Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 207 of 325
Found at i:66997641 original size:26 final size:25
Alignment explanation
Indices: 66997572--66997644 Score: 82
Period size: 26 Copynumber: 3.0 Consensus size: 25
66997562 TTAAATGATT
66997572 TTTTATAATTTCTAT-T-TT-TTTAG
1 TTTTATAATTT-TATATATTATTTAG
66997595 TTTTATAATTTTATA-ATTTATTTAG
1 TTTTATAATTTTATATA-TTATTTAG
*
66997620 ATTTTATAATTTTTTATATTATTTA
1 -TTTTATAATTTTATATATTATTTA
66997645 TAATTTTTAT
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
22 3 0.07
23 11 0.26
24 2 0.05
25 5 0.12
26 21 0.49
27 1 0.02
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.67
Consensus pattern (25 bp):
TTTTATAATTTTATATATTATTTAG
Found at i:66997644 original size:9 final size:9
Alignment explanation
Indices: 66997571--66997656 Score: 62
Period size: 9 Copynumber: 10.0 Consensus size: 9
66997561 TTTAAATGAT
66997571 TTTTTATAA
1 TTTTTATAA
*
66997580 TTTCTAT--
1 TTTTTATAA
66997587 TTTTT-T-A
1 TTTTTATAA
*
66997594 GTTTTATAA
1 TTTTTATAA
66997603 -TTTTATAA
1 TTTTTATAA
66997611 TTTATT-TAGA
1 TTT-TTATA-A
66997621 -TTTTATAA
1 TTTTTATAA
66997629 TTTTT-TATA
1 TTTTTATA-A
66997638 TTATTTATAA
1 TT-TTTATAA
66997648 TTTTTATAA
1 TTTTTATAA
66997657 AATTTAATCA
Statistics
Matches: 63, Mismatches: 3, Indels: 22
0.72 0.03 0.25
Matches are distributed among these distances:
6 1 0.02
7 8 0.13
8 14 0.22
9 29 0.46
10 9 0.14
11 2 0.03
ACGTcount: A:0.30, C:0.01, G:0.02, T:0.66
Consensus pattern (9 bp):
TTTTTATAA
Found at i:66997646 original size:19 final size:17
Alignment explanation
Indices: 66997595--66997683 Score: 72
Period size: 19 Copynumber: 4.8 Consensus size: 17
66997585 ATTTTTTTAG
66997595 TTTTATAATTTTATAATT
1 TTTTAT-ATTTTATAATT
*
66997613 TATTTAGATTTTATAATT
1 T-TTTATATTTTATAATT
66997631 TTTTATATTATTTATAATT
1 TTTTATA-T-TTTATAATT
* *
66997650 TTTATAAAATTTAATCATATT
1 TTT-T-ATATTTTAT-A-ATT
66997671 TTTTAT-TTTTATA
1 TTTTATATTTTATA
66997684 TTCTTTAAGG
Statistics
Matches: 58, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
17 6 0.10
18 19 0.33
19 21 0.36
20 4 0.07
21 8 0.14
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (17 bp):
TTTTATATTTTATAATT
Found at i:67005610 original size:22 final size:22
Alignment explanation
Indices: 67005578--67005619 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
67005568 TATACAAGCA
*
67005578 ATATTACTTGAATAGTTATGAG
1 ATATTACTTGAATAATTATGAG
*
67005600 ATATTAGTTGAATAATTATG
1 ATATTACTTGAATAATTATG
67005620 TCTCTTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.38, C:0.02, G:0.17, T:0.43
Consensus pattern (22 bp):
ATATTACTTGAATAATTATGAG
Found at i:67012578 original size:5 final size:5
Alignment explanation
Indices: 67012562--67012609 Score: 51
Period size: 5 Copynumber: 9.0 Consensus size: 5
67012552 ATAGAAGATA
* *
67012562 TTATT TTGTT TTATT TTGTT TTATTAT TTATTT TTATT TTATT TTATT
1 TTATT TTATT TTATT TTATT TTA-T-T TTA-TT TTATT TTATT TTATT
67012610 AATTTAGGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
5 26 0.70
6 5 0.14
7 6 0.16
ACGTcount: A:0.17, C:0.00, G:0.04, T:0.79
Consensus pattern (5 bp):
TTATT
Found at i:67012587 original size:23 final size:23
Alignment explanation
Indices: 67012560--67012615 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 23
67012550 AAATAGAAGA
*
67012560 TATTATTT-TGTTTTATTTTGTTT
1 TATTATTTAT-TTTTATTTTATTT
67012583 TATTATTTATTTTTATTTTATTT
1 TATTATTTATTTTTATTTTATTT
67012606 TATTAATTTA
1 TATT-ATTTA
67012616 GGATTAAGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 24 0.80
24 6 0.20
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.75
Consensus pattern (23 bp):
TATTATTTATTTTTATTTTATTT
Found at i:67012601 original size:18 final size:17
Alignment explanation
Indices: 67012571--67012604 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
67012561 ATTATTTTGT
*
67012571 TTTATTTTGTTTTATTA
1 TTTATTTTATTTTATTA
67012588 TTTATTTTTATTTTATT
1 TTTA-TTTTATTTTATT
67012605 TTATTAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (17 bp):
TTTATTTTATTTTATTA
Found at i:67015469 original size:18 final size:17
Alignment explanation
Indices: 67015445--67015484 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 17
67015435 CTGGCCCATA
67015445 GCCCACACACTTGTGTG
1 GCCCACACACTTGTGTG
*
67015462 GTCCCACACGCTTGTGTG
1 G-CCCACACACTTGTGTG
67015480 GCCCA
1 GCCCA
67015485 TATGTCCCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.15, C:0.38, G:0.25, T:0.23
Consensus pattern (17 bp):
GCCCACACACTTGTGTG
Found at i:67016187 original size:26 final size:26
Alignment explanation
Indices: 67016158--67016267 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
67016148 TGATACAAAT
67016158 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
67016184 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
67016210 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
67016236 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
67016262 TGATAA
1 TGATAA
67016268 GAATTTCATG
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:67017428 original size:8 final size:8
Alignment explanation
Indices: 67017415--67017445 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
67017405 ATCGGCAGAA
67017415 GCCGAAAT
1 GCCGAAAT
67017423 GCCGAAAT
1 GCCGAAAT
67017431 GCCGAAAT
1 GCCGAAAT
67017439 GCCGAAA
1 GCCGAAA
67017446 ATCGGTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.39, C:0.26, G:0.26, T:0.10
Consensus pattern (8 bp):
GCCGAAAT
Found at i:67021079 original size:24 final size:24
Alignment explanation
Indices: 67021052--67021099 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
67021042 TTACAAATAA
67021052 AACACAGA-AAAAGTAAAAAAAATT
1 AACACAGACAAAA-TAAAAAAAATT
*
67021076 AACATAGATCAAAATAAAAAAAAT
1 AACACAGA-CAAAATAAAAAAAAT
67021100 AAATGAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 7 0.33
25 10 0.48
26 4 0.19
ACGTcount: A:0.71, C:0.08, G:0.06, T:0.15
Consensus pattern (24 bp):
AACACAGACAAAATAAAAAAAATT
Found at i:67027328 original size:17 final size:17
Alignment explanation
Indices: 67027293--67027330 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
67027283 GTAATGATAA
*
67027293 TTGCTCGGCAAGAAGGG
1 TTGCTCGGCAAGAAAGG
67027310 TTGCTACGGCAA-AAAGG
1 TTGCT-CGGCAAGAAAGG
67027327 TTGC
1 TTGC
67027331 GACAGCAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.26, C:0.18, G:0.34, T:0.21
Consensus pattern (17 bp):
TTGCTCGGCAAGAAAGG
Found at i:67036656 original size:34 final size:35
Alignment explanation
Indices: 67036613--67036682 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
67036603 TGGCAATGAC
*
67036613 ACCAAAAAG-TTGTAACAAGTAGGTTTGTGCTATT
1 ACCAAAAAGTTTGTAACAAGTAGGTTTGTGCAATT
**
67036647 ACCAAAAAGTTTGTAACGCGTAGGTTTGTGCAATT
1 ACCAAAAAGTTTGTAACAAGTAGGTTTGTGCAATT
67036682 A
1 A
67036683 TATACAGTCG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
34 9 0.28
35 23 0.72
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.31
Consensus pattern (35 bp):
ACCAAAAAGTTTGTAACAAGTAGGTTTGTGCAATT
Found at i:67042387 original size:36 final size:36
Alignment explanation
Indices: 67042297--67042573 Score: 288
Period size: 36 Copynumber: 7.7 Consensus size: 36
67042287 TTACTAAGGG
* * * * * *
67042297 ATCACATACT-AATCACATAAGGGTTAGCATATTTA
1 ATCACATACTAAATTACATGAAGGTTCGCATACTAA
* * * * * *
67042332 ATCACATTCTCAATAACATGATGGTTCACATGCTAA
1 ATCACATACTAAATTACATGAAGGTTCGCATACTAA
* * *
67042368 ATCATACACTAAATTACATGAAGGTTTGCATACTAA
1 ATCACATACTAAATTACATGAAGGTTCGCATACTAA
* * *
67042404 ATCACATATTGAATTACATAAAGGTTCGCATACTAA
1 ATCACATACTAAATTACATGAAGGTTCGCATACTAA
* *
67042440 ATCACATATTAAATTACATGAGGGTTCGCATACTAA
1 ATCACATACTAAATTACATGAAGGTTCGCATACTAA
* * *
67042476 ATCATATACTAAATTACATGAGGGCTT-GCATAGTAA
1 ATCACATACTAAATTACATGAAGG-TTCGCATACTAA
*
67042512 ATCACATACTAAATTACATGAAGGTTCGCTTACTAA
1 ATCACATACTAAATTACATGAAGGTTCGCATACTAA
** *
67042548 ATCATTTACTAAATTACATGAGGGTT
1 ATCACATACTAAATTACATGAAGGTT
67042574 TACATATTGG
Statistics
Matches: 202, Mismatches: 37, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
35 11 0.05
36 189 0.94
37 2 0.01
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (36 bp):
ATCACATACTAAATTACATGAAGGTTCGCATACTAA
Found at i:67042505 original size:108 final size:107
Alignment explanation
Indices: 67042297--67042579 Score: 343
Period size: 108 Copynumber: 2.6 Consensus size: 107
67042287 TTACTAAGGG
* * * * * * * *
67042297 ATCACATACTAATCACATAAGGGTTAGCATATTTAATCACAT-TCTCAATAACATGATGGTTCAC
1 ATCACATACTAATTACATAAAGGTTCGCATACTAAATCACATAT-TAAATTACATGAGGGTTCAC
* *
67042361 ATGCTAAATCATACACTAAATTACATGAAGGTTTGCATACTAA
65 ATACTAAATCATACACTAAATTACATGAAGGCTTGCATACTAA
* *
67042404 ATCACATATTGAATTACATAAAGGTTCGCATACTAAATCACATATTAAATTACATGAGGGTTCGC
1 ATCACATACT-AATTACATAAAGGTTCGCATACTAAATCACATATTAAATTACATGAGGGTTCAC
* * *
67042469 ATACTAAATCATATACTAAATTACATGAGGGCTTGCATAGTAA
65 ATACTAAATCATACACTAAATTACATGAAGGCTTGCATACTAA
* * ** * *
67042512 ATCACATACTAAATTACATGAAGGTTCGCTTACTAAATCATTTACTAAATTACATGAGGGTTTAC
1 ATCACATACT-AATTACATAAAGGTTCGCATACTAAATCACATATTAAATTACATGAGGGTTCAC
67042577 ATA
65 ATA
67042580 TTGGCTACAA
Statistics
Matches: 150, Mismatches: 24, Indels: 3
0.85 0.14 0.02
Matches are distributed among these distances:
107 9 0.06
108 140 0.93
109 1 0.01
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.31
Consensus pattern (107 bp):
ATCACATACTAATTACATAAAGGTTCGCATACTAAATCACATATTAAATTACATGAGGGTTCACA
TACTAAATCATACACTAAATTACATGAAGGCTTGCATACTAA
Found at i:67043500 original size:14 final size:14
Alignment explanation
Indices: 67043481--67043511 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
67043471 TTAGCTTGCC
*
67043481 TAATACTTAGCTAT
1 TAATACTTAACTAT
67043495 TAATACTTAACTAT
1 TAATACTTAACTAT
67043509 TAA
1 TAA
67043512 GCCTAGTAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.13, G:0.03, T:0.42
Consensus pattern (14 bp):
TAATACTTAACTAT
Found at i:67044059 original size:8 final size:8
Alignment explanation
Indices: 67044046--67044081 Score: 56
Period size: 8 Copynumber: 4.5 Consensus size: 8
67044036 TTATTTATTT
67044046 TAATTTAA
1 TAATTTAA
67044054 TAATTTAA
1 TAATTTAA
67044062 TAATTTAA
1 TAATTTAA
67044070 T-ATTTATA
1 TAATTTA-A
67044078 TAAT
1 TAAT
67044082 ATTTTAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 5 0.19
8 19 0.73
9 2 0.08
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (8 bp):
TAATTTAA
Found at i:67044089 original size:8 final size:8
Alignment explanation
Indices: 67044049--67044118 Score: 50
Period size: 8 Copynumber: 8.1 Consensus size: 8
67044039 TTTATTTTAA
*
67044049 TTTAATAA
1 TTTAATAT
*
67044057 TTTAATAA
1 TTTAATAT
67044065 TTTAATATT
1 TTTAATA-T
67044074 TATATAATAT
1 T-T-TAATAT
67044084 TTTAATAT
1 TTTAATAT
*
67044092 ATTTTATAT
1 -TTTAATAT
* *
67044101 TATAATTTT
1 TTTAA-TAT
67044110 TTTAATAT
1 TTTAATAT
67044118 T
1 T
67044119 CTTTAATTTA
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
8 27 0.54
9 15 0.30
10 3 0.06
11 5 0.10
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
TTTAATAT
Found at i:67044103 original size:27 final size:28
Alignment explanation
Indices: 67044051--67044117 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 28
67044041 TATTTTAATT
*
67044051 TAATAATTTAATA-ATTTAATATTTATA
1 TAATATTTTAATATATTTAATATTTATA
*
67044078 TAATATTTTAATATATTTTATA-TTATA
1 TAATATTTTAATATATTTAATATTTATA
* *
67044105 -ATTTTTTTAATAT
1 TAATATTTTAATAT
67044118 TCTTTAATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 11 0.31
27 17 0.49
28 7 0.20
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (28 bp):
TAATATTTTAATATATTTAATATTTATA
Found at i:67044117 original size:17 final size:18
Alignment explanation
Indices: 67044057--67044118 Score: 51
Period size: 17 Copynumber: 3.5 Consensus size: 18
67044047 AATTTAATAA
67044057 TTTAATAATT-TAATAT-T
1 TTTAAT-ATTATAATATAT
*
67044074 TATATAATATTTTAATATAT
1 T-T-TAATATTATAATATAT
*
67044094 TTT-ATATTATAAT-TTT
1 TTTAATATTATAATATAT
67044110 TTTAATATT
1 TTTAATATT
67044119 CTTTAATTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
16 5 0.13
17 15 0.39
18 5 0.13
19 11 0.29
20 2 0.05
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTAATATTATAATATAT
Found at i:67044123 original size:26 final size:24
Alignment explanation
Indices: 67044083--67044130 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 24
67044073 TTATATAATA
67044083 TTTTAATATATTTTATATTATAATTT
1 TTTTAATATATTTTA-ATT-TAATTT
67044109 TTTTAATAT-TCTTTAATTTAAT
1 TTTTAATATAT-TTTAATTTAAT
67044131 AATATATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 4 0.19
25 4 0.19
26 13 0.62
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (24 bp):
TTTTAATATATTTTAATTTAATTT
Found at i:67044176 original size:49 final size:54
Alignment explanation
Indices: 67044065--67044181 Score: 122
Period size: 48 Copynumber: 2.3 Consensus size: 54
67044055 AATTTAATAA
* *
67044065 TTTAATATTTATATAATATTTTAATATATTTTATATTATAATTTTTTTAATATTC
1 TTTAA-ATTTATATAATATTATAATATATTTTATATTATAATATTTTTAATATTC
* *
67044120 TTT-AATTTA-ATAATA-TATAATA-ATTTT-TA-TATATTATTTTTGA-ATTC
1 TTTAAATTTATATAATATTATAATATATTTTATATTATAATATTTTTAATATTC
*
67044167 TTTTAAATTTTTATA
1 -TTTAAATTTATATA
67044182 TTTCTCATAT
Statistics
Matches: 54, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
47 4 0.07
48 14 0.26
49 7 0.13
50 8 0.15
51 6 0.11
52 6 0.11
53 5 0.09
54 1 0.02
55 3 0.06
ACGTcount: A:0.37, C:0.02, G:0.01, T:0.61
Consensus pattern (54 bp):
TTTAAATTTATATAATATTATAATATATTTTATATTATAATATTTTTAATATTC
Found at i:67044403 original size:2 final size:2
Alignment explanation
Indices: 67044396--67044431 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
67044386 AAGTAAGTAA
67044396 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
67044432 TGGAGCTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:67045854 original size:11 final size:11
Alignment explanation
Indices: 67045838--67045862 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
67045828 AATCTAAAGC
67045838 AAAAAAGAAAA
1 AAAAAAGAAAA
67045849 AAAAAAGAAAA
1 AAAAAAGAAAA
67045860 AAA
1 AAA
67045863 GAAAAACCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAA
Found at i:67046076 original size:3 final size:3
Alignment explanation
Indices: 67046068--67046119 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
67046058 AATGTAGAAA
67046068 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
67046116 TAT T
1 TAT T
67046120 TTACGTTTGT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:67050278 original size:31 final size:30
Alignment explanation
Indices: 67050234--67050313 Score: 97
Period size: 31 Copynumber: 2.6 Consensus size: 30
67050224 AACAACCCAA
67050234 TGACTTAAATAAAAACTTCCGAATAGTTCAG
1 TGACTT-AATAAAAACTTCCGAATAGTTCAG
* * *
67050265 TGACCTAAGTAAAAACTTTCGAGTAGTTCAG
1 TGACTTAA-TAAAAACTTCCGAATAGTTCAG
*
67050296 TAACTTCAATAAAAACTT
1 TGACTT-AATAAAAACTT
67050314 TAGTGAACAA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
30 2 0.05
31 38 0.90
32 2 0.05
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.30
Consensus pattern (30 bp):
TGACTTAATAAAAACTTCCGAATAGTTCAG
Found at i:67081108 original size:49 final size:47
Alignment explanation
Indices: 67080889--67081116 Score: 205
Period size: 48 Copynumber: 4.8 Consensus size: 47
67080879 CGGCCATATT
* * *
67080889 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTAAG
1 ATGAGAGCCAGTGTAAGACC-TGTCTGGGACATGGCATCGACCTGAAC
* * * * * *
67080937 ACGATAGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGAT
1 ATGAGAGCCAGTGTAAGACCTGTCTGGGACATGGCATCGACCT-GA-AC
* * * *
67080985 ATGCA-AGCTAGTGTAAGACCTGTCTAGGACATGGCATCGGCTTG-AC
1 ATG-AGAGCCAGTGTAAGACCTGTCTGGGACATGGCATCGACCTGAAC
* * *
67081031 AT--GTGTCAGTGTAAGACCTGTTTGGGACATGGCATCGACACTGATAC
1 ATGAGAGCCAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTGA-AC
* *
67081078 ATGAGAGCCAGAGTAAAACCTGTCTGGGACATGGCATCG
1 ATGAGAGCCAGTGTAAGACCTGTCTGGGACATGGCATCG
67081117 GCTCGATATA
Statistics
Matches: 145, Mismatches: 25, Indels: 19
0.77 0.13 0.10
Matches are distributed among these distances:
44 30 0.21
45 2 0.01
46 11 0.08
47 17 0.12
48 45 0.31
49 40 0.28
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (47 bp):
ATGAGAGCCAGTGTAAGACCTGTCTGGGACATGGCATCGACCTGAAC
Found at i:67081139 original size:141 final size:140
Alignment explanation
Indices: 67080897--67081212 Score: 363
Period size: 141 Copynumber: 2.2 Consensus size: 140
67080887 TTATGAGAGC
* * * * * * *
67080897 CAGTGTAAGACCATGTCTGGGACATGGCATCGACATTAAGACGATAGCTAGTGTAAGACATGTCT
1 CAGTGTAAGACCATGTTTGGGACATGGCATCGACATGAACACGAGAGCCAGAGTAAAACATGTCT
* *
67080962 GGGACATGCATCGGCCTCGAGATATGCAAGCTAGTGTAAGACCTGTCTA-GGACATGGCATCGGC
66 GGGACATGCATCGGCCTCGAGATATGCAAGCTAGTGTAAGACCTGT-TAGGGACATGACATCGAC
67081026 TTGACATGTGT-
130 TT-ACATGTGTG
* *
67081037 CAGTGTAAGACC-TGTTTGGGACATGGCATCGACACTGATACATGAGAGCCAGAGTAAAACCTGT
1 CAGTGTAAGACCATGTTTGGGACATGGCATCGACA-TGA-ACACGAGAGCCAGAGTAAAACATGT
* * *
67081101 CTGGGACATGGCATCGG-CTCGATATATGGAAG-TCAGTGTAAGACTTGTTAGGGACATGACATC
64 CTGGGACAT-GCATCGGCCTCGAGATATGCAAGCT-AGTGTAAGACCTGTTAGGGACATGACATC
*
67081164 GACTTAGATGTGTGAG
127 GACTTACATGTGT--G
* *
67081180 CTAGTGTAAGACCATGTTTGGAACATAGCATCG
1 C-AGTGTAAGACCATGTTTGGGACATGGCATCG
67081213 GCATCGTACC
Statistics
Matches: 149, Mismatches: 17, Indels: 15
0.82 0.09 0.08
Matches are distributed among these distances:
139 21 0.14
140 24 0.16
141 68 0.46
142 7 0.05
143 1 0.01
144 11 0.07
145 17 0.11
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (140 bp):
CAGTGTAAGACCATGTTTGGGACATGGCATCGACATGAACACGAGAGCCAGAGTAAAACATGTCT
GGGACATGCATCGGCCTCGAGATATGCAAGCTAGTGTAAGACCTGTTAGGGACATGACATCGACT
TACATGTGTG
Found at i:67081528 original size:19 final size:19
Alignment explanation
Indices: 67081504--67081549 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
67081494 GCCTATGAGA
* *
67081504 ATGATTTTGTGATGGCCTT
1 ATGATTATGTGATGACCTT
67081523 ATGATTATGTGATGACCTT
1 ATGATTATGTGATGACCTT
*
67081542 GTGATTAT
1 ATGATTAT
67081550 AGGTCTATAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.22, C:0.09, G:0.24, T:0.46
Consensus pattern (19 bp):
ATGATTATGTGATGACCTT
Found at i:67085962 original size:21 final size:21
Alignment explanation
Indices: 67085936--67086006 Score: 56
Period size: 21 Copynumber: 3.3 Consensus size: 21
67085926 CTAAACCTAA
67085936 TGATCTGATTGTTTGATATAC
1 TGATCTGATTGTTTGATATAC
* * *
67085957 TGATCTAATTAGGATACTGAT-GA-
1 TGATCTGATT--G-T-TTGATATAC
*
67085980 TGATCTGATTGCTTGATATAC
1 TGATCTGATTGTTTGATATAC
67086001 TGATCT
1 TGATCT
67086007 AATTAGAATA
Statistics
Matches: 37, Mismatches: 7, Indels: 12
0.66 0.12 0.21
Matches are distributed among these distances:
19 4 0.11
20 1 0.03
21 16 0.43
23 10 0.27
24 2 0.05
25 4 0.11
ACGTcount: A:0.27, C:0.11, G:0.20, T:0.42
Consensus pattern (21 bp):
TGATCTGATTGTTTGATATAC
Found at i:67085996 original size:44 final size:44
Alignment explanation
Indices: 67085935--67086019 Score: 152
Period size: 44 Copynumber: 1.9 Consensus size: 44
67085925 CCTAAACCTA
* *
67085935 ATGATCTGATTGTTTGATATACTGATCTAATTAGGATACTGATG
1 ATGATCTGATTGCTTGATATACTGATCTAATTAGAATACTGATG
67085979 ATGATCTGATTGCTTGATATACTGATCTAATTAGAATACTG
1 ATGATCTGATTGCTTGATATACTGATCTAATTAGAATACTG
67086020 GTATACGTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.40
Consensus pattern (44 bp):
ATGATCTGATTGCTTGATATACTGATCTAATTAGAATACTGATG
Found at i:67087663 original size:21 final size:21
Alignment explanation
Indices: 67087639--67087694 Score: 94
Period size: 21 Copynumber: 2.6 Consensus size: 21
67087629 TGATATGACT
*
67087639 GACTAGACTAATAGTACATTG
1 GACTAGACCAATAGTACATTG
67087660 GACTAGACCAATAGTACATTG
1 GACTAGACCAATAGTACATTG
67087681 GACTAGACCCAATA
1 GACTAGA-CCAATA
67087695 AGAATAGATC
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 27 0.82
22 6 0.18
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.23
Consensus pattern (21 bp):
GACTAGACCAATAGTACATTG
Found at i:67088659 original size:16 final size:18
Alignment explanation
Indices: 67088633--67088666 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
67088623 TGGAATTGAG
67088633 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
67088650 TTGA-AAAATTAATTTAA
1 TTGAGAAAATTAATTTAA
67088667 GATGTTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:67090236 original size:29 final size:29
Alignment explanation
Indices: 67090200--67090266 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
67090190 TTGACAAATA
*
67090200 AAAAGGGATAGCTTTTG-CTATCGAATACG
1 AAAAGGGATAGC-TTCGACTATCGAATACG
* *
67090229 AAAAGGGATAGCTTCGACTATCGATTATG
1 AAAAGGGATAGCTTCGACTATCGAATACG
67090258 AAAAGGGAT
1 AAAAGGGAT
67090267 GGTGACGAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.37, C:0.12, G:0.25, T:0.25
Consensus pattern (29 bp):
AAAAGGGATAGCTTCGACTATCGAATACG
Found at i:67090401 original size:90 final size:90
Alignment explanation
Indices: 67090284--67090475 Score: 244
Period size: 90 Copynumber: 2.1 Consensus size: 90
67090274 AACATCAACA
* * * * * **
67090284 ATGAAAAGGAATGTTGATGACCATCGAACTATGAAAAGGGATGGCT-TCAACTATCGAACTATGA
1 ATGAAAAGGGATGGTGATGACCATCGAACAATGAAAAGGGATGG-TGACAACCATAAAACTATGA
*
67090348 AAAGGGATAGCTTCA-GCTATCAAATT
65 AAAGGGATAGCTT-AGGCTATCAAACT
* *
67090374 ATGAAAAGGGATGGTGATGACCATCGAACAATGAAAAGGGATGGTGACGACCATAAAATTATGAA
1 ATGAAAAGGGATGGTGATGACCATCGAACAATGAAAAGGGATGGTGACAACCATAAAACTATGAA
* *
67090439 AAGGGATAGCTTAGGCTGTCGAACT
66 AAGGGATAGCTTAGGCTATCAAACT
67090464 ATGAAAAGGGAT
1 ATGAAAAGGGAT
67090476 AACTTCGGTT
Statistics
Matches: 88, Mismatches: 12, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
89 2 0.02
90 86 0.98
ACGTcount: A:0.40, C:0.12, G:0.26, T:0.22
Consensus pattern (90 bp):
ATGAAAAGGGATGGTGATGACCATCGAACAATGAAAAGGGATGGTGACAACCATAAAACTATGAA
AAGGGATAGCTTAGGCTATCAAACT
Found at i:67090476 original size:30 final size:30
Alignment explanation
Indices: 67090200--67090507 Score: 183
Period size: 30 Copynumber: 10.4 Consensus size: 30
67090190 TTGACAAATA
* *
67090200 AAAAGGGATAGCTTTTG-CTATCGAA-TACG
1 AAAAGGGATAGC-TTAGACTATCGAACTATG
* *
67090229 AAAAGGGATAGCTTCGACTATCG-ATTATG
1 AAAAGGGATAGCTTAGACTATCGAACTATG
* * *
67090258 AAAAGGGAT-GGTGACGAAC-ATC-AACAATG
1 AAAAGGGATAGCTTA-G-ACTATCGAACTATG
* *
67090287 AAAAGGAAT-G-TTGATGACCATCGAACTATG
1 AAAAGGGATAGCTT-A-GACTATCGAACTATG
*
67090317 AAAAGGGATGGCTTCA-ACTATCGAACTATG
1 AAAAGGGATAGCTT-AGACTATCGAACTATG
* *
67090347 AAAAGGGATAGCTTCAG-CTATCAAATTATG
1 AAAAGGGATAGCTT-AGACTATCGAACTATG
* * * *
67090377 AAAAGGGAT-GGTGATGACCATCGAACAATG
1 AAAAGGGATAGCTTA-GACTATCGAACTATG
* * * ** *
67090407 AAAAGGGAT-GGTGACGACCATAAAATTATG
1 AAAAGGGATAGCTTA-GACTATCGAACTATG
* *
67090437 AAAAGGGATAGCTTAGGCTGTCGAACTATG
1 AAAAGGGATAGCTTAGACTATCGAACTATG
* * **
67090467 AAAAGGGATAACTTCGGTTATCGAA-TAATG
1 AAAAGGGATAGCTTAGACTATCGAACT-ATG
67090497 AAAAGGGATAG
1 AAAAGGGATAG
67090508 GTCAACCATC
Statistics
Matches: 223, Mismatches: 41, Indels: 29
0.76 0.14 0.10
Matches are distributed among these distances:
28 10 0.04
29 56 0.25
30 150 0.67
31 4 0.02
32 3 0.01
ACGTcount: A:0.39, C:0.13, G:0.26, T:0.22
Consensus pattern (30 bp):
AAAAGGGATAGCTTAGACTATCGAACTATG
Found at i:67094821 original size:40 final size:40
Alignment explanation
Indices: 67094777--67094879 Score: 179
Period size: 40 Copynumber: 2.6 Consensus size: 40
67094767 ACTAAGATCT
*
67094777 GAAGGCATTCGTTCGGGTTATTATAACCGGGTTAAGTCCC
1 GAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCC
*
67094817 GAAGGTATTCGTGCGGGTTATTATAACCGGGTTAAGTCCC
1 GAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCC
*
67094857 GAAGGCATTCGTGCTGGTTATTA
1 GAAGGCATTCGTGCGGGTTATTA
67094880 CATCCGAGCC
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.31
Consensus pattern (40 bp):
GAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCC
Found at i:67096448 original size:40 final size:40
Alignment explanation
Indices: 67096372--67096630 Score: 389
Period size: 40 Copynumber: 6.5 Consensus size: 40
67096362 AACCCAAGTA
* * *
67096372 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
*
67096411 CCTTCGGTACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
67096451 CCTTCGGGACTTAGCTCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* * *
67096491 CCTTCGGGACTTAGCCCGGATATAGTCAACAGTACAAATT
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
67096531 CCTTCGGGGCTTAGCCCGGATATAGTCACTAGCAC-AATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
67096570 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
67096610 CCTTCGGGACTTAGCCCGGAT
1 CCTTCGGGACTTAGCCCGGAT
67096631 GTCATCCGAA
Statistics
Matches: 201, Mismatches: 16, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
39 49 0.24
40 149 0.74
41 3 0.01
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:67096603 original size:119 final size:120
Alignment explanation
Indices: 67096372--67096630 Score: 416
Period size: 119 Copynumber: 2.2 Consensus size: 120
67096362 AACCCAAGTA
* * *
67096372 CCTTCGGGATTTAG-CCGGATATAGCAACTCGTACAAATGCCTTCGGTACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTAGTACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
67096436 TCAATAGCACAAATGCCTTCGGGACTTAGCTCGGATATAGTCAATAGCACAAATG
66 TCAATAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
67096491 CCTTCGGGACTTAGCCCGGATATAGTCAAC-AGTACAAATTCCTTCGGGGCTTAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAG-CAACTAGTACAAATGCCTTCGGGACTTAGCCCGGATATA
* *
67096555 GTCACTAGCAC-AATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
65 GTCAATAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
67096610 CCTTCGGGACTTAGCCCGGAT
1 CCTTCGGGACTTAGCCCGGAT
67096631 GTCATCCGAA
Statistics
Matches: 130, Mismatches: 8, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
119 76 0.58
120 50 0.38
121 4 0.03
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (120 bp):
CCTTCGGGACTTAGCCCGGATATAGCAACTAGTACAAATGCCTTCGGGACTTAGCCCGGATATAG
TCAATAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:67100309 original size:18 final size:18
Alignment explanation
Indices: 67100288--67100351 Score: 56
Period size: 18 Copynumber: 3.3 Consensus size: 18
67100278 ATCCAAGTGT
67100288 TATTTTATTTTATTAAAG
1 TATTTTATTTTATTAAAG
* *
67100306 TATTTCAGTTTATTTCCAAGAG
1 TATTTTATTTTA-TT--AA-AG
*
67100328 TTATTTTATCTTATTAAAG
1 -TATTTTATTTTATTAAAG
67100347 TATTT
1 TATTT
67100352 CACTTTATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
18 15 0.42
19 4 0.11
20 2 0.06
21 2 0.06
22 4 0.11
23 9 0.25
ACGTcount: A:0.30, C:0.06, G:0.08, T:0.56
Consensus pattern (18 bp):
TATTTTATTTTATTAAAG
Found at i:67100374 original size:41 final size:41
Alignment explanation
Indices: 67100279--67100362 Score: 141
Period size: 41 Copynumber: 2.0 Consensus size: 41
67100269 TCAATTTAGA
* * *
67100279 TCCAAGTGTTATTTTATTTTATTAAAGTATTTCAGTTTATT
1 TCCAAGAGTTATTTTATCTTATTAAAGTATTTCACTTTATT
67100320 TCCAAGAGTTATTTTATCTTATTAAAGTATTTCACTTTATT
1 TCCAAGAGTTATTTTATCTTATTAAAGTATTTCACTTTATT
67100361 TC
1 TC
67100363 TTATTTGTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.27, C:0.11, G:0.08, T:0.54
Consensus pattern (41 bp):
TCCAAGAGTTATTTTATCTTATTAAAGTATTTCACTTTATT
Found at i:67100552 original size:62 final size:62
Alignment explanation
Indices: 67100455--67100579 Score: 250
Period size: 62 Copynumber: 2.0 Consensus size: 62
67100445 TCTAATCTCG
67100455 TTTCTCTTCCCATTCAATCGAATTGTTTACATGATTTATTCAATTGAGTTAAAGATTATGAA
1 TTTCTCTTCCCATTCAATCGAATTGTTTACATGATTTATTCAATTGAGTTAAAGATTATGAA
67100517 TTTCTCTTCCCATTCAATCGAATTGTTTACATGATTTATTCAATTGAGTTAAAGATTATGAA
1 TTTCTCTTCCCATTCAATCGAATTGTTTACATGATTTATTCAATTGAGTTAAAGATTATGAA
67100579 T
1 T
67100580 AACAGGAGTG
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.44
Consensus pattern (62 bp):
TTTCTCTTCCCATTCAATCGAATTGTTTACATGATTTATTCAATTGAGTTAAAGATTATGAA
Found at i:67108330 original size:25 final size:24
Alignment explanation
Indices: 67108302--67108364 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 24
67108292 CCAGGTAAAA
67108302 TGCCACAAAGGCTCTTCAGATAAT
1 TGCCACAAAGGCTCTTCAGATAAT
* *
67108326 CTGCCACAAAGGATCTTCAGGTAAT
1 -TGCCACAAAGGCTCTTCAGATAAT
*
67108351 TCACCACAAAGGCT
1 T-GCCACAAAGGCT
67108365 TGGTTTAGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 1 0.03
25 32 0.97
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.22
Consensus pattern (24 bp):
TGCCACAAAGGCTCTTCAGATAAT
Found at i:67108878 original size:43 final size:43
Alignment explanation
Indices: 67108780--67108880 Score: 168
Period size: 43 Copynumber: 2.4 Consensus size: 43
67108770 CAGACATATA
* * *
67108780 TACACA-AATTTCACTAATAATCTTAACAGAATCAAACTTCTC
1 TACACATAATTTCCCAAATAATCTTAACAAAATCAAACTTCTC
67108822 TACACATAATTTCCCAAATAATCTTAACAAAATCAAACTTCTC
1 TACACATAATTTCCCAAATAATCTTAACAAAATCAAACTTCTC
67108865 TACACATAATTTCCCA
1 TACACATAATTTCCCA
67108881 TGCTTACCAC
Statistics
Matches: 55, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
42 6 0.11
43 49 0.89
ACGTcount: A:0.43, C:0.26, G:0.01, T:0.31
Consensus pattern (43 bp):
TACACATAATTTCCCAAATAATCTTAACAAAATCAAACTTCTC
Found at i:67108898 original size:31 final size:33
Alignment explanation
Indices: 67108863--67108927 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
67108853 ATCAAACTTC
67108863 TCTACA-CA-TAATTTCCCATGCTTACCACACA
1 TCTACATCACTAATTTCCCATGCTTACCACACA
*
67108894 TCTACATGACTAATTTCCCATGCTTACCACACA
1 TCTACATCACTAATTTCCCATGCTTACCACACA
67108927 T
1 T
67108928 TGTCATATTC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 6 0.19
32 1 0.03
33 24 0.77
ACGTcount: A:0.31, C:0.34, G:0.05, T:0.31
Consensus pattern (33 bp):
TCTACATCACTAATTTCCCATGCTTACCACACA
Found at i:67112870 original size:8 final size:8
Alignment explanation
Indices: 67112859--67112979 Score: 54
Period size: 8 Copynumber: 14.4 Consensus size: 8
67112849 TATTTTCAAG
67112859 TATATTTA
1 TATATTTA
67112867 TATA-TTA
1 TATATTTA
67112874 TATTATTTA
1 TA-TATTTA
*
67112883 T-TA-ATA
1 TATATTTA
67112889 TATTATTTTA
1 TA-TA-TTTA
*
67112899 TATTTTTA
1 TATATTTA
*
67112907 TATTTTTA
1 TATATTTA
67112915 TATTATCTTA
1 TA-TAT-TTA
*
67112925 TGT-TTTAA
1 TATATTT-A
*
67112933 TATACATTA
1 TATA-TTTA
67112942 TATA-TTA
1 TATATTTA
67112949 TATTATTTTA
1 TA-TA-TTTA
*
67112959 TATTTTATCA
1 TATATT-T-A
67112969 TATATTTA
1 TATATTTA
67112977 TAT
1 TAT
67112980 CTTATTACAT
Statistics
Matches: 88, Mismatches: 9, Indels: 32
0.68 0.07 0.25
Matches are distributed among these distances:
6 3 0.03
7 14 0.16
8 34 0.39
9 16 0.18
10 21 0.24
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.63
Consensus pattern (8 bp):
TATATTTA
Found at i:67112892 original size:15 final size:16
Alignment explanation
Indices: 67112861--67112900 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
67112851 TTTTCAAGTA
*
67112861 TATTTATATATTATAT
1 TATTTATATAATATAT
67112877 TATTTAT-TAATATAT
1 TATTTATATAATATAT
67112892 TATTT-TATA
1 TATTTATATA
67112901 TTTTTATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 1 0.05
15 14 0.64
16 7 0.32
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TATTTATATAATATAT
Found at i:67112902 original size:10 final size:10
Alignment explanation
Indices: 67112823--67112962 Score: 64
Period size: 10 Copynumber: 13.8 Consensus size: 10
67112813 CATATAAAAA
67112823 TTTAT-TTAT
1 TTTATATTAT
67112832 TTGTATATTAT
1 TT-TATATTAT
*
67112843 TTT-TGTTAT
1 TTTATATTAT
67112852 TTTCA-AGTATAT
1 TTT-ATA-T-TAT
67112864 TTATATATTAT
1 TT-TATATTAT
*
67112875 ATTAT-TTAT
1 TTTATATTAT
*
67112884 TAATATATTAT
1 T-TTATATTAT
67112895 TTTATA-T-T
1 TTTATATTAT
67112903 TTTATA-T-T
1 TTTATATTAT
67112911 TTTATATTAT
1 TTTATATTAT
* *
67112921 CTTATGTT-T
1 TTTATATTAT
*
67112930 TAATATACATTAT
1 T--T-TATATTAT
67112943 ATATTATATTAT
1 -T-TTATATTAT
67112955 TTTATATT
1 TTTATATT
67112963 TTATCATATA
Statistics
Matches: 102, Mismatches: 12, Indels: 33
0.69 0.08 0.22
Matches are distributed among these distances:
8 15 0.15
9 17 0.17
10 28 0.27
11 18 0.18
12 18 0.18
13 5 0.05
14 1 0.01
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (10 bp):
TTTATATTAT
Found at i:67112910 original size:26 final size:26
Alignment explanation
Indices: 67112871--67112935 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
67112861 TATTTATATA
* *
67112871 TTATATTATT-TATTAATATATTATT
1 TTATATTTTTATATTAATATATTATC
**
67112896 TTATATTTTTATATTTTTATATTATC
1 TTATATTTTTATATTAATATATTATC
* *
67112922 TTATGTTTTAATAT
1 TTATATTTTTATAT
67112936 ACATTATATA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 9 0.27
26 24 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (26 bp):
TTATATTTTTATATTAATATATTATC
Found at i:67112911 original size:46 final size:47
Alignment explanation
Indices: 67112859--67112977 Score: 129
Period size: 46 Copynumber: 2.5 Consensus size: 47
67112849 TATTTTCAAG
* *
67112859 TATATTTATATATTATATTATTTATTAATATATTATTTTATATT-T-T
1 TATATTTATATATTATATTATTTATTAATATA-CATTATATATTATAT
* *
67112905 TATATTTTTATATTATCTTATGTT-TTAATATACATTATATATTATAT
1 TATATTTATATATTATATTAT-TTATTAATATACATTATATATTATAT
*
67112952 TAT-TTTATATTTTATCATATATTTAT
1 TATATTTATATATTAT-AT-TATTTAT
67112978 ATCTTATTAC
Statistics
Matches: 60, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
45 9 0.15
46 38 0.63
47 9 0.15
48 4 0.07
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.63
Consensus pattern (47 bp):
TATATTTATATATTATATTATTTATTAATATACATTATATATTATAT
Found at i:67113125 original size:21 final size:20
Alignment explanation
Indices: 67113088--67113142 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 20
67113078 TATCATTACA
67113088 TTAT-TTTATTCTT-TTATAT
1 TTATATTTATT-TTATTATAT
67113107 TTATATGTTATTTTATTATA-
1 TTATAT-TTATTTTATTATAT
*
67113127 -TATATTTATATTATTA
1 TTATATTTATTTTATTA
67113143 GTATATTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
18 10 0.31
19 9 0.28
20 3 0.09
21 10 0.31
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (20 bp):
TTATATTTATTTTATTATAT
Found at i:67113136 original size:25 final size:26
Alignment explanation
Indices: 67113088--67113137 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
67113078 TATCATTACA
* *
67113088 TTATTTTATTCTTTTATATTTATATG
1 TTATTTTATTCATATATATTTATATG
67113114 TTATTTTATT-ATATATATTTATAT
1 TTATTTTATTCATATATATTTATAT
67113138 TATTAGTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (26 bp):
TTATTTTATTCATATATATTTATATG
Found at i:67113147 original size:19 final size:19
Alignment explanation
Indices: 67113108--67113148 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
67113098 CTTTTATATT
*
67113108 TATATGTTATTTTATTATA
1 TATATGTTATATTATTATA
67113127 TATAT-TTATATTATTAGTA
1 TATATGTTATATTATTA-TA
67113146 TAT
1 TAT
67113149 TATTACACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (19 bp):
TATATGTTATATTATTATA
Found at i:67113204 original size:22 final size:23
Alignment explanation
Indices: 67113178--67113228 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
67113168 TTATAAATTA
* *
67113178 TTATTAAGCAT-TA-TATTTATG
1 TTATTAAACATGTAGTATGTATG
67113199 TGTATTAAACATGTAGTATGTATG
1 T-TATTAAACATGTAGTATGTATG
67113223 TTATTA
1 TTATTA
67113229 TAAAATTCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 1 0.04
22 9 0.36
23 7 0.28
24 8 0.32
ACGTcount: A:0.33, C:0.04, G:0.14, T:0.49
Consensus pattern (23 bp):
TTATTAAACATGTAGTATGTATG
Found at i:67113543 original size:15 final size:15
Alignment explanation
Indices: 67113525--67113572 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 15
67113515 GTATTCTTGC
67113525 ATAAAATATTAATGT
1 ATAAAATATTAATGT
67113540 ATAAAGAT-TT-ATGATT
1 ATAAA-ATATTAATG--T
67113556 ATAAAATATTAATGT
1 ATAAAATATTAATGT
67113571 AT
1 AT
67113573 GTTGTGATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
14 3 0.11
15 12 0.43
16 10 0.36
17 3 0.11
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (15 bp):
ATAAAATATTAATGT
Found at i:67118000 original size:9 final size:9
Alignment explanation
Indices: 67117986--67118058 Score: 58
Period size: 9 Copynumber: 7.9 Consensus size: 9
67117976 TTGGTTCCTC
67117986 TTTTATTTA
1 TTTTATTTA
67117995 TTTTATTTA
1 TTTTATTTA
*
67118004 TTTTCTTTA
1 TTTTATTTA
*
67118013 TTCCT-TTTA
1 TT-TTATTTA
67118022 TTTTATTTTA
1 TTTTA-TTTA
*
67118032 CTTTATTGTA
1 TTTTATT-TA
* * *
67118042 GTTTAATTC
1 TTTTATTTA
67118051 TTTTATTT
1 TTTTATTT
67118059 GAATTCTTGA
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
8 1 0.02
9 34 0.67
10 16 0.31
ACGTcount: A:0.18, C:0.07, G:0.03, T:0.73
Consensus pattern (9 bp):
TTTTATTTA
Found at i:67123280 original size:42 final size:42
Alignment explanation
Indices: 67123202--67123281 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 42
67123192 GTGCAAGTTT
* * *
67123202 CACACGGCCAAGACATACGCCCGTGTCCTAGGCCGTGTAGCA
1 CACACGGCCAAGACACACGCCCATGTCCTAGCCCGTGTAGCA
* *
67123244 CACACGGCTAAGACACACGCTCATGTCTCT-GCCCGTGT
1 CACACGGCCAAGACACACGCCCATGTC-CTAGCCCGTGT
67123282 GCTCAATTCT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
42 30 0.94
43 2 0.06
ACGTcount: A:0.23, C:0.36, G:0.24, T:0.17
Consensus pattern (42 bp):
CACACGGCCAAGACACACGCCCATGTCCTAGCCCGTGTAGCA
Found at i:67124593 original size:15 final size:15
Alignment explanation
Indices: 67124575--67124607 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
67124565 TTTATAATAT
*
67124575 TCACATAAATGTAAA
1 TCACATAAATATAAA
67124590 TCACATAAATATAAA
1 TCACATAAATATAAA
67124605 TCA
1 TCA
67124608 TATTGCATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.55, C:0.15, G:0.03, T:0.27
Consensus pattern (15 bp):
TCACATAAATATAAA
Found at i:67127534 original size:19 final size:20
Alignment explanation
Indices: 67127512--67127550 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
67127502 CTTTTTCAAT
67127512 TTTTTA-AAAAAAATTAAAA
1 TTTTTAGAAAAAAATTAAAA
*
67127531 TTTTTAGAAAAAATTTAAAA
1 TTTTTAGAAAAAAATTAAAA
67127551 AGTTTTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (20 bp):
TTTTTAGAAAAAAATTAAAA
Found at i:67127923 original size:33 final size:34
Alignment explanation
Indices: 67127886--67127952 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
67127876 AAATAAATTC
* *
67127886 AATTCTTTTT-ATATCAAGTAAATATAATTATTT
1 AATTCTTTTTCACATCAAATAAATATAATTATTT
*
67127919 AATTCTTTTTCACATTAAATAAATATAATTATTT
1 AATTCTTTTTCACATCAAATAAATATAATTATTT
67127953 TGTATACAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 10 0.33
34 20 0.67
ACGTcount: A:0.40, C:0.07, G:0.01, T:0.51
Consensus pattern (34 bp):
AATTCTTTTTCACATCAAATAAATATAATTATTT
Found at i:67133173 original size:14 final size:16
Alignment explanation
Indices: 67133153--67133202 Score: 52
Period size: 18 Copynumber: 3.2 Consensus size: 16
67133143 CTATTTTTAC
67133153 ATTATATTAATAAATTT
1 ATTATATTAATAAA-TT
67133170 ATATATATTAATAAA-T
1 AT-TATATTAATAAATT
*
67133186 -TTATATT-TTAAATT
1 ATTATATTAATAAATT
67133200 ATT
1 ATT
67133203 TTTACATATA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
13 4 0.14
14 7 0.24
15 3 0.10
16 1 0.03
17 2 0.07
18 12 0.41
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
ATTATATTAATAAATT
Found at i:67133178 original size:18 final size:18
Alignment explanation
Indices: 67133155--67133191 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
67133145 ATTTTTACAT
67133155 TATATTAATAAATTTATA
1 TATATTAATAAATTTATA
67133173 TATATTAATAAATTTATA
1 TATATTAATAAATTTATA
67133191 T
1 T
67133192 TTTAAATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TATATTAATAAATTTATA
Found at i:67136923 original size:19 final size:19
Alignment explanation
Indices: 67136899--67136936 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
67136889 TTTCCCTAAA
67136899 ATACTCATCTCATTTAATG
1 ATACTCATCTCATTTAATG
67136918 ATACTCATCTCATTTAATG
1 ATACTCATCTCATTTAATG
67136937 TGTTTTGTAA
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:0.32, C:0.21, G:0.05, T:0.42
Consensus pattern (19 bp):
ATACTCATCTCATTTAATG
Found at i:67137832 original size:10 final size:10
Alignment explanation
Indices: 67137817--67137855 Score: 69
Period size: 10 Copynumber: 3.9 Consensus size: 10
67137807 ATGCATTATA
67137817 AAAGAAAAAT
1 AAAGAAAAAT
67137827 AAAGAAAAAT
1 AAAGAAAAAT
*
67137837 AAAGGAAAAT
1 AAAGAAAAAT
67137847 AAAGAAAAA
1 AAAGAAAAA
67137856 AGAGAGAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.08
Consensus pattern (10 bp):
AAAGAAAAAT
Found at i:67137844 original size:21 final size:20
Alignment explanation
Indices: 67137814--67137890 Score: 68
Period size: 19 Copynumber: 3.8 Consensus size: 20
67137804 GTGATGCATT
67137814 ATAAAAGAAAAATAAAGAAAA
1 ATAAAAG-AAAATAAAGAAAA
*
67137835 ATAAAGGAAAATAAAG-AAA
1 ATAAAAGAAAATAAAGAAAA
* *
67137854 A-AAGAGAGAAATAATGTAAAA
1 ATAAAAGA-AAATAAAG-AAAA
*
67137875 GAAAAAAGAAAATAAA
1 -ATAAAAGAAAATAAA
67137891 AGAATTATTT
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
18 4 0.09
19 11 0.24
20 9 0.20
21 9 0.20
22 7 0.16
23 5 0.11
ACGTcount: A:0.75, C:0.00, G:0.14, T:0.10
Consensus pattern (20 bp):
ATAAAAGAAAATAAAGAAAA
Found at i:67138161 original size:26 final size:26
Alignment explanation
Indices: 67138115--67138175 Score: 61
Period size: 26 Copynumber: 2.3 Consensus size: 26
67138105 TGACTAATGA
* *
67138115 AAGTACCAACTTGGGGAAAAATAGTTT
1 AAGTACC-ACTTGGGGAAAAAAAATTT
*
67138142 AAGTACCACTT-GTGACAAAAAAATTT
1 AAGTACCACTTGGGGA-AAAAAAATTT
*
67138168 AAATACCA
1 AAGTACCA
67138176 AAAATAGAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 3 0.10
26 19 0.66
27 7 0.24
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.25
Consensus pattern (26 bp):
AAGTACCACTTGGGGAAAAAAAATTT
Found at i:67141373 original size:46 final size:44
Alignment explanation
Indices: 67141230--67141373 Score: 107
Period size: 46 Copynumber: 3.1 Consensus size: 44
67141220 CCCGCCCATA
* * *
67141230 AGTGAACTCGGACTTAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---A-ATC-CT
* * *
67141279 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCAAATCC-T
67141322 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AA-ATCCT
67141369 AGTGA
1 AGTGA
67141374 CATGTCACTT
Statistics
Matches: 76, Mismatches: 9, Indels: 23
0.70 0.08 0.21
Matches are distributed among these distances:
42 1 0.01
43 4 0.05
44 4 0.05
46 33 0.43
47 27 0.36
48 4 0.05
49 3 0.04
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCCT
Found at i:67145461 original size:43 final size:43
Alignment explanation
Indices: 67145396--67145558 Score: 165
Period size: 43 Copynumber: 3.8 Consensus size: 43
67145386 AGCTCATACA
* * *
67145396 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
* * *
67145438 ATGCCACA-GTCCCAGACAGGGTCTTACACGTAATCGA-TTAAT-G
1 ATGCCA-ATGTCCCAGACATGGTCTTACATGTAATC-ACAT-ATCG
*
67145481 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA-ATACA
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATAT-CG
* * *
67145524 ATGCCAATGTACCAAACATGGTCTTACATATAATC
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATC
67145559 TCATCTCTGT
Statistics
Matches: 100, Mismatches: 13, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
41 2 0.02
42 7 0.07
43 87 0.87
44 4 0.04
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.28
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
Found at i:67145558 original size:86 final size:85
Alignment explanation
Indices: 67145396--67145558 Score: 204
Period size: 86 Copynumber: 1.9 Consensus size: 85
67145386 AGCTCATACA
* * * * *
67145396 ATGCCATATCCCAGATATGGTCTTACATGTTATCACATATCGATGCCACAGTCCCAGACAGGGTC
1 ATGCCATATCCCAGACATGGTCTTACATGTAATCACATATCAATGCCACAGTACCAAACAGGGTC
*
67145461 TTACACGTAATCGATTAATG
66 TTACACATAATCGATTAATG
* *
67145481 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA-ATACAATGCCA-ATGTACCAAACATG
1 ATGCC-ATATCCCAGACATGGTCTTACATGTAATCACATAT-CAATGCCACA-GTACCAAACAGG
*
67145544 GTCTTACATATAATC
63 GTCTTACACATAATC
67145559 TCATCTCTGT
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
85 8 0.12
86 58 0.88
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.28
Consensus pattern (85 bp):
ATGCCATATCCCAGACATGGTCTTACATGTAATCACATATCAATGCCACAGTACCAAACAGGGTC
TTACACATAATCGATTAATG
Found at i:67147637 original size:20 final size:22
Alignment explanation
Indices: 67147574--67147651 Score: 71
Period size: 19 Copynumber: 3.9 Consensus size: 22
67147564 GATATAAAAT
67147574 ATATATTATATAT--TATATTA
1 ATATATTATATATAATATATTA
* * *
67147594 AT-T-TAATATTTAA-GTATTA
1 ATATATTATATATAATATATTA
67147613 ATATA-TA-ATATAATATATTA
1 ATATATTATATATAATATATTA
*
67147633 TTATATTATATATAATATA
1 ATATATTATATATAATATA
67147652 ATATATAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
18 6 0.14
19 13 0.30
20 13 0.30
21 2 0.05
22 10 0.23
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (22 bp):
ATATATTATATATAATATATTA
Found at i:67147654 original size:39 final size:37
Alignment explanation
Indices: 67147565--67147659 Score: 95
Period size: 39 Copynumber: 2.5 Consensus size: 37
67147555 GATATTTTTG
* * *
67147565 ATATAAAAT-ATATATTATATATTATATTAATTTAAT
1 ATATAATATAATATATAATATAATATATTAATTTAAT
*
67147601 ATTTAAGTATTAATATATAATATAATATATT-ATTATATTAT
1 ATATAA-TA-TAATATATAATATAATATATTAATT-TA--AT
67147642 ATATAATATAATATATAA
1 ATATAATATAATATATAA
67147660 AACATAAAGT
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
36 5 0.10
37 1 0.02
38 4 0.08
39 29 0.60
40 2 0.04
41 7 0.15
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (37 bp):
ATATAATATAATATATAATATAATATATTAATTTAAT
Found at i:67147659 original size:7 final size:7
Alignment explanation
Indices: 67147565--67147659 Score: 60
Period size: 7 Copynumber: 14.1 Consensus size: 7
67147555 GATATTTTTG
*
67147565 ATATAAA
1 ATATATA
67147572 ATATATA
1 ATATATA
*
67147579 TTATATA
1 ATATATA
*
67147586 TTATATTA
1 ATATA-TA
67147594 AT-T-TA
1 ATATATA
*
67147599 ATATTTA
1 ATATATA
67147606 AGTAT-TA
1 A-TATATA
67147613 ATATAT-
1 ATATATA
67147619 A-ATATA
1 ATATATA
*
67147625 ATATATT
1 ATATATA
67147632 AT-TATA
1 ATATATA
*
67147638 TTATAT-
1 ATATATA
67147644 ATAATATA
1 AT-ATATA
67147652 ATATATA
1 ATATATA
67147659 A
1 A
67147660 AACATAAAGT
Statistics
Matches: 71, Mismatches: 7, Indels: 20
0.72 0.07 0.20
Matches are distributed among these distances:
5 8 0.11
6 11 0.15
7 44 0.62
8 8 0.11
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (7 bp):
ATATATA
Found at i:67148828 original size:29 final size:31
Alignment explanation
Indices: 67148791--67148848 Score: 93
Period size: 29 Copynumber: 1.9 Consensus size: 31
67148781 CTAGCGCGTT
67148791 CTCTGATTATTAGCACATT-AGTGCTCTCCG
1 CTCTGATTATTAGCACATTAAGTGCTCTCCG
*
67148821 CTCT-ATTATTAGCACGTTAAGTGCTCTC
1 CTCTGATTATTAGCACATTAAGTGCTCTC
67148849 TGTTTAGCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 13 0.50
30 13 0.50
ACGTcount: A:0.21, C:0.26, G:0.16, T:0.38
Consensus pattern (31 bp):
CTCTGATTATTAGCACATTAAGTGCTCTCCG
Found at i:67148892 original size:22 final size:23
Alignment explanation
Indices: 67148830--67148895 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 23
67148820 GCTCTATTAT
* * *
67148830 TAGCACGTTAAGTGCTCTCTGTT
1 TAGCACATTTAGTGCTCTCTGTA
* *
67148853 TAGCACATCT-GTGTTCTCTGTA
1 TAGCACATTTAGTGCTCTCTGTA
67148875 TAGCAC-TTTAGTGCTCTCTGT
1 TAGCACATTTAGTGCTCTCTGT
67148896 TCGTTTGTGC
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
21 2 0.06
22 26 0.74
23 7 0.20
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.41
Consensus pattern (23 bp):
TAGCACATTTAGTGCTCTCTGTA
Found at i:67153598 original size:13 final size:13
Alignment explanation
Indices: 67153582--67153611 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
67153572 GGTGCTGCAA
67153582 AAAAATGCTTATG
1 AAAAATGCTTATG
*
67153595 AAAAATGCTTTTG
1 AAAAATGCTTATG
67153608 AAAA
1 AAAA
67153612 GCTTGGTCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.07, G:0.13, T:0.30
Consensus pattern (13 bp):
AAAAATGCTTATG
Found at i:67155208 original size:16 final size:18
Alignment explanation
Indices: 67155171--67155205 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
67155161 AATACTAAGA
67155171 ATTT-TATTAAATTATAT
1 ATTTATATTAAATTATAT
67155188 ATTTATATTAAATTATAT
1 ATTTATATTAAATTATAT
67155206 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTATATTAAATTATAT
Found at i:67155217 original size:16 final size:17
Alignment explanation
Indices: 67155178--67155223 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 17
67155168 AGAATTTTAT
* *
67155178 TAAATTATATATTTATAT
1 TAAATTATAT-TTAATAA
67155196 TAAATTATATTTAATAA
1 TAAATTATATTTAATAA
67155213 T-AATTAT-TTTA
1 TAAATTATATTTA
67155224 GATTATATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 4 0.15
16 6 0.23
17 6 0.23
18 10 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TAAATTATATTTAATAA
Found at i:67155219 original size:26 final size:25
Alignment explanation
Indices: 67155190--67155246 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
67155180 AATTATATAT
67155190 TTATATTAAATTATATTTAATAATAA
1 TTATATTAAATTATATTTAATAAT-A
* * * *
67155216 TTATTTTAGATTATATTTTATAGTA
1 TTATATTAAATTATATTTAATAATA
67155241 TTATAT
1 TTATAT
67155247 ATTATGATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
25 6 0.23
26 20 0.77
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (25 bp):
TTATATTAAATTATATTTAATAATA
Found at i:67155280 original size:59 final size:59
Alignment explanation
Indices: 67155097--67155282 Score: 198
Period size: 59 Copynumber: 3.1 Consensus size: 59
67155087 CAAAATCAAT
*
67155097 TATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCGTATAAGAA
1 TATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAA
* * * * * ** * * * *
67155156 TATTTAATACTAAGAATTTTATTA-AATTATATATTTAT-ATTAAATTATATTTA-ATAATAA
1 TATTTTAGA-TTA-TATTTTA-TAGTATTATATA-TTATGATTTTAGTAAATTCATATAAGAA
67155216 TTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAA
1 -TATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAA
67155276 TATTTTA
1 TATTTTA
67155283 ATATTAAGAA
Statistics
Matches: 96, Mismatches: 23, Indels: 16
0.71 0.17 0.12
Matches are distributed among these distances:
58 6 0.06
59 38 0.40
60 16 0.17
61 30 0.31
62 6 0.06
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (59 bp):
TATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAA
Found at i:67155314 original size:18 final size:18
Alignment explanation
Indices: 67155293--67155328 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
67155283 ATATTAAGAA
67155293 TTTTATTAAATTATATTT
1 TTTTATTAAATTATATTT
67155311 TTTTATTAAATTATATTT
1 TTTTATTAAATTATATTT
67155329 AATAATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTATTAAATTATATTT
Found at i:67155336 original size:18 final size:18
Alignment explanation
Indices: 67155297--67155336 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
67155287 TAAGAATTTT
** *
67155297 ATTAAATTATATTTTTTT
1 ATTAAATTATATTTAATA
67155315 ATTAAATTATATTTAATA
1 ATTAAATTATATTTAATA
67155333 ATTA
1 ATTA
67155337 TTATGTTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTAAATTATATTTAATA
Found at i:67155576 original size:45 final size:44
Alignment explanation
Indices: 67155486--67155580 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 44
67155476 TTACACCTCT
* *
67155486 ATTACATTCAACCAAACACAGGATTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACACAGGATTACTATTACACCTCTAATCC
*** *
67155530 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTAATCC
1 ATTACATTCAACCAAACACAGGA-TTACTATTACACCTCTAATCC
67155575 ATTACA
1 ATTACA
67155581 CCTCTAATCC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 20 0.45
45 24 0.55
ACGTcount: A:0.35, C:0.27, G:0.06, T:0.32
Consensus pattern (44 bp):
ATTACATTCAACCAAACACAGGATTACTATTACACCTCTAATCC
Found at i:67155580 original size:16 final size:16
Alignment explanation
Indices: 67155559--67155628 Score: 113
Period size: 16 Copynumber: 4.4 Consensus size: 16
67155549 TTGATTTGCT
67155559 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
67155575 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
67155591 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
*
67155607 ATTACGCCTCTAATCC
1 ATTACACCTCTAATCC
*
67155623 AATACA
1 ATTACA
67155629 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.31, C:0.36, G:0.01, T:0.31
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:67162248 original size:49 final size:49
Alignment explanation
Indices: 67162156--67162285 Score: 129
Period size: 49 Copynumber: 2.7 Consensus size: 49
67162146 ACATAAAAGT
* * * *
67162156 CGATGCTA-GTCCCAGACAGGGCTTATACTGACTTTCATATATCGAG-GC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCG-GTGC
* * * * *
67162204 CGATGCCGTGTCCCAGACAAGTCTTACACTGGCTCTCATCTATCGGTGT
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGGTGC
** *
67162253 CGATGCCATGTCTTAGATAGGTCTTACACTGAC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGAC
67162286 ACACAACAAG
Statistics
Matches: 65, Mismatches: 15, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
48 7 0.11
49 58 0.89
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.28
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGGTGC
Found at i:67162413 original size:46 final size:45
Alignment explanation
Indices: 67162344--67162469 Score: 159
Period size: 46 Copynumber: 2.8 Consensus size: 45
67162334 ATATCTCGAG
*
67162344 GCTGATGCATGTCCCAGATATGTCTTACACTAGCTCTTGTC-TCAAAGT
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCTC---TCAT-AAAGT
* *
67162392 -C-GATGCATGTCCTAGACATGTCTTACACTAGCTCTCATAATGT
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAAAGT
67162435 GGCTGATGCATGTCCCAGACATGTCTTACACTAGC
1 -GCTGATGCATGTCCCAGACATGTCTTACACTAGC
67162470 ACACATATCA
Statistics
Matches: 70, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
43 6 0.09
44 1 0.01
45 1 0.01
46 61 0.87
47 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (45 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAAAGT
Found at i:67163115 original size:27 final size:27
Alignment explanation
Indices: 67163084--67163138 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
67163074 GGAAAAACAC
67163084 TAGACTCTCAACCATTTTGCAAAATAG
1 TAGACTCTCAACCATTTTGCAAAATAG
67163111 TAGACTCTCAACCATTTTGCAAAATAG
1 TAGACTCTCAACCATTTTGCAAAATAG
67163138 T
1 T
67163139 CCCTTCATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.22, G:0.11, T:0.31
Consensus pattern (27 bp):
TAGACTCTCAACCATTTTGCAAAATAG
Found at i:67164246 original size:44 final size:44
Alignment explanation
Indices: 67164183--67164271 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
67164173 TGTCTTTGGT
67164183 ACATCAGAGTCTCTAACTCGTAACTAGTAATAACCCGATCTCAA
1 ACATCAGAGTCTCTAACTCGTAACTAGTAATAACCCGATCTCAA
*
67164227 ACATCAGAGTTTCTAACTCGTAACTAGTAATAACCCGATCTCAA
1 ACATCAGAGTCTCTAACTCGTAACTAGTAATAACCCGATCTCAA
67164271 A
1 A
67164272 TCTATTTTTG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.37, C:0.26, G:0.11, T:0.26
Consensus pattern (44 bp):
ACATCAGAGTCTCTAACTCGTAACTAGTAATAACCCGATCTCAA
Found at i:67173098 original size:37 final size:31
Alignment explanation
Indices: 67173030--67173090 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
67173020 ATATCCCAGA
67173030 CATGGTCTTACACGTAATCACAATACAATGT
1 CATGGTCTTACACGTAATCACAATACAATGT
67173061 CATGGTCTTACACGTAATCACAATACAATG
1 CATGGTCTTACACGTAATCACAATACAATG
67173091 CCAATGTCCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (31 bp):
CATGGTCTTACACGTAATCACAATACAATGT
Found at i:67176681 original size:13 final size:13
Alignment explanation
Indices: 67176663--67176700 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
67176653 GCTATACAGG
67176663 CGTGTGGGCCACT
1 CGTGTGGGCCACT
67176676 CGTGTGGGCCACT
1 CGTGTGGGCCACT
*
67176689 CGTGTGGACCAC
1 CGTGTGGGCCAC
67176701 ACGATAATGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.11, C:0.32, G:0.37, T:0.21
Consensus pattern (13 bp):
CGTGTGGGCCACT
Found at i:67179041 original size:34 final size:34
Alignment explanation
Indices: 67179003--67179118 Score: 151
Period size: 34 Copynumber: 3.4 Consensus size: 34
67178993 GTAGGATTTG
* *
67179003 TTCTGATATGATATATGTTTTTGAAAATATGACA
1 TTCTGATATGATATATGTTTCTGGAAATATGACA
* * *
67179037 TTCTGATCTGGTATATGCTTCTGGAAATATGACA
1 TTCTGATATGATATATGTTTCTGGAAATATGACA
* * * *
67179071 TTTTGATTTGATATATGTTTCTGGTAATGTGACA
1 TTCTGATATGATATATGTTTCTGGAAATATGACA
67179105 TTCTGATATGATAT
1 TTCTGATATGATAT
67179119 TTGTATATGT
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 69 1.00
ACGTcount: A:0.28, C:0.09, G:0.18, T:0.45
Consensus pattern (34 bp):
TTCTGATATGATATATGTTTCTGGAAATATGACA
Found at i:67180405 original size:31 final size:31
Alignment explanation
Indices: 67180329--67180393 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
67180319 TTCCTGCATT
*
67180329 AAATCCAACCAAAAACAACAAATATAACATG
1 AAATCCAACCAAAAACAACAAATATAACATA
* * *
67180360 AAATCCAACCAAAAATAGCAAATATAGCATA
1 AAATCCAACCAAAAACAACAAATATAACATA
67180391 AAA
1 AAA
67180394 ATACAACAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.62, C:0.20, G:0.05, T:0.14
Consensus pattern (31 bp):
AAATCCAACCAAAAACAACAAATATAACATA
Found at i:67180656 original size:27 final size:27
Alignment explanation
Indices: 67180626--67180678 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
67180616 TGCCATCGCT
*
67180626 GCTGCCTCTACCTCCCTTACTACTGCC
1 GCTGCCTCTACCTCCCTCACTACTGCC
* *
67180653 GCTGCCTCTGCCTCCCTCGCTACTGC
1 GCTGCCTCTACCTCCCTCACTACTGC
67180679 ATCTGCTCTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.08, C:0.49, G:0.15, T:0.28
Consensus pattern (27 bp):
GCTGCCTCTACCTCCCTCACTACTGCC
Found at i:67180684 original size:27 final size:27
Alignment explanation
Indices: 67180626--67180688 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 27
67180616 TGCCATCGCT
* *
67180626 GCTGCCTCTACCTCCCTTACTACTGCC
1 GCTGCCTCTACCTCCCTCACTACTGCA
* *
67180653 GCTGCCTCTGCCTCCCTCGCTACTGCA
1 GCTGCCTCTACCTCCCTCACTACTGCA
*
67180680 TCTG-CTCTA
1 GCTGCCTCTA
67180689 AGTTATTGCT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 4 0.13
27 26 0.87
ACGTcount: A:0.10, C:0.46, G:0.14, T:0.30
Consensus pattern (27 bp):
GCTGCCTCTACCTCCCTCACTACTGCA
Found at i:67181116 original size:13 final size:14
Alignment explanation
Indices: 67181090--67181121 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
67181080 ACTAACGACG
67181090 AATTAAACCATTAA
1 AATTAAACCATTAA
67181104 AATTAAA-CATTAA
1 AATTAAACCATTAA
67181117 AATTA
1 AATTA
67181122 TTTATAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.31
Consensus pattern (14 bp):
AATTAAACCATTAA
Found at i:67183244 original size:23 final size:23
Alignment explanation
Indices: 67183214--67183259 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
67183204 CTTTTTTATT
*
67183214 ATTATCAAATGAATTTTCTTAAC
1 ATTATCAAATAAATTTTCTTAAC
*
67183237 ATTATCAACTAAATTTTCTTAAC
1 ATTATCAAATAAATTTTCTTAAC
67183260 CAAATACTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.39, C:0.15, G:0.02, T:0.43
Consensus pattern (23 bp):
ATTATCAAATAAATTTTCTTAAC
Found at i:67183867 original size:25 final size:25
Alignment explanation
Indices: 67183839--67183904 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
67183829 AGAGAAGCAA
* *
67183839 CAGAGGGATGCCGACGGAGATGTAG
1 CAGAGGGATGCCGACGGAAATATAG
*
67183864 CAGAGGGATGCCGAAGGAAATATAG
1 CAGAGGGATGCCGACGGAAATATAG
* *
67183889 CAGAGGGCTGTCGACG
1 CAGAGGGATGCCGACG
67183905 ACGATGCCAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.30, C:0.17, G:0.41, T:0.12
Consensus pattern (25 bp):
CAGAGGGATGCCGACGGAAATATAG
Found at i:67184034 original size:14 final size:14
Alignment explanation
Indices: 67184015--67184059 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
67184005 AACAACCCAA
67184015 GATATATGCATATT
1 GATATATGCATATT
67184029 GATATATG--TA-T
1 GATATATGCATATT
67184040 -ATATATGCATATT
1 GATATATGCATATT
67184053 GATATAT
1 GATATAT
67184060 ATATATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
10 7 0.26
11 1 0.04
12 4 0.15
13 1 0.04
14 14 0.52
ACGTcount: A:0.38, C:0.04, G:0.13, T:0.44
Consensus pattern (14 bp):
GATATATGCATATT
Found at i:67184046 original size:24 final size:24
Alignment explanation
Indices: 67184016--67184069 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
67184006 ACAACCCAAG
*
67184016 ATATATGCATATTGATATATGTAT
1 ATATATGCATATTGATATATATAT
67184040 ATATATGCATATTGATATATATAT
1 ATATATGCATATTGATATATATAT
67184064 ATATAT
1 ATATAT
67184070 TACAATCACG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.46
Consensus pattern (24 bp):
ATATATGCATATTGATATATATAT
Found at i:67187270 original size:40 final size:40
Alignment explanation
Indices: 67187214--67187316 Score: 134
Period size: 40 Copynumber: 2.5 Consensus size: 40
67187204 TTTAATTAAA
*
67187214 CTTTTAGCGGCGTTTTTACAAAAGCGCCACTAAATCTCAAT
1 CTTTT-GCGGCGTTTTTACAAAAGCGCCACCAAATCTCAAT
* *
67187255 CTTTTGCGGCGTTTTTACAAAAGCTCCACCAATTCTCAAT
1 CTTTTGCGGCGTTTTTACAAAAGCGCCACCAAATCTCAAT
* * * *
67187295 CTTTAGTGGCATTTTTAGAAAA
1 CTTTTGCGGCGTTTTTACAAAA
67187317 AGGCCGCTAA
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
40 50 0.91
41 5 0.09
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (40 bp):
CTTTTGCGGCGTTTTTACAAAAGCGCCACCAAATCTCAAT
Found at i:67188450 original size:38 final size:36
Alignment explanation
Indices: 67188380--67188456 Score: 111
Period size: 38 Copynumber: 2.1 Consensus size: 36
67188370 CCTGACCAAT
*
67188380 ACCATAAACTTAACATACTATACCATTGAACCCTAA
1 ACCATAAACTTAAAATACTATACCATTGAACCCTAA
67188416 ACCATAAACTTAAAATA-TATTCTACCATTGAACCCTAA
1 ACCATAAACTTAAAATACTA---TACCATTGAACCCTAA
67188454 ACC
1 ACC
67188457 CCAAAATAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
35 2 0.05
36 16 0.43
38 19 0.51
ACGTcount: A:0.44, C:0.27, G:0.03, T:0.26
Consensus pattern (36 bp):
ACCATAAACTTAAAATACTATACCATTGAACCCTAA
Found at i:67188578 original size:7 final size:7
Alignment explanation
Indices: 67188566--67188668 Score: 53
Period size: 7 Copynumber: 14.4 Consensus size: 7
67188556 TGATTTTTTG
67188566 GGGTTTA
1 GGGTTTA
67188573 GGGTTTTA
1 GGG-TTTA
**
67188581 AAGTTTA
1 GGGTTTA
* *
67188588 TGGATTA
1 GGGTTTA
*
67188595 GTGTTTA
1 GGGTTTA
67188602 GGGTTTA
1 GGGTTTA
***
67188609 TATTTTA
1 GGGTTTA
**
67188616 GAATTTA
1 GGGTTTA
67188623 GGGTTTA
1 GGGTTTA
*
67188630 GTGTTTA
1 GGGTTTA
*
67188637 GGATTTA
1 GGGTTTA
**
67188644 ATGTTTA
1 GGGTTTA
*
67188651 GGATTTAA
1 GGGTTT-A
67188659 GGGTTTA
1 GGGTTTA
67188666 GGG
1 GGG
67188669 AAAGCCATGC
Statistics
Matches: 68, Mismatches: 26, Indels: 4
0.69 0.27 0.04
Matches are distributed among these distances:
7 57 0.84
8 11 0.16
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (7 bp):
GGGTTTA
Found at i:67188636 original size:14 final size:14
Alignment explanation
Indices: 67188619--67188667 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
67188609 TATTTTAGAA
*
67188619 TTTAGGGTTTAGTG
1 TTTAGGATTTAGTG
*
67188633 TTTAGGATTTAATG
1 TTTAGGATTTAGTG
*
67188647 TTTAGGATTTAAGGG
1 TTTAGGATTT-AGTG
67188662 TTTAGG
1 TTTAGG
67188668 GAAAGCCATG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 22 0.73
15 8 0.27
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (14 bp):
TTTAGGATTTAGTG
Found at i:67189008 original size:42 final size:41
Alignment explanation
Indices: 67188949--67189063 Score: 142
Period size: 42 Copynumber: 2.8 Consensus size: 41
67188939 TTGCCTAACA
* *
67188949 TTTTGCGGCGTTTGGACCAAAAACGCCGTTGTAGATAAACTT
1 TTTTGCGGCGTTTGGACCAAAAACGCCGCTATAGAT-AACTT
* * * *
67188991 TTTTGCGGCGTTTGGACCAAAAATGCCGCTATTGATCAGTT
1 TTTTGCGGCGTTTGGACCAAAAACGCCGCTATAGATAACTT
*
67189032 TTTAGCGGCGTTTTGG-CCAAAAACGCCGCTAT
1 TTTTGCGGCG-TTTGGACCAAAAACGCCGCTAT
67189064 TGTTCAATTT
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
41 27 0.42
42 37 0.58
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.31
Consensus pattern (41 bp):
TTTTGCGGCGTTTGGACCAAAAACGCCGCTATAGATAACTT
Found at i:67189052 original size:41 final size:41
Alignment explanation
Indices: 67188949--67189075 Score: 150
Period size: 41 Copynumber: 3.1 Consensus size: 41
67188939 TTGCCTAACA
* * * *
67188949 TTTT-GCGGCGTTTGGACCAAAAACGCCGTTGTAGATAAACT
1 TTTTAGCGGCGTTTGGACCAAAAACGCCGCTATTGATCAA-T
* * *
67188990 TTTTTGCGGCGTTTGGACCAAAAATGCCGCTATTGATCAGT
1 TTTTAGCGGCGTTTGGACCAAAAACGCCGCTATTGATCAAT
*
67189031 TTTTAGCGGCGTTTTGG-CCAAAAACGCCGCTATTGTTCAAT
1 TTTTAGCGGCG-TTTGGACCAAAAACGCCGCTATTGATCAAT
67189072 TTTT
1 TTTT
67189076 TGCGCGCCGC
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
41 40 0.54
42 34 0.46
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.35
Consensus pattern (41 bp):
TTTTAGCGGCGTTTGGACCAAAAACGCCGCTATTGATCAAT
Found at i:67190654 original size:48 final size:48
Alignment explanation
Indices: 67190579--67190687 Score: 155
Period size: 48 Copynumber: 2.3 Consensus size: 48
67190569 CCGTAACGGT
* * **
67190579 AACAGTCTCAGTCACGGTACACAAAGTACCTCATCGGAACGAATCCGG
1 AACAGTCACAGTCACGGTACACAAAGTACCTCATAGGAACGAATCCAA
* *
67190627 AACAGTCACAGTCACGTTACACTAAGTACCTCATAGGAACGAATCCAA
1 AACAGTCACAGTCACGGTACACAAAGTACCTCATAGGAACGAATCCAA
*
67190675 AATAGTCACAGTC
1 AACAGTCACAGTC
67190688 TGGCGACACT
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.37, C:0.28, G:0.17, T:0.18
Consensus pattern (48 bp):
AACAGTCACAGTCACGGTACACAAAGTACCTCATAGGAACGAATCCAA
Found at i:67190983 original size:3 final size:3
Alignment explanation
Indices: 67190970--67191005 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
67190960 TTTCAATACC
* *
67190970 ATA ACA ATA ATA ATA ATA ATG ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
67191006 CTTGCCATTC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:67191665 original size:16 final size:15
Alignment explanation
Indices: 67191643--67191681 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
67191633 CTTTTTCTCC
67191643 TTCTTTCTCCCCTGT
1 TTCTTTCTCCCCTGT
* *
67191658 TTCGTTTCTTCTCTGT
1 TTC-TTTCTCCCCTGT
67191674 TTCTTTCT
1 TTCTTTCT
67191682 ATTCTTTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.00, C:0.31, G:0.08, T:0.62
Consensus pattern (15 bp):
TTCTTTCTCCCCTGT
Found at i:67193242 original size:18 final size:18
Alignment explanation
Indices: 67193206--67193245 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
67193196 ATTTCATATA
*
67193206 TTTTATAATATTTTTAAT
1 TTTTATAATATTTTGAAT
67193224 TTTTAT-ATATTTTAGAAT
1 TTTTATAATATTTT-GAAT
67193242 TTTT
1 TTTT
67193246 TGTCAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (18 bp):
TTTTATAATATTTTGAAT
Found at i:67193493 original size:21 final size:22
Alignment explanation
Indices: 67193417--67193499 Score: 68
Period size: 19 Copynumber: 4.0 Consensus size: 22
67193407 TAAAAAAATA
*
67193417 TTTTTAAAATAGATTCC-A--T
1 TTTTTAAAATAAATTCCAAGTT
* *
67193436 GTTTTAAAATAAATACCAAGTT
1 TTTTTAAAATAAATTCCAAGTT
* * *
67193458 TTTTATAATACAAATTTC-AGTT
1 TTTT-TAAAATAAATTCCAAGTT
67193480 TTTTTAAAATAAATT-CAAGT
1 TTTTTAAAATAAATTCCAAGT
67193500 GGAAGGTAAA
Statistics
Matches: 49, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
19 14 0.29
20 2 0.04
21 12 0.24
22 12 0.24
23 9 0.18
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.45
Consensus pattern (22 bp):
TTTTTAAAATAAATTCCAAGTT
Found at i:67193779 original size:23 final size:23
Alignment explanation
Indices: 67193748--67193794 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
67193738 AATATTTAAT
67193748 TTTCAAAAATATT-TTTTCTAAAA
1 TTTCAAAAAT-TTATTTTCTAAAA
*
67193771 TTTCTAAAATTTATTTTCTAAAA
1 TTTCAAAAATTTATTTTCTAAAA
67193794 T
1 T
67193795 AATTTTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 2 0.09
23 20 0.91
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (23 bp):
TTTCAAAAATTTATTTTCTAAAA
Found at i:67195096 original size:18 final size:18
Alignment explanation
Indices: 67195073--67195118 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
67195063 CACACCGACG
* *
67195073 TGTGGGCCTACATGGGTA
1 TGTGGGCCCACACGGGTA
67195091 TGTGGGCCCACACGGGTA
1 TGTGGGCCCACACGGGTA
67195109 TGTGGGCCCA
1 TGTGGGCCCA
67195119 TTAATCTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.15, C:0.24, G:0.39, T:0.22
Consensus pattern (18 bp):
TGTGGGCCCACACGGGTA
Found at i:67211101 original size:12 final size:12
Alignment explanation
Indices: 67211079--67211107 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
67211069 GAAAATTAGT
67211079 AAATT-AAAATA
1 AAATTAAAAATA
67211090 AAATTAAAAATA
1 AAATTAAAAATA
67211102 AAATTA
1 AAATTA
67211108 GATTGCAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (12 bp):
AAATTAAAAATA
Found at i:67215914 original size:17 final size:17
Alignment explanation
Indices: 67215894--67215935 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
67215884 ATATTAACAT
67215894 TTGAAAAATCTTAAAAA
1 TTGAAAAATCTTAAAAA
* *
67215911 TTGAAATATTTTAAAAA
1 TTGAAAAATCTTAAAAA
67215928 TT-AAAAAT
1 TTGAAAAAT
67215936 ATTTAAAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (17 bp):
TTGAAAAATCTTAAAAA
Found at i:67215940 original size:17 final size:17
Alignment explanation
Indices: 67215904--67215944 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
67215894 TTGAAAAATC
*
67215904 TTAAAAATTGAAATATT
1 TTAAAAATTAAAATATT
67215921 TTAAAAATTAAAA-ATAT
1 TTAAAAATTAAAATAT-T
67215938 TTAAAAA
1 TTAAAAA
67215945 CTATTTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 2 0.09
17 20 0.91
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (17 bp):
TTAAAAATTAAAATATT
Found at i:67215943 original size:10 final size:10
Alignment explanation
Indices: 67215914--67215954 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
67215904 TTAAAAATTG
*
67215914 AAATATTTTA
1 AAATATTTAA
67215924 AAA-A-TTAA
1 AAATATTTAA
67215932 AAATATTTAA
1 AAATATTTAA
67215942 AAACTATTTAA
1 AAA-TATTTAA
67215953 AA
1 AA
67215955 TAAAAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
8 6 0.22
9 2 0.07
10 10 0.37
11 9 0.33
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (10 bp):
AAATATTTAA
Found at i:67219215 original size:17 final size:17
Alignment explanation
Indices: 67219195--67219245 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
67219185 CACTGCTAAC
67219195 AACAAACCATTGCTTAA
1 AACAAACCATTGCTTAA
67219212 AAC--A--A-TGC-TAA
1 AACAAACCATTGCTTAA
67219223 CAACAAACCATTGCTTAA
1 -AACAAACCATTGCTTAA
67219241 AACAA
1 AACAA
67219246 TCTCATATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 14
0.66 0.00 0.34
Matches are distributed among these distances:
11 3 0.11
12 6 0.22
13 1 0.04
14 1 0.04
15 1 0.04
16 1 0.04
17 11 0.41
18 3 0.11
ACGTcount: A:0.51, C:0.24, G:0.06, T:0.20
Consensus pattern (17 bp):
AACAAACCATTGCTTAA
Found at i:67219222 original size:29 final size:29
Alignment explanation
Indices: 67219188--67219246 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
67219178 AAAAGGTCAC
67219188 TGCTAACAACAAACCATTGCTTAAAACAA
1 TGCTAACAACAAACCATTGCTTAAAACAA
67219217 TGCTAACAACAAACCATTGCTTAAAACAA
1 TGCTAACAACAAACCATTGCTTAAAACAA
67219246 T
1 T
67219247 CTCATATTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.47, C:0.24, G:0.07, T:0.22
Consensus pattern (29 bp):
TGCTAACAACAAACCATTGCTTAAAACAA
Found at i:67223881 original size:25 final size:25
Alignment explanation
Indices: 67223818--67223905 Score: 72
Period size: 25 Copynumber: 3.5 Consensus size: 25
67223808 TGTATAACGG
*
67223818 GAAGCTCA-AGAGAGCC-ATTAGTCGA
1 GAAGCTCATA-AGAGCCAAATA-TCGA
* *
67223843 AAAGCTCATAAGAGTCAAATATCGA
1 GAAGCTCATAAGAGCCAAATATCGA
* * * *
67223868 GAAGCTCGTGAGAGCCATATAACGA
1 GAAGCTCATAAGAGCCAAATATCGA
*
67223893 GATGCTCATAAGA
1 GAAGCTCATAAGA
67223906 TCTAAATAAT
Statistics
Matches: 49, Mismatches: 12, Indels: 4
0.75 0.18 0.06
Matches are distributed among these distances:
25 45 0.92
26 4 0.08
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.18
Consensus pattern (25 bp):
GAAGCTCATAAGAGCCAAATATCGA
Found at i:67223914 original size:25 final size:24
Alignment explanation
Indices: 67223846--67223924 Score: 59
Period size: 25 Copynumber: 3.2 Consensus size: 24
67223836 TAGTCGAAAA
* *
67223846 GCTCATAAGAGTCAAATATCGAGAA
1 GCTCATAAGA-TCAAATAACGAGAT
* * * *
67223871 GCTCGTGAGAGCCATATAACGAGAT
1 GCTCATAAGA-TCAAATAACGAGAT
* *
67223896 GCTCATAAGATCTAAATAATGGGAT
1 GCTCATAAGATC-AAATAACGAGAT
67223921 GCTC
1 GCTC
67223925 TTGTGAGCTG
Statistics
Matches: 41, Mismatches: 12, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
24 1 0.02
25 40 0.98
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.23
Consensus pattern (24 bp):
GCTCATAAGATCAAATAACGAGAT
Found at i:67229866 original size:20 final size:22
Alignment explanation
Indices: 67229841--67229886 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
67229831 CTCTGCTCAA
*
67229841 ACTCCA-CTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
67229861 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
67229883 ACTC
1 ACTC
67229887 ACTCCTTCTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.26
21 13 0.57
22 4 0.17
ACGTcount: A:0.22, C:0.37, G:0.20, T:0.22
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Done.