTCG
1 GTTTTCTTTTTCG
45513653 GTTTT
1 GTTTT
45513658 GGTTTTGATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
12 11 0.41
13 6 0.22
14 10 0.37
ACGTcount: A:0.00, C:0.16, G:0.11, T:0.73
Consensus pattern (13 bp):
GTTTTCTTTTTCG
Found at i:45514419 original size:26 final size:25
Alignment explanation
Indices: 45514383--45514444 Score: 63
Period size: 26 Copynumber: 2.4 Consensus size: 25
45514373 TTTATATACT
* *
45514383 ATTTAGTTTAAGTCA-TTTATTTTA
1 ATTTATTTTAAATCAGTTTATTTTA
*
45514407 TATGTTATTTTAAAATTAGTTTATTTTA
1 -AT-TTATTTT-AAATCAGTTTATTTTA
45514435 ATTTATTTTA
1 ATTTATTTTA
45514445 TTTAAAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
25 3 0.10
26 13 0.42
27 6 0.19
28 9 0.29
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.61
Consensus pattern (25 bp):
ATTTATTTTAAATCAGTTTATTTTA
Found at i:45514446 original size:15 final size:16
Alignment explanation
Indices: 45514411--45514453 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
45514401 ATTTTATATG
45514411 TTATTTTAAAATTAGT
1 TTATTTTAAAATTAGT
* *
45514427 TTATTTT-AATTTATT
1 TTATTTTAAAATTAGT
45514442 TTA-TTTAAAATT
1 TTATTTTAAAATT
45514454 TCCCGTGTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 3 0.13
15 13 0.57
16 7 0.30
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (16 bp):
TTATTTTAAAATTAGT
Found at i:45518441 original size:22 final size:22
Alignment explanation
Indices: 45518413--45518454 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
45518403 AGTATTTTCT
*
45518413 TATTTTT-TTAGTATTTTAAAGC
1 TATTTTTATTACT-TTTTAAAGC
45518435 TATTTTTATTACTTTTTAAA
1 TATTTTTATTACTTTTTAAA
45518455 TACTTCTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.62
Consensus pattern (22 bp):
TATTTTTATTACTTTTTAAAGC
Found at i:45520038 original size:757 final size:757
Alignment explanation
Indices: 45518565--45520839 Score: 4514
Period size: 757 Copynumber: 3.0 Consensus size: 757
45518555 TATGGTCTTT
45518565 TCACCTCAACTGGTGATTTTTTTTTTTTTTTTGCTATATAAAACAGTTTTATTATTAAAAATATT
1 TCACCTCAACTGGTGA---TTTTTTTTTTTTTGCTATATAAAACAGTTTTATTATTAAAAATATT
45518630 CAAGTATCAGGAGCAAAGACCCATAAAATGTTGGACCTAATTGAAGCTTCAAATAGCTCACAATG
63 CAAGTATCAGGAGCAAAGACCCATAAAATGTTGGACCTAATTGAAGCTTCAAATAGCTCACAATG
45518695 GTCGGTGCTCGTTTTTGTTAAATAGAATGCCCACCTATTCGATTCTAGCCAAACATACACAAACT
128 GTCGGTGCTCGTTTTTGTTAAATAGAATGCCCACCTATTCGATTCTAGCCAAACATACACAAACT
45518760 TAGTGAAGCCGACTGAAGCAACATATGCATCAATACATTTAAAGATCTCATTTAATGTCCCAGGG
193 TAGTGAAGCCGACTGAAGCAACATATGCATCAATACATTTAAAGATCTCATTTAATGTCCCAGGG
45518825 CGAAGATGGTTGTTCGAACACCAAGAGATAGTGTGAGCAGAGTCATATTCAATAACGAGGCTTTG
258 CGAAGATGGTTGTTCGAACACCAAGAGATAGTGTGAGCAGAGTCATATTCAATAACGAGGCTTTG
45518890 TGAGTCGTTTCCCCTCCACTTGACAAACAACTTTACAGCTTGAAGAATCGCCAATAGTGCATCTT
323 TGAGTCGTTTCCCCTCCACTTGACAAACAACTTTACAGCTTGAAGAATCGCCAATAGTGCATCTT
45518955 GTCCATGATCGAGCTCACCCAACGGTTTAGGAAACATGTGGTCCCTAAGTATGCCGCCACAACCA
388 GTCCATGATCGAGCTCACCCAACGGTTTAGGAAACATGTGGTCCCTAAGTATGCCGCCACAACCA
45519020 TCTAATTAGTTTTACATTTATTTTCCATAGTTTAGGAGAAACAATTCAACTTTTAAATCACTTGA
453 TCTAATTAGTTTTACATTTATTTTCCATAGTTTAGGAGAAACAATTCAACTTTTAAATCACTTGA
45519085 AGATTGCAATAACTCAATTGAGATTTATTTAATGTTACGTTTTCTTAGTTTTATTTATCTCTCTT
518 AGATTGCAATAACTCAATTGAGATTTATTTAATGTTACGTTTTCTTAGTTTTATTTATCTCTCTT
45519150 TGGTTATACTTTAATTTTACCTCATTTATGTTACTTGCAAAGATACAATGCATTAAATCATTATT
583 TGGTTATACTTTAATTTTACCTCATTTATGTTACTTGCAAAGATACAATGCATTAAATCATTATT
45519215 AAGATTAGGAAATCCGTAAGTTAATGGCTTAGTAATCGAAACAAGATTAAACACTAATTTAGAAA
648 AAGATTAGGAAATCCGTAAGTTAATGGCTTAGTAATCGAAACAAGATTAAACACTAATTTAGAAA
45519280 ATATGATTACGTTTTAACTTTCTTTATTTTAACTCAAGTCGTTAA
713 ATATGATTACGTTTTAACTTTCTTTATTTTAACTCAAGTCGTTAA
45519325 TCACCTCAACTGGTGATTTTTTTTTTTTTGCTATATAAAACAGTTTTATTATTAAAAATATTCAA
1 TCACCTCAACTGGTGATTTTTTTTTTTTTGCTATATAAAACAGTTTTATTATTAAAAATATTCAA
45519390 GTATCAGGAGCAAAGACCCATAAAATGTTGGACCTAATTGAAGCTTCAAATAGCTCACAATGGTC
66 GTATCAGGAGCAAAGACCCATAAAATGTTGGACCTAATTGAAGCTTCAAATAGCTCACAATGGTC
45519455 GGTGCTCGTTTTTGTTAAATAGAATGCCCACCTATTCGATTCTAGCCAAACATACACAAACTTAG
131 GGTGCTCGTTTTTGTTAAATAGAATGCCCACCTATTCGATTCTAGCCAAACATACACAAACTTAG
45519520 TGAAGCCGACTGAAGCAACATATGCATCAATACATTTAAAGATCTCATTTAATGTCCCAGGGCGA
196 TGAAGCCGACTGAAGCAACATATGCATCAATACATTTAAAGATCTCATTTAATGTCCCAGGGCGA
45519585 AGATGGTTGTTCGAACACCAAGAGATAGTGTGAGCAGAGTCATATTCAATAACGAGGCTTTGTGA
261 AGATGGTTGTTCGAACACCAAGAGATAGTGTGAGCAGAGTCATATTCAATAACGAGGCTTTGTGA
45519650 GTCGTTTCCCCTCCACTTGACAAACAACTTTACAGCTTGAAGAATCGCCAATAGTGCATCTTGTC
326 GTCGTTTCCCCTCCACTTGACAAACAACTTTACAGCTTGAAGAATCGCCAATAGTGCATCTTGTC
45519715 CATGATCGAGCTCACCCAACGGTTTAGGAAACATGTGGTCCCTAAGTATGCCGCCACAACCATCT
391 CATGATCGAGCTCACCCAACGGTTTAGGAAACATGTGGTCCCTAAGTATGCCGCCACAACCATCT
45519780 AATTAGTTTTACATTTATTTTCCATAGTTTAGGAGAAACAATTCAACTTTTAAATCACTTGAAGA
456 AATTAGTTTTACATTTATTTTCCATAGTTTAGGAGAAACAATTCAACTTTTAAATCACTTGAAGA
45519845 TTGCAATAACTCAATTGAGATTTATTTAATGTTACGTTTTCTTAGTTTTATTTATCTCTCTTTGG
521 TTGCAATAACTCAATTGAGATTTATTTAATGTTACGTTTTCTTAGTTTTATTTATCTCTCTTTGG
45519910 TTATACTTTAATTTTACCTCATTTATGTTACTTGCAAAGATACAATGCATTAAATCATTATTAAG
586 TTATACTTTAATTTTACCTCATTTATGTTACTTGCAAAGATACAATGCATTAAATCATTATTAAG
45519975 ATTAGGAAATCCGTAAGTTAATGGCTTAGTAATCGAAACAAGATTAAACACTAATTTAGAAAATA
651 ATTAGGAAATCCGTAAGTTAATGGCTTAGTAATCGAAACAAGATTAAACACTAATTTAGAAAATA
45520040 TGATTACGTTTTAACTTTCTTTATTTTAACTCAAGTCGTTAA
716 TGATTACGTTTTAACTTTCTTTATTTTAACTCAAGTCGTTAA
45520082 TCACCTCAACTGGTGATTTTTTTTTTTTTGCTATATAAAACAGTTTTATTATTAAAAATATTCAA
1 TCACCTCAACTGGTGATTTTTTTTTTTTTGCTATATAAAACAGTTTTATTATTAAAAATATTCAA
45520147 GTATCAGGAGCAAAGACCCATAAAATGTTGGACCTAATTGAAGCTTCAAATAGCTCACAATGGTC
66 GTATCAGGAGCAAAGACCCATAAAATGTTGGACCTAATTGAAGCTTCAAATAGCTCACAATGGTC
45520212 GGTGCTCGTTTTTGTTAAATAGAATGCCCACCTATTCGATTCTAGCCAAACATACACAAACTTAG
131 GGTGCTCGTTTTTGTTAAATAGAATGCCCACCTATTCGATTCTAGCCAAACATACACAAACTTAG
45520277 TGAAGCCGACTGAAGCAACATATGCATCAATACATTTAAAGATCTCATTTAATGTCCCAGGGCGA
196 TGAAGCCGACTGAAGCAACATATGCATCAATACATTTAAAGATCTCATTTAATGTCCCAGGGCGA
45520342 AGATGGTTGTTCGAACACCAAGAGATAGTGTGAGCAGAGTCATATTCAATAACGAGGCTTTGTGA
261 AGATGGTTGTTCGAACACCAAGAGATAGTGTGAGCAGAGTCATATTCAATAACGAGGCTTTGTGA
45520407 GTCGTTTCCCCTCCACTTGACAAACAACTTTACAGCTTGAAGAATCGCCAATAGTGCATCTTGTC
326 GTCGTTTCCCCTCCACTTGACAAACAACTTTACAGCTTGAAGAATCGCCAATAGTGCATCTTGTC
45520472 CATGATCGAGCTCACCCAACGGTTTAGGAAACATGTGGTCCCTAAGTATGCCGCCACAACCATCT
391 CATGATCGAGCTCACCCAACGGTTTAGGAAACATGTGGTCCCTAAGTATGCCGCCACAACCATCT
45520537 AATTAGTTTTACATTTATTTTCCATAGTTTAGGAGAAACAATTCAACTTTTAAATCACTTGAAGA
456 AATTAGTTTTACATTTATTTTCCATAGTTTAGGAGAAACAATTCAACTTTTAAATCACTTGAAGA
45520602 TTGCAATAACTCAATTGAGATTTATTTAATGTTACGTTTTCTTAGTTTTATTTATCTCTCTTTGG
521 TTGCAATAACTCAATTGAGATTTATTTAATGTTACGTTTTCTTAGTTTTATTTATCTCTCTTTGG
*
45520667 TTATACTTTAATTTTACCTCATTTATGTTACTTGCAAATATACAATGCATTAAATCATTATTAAG
586 TTATACTTTAATTTTACCTCATTTATGTTACTTGCAAAGATACAATGCATTAAATCATTATTAAG
45520732 ATTAGGAAATCCGTAAGTTAATGGCTTAGTAATCGAAACAAGATTAAACACTAATTTAGAAAATA
651 ATTAGGAAATCCGTAAGTTAATGGCTTAGTAATCGAAACAAGATTAAACACTAATTTAGAAAATA
45520797 TGATTACGTTTTAACTTTCTTTATTTTAACTCAAGTCGTTAA
716 TGATTACGTTTTAACTTTCTTTATTTTAACTCAAGTCGTTAA
45520839 T
1 T
45520840 TTTAGATGAT
Statistics
Matches: 1514, Mismatches: 1, Indels: 3
1.00 0.00 0.00
Matches are distributed among these distances:
757 1498 0.99
760 16 0.01
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34
Consensus pattern (757 bp):
TCACCTCAACTGGTGATTTTTTTTTTTTTGCTATATAAAACAGTTTTATTATTAAAAATATTCAA
GTATCAGGAGCAAAGACCCATAAAATGTTGGACCTAATTGAAGCTTCAAATAGCTCACAATGGTC
GGTGCTCGTTTTTGTTAAATAGAATGCCCACCTATTCGATTCTAGCCAAACATACACAAACTTAG
TGAAGCCGACTGAAGCAACATATGCATCAATACATTTAAAGATCTCATTTAATGTCCCAGGGCGA
AGATGGTTGTTCGAACACCAAGAGATAGTGTGAGCAGAGTCATATTCAATAACGAGGCTTTGTGA
GTCGTTTCCCCTCCACTTGACAAACAACTTTACAGCTTGAAGAATCGCCAATAGTGCATCTTGTC
CATGATCGAGCTCACCCAACGGTTTAGGAAACATGTGGTCCCTAAGTATGCCGCCACAACCATCT
AATTAGTTTTACATTTATTTTCCATAGTTTAGGAGAAACAATTCAACTTTTAAATCACTTGAAGA
TTGCAATAACTCAATTGAGATTTATTTAATGTTACGTTTTCTTAGTTTTATTTATCTCTCTTTGG
TTATACTTTAATTTTACCTCATTTATGTTACTTGCAAAGATACAATGCATTAAATCATTATTAAG
ATTAGGAAATCCGTAAGTTAATGGCTTAGTAATCGAAACAAGATTAAACACTAATTTAGAAAATA
TGATTACGTTTTAACTTTCTTTATTTTAACTCAAGTCGTTAA
Found at i:45521758 original size:20 final size:22
Alignment explanation
Indices: 45521715--45521765 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
45521705 CAAGATCCTC
*
45521715 CAAACTAAATAAAAATATATAA
1 CAAATTAAATAAAAATATATAA
*
45521737 CAAATTAAAT-AAATTATA-AA
1 CAAATTAAATAAAAATATATAA
*
45521757 CATATTAAA
1 CAAATTAAA
45521766 AATGCCCCGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 10 0.38
21 7 0.27
22 9 0.35
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (22 bp):
CAAATTAAATAAAAATATATAA
Found at i:45541064 original size:3 final size:3
Alignment explanation
Indices: 45541046--45541086 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
45541036 TCTCATACCC
* *
45541046 CTT CTT CCT CTC CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
45541087 GACACATCAC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (3 bp):
CTT
Found at i:45546412 original size:35 final size:35
Alignment explanation
Indices: 45546373--45546445 Score: 119
Period size: 35 Copynumber: 2.1 Consensus size: 35
45546363 TGCGCATACT
45546373 TTTGTTGCAACATAGAACCTGAATTTGTGCATGTA
1 TTTGTTGCAACATAGAACCTGAATTTGTGCATGTA
** *
45546408 TTTGTTGCAACATAGAATTTGAATTTGTGTATGTA
1 TTTGTTGCAACATAGAACCTGAATTTGTGCATGTA
45546443 TTT
1 TTT
45546446 TGTGAAGTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.27, C:0.10, G:0.19, T:0.44
Consensus pattern (35 bp):
TTTGTTGCAACATAGAACCTGAATTTGTGCATGTA
Found at i:45549236 original size:19 final size:17
Alignment explanation
Indices: 45549203--45549249 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
45549193 ATACGTATTT
*
45549203 TAATACATA-AAAATATA
1 TAATAGATATAAAATA-A
45549220 TATATAGATATAAAATAA
1 TA-ATAGATATAAAATAA
*
45549238 TAATATATATAA
1 TAATAGATATAA
45549250 TATACATGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 11 0.42
18 9 0.35
19 6 0.23
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (17 bp):
TAATAGATATAAAATAA
Found at i:45549368 original size:3 final size:3
Alignment explanation
Indices: 45549360--45549402 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
45549350 AAACAATTAT
45549360 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
45549403 AGGTACTACA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:45550406 original size:16 final size:17
Alignment explanation
Indices: 45550377--45550408 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
45550367 GCGGTGGTGG
45550377 CGTGACGTTGGCGGCGA
1 CGTGACGTTGGCGGCGA
45550394 CGTGACG-TGGCGGCG
1 CGTGACGTTGGCGGCG
45550409 GTGGCAGAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.09, C:0.25, G:0.50, T:0.16
Consensus pattern (17 bp):
CGTGACGTTGGCGGCGA
Found at i:45552359 original size:15 final size:17
Alignment explanation
Indices: 45552339--45552381 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
45552329 TTGTCGTGTC
45552339 ATTAAATATTT-AAA-A
1 ATTAAATATTTCAAATA
*
45552354 ATTAAAAATTTCAAATA
1 ATTAAATATTTCAAATA
*
45552371 AATAAATATTT
1 ATTAAATATTT
45552382 TTAATAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 10 0.43
16 3 0.13
17 10 0.43
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTAAATATTTCAAATA
Found at i:45553024 original size:17 final size:19
Alignment explanation
Indices: 45552988--45553026 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
45552978 TTGAATATTG
*
45552988 TTTTAAAATATTTTATTAA
1 TTTTAAAATATTTTAATAA
45553007 TTTT-AAAT-TTTTAATAA
1 TTTTAAAATATTTTAATAA
45553024 TTT
1 TTT
45553027 CTTATAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 11 0.58
18 4 0.21
19 4 0.21
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTAAAATATTTTAATAA
Found at i:45553036 original size:28 final size:27
Alignment explanation
Indices: 45552988--45553041 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
45552978 TTGAATATTG
*
45552988 TTTTAAAATATTTTATTAATTTTAAAT
1 TTTTAAAATATTTTATAAATTTTAAAT
45553015 TTTTAATAAT-TTCTTATAAATTTTAAA
1 TTTTAA-AATATT-TTATAAATTTTAAA
45553042 CCGATTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 8 0.33
28 16 0.67
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (27 bp):
TTTTAAAATATTTTATAAATTTTAAAT
Found at i:45559039 original size:47 final size:47
Alignment explanation
Indices: 45558981--45559092 Score: 170
Period size: 47 Copynumber: 2.4 Consensus size: 47
45558971 ATTCGGTCGG
* * *
45558981 TTAACCAAATTAAGCGAAAATTATATGTTTTTATTTTTTAAAAAAAA
1 TTAACCGAATTAACCGAAAATTATATGTTTTTATTTTTGAAAAAAAA
***
45559028 TTAACCGAATTAACCGAAAATTATATGTTTTTATTTTTGGTTAAAAA
1 TTAACCGAATTAACCGAAAATTATATGTTTTTATTTTTGAAAAAAAA
45559075 TTAACCGAATTAACCGAA
1 TTAACCGAATTAACCGAA
45559093 TTGAATCACT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 59 1.00
ACGTcount: A:0.43, C:0.10, G:0.09, T:0.38
Consensus pattern (47 bp):
TTAACCGAATTAACCGAAAATTATATGTTTTTATTTTTGAAAAAAAA
Found at i:45559137 original size:37 final size:37
Alignment explanation
Indices: 45559093--45559163 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
45559083 ATTAACCGAA
*
45559093 TTGAATCACTACATAATTAAAAATATTACATAAGCCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGCCT
45559130 TTGAATCACTACATAATTAAAAACATTACATAAG
1 TTGAATCACTACATAATTAAAAACATTACATAAG
45559164 TCTTGAAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.48, C:0.15, G:0.06, T:0.31
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAACATTACATAAGCCT
Found at i:45559161 original size:17 final size:17
Alignment explanation
Indices: 45559102--45559162 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
45559092 ATTGAATCAC
*
45559102 TACATAATTAAAAATAT
1 TACATAATTAAAAACAT
** * *
45559119 TACATAAGCCTTTGAATCAC
1 TACATAA---TTAAAAACAT
45559139 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
45559156 TACATAA
1 TACATAA
45559163 GTCTTGAAAT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
17 20 0.62
20 12 0.38
ACGTcount: A:0.51, C:0.15, G:0.03, T:0.31
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:45559181 original size:37 final size:37
Alignment explanation
Indices: 45559093--45559184 Score: 116
Period size: 37 Copynumber: 2.5 Consensus size: 37
45559083 ATTAACCGAA
* *
45559093 TTGAATCACTACATAATTAAAAATATTACATAAGCCT
1 TTGAATAACTACATAATTAAAAACATTACATAAGCCT
* *
45559130 TTGAATCACTACATAATTAAAAACATTACATAAGTC-
1 TTGAATAACTACATAATTAAAAACATTACATAAGCCT
45559166 TTGAAATTAAC-ACATAATT
1 TTG-AA-TAACTACATAATT
45559185 GAAATGTAAG
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
36 3 0.06
37 44 0.88
38 3 0.06
ACGTcount: A:0.47, C:0.15, G:0.05, T:0.33
Consensus pattern (37 bp):
TTGAATAACTACATAATTAAAAACATTACATAAGCCT
Found at i:45559326 original size:24 final size:23
Alignment explanation
Indices: 45559279--45559326 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
45559269 AACATGTGCC
* * *
45559279 TATTTATATATTATTTTTATTTT
1 TATTTATAAATTATTTGTAATTT
45559302 TATTTATTAAATTATTTGTAATTT
1 TATTTA-TAAATTATTTGTAATTT
45559326 T
1 T
45559327 TATGATTGGG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (23 bp):
TATTTATAAATTATTTGTAATTT
Found at i:45561107 original size:2 final size:2
Alignment explanation
Indices: 45561100--45561191 Score: 157
Period size: 2 Copynumber: 46.0 Consensus size: 2
45561090 AGAATTCCAT
45561100 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
* *
45561142 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA TA TA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
*
45561184 CG CA CA CA
1 CA CA CA CA
45561192 TCTTGACTTA
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 86 1.00
ACGTcount: A:0.49, C:0.48, G:0.01, T:0.02
Consensus pattern (2 bp):
CA
Found at i:45568384 original size:16 final size:17
Alignment explanation
Indices: 45568363--45568398 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
45568353 ATATAAAATA
*
45568363 CATAAAATG-TTTATAT
1 CATAAAATGATATATAT
45568379 CATAAAATGATATATAT
1 CATAAAATGATATATAT
45568396 CAT
1 CAT
45568399 GTCCTAATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.47, C:0.08, G:0.06, T:0.39
Consensus pattern (17 bp):
CATAAAATGATATATAT
Found at i:45580961 original size:45 final size:44
Alignment explanation
Indices: 45580872--45580964 Score: 136
Period size: 44 Copynumber: 2.1 Consensus size: 44
45580862 ATTACAACAT
45580872 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
*
45580916 CATTCCATTCAACCAAACA-ATTGAATTACTATTAC-GTCTCTATTC
1 CATTCCATTCAACCAAACACA-AGAA-TACTATTACAGT-TCTATTC
45580961 CATT
1 CATT
45580965 ACAGCTCTAT
Statistics
Matches: 45, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
43 1 0.02
44 24 0.53
45 20 0.44
ACGTcount: A:0.35, C:0.27, G:0.04, T:0.33
Consensus pattern (44 bp):
CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
Found at i:45580972 original size:16 final size:16
Alignment explanation
Indices: 45580953--45580983 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
45580943 ACTATTACGT
45580953 CTCTATTCCATTACAG
1 CTCTATTCCATTACAG
45580969 CTCTATTCCATTACA
1 CTCTATTCCATTACA
45580984 ACGAACCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.32, G:0.03, T:0.39
Consensus pattern (16 bp):
CTCTATTCCATTACAG
Found at i:45584758 original size:14 final size:14
Alignment explanation
Indices: 45584718--45584752 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
45584708 GATCACATTT
45584718 TAAATAATTAT-CAA
1 TAAAT-ATTATACAA
45584732 TAAATATTATACAA
1 TAAATATTATACAA
45584746 TAAATAT
1 TAAATAT
45584753 AGTACACTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 5 0.25
14 15 0.75
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (14 bp):
TAAATATTATACAA
Found at i:45584818 original size:19 final size:19
Alignment explanation
Indices: 45584796--45584833 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
45584786 AGAGTTTGGT
45584796 GCACATTACATTTTTTGCC
1 GCACATTACATTTTTTGCC
45584815 GCACATTACATTTTTTGCC
1 GCACATTACATTTTTTGCC
45584834 ATACTATTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (19 bp):
GCACATTACATTTTTTGCC
Found at i:45584960 original size:20 final size:20
Alignment explanation
Indices: 45584935--45584976 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
45584925 CCTACATAAA
*
45584935 AAAACAA-ATAAAATTATGTT
1 AAAACAACAT-AAATTATCTT
45584955 AAAACAACATAAATTATCTT
1 AAAACAACATAAATTATCTT
45584975 AA
1 AA
45584977 CATAATAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 18 0.90
21 2 0.10
ACGTcount: A:0.60, C:0.10, G:0.02, T:0.29
Consensus pattern (20 bp):
AAAACAACATAAATTATCTT
Found at i:45585037 original size:22 final size:23
Alignment explanation
Indices: 45585012--45585054 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
45585002 TTGTTATTTG
45585012 AATAT-AAT-AAAAACATAAAAAA
1 AATATAAATCAAAAA-ATAAAAAA
45585034 AATATAAATCAAAAAATAAAA
1 AATATAAATCAAAAAATAAAA
45585055 CAGAAACATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 5 0.26
23 9 0.47
24 5 0.26
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.19
Consensus pattern (23 bp):
AATATAAATCAAAAAATAAAAAA
Found at i:45585447 original size:5 final size:5
Alignment explanation
Indices: 45585437--45585535 Score: 62
Period size: 5 Copynumber: 19.4 Consensus size: 5
45585427 TTCTTTTTTC
* * *
45585437 CTTCT CTTCT CTTTT CTT-T TTTCCC CCTTCT CATTCT CTTCT -TTCT
1 CTTCT CTTCT CTTCT CTTCT CTT-CT C-TTCT C-TTCT CTTCT CTTCT
* * *
45585483 -TTCT CTTCT ATTCT CTT-T TTTCC CATTTCT CATTCT CTTCT CTTCT
1 CTTCT CTTCT CTTCT CTTCT CTTCT C--TTCT C-TTCT CTTCT CTTCT
45585529 CTTCT CT
1 CTTCT CT
45585536 ATTCTACTAC
Statistics
Matches: 74, Mismatches: 13, Indels: 14
0.73 0.13 0.14
Matches are distributed among these distances:
4 14 0.19
5 42 0.57
6 12 0.16
7 6 0.08
ACGTcount: A:0.04, C:0.35, G:0.00, T:0.61
Consensus pattern (5 bp):
CTTCT
Found at i:45585454 original size:23 final size:23
Alignment explanation
Indices: 45585428--45585526 Score: 94
Period size: 23 Copynumber: 4.2 Consensus size: 23
45585418 TTTTTCCCTT
*
45585428 TCTTTTTTCCTTCTCTTCTCTTT
1 TCTTTTTTCCTTCTCTTCTCTTC
*
45585451 TCTTTTTTCC--CCCTTCTCATTC
1 TCTTTTTTCCTTCTCTTCTC-TTC
* * *
45585473 TCTTCTTTCTTTCTCTTCTATTC
1 TCTTTTTTCCTTCTCTTCTCTTC
45585496 TCTTTTTTCCCATTTCTCATTCTCTTC
1 TCTTTTTT-CC--TTCTC-TTCTCTTC
45585523 TCTT
1 TCTT
45585527 CTCTTCTCTA
Statistics
Matches: 60, Mismatches: 9, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
21 7 0.12
22 10 0.17
23 20 0.33
24 7 0.12
26 5 0.08
27 11 0.18
ACGTcount: A:0.04, C:0.33, G:0.00, T:0.63
Consensus pattern (23 bp):
TCTTTTTTCCTTCTCTTCTCTTC
Found at i:45585488 original size:45 final size:45
Alignment explanation
Indices: 45585428--45585535 Score: 144
Period size: 45 Copynumber: 2.4 Consensus size: 45
45585418 TTTTTCCCTT
* * * * *
45585428 TCTTTTTTCCTTCTCTTCTCTTTTCTTTTTTCCCCCTTCTCATTC
1 TCTTCTTTCTTTCTCTTCTATTCTCTTTTTTCCCACTTCTCATTC
*
45585473 TCTTCTTTCTTTCTCTTCTATTCTCTTTTTTCCCATTTCTCATTC
1 TCTTCTTTCTTTCTCTTCTATTCTCTTTTTTCCCACTTCTCATTC
45585518 TCTTCTCTTCTCTTCTCT
1 TCTTCT-TTCT-TTCTCT
45585536 ATTCTACTAC
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
45 45 0.82
46 4 0.07
47 6 0.11
ACGTcount: A:0.04, C:0.34, G:0.00, T:0.62
Consensus pattern (45 bp):
TCTTCTTTCTTTCTCTTCTATTCTCTTTTTTCCCACTTCTCATTC
Found at i:45587386 original size:21 final size:21
Alignment explanation
Indices: 45587362--45587442 Score: 94
Period size: 21 Copynumber: 3.9 Consensus size: 21
45587352 TTTGCTTTTT
*
45587362 TTTTAAATCGATTGTTTGTTG
1 TTTTAAATCGATTATTTGTTG
45587383 TTTTAAATCGATTATTT-TCT-
1 TTTTAAATCGATTATTTGT-TG
* * *
45587403 TCTTTGAATCGATTGTTTATTG
1 T-TTTAAATCGATTATTTGTTG
45587425 TTTTAAATCGATTATTTG
1 TTTTAAATCGATTATTTG
45587443 CTTCTTTGAA
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
20 2 0.04
21 46 0.92
22 2 0.04
ACGTcount: A:0.22, C:0.07, G:0.14, T:0.57
Consensus pattern (21 bp):
TTTTAAATCGATTATTTGTTG
Found at i:45587414 original size:42 final size:42
Alignment explanation
Indices: 45587367--45587568 Score: 183
Period size: 42 Copynumber: 4.7 Consensus size: 42
45587357 TTTTTTTTTA
*
45587367 AATCGATTGTTTGTTGTTTTAAATCGATTATTTTCTTCTTTG
1 AATCGATTGTTTGTTGTTTTAAATCGATTATTTGCTTCTTTG
*
45587409 AATCGATTGTTTATTGTTTTAAATCGATTATTTGCTTCTTTG
1 AATCGATTGTTTGTTGTTTTAAATCGATTATTTGCTTCTTTG
* * * * * *
45587451 AATCGATTCATTATTGTTTTTTTTTAACCGATTGTTTGTTTCTTTG
1 AATCGATT--GT-TTG-TTGTTTTAAATCGATTATTTGCTTCTTTG
* * * *
45587497 AATCAATTAATTATTGTTGTTTTAAA-CGACTCTTTGCTTCTTTG
1 AATCGATT--GT-TTGTTGTTTTAAATCGATTATTTGCTTCTTTG
** * *
45587541 AATTTATTCTTTGTTG-TTTAACTCGATT
1 AATCGATTGTTTGTTGTTTTAAATCGATT
45587569 CAAACTCTAA
Statistics
Matches: 134, Mismatches: 21, Indels: 11
0.81 0.13 0.07
Matches are distributed among these distances:
40 5 0.04
41 10 0.07
42 49 0.37
44 22 0.16
45 10 0.07
46 38 0.28
ACGTcount: A:0.21, C:0.11, G:0.13, T:0.55
Consensus pattern (42 bp):
AATCGATTGTTTGTTGTTTTAAATCGATTATTTGCTTCTTTG
Found at i:45587454 original size:21 final size:20
Alignment explanation
Indices: 45587388--45587458 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 20
45587378 TGTTGTTTTA
45587388 AATCGATTATTTTCTTCTTTG
1 AATCGATTA-TTTCTTCTTTG
* * * *
45587409 AATCGATTGTTTATTGTTTTA
1 AATCGATTATTTCTT-CTTTG
45587430 AATCGATTATTTGCTTCTTTG
1 AATCGATTATTT-CTTCTTTG
45587451 AATCGATT
1 AATCGATT
45587459 CATTATTGTT
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
20 5 0.12
21 33 0.82
22 2 0.05
ACGTcount: A:0.23, C:0.11, G:0.13, T:0.54
Consensus pattern (20 bp):
AATCGATTATTTCTTCTTTG
Found at i:45587500 original size:46 final size:47
Alignment explanation
Indices: 45587414--45587543 Score: 142
Period size: 46 Copynumber: 2.8 Consensus size: 47
45587404 CTTTGAATCG
* * *
45587414 ATTGTTTATTGTTTTAAATCGATTATTTGCTTCTTTGAATCGATTCATT
1 ATTGTTT-TT-TTTTAAACCGATTATTTGCTTCTTTGAATCAATTAATT
* *
45587463 ATTGTTTTTTTTT-AACCGATTGTTTGTTTCTTTGAATCAATTAATT
1 ATTGTTTTTTTTTAAACCGATTATTTGCTTCTTTGAATCAATTAATT
* * *
45587509 ATTG--TTGTTTTAAA-CGACTCTTTGCTTCTTTGAAT
1 ATTGTTTTTTTTTAAACCGATTATTTGCTTCTTTGAAT
45587544 TTATTCTTTG
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
44 24 0.34
45 2 0.03
46 32 0.45
47 4 0.06
48 2 0.03
49 7 0.10
ACGTcount: A:0.22, C:0.11, G:0.12, T:0.55
Consensus pattern (47 bp):
ATTGTTTTTTTTTAAACCGATTATTTGCTTCTTTGAATCAATTAATT
Found at i:45589631 original size:10 final size:10
Alignment explanation
Indices: 45589616--45589648 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
45589606 TTTGTGTACT
45589616 TACATATATA
1 TACATATATA
45589626 TAC--ATATA
1 TACATATATA
45589634 TACATATATA
1 TACATATATA
45589644 TACAT
1 TACAT
45589649 TATTCCCTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
8 8 0.38
10 13 0.62
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (10 bp):
TACATATATA
Found at i:45591600 original size:18 final size:18
Alignment explanation
Indices: 45591577--45591643 Score: 53
Period size: 18 Copynumber: 3.7 Consensus size: 18
45591567 TTATATCTCC
*
45591577 TAATATTATATTTTAAAT
1 TAATATTATAATTTAAAT
* *** **
45591595 TAATATTTTCCCTTATTT
1 TAATATTATAATTTAAAT
45591613 TTAATATTATAATTTAAAT
1 -TAATATTATAATTTAAAT
*
45591632 TAATATTCTAAT
1 TAATATTATAAT
45591644 AAATATATTT
Statistics
Matches: 35, Mismatches: 13, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
18 23 0.66
19 12 0.34
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (18 bp):
TAATATTATAATTTAAAT
Found at i:45591660 original size:14 final size:13
Alignment explanation
Indices: 45591633--45591682 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
45591623 AATTTAAATT
45591633 AATATTCTAA-TAA
1 AATATT-TAATTAA
45591646 ATATATTTAATTAA
1 A-ATATTTAATTAA
*
45591660 AATAATCTAATTAA
1 AAT-ATTTAATTAA
45591674 AAT-TTTAAT
1 AATATTTAAT
45591683 GATATTTTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
12 5 0.16
13 6 0.19
14 21 0.66
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (13 bp):
AATATTTAATTAA
Found at i:45591841 original size:20 final size:20
Alignment explanation
Indices: 45591798--45591838 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
45591788 TTATTTAATT
45591798 ATAAGAAAAATAATAAAAGA
1 ATAAGAAAAATAATAAAAGA
45591818 ATAATGAAAAGATAA-AAAAGA
1 ATAA-GAAAA-ATAATAAAAGA
45591839 TAAAAGATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.21
21 11 0.58
22 4 0.21
ACGTcount: A:0.73, C:0.00, G:0.12, T:0.15
Consensus pattern (20 bp):
ATAAGAAAAATAATAAAAGA
Found at i:45593070 original size:18 final size:18
Alignment explanation
Indices: 45593047--45593081 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
45593037 TGTGGATAGG
45593047 CCGTGTAAAAAACTAAAA
1 CCGTGTAAAAAACTAAAA
*
45593065 CCGTGTGAAAAACTAAA
1 CCGTGTAAAAAACTAAA
45593082 TGACCAAATC
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:0.51, C:0.17, G:0.14, T:0.17
Consensus pattern (18 bp):
CCGTGTAAAAAACTAAAA
Found at i:45598845 original size:16 final size:16
Alignment explanation
Indices: 45598824--45598859 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
45598814 TGTTTAAGAA
*
45598824 ATTATTATTATATTAC
1 ATTATTATAATATTAC
*
45598840 ATTATTATAATATTAT
1 ATTATTATAATATTAC
45598856 ATTA
1 ATTA
45598860 ACTAAATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTATTATAATATTAC
Found at i:45600979 original size:20 final size:20
Alignment explanation
Indices: 45600954--45600994 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
45600944 TTAAAAATTT
* *
45600954 ATAAAATTATAAAAATTAAA
1 ATAAAAGTAAAAAAATTAAA
45600974 ATAAAAGTAAAAAAATTAAA
1 ATAAAAGTAAAAAAATTAAA
45600994 A
1 A
45600995 AAATAGATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (20 bp):
ATAAAAGTAAAAAAATTAAA
Found at i:45600998 original size:9 final size:9
Alignment explanation
Indices: 45600946--45600998 Score: 52
Period size: 9 Copynumber: 5.7 Consensus size: 9
45600936 AATTCTTTTT
*
45600946 AAAAATTTA
1 AAAAATTAA
* *
45600955 TAAAATTAT
1 AAAAATTAA
45600964 AAAAATTAAA
1 AAAAATT-AA
*
45600974 ATAAAAGTAA
1 A-AAAATTAA
45600984 AAAAATTAA
1 AAAAATTAA
45600993 AAAAAT
1 AAAAAT
45600999 AGATAAAGTG
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
9 25 0.71
10 5 0.14
11 5 0.14
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (9 bp):
AAAAATTAA
Found at i:45601870 original size:7 final size:7
Alignment explanation
Indices: 45601858--45601887 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
45601848 GGTTGAAATA
45601858 AATTCAT
1 AATTCAT
45601865 AATTCAT
1 AATTCAT
45601872 AATTCAT
1 AATTCAT
45601879 AATT-AT
1 AATTCAT
45601885 AAT
1 AAT
45601888 AATTCAAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.22
7 18 0.78
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.43
Consensus pattern (7 bp):
AATTCAT
Found at i:45604728 original size:25 final size:25
Alignment explanation
Indices: 45604641--45604728 Score: 99
Period size: 25 Copynumber: 3.6 Consensus size: 25
45604631 TTACATGTAT
*
45604641 GCTCATACGAGC-GATAAAT-GGTAA
1 GCTCATACGAGCTGA-ATATCGGTAA
* *
45604665 GCTCATTCGAGCTAAATATCGGTAA
1 GCTCATACGAGCTGAATATCGGTAA
* *
45604690 ACTCATACGAGCTGAGTATCGGTAA
1 GCTCATACGAGCTGAATATCGGTAA
*
45604715 GCTCATAAGAGCTG
1 GCTCATACGAGCTG
45604729 GAATTGGTAA
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
24 14 0.26
25 39 0.74
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (25 bp):
GCTCATACGAGCTGAATATCGGTAA
Found at i:45607771 original size:21 final size:21
Alignment explanation
Indices: 45607717--45607776 Score: 77
Period size: 20 Copynumber: 2.8 Consensus size: 21
45607707 ATATTTTTTA
45607717 TTTTTTAAAATATTTTAAAATAC
1 TTTTTT-AAAT-TTTTAAAATAC
*
45607740 TTTTTT-TATTTTTAAAATAC
1 TTTTTTAAATTTTTAAAATAC
*
45607760 TTTTTTAAATTTATAAA
1 TTTTTTAAATTTTTAAA
45607777 TTTTTTTTGG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 17 0.52
21 10 0.30
23 6 0.18
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.58
Consensus pattern (21 bp):
TTTTTTAAATTTTTAAAATAC
Found at i:45612825 original size:20 final size:20
Alignment explanation
Indices: 45612802--45612848 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
45612792 ATTAAAAACA
*
45612802 AAAT-TTTATCTTTATTTATC
1 AAATATTTATCTTAATTT-TC
*
45612822 AAATATTTCTCTTAATTTTC
1 AAATATTTATCTTAATTTTC
*
45612842 AATTATT
1 AAATATT
45612849 AGAATATGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.32, C:0.11, G:0.00, T:0.57
Consensus pattern (20 bp):
AAATATTTATCTTAATTTTC
Found at i:45613922 original size:19 final size:21
Alignment explanation
Indices: 45613884--45613924 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
45613874 TGAAATTCCA
*
45613884 AAATTAAAAAGTACAAGGATT
1 AAATTAAAAAGTAAAAGGATT
45613905 AAATT-AAAA-TAAAAGGATT
1 AAATTAAAAAGTAAAAGGATT
45613924 A
1 A
45613925 TATCCATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 10 0.53
20 4 0.21
21 5 0.26
ACGTcount: A:0.61, C:0.02, G:0.12, T:0.24
Consensus pattern (21 bp):
AAATTAAAAAGTAAAAGGATT
Found at i:45621985 original size:109 final size:110
Alignment explanation
Indices: 45621771--45622075 Score: 424
Period size: 109 Copynumber: 2.8 Consensus size: 110
45621761 ATATTTGGCA
* * *
45621771 ATTTGGTTTAACGAG--AAATCGAAACCCAGCACATTAGGGCACGTTTT-TCGAATTTCCAAACG
1 ATTTGGTTAAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTCGAATTTCCAAACG
*
45621833 CAAAACATTGCCTTATTTTGAAATTTTTAAAAAGGATATTAAGCC
66 CAAAACATTGCCTTATTTTGAAATCTTTAAAAAGGATATTAAGCC
* * *
45621878 ATTTGGTTAAACGAGAAAAATCGACACCCAACACCTTAGGGCATGTTTTCTCGAATTTTCAAACG
1 ATTTGGTTAAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTCGAATTTCCAAACG
45621943 CAAAACATTGCCTTATTTTTG-AATCTTT-AAAAGGATATTAAGCC
66 CAAAACATTGCCTTA-TTTTGAAATCTTTAAAAAGGATATTAAGCC
* * *
45621987 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTATGACACGTTTTCTCGAATTTCCAAGA-
1 ATTTGGTTAAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTCGAATTTCCAA-AC
* * * *
45622051 GCTAAATATTGCCTCAATTTGAAAT
65 GCAAAACATTGCCTTATTTTGAAAT
45622076 ATTTTCCTTT
Statistics
Matches: 175, Mismatches: 17, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
107 14 0.08
108 4 0.02
109 116 0.66
110 36 0.21
111 5 0.03
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.30
Consensus pattern (110 bp):
ATTTGGTTAAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTCGAATTTCCAAACG
CAAAACATTGCCTTATTTTGAAATCTTTAAAAAGGATATTAAGCC
Found at i:45623744 original size:13 final size:13
Alignment explanation
Indices: 45623726--45623752 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
45623716 CTAGTGCGGC
45623726 GCCTAGGGTTTCT
1 GCCTAGGGTTTCT
45623739 GCCTAGGGTTTCT
1 GCCTAGGGTTTCT
45623752 G
1 G
45623753 TTTTTGAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.22, G:0.33, T:0.37
Consensus pattern (13 bp):
GCCTAGGGTTTCT
Found at i:45641121 original size:31 final size:32
Alignment explanation
Indices: 45641085--45641146 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
45641075 CTTAGATAAT
45641085 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
*
45641116 TTTAAAGAGTTTTTATTATGATTCAATTACT
1 TTTAAAGAGTTTTTATTAGGATTCAATTACT
45641147 ATTGTAATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 9 0.31
32 20 0.69
ACGTcount: A:0.32, C:0.08, G:0.11, T:0.48
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATTAGGATTCAATTACTC
Found at i:45642598 original size:20 final size:20
Alignment explanation
Indices: 45642564--45642605 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
45642554 AACTATTTAA
** *
45642564 ATAATATTATTTAAATAGTT
1 ATAATATTAAATAAATAATT
45642584 ATAATATTAAATAAATAATT
1 ATAATATTAAATAAATAATT
45642604 AT
1 AT
45642606 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATAAATAATT
Found at i:45651989 original size:43 final size:43
Alignment explanation
Indices: 45651931--45652083 Score: 220
Period size: 43 Copynumber: 3.6 Consensus size: 43
45651921 CAATGCCTAC
* * * *
45651931 GTCCCAGAC-GAGGTCTTGCATGT-AATCAAATATCGATGCCACT
1 GTCCCAGACAG-GGTCTTACACGTAAATCATATA-CGATGCCAAT
45651974 GTCCCAGACAGGGTCTTACACGTAAATCATATACGATGCCAAT
1 GTCCCAGACAGGGTCTTACACGTAAATCATATACGATGCCAAT
*
45652017 GTCCCAGACATGGTCTTACACGTAAATCATATACGATGCCAAT
1 GTCCCAGACAGGGTCTTACACGTAAATCATATACGATGCCAAT
*
45652060 GTCCCAGACATGGTCTTACACGTA
1 GTCCCAGACAGGGTCTTACACGTA
45652084 GATCTCAAAT
Statistics
Matches: 103, Mismatches: 5, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
43 94 0.91
44 9 0.09
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (43 bp):
GTCCCAGACAGGGTCTTACACGTAAATCATATACGATGCCAAT
Found at i:45652118 original size:44 final size:43
Alignment explanation
Indices: 45651932--45652120 Score: 179
Period size: 43 Copynumber: 4.4 Consensus size: 43
45651922 AATGCCTACG
* * * * *
45651932 TCCCAGACGA-GGTCTTGCATGT-AATCAAATATCGATGCCACTG
1 TCCCAGAC-ATGGTCTTACACGTAAATCAAATA-CAATGCCAATA
* * * *
45651975 TCCCAGACAGGGTCTTACACGTAAATCATATACGATGCCAATG
1 TCCCAGACATGGTCTTACACGTAAATCAAATACAATGCCAATA
* * *
45652018 TCCCAGACATGGTCTTACACGTAAATCATATACGATGCCAATG
1 TCCCAGACATGGTCTTACACGTAAATCAAATACAATGCCAATA
*
45652061 TCCCAGACATGGTCTTACACGTAGATCTCAAAT-CAATGCC-ATCA
1 TCCCAGACATGGTCTTACACGTA-A-ATCAAATACAATGCCAAT-A
*
45652105 TCCCAGACGTGGTCTT
1 TCCCAGACATGGTCTT
45652121 TCACAATATT
Statistics
Matches: 131, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
42 1 0.01
43 95 0.73
44 30 0.23
45 5 0.04
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACGTAAATCAAATACAATGCCAATA
Found at i:45657482 original size:71 final size:71
Alignment explanation
Indices: 45657390--45657562 Score: 179
Period size: 71 Copynumber: 2.4 Consensus size: 71
45657380 TAAACAAACC
* * * ** *
45657390 TTAGCTTCAATGTTGGCTGGTCTTGAGACAAATGGACTTTTATCTTGAGACAGGGGCA-C-TTGA
1 TTAGCTTCGATGTTGGTTGGTCTCGAGACAAATGGACTTTTATCTCAAGACA-AGGCACCTTTGA
45657453 AGCAATAT
65 AGCAAT-T
* * * * *
45657461 TTAGCTTCGATGTTGGTTGGTCCCGTGACAAATGGGCTTTTGTCTCAAGATAAGGCACCTTTGAA
1 TTAGCTTCGATGTTGGTTGGTCTCGAGACAAATGGACTTTTATCTCAAGACAAGGCACCTTTGAA
*
45657526 GTAATT
66 GCAATT
* * *
45657532 TTAGCTTTGATATTGGTTTGTCTCGAGACAA
1 TTAGCTTCGATGTTGGTTGGTCTCGAGACAA
45657563 TGCTTGTGTC
Statistics
Matches: 83, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
70 4 0.05
71 70 0.84
72 9 0.11
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (71 bp):
TTAGCTTCGATGTTGGTTGGTCTCGAGACAAATGGACTTTTATCTCAAGACAAGGCACCTTTGAA
GCAATT
Found at i:45657574 original size:19 final size:19
Alignment explanation
Indices: 45657550--45657601 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
45657540 GATATTGGTT
*
45657550 TGTCTCGAGACAATGCTTG
1 TGTCTCGAGACAAGGCTTG
45657569 TGTCTCGAGACAAGGCTTG
1 TGTCTCGAGACAAGGCTTG
45657588 TGTCTCGAGACAAG
1 TGTCTCGAGACAAG
45657602 ACTCAAATTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (19 bp):
TGTCTCGAGACAAGGCTTG
Found at i:45658340 original size:19 final size:19
Alignment explanation
Indices: 45658318--45658447 Score: 64
Period size: 19 Copynumber: 6.7 Consensus size: 19
45658308 ATGCACCTCC
45658318 TGTGCTAGGATGCACTTTG
1 TGTGCTAGGATGCACTTTG
* ** **
45658337 TGTGCCAATATGTGCTTTG
1 TGTGCTAGGATGCACTTTG
** * *
45658356 TGCCCTAGGAATGCATTTTT
1 TGTGCTAGG-ATGCACTTTG
* *
45658376 TTTGCTAGGATGCACTTCG
1 TGTGCTAGGATGCACTTTG
* * * **
45658395 TGTACCAGTATGTGCTTTG
1 TGTGCTAGGATGCACTTTG
45658414 TGTGCTAGGAATGCA-TTTCG
1 TGTGCTAGG-ATGCACTTT-G
* *
45658434 TCTGCTAGTATGCA
1 TGTGCTAGGATGCA
45658448 TTATACGTGC
Statistics
Matches: 74, Mismatches: 34, Indels: 6
0.65 0.30 0.05
Matches are distributed among these distances:
19 51 0.69
20 23 0.31
ACGTcount: A:0.18, C:0.18, G:0.26, T:0.38
Consensus pattern (19 bp):
TGTGCTAGGATGCACTTTG
Found at i:45658382 original size:58 final size:58
Alignment explanation
Indices: 45658320--45658431 Score: 179
Period size: 58 Copynumber: 1.9 Consensus size: 58
45658310 GCACCTCCTG
* *
45658320 TGCTAGGATGCACTTTGTGTGCCAATATGTGCTTTGTGCCCTAGGAATGCATTTTTTT
1 TGCTAGGATGCACTTCGTGTACCAATATGTGCTTTGTGCCCTAGGAATGCATTTTTTT
* **
45658378 TGCTAGGATGCACTTCGTGTACCAGTATGTGCTTTGTGTGCTAGGAATGCATTT
1 TGCTAGGATGCACTTCGTGTACCAATATGTGCTTTGTGCCCTAGGAATGCATTT
45658432 CGTCTGCTAG
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
58 49 1.00
ACGTcount: A:0.18, C:0.17, G:0.26, T:0.39
Consensus pattern (58 bp):
TGCTAGGATGCACTTCGTGTACCAATATGTGCTTTGTGCCCTAGGAATGCATTTTTTT
Found at i:45658440 original size:58 final size:58
Alignment explanation
Indices: 45658320--45658447 Score: 175
Period size: 58 Copynumber: 2.2 Consensus size: 58
45658310 GCACCTCCTG
* * ** *
45658320 TGCTAGGATGCACTTTGTGTGCCAATATGTGCTTTGTGCCCTAGGAATGCATTTTTTT
1 TGCTAGGATGCACTTCGTGTACCAATATGTGCTTTGTGCCCTAGGAATGCATTTCGTC
* **
45658378 TGCTAGGATGCACTTCGTGTACCAGTATGTGCTTTGTGTGCTAGGAATGCATTTCGTC
1 TGCTAGGATGCACTTCGTGTACCAATATGTGCTTTGTGCCCTAGGAATGCATTTCGTC
*
45658436 TGCTAGTATGCA
1 TGCTAGGATGCA
45658448 TTATACGTGC
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
58 61 1.00
ACGTcount: A:0.18, C:0.18, G:0.26, T:0.38
Consensus pattern (58 bp):
TGCTAGGATGCACTTCGTGTACCAATATGTGCTTTGTGCCCTAGGAATGCATTTCGTC
Found at i:45663185 original size:16 final size:17
Alignment explanation
Indices: 45663158--45663193 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
45663148 TTATAATTGG
45663158 ATTGAGAAAATTATTTA
1 ATTGAGAAAATTATTTA
45663175 ATTGA-AAAATTATTTA
1 ATTGAGAAAATTATTTA
45663191 ATT
1 ATT
45663194 TAAATAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.44
Consensus pattern (17 bp):
ATTGAGAAAATTATTTA
Found at i:45670272 original size:31 final size:29
Alignment explanation
Indices: 45670237--45670311 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 29
45670227 AACGGCTCAA
*
45670237 TGACTAAAATGTTACAACACGATAACATAAG
1 TGACTAAAATGTAACAACAC-A-AACATAAG
* ***
45670268 TGACTAAAACGTAACATTTCAAACATAAG
1 TGACTAAAATGTAACAACACAAACATAAG
45670297 TGACTAAAATGTAAC
1 TGACTAAAATGTAAC
45670312 CTAAGGTAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 22 0.58
30 1 0.03
31 15 0.39
ACGTcount: A:0.48, C:0.16, G:0.12, T:0.24
Consensus pattern (29 bp):
TGACTAAAATGTAACAACACAAACATAAG
Found at i:45672954 original size:18 final size:18
Alignment explanation
Indices: 45672931--45672970 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
45672921 AATTTGAAAC
45672931 TTTTCTACTAAGGTTTAA
1 TTTTCTACTAAGGTTTAA
**
45672949 TTTTCTACTATTGTTTAA
1 TTTTCTACTAAGGTTTAA
45672967 TTTT
1 TTTT
45672971 ATAAATAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.23, C:0.10, G:0.07, T:0.60
Consensus pattern (18 bp):
TTTTCTACTAAGGTTTAA
Found at i:45675889 original size:3 final size:3
Alignment explanation
Indices: 45675878--45675918 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
45675868 AAAAAAATTG
* *
45675878 TTA TCA TTA TTA TTA TTTA TTG TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA T
45675919 ATTCATATGC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:45675902 original size:22 final size:23
Alignment explanation
Indices: 45675874--45675921 Score: 80
Period size: 22 Copynumber: 2.1 Consensus size: 23
45675864 TTAAAAAAAA
45675874 ATTGTTATCATTATTATTATT-T
1 ATTGTTATCATTATTATTATTAT
*
45675896 ATTGTTATTATTATTATTATTAT
1 ATTGTTATCATTATTATTATTAT
45675919 ATT
1 ATT
45675922 CATATGCATG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 20 0.83
23 4 0.17
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (23 bp):
ATTGTTATCATTATTATTATTAT
Found at i:45675960 original size:21 final size:20
Alignment explanation
Indices: 45675936--45675981 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
45675926 TGCATGCATC
45675936 ATTTTTTTATGTA-ATATAT
1 ATTTTTTTATGTATATATAT
*
45675955 ATATTTTTTATGTATATTTAT
1 AT-TTTTTTATGTATATATAT
45675976 ATTTTT
1 ATTTTT
45675982 AAAACTAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 2 0.08
20 15 0.62
21 7 0.29
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (20 bp):
ATTTTTTTATGTATATATAT
Found at i:45675963 original size:20 final size:19
Alignment explanation
Indices: 45675938--45675981 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
45675928 CATGCATCAT
45675938 TTTTTTATGTAATATATATA
1 TTTTTTATGT-ATATATATA
*
45675958 TTTTTTATGTATATTTATA
1 TTTTTTATGTATATATATA
45675977 TTTTT
1 TTTTT
45675982 AAAACTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (19 bp):
TTTTTTATGTATATATATA
Found at i:45676221 original size:22 final size:22
Alignment explanation
Indices: 45676196--45676240 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
45676186 TATGTGTATA
45676196 TTATATAGCTT-CTGTTCTTTAT
1 TTATATAGCTTGCT-TTCTTTAT
* *
45676218 TTATTTTGCTTGCTTTCTTTAT
1 TTATATAGCTTGCTTTCTTTAT
45676240 T
1 T
45676241 CGCTATTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 18 0.90
23 2 0.10
ACGTcount: A:0.13, C:0.13, G:0.09, T:0.64
Consensus pattern (22 bp):
TTATATAGCTTGCTTTCTTTAT
Found at i:45676316 original size:4 final size:4
Alignment explanation
Indices: 45676307--45676345 Score: 51
Period size: 4 Copynumber: 9.5 Consensus size: 4
45676297 TTGCATGTCA
* *
45676307 TTAT TTAT TTAT TTAT TTAT TCAT TTAT TCAT ATTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT -TTAT TT
45676346 CTATGCCATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
4 27 0.90
5 3 0.10
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (4 bp):
TTAT
Found at i:45688916 original size:20 final size:19
Alignment explanation
Indices: 45688879--45688920 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
45688869 TAGAAAAACA
45688879 TTATTTATTAAAATTTATAT
1 TTATTTATTAAAATTTAT-T
*
45688899 TTATTTTTTCAAAA-TTATT
1 TTATTTATT-AAAATTTATT
45688918 TTA
1 TTA
45688921 AGAAATCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
20 12 0.60
21 4 0.20
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (19 bp):
TTATTTATTAAAATTTATT
Found at i:45689258 original size:29 final size:29
Alignment explanation
Indices: 45689220--45689293 Score: 89
Period size: 28 Copynumber: 2.5 Consensus size: 29
45689210 TTTTTGGCAC
* *
45689220 ATAAAAATATAATTTTTAAAAA-AATTTA
1 ATAAATATATAATTTTAAAAAATAATTTA
45689248 ATTAAATATAT-ATTTTAAAAAATAATTTA
1 A-TAAATATATAATTTTAAAAAATAATTTA
45689277 ATAAATACTAATAATTT
1 ATAAATA-T-ATAATTT
45689294 AACTACATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
28 17 0.44
29 16 0.41
30 2 0.05
31 4 0.10
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (29 bp):
ATAAATATATAATTTTAAAAAATAATTTA
Found at i:45701378 original size:12 final size:13
Alignment explanation
Indices: 45701361--45701393 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
45701351 TTACTATTTT
45701361 AAATTTAAT-AAA
1 AAATTTAATAAAA
45701373 AAATTTAATAAAA
1 AAATTTAATAAAA
45701386 AAATTTAA
1 AAATTTAA
45701394 ATTTTAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
AAATTTAATAAAA
Found at i:45702034 original size:13 final size:13
Alignment explanation
Indices: 45702018--45702044 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
45702008 TAATTAAAGG
45702018 GTTAAAATTTAAA
1 GTTAAAATTTAAA
45702031 GTTAAAATTTAAA
1 GTTAAAATTTAAA
45702044 G
1 G
45702045 ATGATAATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (13 bp):
GTTAAAATTTAAA
Found at i:45707716 original size:66 final size:65
Alignment explanation
Indices: 45707604--45707737 Score: 171
Period size: 66 Copynumber: 2.0 Consensus size: 65
45707594 ACAAATTGCT
*
45707604 CAACTTAAAGCGGAGGAAGCATCAAGAGAAGCAGAGGCTCAAAGAAAATATAAAGAACTCCAGCT
1 CAACTTAAAGCGGAGGAAGCAGCAAGAGAAGCAGAGGC-CAAAGAAAATATAAAGAACTCCAGCT
45707669 A
65 A
* * * * * *
45707670 CAACTTAAAGCGGAGGTAGCAGCGAGGGAAGTAGAGG-CAAGTAGAAAATATGACGAACTCCAGC
1 CAACTTAAAGCGGAGGAAGCAGCAAGAGAAGCAGAGGCCAA--AGAAAATATAAAGAACTCCAGC
45707734 TA
64 TA
45707736 CA
1 CA
45707738 GCTTCAGAAT
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
64 3 0.05
66 56 0.95
ACGTcount: A:0.43, C:0.18, G:0.26, T:0.13
Consensus pattern (65 bp):
CAACTTAAAGCGGAGGAAGCAGCAAGAGAAGCAGAGGCCAAAGAAAATATAAAGAACTCCAGCTA
Found at i:45708111 original size:43 final size:43
Alignment explanation
Indices: 45708033--45708220 Score: 198
Period size: 43 Copynumber: 4.4 Consensus size: 43
45708023 TAGCGGCGTT
* *** *
45708033 TTCTTTAGCGGCGTTTGTAGGAAAAGCGCTGTTAAAGGTTATG
1 TTCTATAGCGGCGTTTGTAGGAAAAGCGCCACTAAAGGTCATG
* * * *
45708076 TTCTATAGTGGCGTTTGTTAGG-AAAGCCCCATTAAAGGTCAAG
1 TTCTATAGCGGCGTTTG-TAGGAAAAGCGCCACTAAAGGTCATG
* * * * *
45708119 TTCTTTAGTGGTGTTTGTGGGAAAAGCGCCGCTAAAGGTCATG
1 TTCTATAGCGGCGTTTGTAGGAAAAGCGCCACTAAAGGTCATG
* * * *
45708162 TTCTATAACGGCATTTGTGGGAAAAGCACCACTAAAGGTCATG
1 TTCTATAGCGGCGTTTGTAGGAAAAGCGCCACTAAAGGTCATG
45708205 TTCTATAGCGGCGTTT
1 TTCTATAGCGGCGTTT
45708221 TTCCACATAA
Statistics
Matches: 120, Mismatches: 23, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
42 3 0.03
43 113 0.94
44 4 0.03
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (43 bp):
TTCTATAGCGGCGTTTGTAGGAAAAGCGCCACTAAAGGTCATG
Found at i:45708179 original size:86 final size:86
Alignment explanation
Indices: 45708033--45708220 Score: 234
Period size: 86 Copynumber: 2.2 Consensus size: 86
45708023 TAGCGGCGTT
* * * ** *
45708033 TTCTTTAGCGGCGTTTGTAGGAAAAGCGCTGTTAAAGGTTATGTTCTATAGTGGCGTTTGTTAGG
1 TTCTTTAGCGGCGTTTGTAGGAAAAGCGCCGCTAAAGGTCATGTTCTATAACGGCATTTG-TAGG
* *
45708098 -AAAGCCCCATTAAAGGTCAAG
65 AAAAGCACCACTAAAGGTCAAG
* * * *
45708119 TTCTTTAGTGGTGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTCTATAACGGCATTTGTGGGA
1 TTCTTTAGCGGCGTTTGTAGGAAAAGCGCCGCTAAAGGTCATGTTCTATAACGGCATTTGTAGGA
*
45708184 AAAGCACCACTAAAGGTCATG
66 AAAGCACCACTAAAGGTCAAG
*
45708205 TTCTATAGCGGCGTTT
1 TTCTTTAGCGGCGTTT
45708221 TTCCACATAA
Statistics
Matches: 85, Mismatches: 16, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
85 3 0.04
86 82 0.96
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (86 bp):
TTCTTTAGCGGCGTTTGTAGGAAAAGCGCCGCTAAAGGTCATGTTCTATAACGGCATTTGTAGGA
AAAGCACCACTAAAGGTCAAG
Found at i:45709280 original size:20 final size:20
Alignment explanation
Indices: 45709249--45709300 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
45709239 AAACTATGAT
*
45709249 GCATGCTAGTTCTGTTTGAA
1 GCATGCTGGTTCTGTTTGAA
*
45709269 GCATGTTGGTTCTGTTTGAA
1 GCATGCTGGTTCTGTTTGAA
45709289 GCATGCTGGTTC
1 GCATGCTGGTTC
45709301 AGCTTTAGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.15, C:0.15, G:0.29, T:0.40
Consensus pattern (20 bp):
GCATGCTGGTTCTGTTTGAA
Found at i:45709682 original size:14 final size:15
Alignment explanation
Indices: 45709663--45709695 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
45709653 AGACAAAAGG
45709663 TGTTTATTTGTTT-T
1 TGTTTATTTGTTTCT
45709677 TGTTTATTTGTTTCT
1 TGTTTATTTGTTTCT
45709692 TGTT
1 TGTT
45709696 GATGTAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.06, C:0.03, G:0.15, T:0.76
Consensus pattern (15 bp):
TGTTTATTTGTTTCT
Found at i:45710583 original size:21 final size:20
Alignment explanation
Indices: 45710550--45710593 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
45710540 TAAAAATTTA
45710550 ATATTTACATTTCAATATAAT
1 ATATTTACATTTCAATAT-AT
*
45710571 ATATTTA-ATTTTCATTATAT
1 ATATTTACA-TTTCAATATAT
45710591 ATA
1 ATA
45710594 AATTAATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (20 bp):
ATATTTACATTTCAATATAT
Found at i:45711321 original size:22 final size:22
Alignment explanation
Indices: 45711275--45711340 Score: 73
Period size: 22 Copynumber: 3.1 Consensus size: 22
45711265 TCAGTAGGAG
* *
45711275 GGGAA-AACTTAAG-TTTTACA
1 GGGAATAACTTGAGTTTTTATA
*
45711295 AGGAATAACTTGAGTTTTTATA
1 GGGAATAACTTGAGTTTTTATA
* *
45711317 GGGAATAACCTGAATTTTTATA
1 GGGAATAACTTGAGTTTTTATA
45711339 GG
1 GG
45711341 AAAAATCATT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
20 4 0.11
21 7 0.18
22 27 0.71
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.35
Consensus pattern (22 bp):
GGGAATAACTTGAGTTTTTATA
Found at i:45711321 original size:144 final size:135
Alignment explanation
Indices: 45711172--45711426 Score: 298
Period size: 135 Copynumber: 1.8 Consensus size: 135
45711162 TTTTAGTAAA
** **
45711172 AGGGAAAAACATGGGGATTTATAGAGAAAAATCATTTTATATTTTTAATTTCCTTTATATTTT-T
1 AGGGAAAAACATGAAGATTTATAG-GAAAAATCATTTT-TATCATT--TTT--TTTA-ATTTTAT
* **
45711236 CTTTTTCTAGAATTAATTTTAATTTTTTTTCAGTAGGAGGGGAAAACTTA-AGTTTTACAAGGAA
59 CTTTTT-TAGAATTAATTTT-AGTTTTTTT-AGTAAAAGGGGAAAAC-TAGAGTTTTACAAGGAA
45711300 TAACTTGAGTTTTTAT
120 TAACTTGAGTTTTTAT
* * **
45711316 AGGGAATAACCTGAATTTTTATAGGAAAAATCATTTTTATCATTTTTTTTAATTTTATCTTTTTT
1 AGGGAAAAACATGAAGATTTATAGGAAAAATCATTTTTATCATTTTTTTTAATTTTATCTTTTTT
45711381 AGAATTAATTTTAGTTTTTTTAGTAAAAGGGGAAAACTAGAGTTTT
66 AGAATTAATTTTAGTTTTTTTAGTAAAAGGGGAAAACTAGAGTTTT
45711427 TATGGGGAAA
Statistics
Matches: 98, Mismatches: 11, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
134 2 0.02
135 20 0.20
136 8 0.08
137 18 0.18
138 11 0.11
140 3 0.03
142 5 0.05
143 13 0.13
144 18 0.18
ACGTcount: A:0.33, C:0.06, G:0.15, T:0.46
Consensus pattern (135 bp):
AGGGAAAAACATGAAGATTTATAGGAAAAATCATTTTTATCATTTTTTTTAATTTTATCTTTTTT
AGAATTAATTTTAGTTTTTTTAGTAAAAGGGGAAAACTAGAGTTTTACAAGGAATAACTTGAGTT
TTTAT
Found at i:45711390 original size:21 final size:21
Alignment explanation
Indices: 45711364--45711403 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
45711354 ATCATTTTTT
45711364 TTAATTTTA-TCTTTTTTAGAA
1 TTAATTTTAGT-TTTTTTAGAA
45711385 TTAATTTTAGTTTTTTTAG
1 TTAATTTTAGTTTTTTTAG
45711404 TAAAAGGGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.25, C:0.03, G:0.07, T:0.65
Consensus pattern (21 bp):
TTAATTTTAGTTTTTTTAGAA
Found at i:45714979 original size:24 final size:24
Alignment explanation
Indices: 45714952--45714998 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
45714942 GATTTTTTGG
*
45714952 TGAAAAAA-TCTTGTATAAAAATAC
1 TGAAAAAACT-TTCTATAAAAATAC
*
45714976 TGAAAATACTTTCTATAAAAATA
1 TGAAAAAACTTTCTATAAAAATA
45714999 ATATAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 19 0.95
25 1 0.05
ACGTcount: A:0.53, C:0.09, G:0.06, T:0.32
Consensus pattern (24 bp):
TGAAAAAACTTTCTATAAAAATAC
Found at i:45716314 original size:3 final size:3
Alignment explanation
Indices: 45716308--45716341 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
45716298 AAAAAATTTT
45716308 GAA GAA G-A GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
45716342 GAGCGAGAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:45716559 original size:26 final size:25
Alignment explanation
Indices: 45716520--45716577 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
45716510 TTTAGTAAAT
45716520 TTTTTTTGTTAAAAATAAATGTTAA
1 TTTTTTTGTTAAAAATAAATGTTAA
45716545 TTTTTTTGTTAAAAATAAATGTTAA
1 TTTTTTTGTTAAAAATAAATGTTAA
45716570 TTTATTTT
1 TTT-TTTT
45716578 TGTTGTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 28 0.88
26 4 0.12
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (25 bp):
TTTTTTTGTTAAAAATAAATGTTAA
Found at i:45716775 original size:16 final size:16
Alignment explanation
Indices: 45716756--45716828 Score: 53
Period size: 16 Copynumber: 4.4 Consensus size: 16
45716746 TAAAGAATGT
45716756 TTTATTTTTTATGTAA
1 TTTATTTTTTATGTAA
* *
45716772 TTTATTTGTTATGT-G
1 TTTATTTTTTATGTAA
*
45716787 TGTT-TTAGGTTTAT-TAGA
1 T-TTATT--TTTTATGTA-A
45716805 TTTATTTTTTTATGTAA
1 TTTA-TTTTTTATGTAA
45716822 TTTATTT
1 TTTATTT
45716829 GGCATGTTAT
Statistics
Matches: 43, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
15 3 0.07
16 19 0.44
17 16 0.37
18 3 0.07
19 2 0.05
ACGTcount: A:0.21, C:0.00, G:0.12, T:0.67
Consensus pattern (16 bp):
TTTATTTTTTATGTAA
Found at i:45718847 original size:8 final size:8
Alignment explanation
Indices: 45718834--45718865 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
45718824 AGATTAATTG
45718834 CAACATTA
1 CAACATTA
45718842 CAACATTA
1 CAACATTA
45718850 CAACATTA
1 CAACATTA
*
45718858 CAATATTA
1 CAACATTA
45718866 AAACTTGGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (8 bp):
CAACATTA
Found at i:45718889 original size:27 final size:26
Alignment explanation
Indices: 45718859--45718938 Score: 64
Period size: 27 Copynumber: 3.2 Consensus size: 26
45718849 ACAACATTAC
45718859 AATATTAAAACTTGGAACAAGCTTTGT
1 AATATTAAAACTTGGAACAA-CTTTGT
* **
45718886 AATA-T-AAA-TT--AA-ATACATTAC
1 AATATTAAAACTTGGAACA-ACTTTGT
45718907 AATATTAAAACTTGGAACAAACTTTGT
1 AATATTAAAACTTGGAAC-AACTTTGT
45718934 AATAT
1 AATAT
45718939 AAATTAGGTA
Statistics
Matches: 39, Mismatches: 6, Indels: 16
0.64 0.10 0.26
Matches are distributed among these distances:
21 8 0.21
22 4 0.10
23 3 0.08
24 4 0.10
25 3 0.08
26 3 0.08
27 13 0.33
28 1 0.03
ACGTcount: A:0.47, C:0.10, G:0.09, T:0.34
Consensus pattern (26 bp):
AATATTAAAACTTGGAACAACTTTGT
Found at i:45718923 original size:48 final size:48
Alignment explanation
Indices: 45718852--45718944 Score: 177
Period size: 48 Copynumber: 1.9 Consensus size: 48
45718842 CAACATTACA
*
45718852 ACATTACAATATTAAAACTTGGAACAAGCTTTGTAATATAAATTAAAT
1 ACATTACAATATTAAAACTTGGAACAAACTTTGTAATATAAATTAAAT
45718900 ACATTACAATATTAAAACTTGGAACAAACTTTGTAATATAAATTA
1 ACATTACAATATTAAAACTTGGAACAAACTTTGTAATATAAATTA
45718945 GGTATATTGG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.48, C:0.11, G:0.08, T:0.33
Consensus pattern (48 bp):
ACATTACAATATTAAAACTTGGAACAAACTTTGTAATATAAATTAAAT
Found at i:45723211 original size:27 final size:26
Alignment explanation
Indices: 45723177--45723243 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 26
45723167 ATTTAAATTC
*
45723177 ATTATTATATTTTTAAAATATTTATGT
1 ATTATTATATTTTT-AAATATTTATAT
* * *
45723204 ATTTTTATATATTTTTAATTTTTATAT
1 ATTATTATAT-TTTTAAATATTTATAT
45723231 ATTATTAT-TTTTT
1 ATTATTATATTTTT
45723244 GTCAACATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
25 4 0.12
26 1 0.03
27 25 0.74
28 4 0.12
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.67
Consensus pattern (26 bp):
ATTATTATATTTTTAAATATTTATAT
Found at i:45723216 original size:10 final size:10
Alignment explanation
Indices: 45723182--45723238 Score: 50
Period size: 10 Copynumber: 6.1 Consensus size: 10
45723172 AATTCATTAT
45723182 TATATTTTTA
1 TATATTTTTA
* *
45723192 -AAATATTTA
1 TATATTTTTA
*
45723201 TGTATTTTTA
1 TATATTTTTA
45723211 TATA-TTTT-
1 TATATTTTTA
45723219 TA-ATTTTTA
1 TATATTTTTA
*
45723228 TATATTATTA
1 TATATTTTTA
45723238 T
1 T
45723239 TTTTTGTCAA
Statistics
Matches: 36, Mismatches: 7, Indels: 8
0.71 0.14 0.16
Matches are distributed among these distances:
7 1 0.03
8 6 0.17
9 13 0.36
10 16 0.44
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (10 bp):
TATATTTTTA
Found at i:45723226 original size:17 final size:16
Alignment explanation
Indices: 45723179--45723242 Score: 67
Period size: 17 Copynumber: 3.8 Consensus size: 16
45723169 TTAAATTCAT
*
45723179 TATTA-TATTTTTAAAA
1 TATTATTATTTTT-ATA
45723195 TATTTATGTATTTTTATA
1 TA-TTAT-TATTTTTATA
*
45723213 TATTTTTAATTTTTATA
1 TATTATT-ATTTTTATA
45723230 TATTATTATTTTT
1 TATTATTATTTTT
45723243 TGTCAACATT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
16 9 0.22
17 21 0.51
18 4 0.10
19 7 0.17
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (16 bp):
TATTATTATTTTTATA
Found at i:45724802 original size:21 final size:19
Alignment explanation
Indices: 45724777--45724822 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 19
45724767 CTTTTACAAA
*
45724777 TTGTTTTATTTTTATTATTAT
1 TTGTTTTATTTGT-TT-TTAT
45724798 TTG-TTTATTTGTTTTTAT
1 TTGTTTTATTTGTTTTTAT
45724816 TT-TTTTA
1 TTGTTTTA
45724823 AAAAGAAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 10 0.43
19 2 0.09
20 8 0.35
21 3 0.13
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (19 bp):
TTGTTTTATTTGTTTTTAT
Found at i:45732196 original size:41 final size:41
Alignment explanation
Indices: 45732139--45732218 Score: 124
Period size: 41 Copynumber: 2.0 Consensus size: 41
45732129 TGATCGAATG
** * *
45732139 TAATTCAGACTTATTGTCTAGCAGGCTTGATGCCGGTGATA
1 TAATTCAGACACATTGTCTAGCAGGCTTAATGCCAGTGATA
45732180 TAATTCAGACACATTGTCTAGCAGGCTTAATGCCAGTGA
1 TAATTCAGACACATTGTCTAGCAGGCTTAATGCCAGTGA
45732219 AATTATTCGG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.31
Consensus pattern (41 bp):
TAATTCAGACACATTGTCTAGCAGGCTTAATGCCAGTGATA
Found at i:45732240 original size:41 final size:41
Alignment explanation
Indices: 45732139--45732245 Score: 108
Period size: 41 Copynumber: 2.6 Consensus size: 41
45732129 TGATCGAATG
** * * * *
45732139 TAATTCAGACTTATTGTCTAGCAGGCTTGATGCCGGTGATA
1 TAATTCAGACACATAGTCTAGCAGGCTTAATGCCAGTGAAA
*
45732180 TAATTCAGACACATTGTCTAGCAGGCTTAATGCCAGTGAAA
1 TAATTCAGACACATAGTCTAGCAGGCTTAATGCCAGTGAAA
* * *
45732221 TTATTCGGAC-TATAAGTCTAGCAGG
1 TAATTCAGACACAT-AGTCTAGCAGG
45732246 ATAAAAGCCG
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
40 2 0.04
41 54 0.96
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (41 bp):
TAATTCAGACACATAGTCTAGCAGGCTTAATGCCAGTGAAA
Found at i:45740345 original size:11 final size:12
Alignment explanation
Indices: 45740334--45740386 Score: 58
Period size: 11 Copynumber: 4.7 Consensus size: 12
45740324 ATTAAAAATA
45740334 TTAAAATTATAT
1 TTAAAATTATAT
*
45740346 TTAAAA-TAAAT
1 TTAAAATTATAT
*
45740357 TTTAAATTAT-T
1 TTAAAATTATAT
*
45740368 TT-AAATTAAAT
1 TTAAAATTATAT
45740379 TTAAAATT
1 TTAAAATT
45740387 TTATAATACT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
10 6 0.18
11 15 0.44
12 13 0.38
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (12 bp):
TTAAAATTATAT
Found at i:45740351 original size:12 final size:12
Alignment explanation
Indices: 45740329--45740386 Score: 59
Period size: 12 Copynumber: 5.0 Consensus size: 12
45740319 TAATAATTAA
45740329 AAATATTAAAATT
1 AAAT-TTAAAATT
*
45740342 ATATTTAAAA-T
1 AAATTTAAAATT
*
45740353 AAATTTTAAATT
1 AAATTTAAAATT
*
45740365 --ATTTTAAATT
1 AAATTTAAAATT
45740375 AAATTTAAAATT
1 AAATTTAAAATT
45740387 TTATAATACT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
10 10 0.26
11 9 0.24
12 16 0.42
13 3 0.08
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
AAATTTAAAATT
Found at i:45740353 original size:33 final size:33
Alignment explanation
Indices: 45740316--45740385 Score: 79
Period size: 33 Copynumber: 2.1 Consensus size: 33
45740306 CATTTTTGTT
*
45740316 AAATAATAATTAAAAATA-TTAAAATTATATTTA
1 AAATAA-AATTAAAAATATTTAAAATTAAATTTA
* * * *
45740349 AAATAAATTTTAAATTATTTTAAATTAAATTTA
1 AAATAAAATTAAAAATATTTAAAATTAAATTTA
45740382 AAAT
1 AAAT
45740386 TTTATAATAC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
32 8 0.26
33 23 0.74
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (33 bp):
AAATAAAATTAAAAATATTTAAAATTAAATTTA
Found at i:45740377 original size:22 final size:23
Alignment explanation
Indices: 45740329--45740386 Score: 82
Period size: 22 Copynumber: 2.5 Consensus size: 23
45740319 TAATAATTAA
45740329 AAATATTAAAATTATATTTAAAAT
1 AAAT-TTAAAATTATATTTAAAAT
* *
45740353 AAATTTTAAATTAT-TTTAAATT
1 AAATTTAAAATTATATTTAAAAT
45740375 AAATTTAAAATT
1 AAATTTAAAATT
45740387 TTATAATACT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
22 18 0.58
23 9 0.29
24 4 0.13
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
AAATTTAAAATTATATTTAAAAT
Found at i:45745024 original size:26 final size:26
Alignment explanation
Indices: 45744980--45745035 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
45744970 CTGTTTAGAA
** * *
45744980 TATTTTAAAAATACTTTTTTATTTTT
1 TATTTTAAAAATAAATTTTTAGTGTT
*
45745006 TATTTTTAAAATAAATTTTTAGTGTT
1 TATTTTAAAAATAAATTTTTAGTGTT
45745032 TATT
1 TATT
45745036 AAAAAATGGG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (26 bp):
TATTTTAAAAATAAATTTTTAGTGTT
Found at i:45747807 original size:35 final size:35
Alignment explanation
Indices: 45747761--45747919 Score: 246
Period size: 35 Copynumber: 4.5 Consensus size: 35
45747751 TACTTTTTGT
* *
45747761 TTGGCATGTTTTGGTTGGATTAGCTCTTATGAGCA
1 TTGGCGTGTTATGGTTGGATTAGCTCTTATGAGCA
*
45747796 TTGGCGTGTTTTGGTTGGATTAGCTCTTATGAGCA
1 TTGGCGTGTTATGGTTGGATTAGCTCTTATGAGCA
* * *
45747831 TTGGTGTGTTACGGTTGGATTAGCTCTTATGATCA
1 TTGGCGTGTTATGGTTGGATTAGCTCTTATGAGCA
*
45747866 TTGGCGTGTTATGGTTGGATTAGATCTTATGAGCA
1 TTGGCGTGTTATGGTTGGATTAGCTCTTATGAGCA
*
45747901 TTGGCGTATTATGGTTGGA
1 TTGGCGTGTTATGGTTGGA
45747920 CTGATGATGT
Statistics
Matches: 114, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 114 1.00
ACGTcount: A:0.17, C:0.10, G:0.31, T:0.42
Consensus pattern (35 bp):
TTGGCGTGTTATGGTTGGATTAGCTCTTATGAGCA
Done.