Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032246.1 Gossypioides kirkii chromosome KI_03
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: 42061019
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2000 characters in sequence are not A, C, G, or T
File 102 of 135
Found at i:31543493 original size:21 final size:21
Alignment explanation
Indices: 31543469--31543530 Score: 55
Period size: 21 Copynumber: 3.1 Consensus size: 21
31543459 TTTCATCCAC
31543469 TTGTAGGAAGCATTATTGACT
1 TTGTAGGAAGCATTATTGACT
*
31543490 TTGT-GG--GCA--ATTCTA-T
1 TTGTAGGAAGCATTATT-GACT
31543506 CTTGTAGGAAGCATTATTGACT
1 -TTGTAGGAAGCATTATTGACT
31543528 TTG
1 TTG
31543531 AAAGGACTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 16
0.63 0.04 0.33
Matches are distributed among these distances:
16 4 0.13
17 5 0.16
18 5 0.16
20 5 0.16
21 8 0.26
22 4 0.13
ACGTcount: A:0.24, C:0.11, G:0.24, T:0.40
Consensus pattern (21 bp):
TTGTAGGAAGCATTATTGACT
Found at i:31549002 original size:27 final size:27
Alignment explanation
Indices: 31548972--31549026 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
31548962 ATAAATAAAC
31548972 AATGATTAACATTTACGACCATATTTT
1 AATGATTAACATTTACGACCATATTTT
31548999 AATGATTAACATTTACGACCATATTTT
1 AATGATTAACATTTACGACCATATTTT
31549026 A
1 A
31549027 TAAAAATGTG
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:0.38, C:0.15, G:0.07, T:0.40
Consensus pattern (27 bp):
AATGATTAACATTTACGACCATATTTT
Found at i:31561078 original size:111 final size:110
Alignment explanation
Indices: 31560873--31561093 Score: 363
Period size: 111 Copynumber: 2.0 Consensus size: 110
31560863 TTTTGCTTTA
* *
31560873 AAAAATAAAACATGGGTTGAGACTATTAACAAACTAAAACTCTTAACCAAAATGAAATAGCAAAA
1 AAAAATAAAACATGGGTTGAGACTATTAACAAACTAAAAATCTTAACCAAAACGAAATAGCAAAA
31560938 TAAACAAATAAGTAAATGAAAGGGATTACGGCTATCTTCCAGGGC
66 TAAACAAATAAGTAAATGAAAGGGATTACGGCTATCTTCCAGGGC
* *
31560983 AAAAATAAAACCTGGGTTGGGACTATTAACAAACTAAAAATC-TAACCAAAACGAAATAGCAAAA
1 AAAAATAAAACATGGGTTGAGACTATTAACAAACTAAAAATCTTAACCAAAACGAAATAGC--AA
* *
31561047 AATAAACAAATAAGTAAATGAAAGGGCTTACGGCTGTCTTCCAGGGC
64 AATAAACAAATAAGTAAATGAAAGGGATTACGGCTATCTTCCAGGGC
31561094 TTAAACCAGA
Statistics
Matches: 103, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
109 17 0.17
110 39 0.38
111 47 0.46
ACGTcount: A:0.48, C:0.15, G:0.16, T:0.20
Consensus pattern (110 bp):
AAAAATAAAACATGGGTTGAGACTATTAACAAACTAAAAATCTTAACCAAAACGAAATAGCAAAA
TAAACAAATAAGTAAATGAAAGGGATTACGGCTATCTTCCAGGGC
Found at i:31573578 original size:30 final size:30
Alignment explanation
Indices: 31573543--31573604 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
31573533 AGAAGAAATG
31573543 ATACCTAACTCAATAACTATTGAAAACCTT
1 ATACCTAACTCAATAACTATTGAAAACCTT
* * *
31573573 ATACCTGACTCAGTAACTTTTGAAAACCTT
1 ATACCTAACTCAATAACTATTGAAAACCTT
31573603 AT
1 AT
31573605 TCCAAAAACA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.39, C:0.23, G:0.06, T:0.32
Consensus pattern (30 bp):
ATACCTAACTCAATAACTATTGAAAACCTT
Found at i:31579027 original size:17 final size:16
Alignment explanation
Indices: 31578990--31579028 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
31578980 TAATTATAAA
*
31578990 AAATATTTAAAAATTT
1 AAATATTTAAAAAATT
*
31579006 TAATATCTTAAAAAATT
1 AAATAT-TTAAAAAATT
31579023 AAATAT
1 AAATAT
31579029 AAGTTATAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (16 bp):
AAATATTTAAAAAATT
Found at i:31580923 original size:51 final size:51
Alignment explanation
Indices: 31580842--31581029 Score: 225
Period size: 51 Copynumber: 3.6 Consensus size: 51
31580832 GCTATAAACG
* *
31580842 AAAGGATCCGGTGATTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
1 AAAGG-TCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
* * * *
31580894 AAAGGTCCGATGACTAAGTGTCATTGTGAGTAAATGAATCCATGATGGATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
* * * * *
31580945 AAAGGTCCGATGACTTAGTGTTATCGTGAGTATATGAATTCCTATACGGAAT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAA-TCCTTTACGGATT
*
31580997 AAGAGGTCCGATGATTATA-TGTCATCGTGAGTA
1 AA-AGGTCCGATGACTA-AGTGTCATCGTGAGTA
31581030 TTAAATGAAA
Statistics
Matches: 115, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
51 74 0.64
52 15 0.13
53 25 0.22
54 1 0.01
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.31
Consensus pattern (51 bp):
AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
Found at i:31581027 original size:104 final size:103
Alignment explanation
Indices: 31580842--31581029 Score: 256
Period size: 102 Copynumber: 1.8 Consensus size: 103
31580832 GCTATAAACG
* * *
31580842 AAAGGATCCGGTGATTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCCGATGA
1 AAAGGATCCGATGATTAAGTGTCATCGTGAGTAAATGAATCCTATACGGAATAAAGGTCCGATGA
*
31580907 CTAAGTGTCATTGTGAGTAAATGAATCCATGATGGATT
66 CTAAGTGTCATCGTGAGTAAATGAATCCATGATGGATT
* *
31580945 AAAGG-TCCGATGACTT-AGTGTTATCGTGAGTATATGAATTCCTATACGGAATAAGAGGTCCGA
1 AAAGGATCCGATGA-TTAAGTGTCATCGTGAGTAAATGAA-TCCTATACGGAATAA-AGGTCCGA
*
31581008 TGATTATA-TGTCATCGTGAGTA
63 TGACTA-AGTGTCATCGTGAGTA
31581030 TTAAATGAAA
Statistics
Matches: 74, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
102 27 0.36
103 20 0.27
104 26 0.35
105 1 0.01
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.31
Consensus pattern (103 bp):
AAAGGATCCGATGATTAAGTGTCATCGTGAGTAAATGAATCCTATACGGAATAAAGGTCCGATGA
CTAAGTGTCATCGTGAGTAAATGAATCCATGATGGATT
Found at i:31584696 original size:22 final size:23
Alignment explanation
Indices: 31584659--31584701 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
31584649 CTAGATCAAG
*
31584659 ACTTTTTGAATTTGATATTCTAT
1 ACTTTTTGAATGTGATATTCTAT
31584682 ACTTTTT-AATGTGATATTCT
1 ACTTTTTGAATGTGATATTCT
31584702 TAATCTCTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.26, C:0.09, G:0.09, T:0.56
Consensus pattern (23 bp):
ACTTTTTGAATGTGATATTCTAT
Found at i:31584969 original size:7 final size:7
Alignment explanation
Indices: 31584959--31584999 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
31584949 AATTTTAGGA
31584959 TTTAAGG
1 TTTAAGG
31584966 TTTAAGG
1 TTTAAGG
**
31584973 TTTTTGG
1 TTTAAGG
*
31584980 TATAAGG
1 TTTAAGG
31584987 TTTAAGG
1 TTTAAGG
31584994 TTTAAG
1 TTTAAG
31585000 AATGTAGTAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (7 bp):
TTTAAGG
Found at i:31585138 original size:28 final size:28
Alignment explanation
Indices: 31585097--31585189 Score: 74
Period size: 28 Copynumber: 3.5 Consensus size: 28
31585087 TAAATATAAT
* *
31585097 TAATTAAATACAAACATAAACATAAACA
1 TAATTAATTCCAAACATAAACATAAACA
*
31585125 TAATTAATTCCAAATTCAT--TCATAAACA
1 TAATTAATTCCAAA--CATAAACATAAACA
**
31585153 T-ATT--TT--ATTCATAAACATAAACA
1 TAATTAATTCCAAACATAAACATAAACA
31585176 TAATTAATTCCAAA
1 TAATTAATTCCAAA
31585190 TGAAAAATGA
Statistics
Matches: 48, Mismatches: 8, Indels: 18
0.65 0.11 0.24
Matches are distributed among these distances:
21 3 0.06
23 10 0.21
24 3 0.06
25 2 0.04
26 2 0.04
27 3 0.06
28 22 0.46
30 3 0.06
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (28 bp):
TAATTAATTCCAAACATAAACATAAACA
Found at i:31587542 original size:22 final size:22
Alignment explanation
Indices: 31587499--31587542 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
31587489 AAATAAGTAT
* *
31587499 AAATAGGTTTGATTAAGGTTAA
1 AAATAGGTTTAATTAAGCTTAA
31587521 AAATAGG-TTAATTAAAGCTTAA
1 AAATAGGTTTAATT-AAGCTTAA
31587543 TAATGAAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.45, C:0.02, G:0.18, T:0.34
Consensus pattern (22 bp):
AAATAGGTTTAATTAAGCTTAA
Found at i:31590367 original size:21 final size:23
Alignment explanation
Indices: 31590334--31590384 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 23
31590324 AAATGGAAAG
31590334 CAAA-AAAATTATA-ATAACA-TA
1 CAAATAAAATTATATA-AACACTA
31590355 CAAATAAAA-TATATAAACACTA
1 CAAATAAAATTATATAAACACTA
*
31590377 TAAATAAA
1 CAAATAAA
31590385 GATTTTTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 12 0.46
22 14 0.54
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.24
Consensus pattern (23 bp):
CAAATAAAATTATATAAACACTA
Found at i:31590555 original size:27 final size:28
Alignment explanation
Indices: 31590512--31590565 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 28
31590502 TAAATTAATT
31590512 AAAAAATTTATAAAATAA-ATAGAAAACA
1 AAAAAATTTAT-AAATAACATAGAAAACA
*
31590540 AAAAAATATTAT-AATAACATATAAAA
1 AAAAAAT-TTATAAATAACATAGAAAA
31590566 ATATAAACAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
27 5 0.22
28 14 0.61
29 4 0.17
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.24
Consensus pattern (28 bp):
AAAAAATTTATAAATAACATAGAAAACA
Found at i:31590566 original size:29 final size:28
Alignment explanation
Indices: 31590512--31590566 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 28
31590502 TAAATTAATT
*
31590512 AAAAAATTTATAAAATAAATAGAAAACA
1 AAAAAATTTATAAAACAAATAGAAAACA
*
31590540 AAAAAATATTATAATAACATATA-AAAA
1 AAAAAAT-TTATAA-AACAAATAGAAAA
31590567 TATAAACACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 7 0.30
29 10 0.43
30 6 0.26
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.24
Consensus pattern (28 bp):
AAAAAATTTATAAAACAAATAGAAAACA
Found at i:31591121 original size:3 final size:3
Alignment explanation
Indices: 31591113--31591150 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
31591103 TTTAATATTA
31591113 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
31591151 AGAAATTGTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:31592331 original size:14 final size:14
Alignment explanation
Indices: 31592312--31592360 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
31592302 ATTAAGCTTA
31592312 AAGTTTTGTTAATT
1 AAGTTTTGTTAATT
*
31592326 AAGTTTTAATTAATT
1 AAGTTTT-GTTAATT
*
31592341 AA-ATTTGATTAATT
1 AAGTTTTG-TTAATT
31592355 AAGTTT
1 AAGTTT
31592361 AAGTACAAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
14 18 0.64
15 10 0.36
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (14 bp):
AAGTTTTGTTAATT
Found at i:31592334 original size:22 final size:22
Alignment explanation
Indices: 31592288--31592328 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
31592278 TAAAGTCCAC
31592288 TAAACTTTTGTATAATTAAGCT
1 TAAACTTTTGTATAATTAAGCT
*
31592310 TAAAGTTTTGT-TAATTAAG
1 TAAACTTTTGTATAATTAAG
31592329 TTTTAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.37, C:0.05, G:0.12, T:0.46
Consensus pattern (22 bp):
TAAACTTTTGTATAATTAAGCT
Found at i:31594294 original size:81 final size:81
Alignment explanation
Indices: 31594178--31594335 Score: 185
Period size: 81 Copynumber: 2.0 Consensus size: 81
31594168 TACGATAGTA
** * * * * **
31594178 AAAATGTAATTTCATAATTTTAATATTTTATTTTTATAATTTTTAAAGGA-TTAAATCAATTTTT
1 AAAATGTAATTTCATAATTTTAATATTAAAATTTTATAAATTATAAAAGATTTAAATCAA-AATT
31594242 TTATCATTTTAAGGACC
65 TTATCATTTTAAGGACC
* * *
31594259 AAAATGTAATTTTATCATTATTAAT-TTAAAATTTTATAAATTATAAAAGATTTAAATTAAAATT
1 AAAATGTAATTTCATAATT-TTAATATTAAAATTTTATAAATTATAAAAGATTTAAATCAAAATT
31594323 TTATCATTTTAAG
65 TTATCATTTTAAG
31594336 AAAGTCATGA
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
81 51 0.80
82 13 0.20
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.49
Consensus pattern (81 bp):
AAAATGTAATTTCATAATTTTAATATTAAAATTTTATAAATTATAAAAGATTTAAATCAAAATTT
TATCATTTTAAGGACC
Found at i:31594300 original size:16 final size:16
Alignment explanation
Indices: 31594276--31594326 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
31594266 AATTTTATCA
*
31594276 TTATTAATTTAAAATT
1 TTATAAATTTAAAATT
**
31594292 TTATAAATTATAAAAGA
1 TTATAAATT-TAAAATT
31594309 TT-TAAA-TTAAAATT
1 TTATAAATTTAAAATT
31594323 TTAT
1 TTAT
31594327 CATTTTAAGA
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
14 7 0.25
15 2 0.07
16 12 0.43
17 7 0.25
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (16 bp):
TTATAAATTTAAAATT
Found at i:31594555 original size:31 final size:31
Alignment explanation
Indices: 31594520--31594578 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 31
31594510 GTTATAAGAG
* *
31594520 AAACTACAATGTAAAATTTTATTTTTTATAT
1 AAACTACAATGTAAAATTCTATATTTTATAT
** *
31594551 AAACTTTAGTGTAAAATTCTATATTTTA
1 AAACTACAATGTAAAATTCTATATTTTA
31594579 AATTTATTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 23 1.00
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.47
Consensus pattern (31 bp):
AAACTACAATGTAAAATTCTATATTTTATAT
Found at i:31603775 original size:22 final size:24
Alignment explanation
Indices: 31603732--31603777 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 24
31603722 CAAAGTATAT
31603732 TAATAATCCAAAATCAAAATAATAA
1 TAATAAT-CAAAATCAAAATAATAA
*
31603757 TAATAAT-AAAAT-AATATAATA
1 TAATAATCAAAATCAAAATAATA
31603778 TAAATTTGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 8 0.40
23 5 0.25
25 7 0.35
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (24 bp):
TAATAATCAAAATCAAAATAATAA
Found at i:31604947 original size:22 final size:22
Alignment explanation
Indices: 31604905--31604948 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
31604895 GGTTTGACTT
**
31604905 GGTTTGGGTTTGAATTTTTAAA
1 GGTTTGGGTTTGAATGATTAAA
31604927 GGTTTGGGTTT-AATGGATTAAA
1 GGTTTGGGTTTGAAT-GATTAAA
31604949 AAGGTTTTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.45
Consensus pattern (22 bp):
GGTTTGGGTTTGAATGATTAAA
Found at i:31610834 original size:22 final size:24
Alignment explanation
Indices: 31610791--31610836 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 24
31610781 CAAAGTATAT
31610791 TAATAATCCAAAATCAAAATAATAA
1 TAATAAT-CAAAATCAAAATAATAA
*
31610816 TAATAAT-AAAAT-AATATAATA
1 TAATAATCAAAATCAAAATAATA
31610837 TAAATTTGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 8 0.40
23 5 0.25
25 7 0.35
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (24 bp):
TAATAATCAAAATCAAAATAATAA
Found at i:31615360 original size:23 final size:22
Alignment explanation
Indices: 31615330--31615454 Score: 90
Period size: 23 Copynumber: 5.5 Consensus size: 22
31615320 ACATTAGCGC
31615330 GCTTACTGTTCAGCACTGTGTGT
1 GCTTACTGTT-AGCACTGTGTGT
* * **
31615353 GCTTACTGTTCAACACTATACGT
1 GCTTACTGTT-AGCACTGTGTGT
* * *
31615376 GCTTACAGATTTGCACTATGTGT
1 GCTTACTG-TTAGCACTGTGTGT
* *
31615399 GCTTACTATTTTA-CATTGTGTGT
1 GCTTAC--TGTTAGCACTGTGTGT
* *
31615422 GCCTACTGATTTGCACTGTGTGT
1 GCTTACTG-TTAGCACTGTGTGT
31615445 GCTTACTGTT
1 GCTTACTGTT
31615455 TCCCTAGCAC
Statistics
Matches: 78, Mismatches: 19, Indels: 11
0.72 0.18 0.10
Matches are distributed among these distances:
21 1 0.01
22 4 0.05
23 69 0.88
24 4 0.05
ACGTcount: A:0.18, C:0.20, G:0.21, T:0.42
Consensus pattern (22 bp):
GCTTACTGTTAGCACTGTGTGT
Found at i:31615398 original size:46 final size:46
Alignment explanation
Indices: 31615342--31615454 Score: 136
Period size: 46 Copynumber: 2.5 Consensus size: 46
31615332 TTACTGTTCA
*
31615342 GCACTGTGTGTGCTTACTGTTCAACACTATACGTGCTTACAGATTT
1 GCACTGTGTGTGCTTACTGTTCAACACTATACGTGCCTACAGATTT
* * ** * * ** *
31615388 GCACTATGTGTGCTTACTATTTTACATTGTGTGTGCCTACTGATTT
1 GCACTGTGTGTGCTTACTGTTCAACACTATACGTGCCTACAGATTT
31615434 GCACTGTGTGTGCTTACTGTT
1 GCACTGTGTGTGCTTACTGTT
31615455 TCCCTAGCAC
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
46 55 1.00
ACGTcount: A:0.18, C:0.19, G:0.21, T:0.42
Consensus pattern (46 bp):
GCACTGTGTGTGCTTACTGTTCAACACTATACGTGCCTACAGATTT
Found at i:31617334 original size:15 final size:15
Alignment explanation
Indices: 31617316--31617383 Score: 50
Period size: 15 Copynumber: 4.4 Consensus size: 15
31617306 TAGTCATGAC
31617316 ACCATATTGTGTAAG
1 ACCATATTGTGTAAG
* *
31617331 ACCATAGTTGTACTATG
1 ACCATA-TTGT-GTAAG
* *
31617348 -GCATCATATG-GAAAG
1 ACCAT-AT-TGTGTAAG
31617363 ACCATATTGTGTAAG
1 ACCATATTGTGTAAG
31617378 ACCATA
1 ACCATA
31617384 GTTGGGCTAT
Statistics
Matches: 39, Mismatches: 8, Indels: 12
0.66 0.14 0.20
Matches are distributed among these distances:
14 2 0.05
15 20 0.51
16 11 0.28
17 6 0.15
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.29
Consensus pattern (15 bp):
ACCATATTGTGTAAG
Found at i:31617670 original size:28 final size:27
Alignment explanation
Indices: 31617576--31617675 Score: 121
Period size: 27 Copynumber: 3.7 Consensus size: 27
31617566 AAAATGTCAA
* *
31617576 AAATGAAAACCTTTTTGGTGATCTATG
1 AAATGAAAGCCTTTATGGTGATCTATG
* *
31617603 AAATGAAAGCCGTTGTGGTGATCTATG
1 AAATGAAAGCCTTTATGGTGATCTATG
*
31617630 AAATGGAAGCCTTTATGGTGAATCT-TG
1 AAATGAAAGCCTTTATGGTG-ATCTATG
*
31617657 AAAAGAAATGCCTTTATGG
1 AAATGAAA-GCCTTTATGG
31617676 CGCACCCTAA
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 49 0.78
28 14 0.22
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.32
Consensus pattern (27 bp):
AAATGAAAGCCTTTATGGTGATCTATG
Found at i:31623731 original size:21 final size:20
Alignment explanation
Indices: 31623688--31623732 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
31623678 TTACTTATTT
*
31623688 TTAATTTGTTAATTAATTTA
1 TTAATTTGTTAATTAAATTA
31623708 TTAATTT-TTACATATAAATTA
1 TTAATTTGTTA-AT-TAAATTA
31623729 TTAA
1 TTAA
31623733 ATTACTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (20 bp):
TTAATTTGTTAATTAAATTA
Found at i:31624486 original size:20 final size:20
Alignment explanation
Indices: 31624426--31624487 Score: 54
Period size: 20 Copynumber: 3.0 Consensus size: 20
31624416 TGGAAAATAA
* *
31624426 TAAAATAAATAATACACTAAAT
1 TAAAA-AAATAACACA-TAATT
* *
31624448 TAAAAAAATAACTCTTAATT
1 TAAAAAAATAACACATAATT
31624468 TAAAGAAAATAA-ACATAATT
1 TAAA-AAAATAACACATAATT
31624488 ATCTAAAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
20 14 0.42
21 14 0.42
22 5 0.15
ACGTcount: A:0.61, C:0.08, G:0.02, T:0.29
Consensus pattern (20 bp):
TAAAAAAATAACACATAATT
Found at i:31625667 original size:30 final size:31
Alignment explanation
Indices: 31625633--31625692 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
31625623 TTAATTAAAA
* *
31625633 AAGTTAT-AATTAGGTCATTGAACTATTCAG
1 AAGTTATCAATTAAGTCACTGAACTATTCAG
* *
31625663 AAGTTTTCATTTAAGTCACTGAACTATTCA
1 AAGTTATCAATTAAGTCACTGAACTATTCA
31625693 ATAGTTTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 6 0.24
31 19 0.76
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.38
Consensus pattern (31 bp):
AAGTTATCAATTAAGTCACTGAACTATTCAG
Found at i:31625686 original size:31 final size:31
Alignment explanation
Indices: 31625646--31625713 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
31625636 TTATAATTAG
*
31625646 GTCATTGAACTATTCAGA-AGTTTTCATTTAA
1 GTCACTGAACTATTCA-ATAGTTTTCATTTAA
*
31625677 GTCACTGAACTATTCAATAGTTTTTATTTAA
1 GTCACTGAACTATTCAATAGTTTTCATTTAA
*
31625708 ATCACT
1 GTCACT
31625714 AGGCTGTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 1 0.03
31 32 0.97
ACGTcount: A:0.32, C:0.15, G:0.10, T:0.43
Consensus pattern (31 bp):
GTCACTGAACTATTCAATAGTTTTCATTTAA
Found at i:31630417 original size:22 final size:21
Alignment explanation
Indices: 31630392--31630434 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
31630382 TATTTCTTTC
31630392 AATTCCGTTTTCTTTTATTTTT
1 AATTCCG-TTTCTTTTATTTTT
*
31630414 AATTCTGTTTCTTTTATTTTT
1 AATTCCGTTTCTTTTATTTTT
31630435 TCTCAGATCG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.14, C:0.12, G:0.05, T:0.70
Consensus pattern (21 bp):
AATTCCGTTTCTTTTATTTTT
Found at i:31630435 original size:22 final size:24
Alignment explanation
Indices: 31630382--31630436 Score: 71
Period size: 22 Copynumber: 2.4 Consensus size: 24
31630372 CCCTATTTTC
31630382 TATTTCTTTCAATTCCGTTTTCTTT
1 TATTT-TTTCAATTCCGTTTTCTTT
*
31630407 TA-TTTTT-AATTCTG-TTTCTTT
1 TATTTTTTCAATTCCGTTTTCTTT
31630428 TATTTTTTC
1 TATTTTTTC
31630437 TCAGATCGCG
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 9 0.33
22 11 0.41
23 3 0.11
24 2 0.07
25 2 0.07
ACGTcount: A:0.13, C:0.15, G:0.04, T:0.69
Consensus pattern (24 bp):
TATTTTTTCAATTCCGTTTTCTTT
Found at i:31635807 original size:6 final size:6
Alignment explanation
Indices: 31635796--31635821 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
31635786 GGTAACCCAA
31635796 TTATTT TTATTT TTATTT TTATTT TT
1 TTATTT TTATTT TTATTT TTATTT TT
31635822 TTAATTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTATTT
Found at i:31635833 original size:31 final size:30
Alignment explanation
Indices: 31635794--31635864 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 30
31635784 GAGGTAACCC
* *
31635794 AATTATTTTTAT-TTTTATTTTTATTTTTTT
1 AATTATTTTTATATCTTA-TTTTATTTATTT
*
31635824 AATTAATTTTTGTATCTTATTTTATTTATTT
1 AATT-ATTTTTATATCTTATTTTATTTATTT
*
31635855 ATTTATTTTT
1 AATTATTTTT
31635865 GTCTAGGAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
30 10 0.29
31 21 0.60
32 4 0.11
ACGTcount: A:0.23, C:0.01, G:0.01, T:0.75
Consensus pattern (30 bp):
AATTATTTTTATATCTTATTTTATTTATTT
Found at i:31635856 original size:13 final size:12
Alignment explanation
Indices: 31635801--31635863 Score: 56
Period size: 13 Copynumber: 4.9 Consensus size: 12
31635791 CCCAATTATT
31635801 TTTATTTTTATT-
1 TTTATTTTT-TTA
31635813 TTTATTTTTTTAA
1 TTTATTTTTTT-A
* *
31635826 TTAATTTTTGTA
1 TTTATTTTTTTA
31635838 TCTTATTTTATTTA
1 T-TTATTTT-TTTA
31635852 TTTATTTATTTT
1 TTTATTT-TTTT
31635864 TGTCTAGGAA
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
11 2 0.05
12 11 0.26
13 24 0.57
14 5 0.12
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.76
Consensus pattern (12 bp):
TTTATTTTTTTA
Found at i:31637394 original size:19 final size:19
Alignment explanation
Indices: 31637372--31637416 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
31637362 TTATATTAGA
31637372 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATGT
* *
31637391 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATATGT
31637410 ATTTAAT
1 ATTTAAT
31637417 TTATGTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATGT
Found at i:31638269 original size:21 final size:22
Alignment explanation
Indices: 31638235--31638277 Score: 79
Period size: 21 Copynumber: 2.0 Consensus size: 22
31638225 TATTTCTTTC
31638235 AATTTTGTTTTCTTTTATTTTT
1 AATTTTGTTTTCTTTTATTTTT
31638257 AATTTTG-TTTCTTTTATTTTT
1 AATTTTGTTTTCTTTTATTTTT
31638278 CCTCACGACG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.14, C:0.05, G:0.05, T:0.77
Consensus pattern (22 bp):
AATTTTGTTTTCTTTTATTTTT
Found at i:31641481 original size:13 final size:13
Alignment explanation
Indices: 31641463--31641524 Score: 65
Period size: 13 Copynumber: 4.8 Consensus size: 13
31641453 CTTAAATCAA
*
31641463 ACTTTTCAAAAGT
1 ACTTTTCAAAAAT
31641476 ACTTTT-AAAAAT
1 ACTTTTCAAAAAT
31641488 CACTTTTTC-AAAAT
1 -AC-TTTTCAAAAAT
*
31641502 ACTTTTTAAAAAT
1 ACTTTTCAAAAAT
*
31641515 ACTTCTCAAA
1 ACTTTTCAAA
31641525 CGTAATGCTA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
12 9 0.22
13 23 0.56
14 9 0.22
ACGTcount: A:0.42, C:0.16, G:0.02, T:0.40
Consensus pattern (13 bp):
ACTTTTCAAAAAT
Found at i:31641492 original size:26 final size:25
Alignment explanation
Indices: 31641463--31641524 Score: 81
Period size: 27 Copynumber: 2.4 Consensus size: 25
31641453 CTTAAATCAA
31641463 ACTTTTCAAAAGTAC-TTTTAAAAAT
1 ACTTTTCAAAA-TACTTTTTAAAAAT
31641488 CACTTTTTCAAAATACTTTTTAAAAAT
1 -AC-TTTTCAAAATACTTTTTAAAAAT
*
31641515 ACTTCTCAAA
1 ACTTTTCAAA
31641525 CGTAATGCTA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
25 7 0.21
26 7 0.21
27 19 0.58
ACGTcount: A:0.42, C:0.16, G:0.02, T:0.40
Consensus pattern (25 bp):
ACTTTTCAAAATACTTTTTAAAAAT
Found at i:31641508 original size:27 final size:26
Alignment explanation
Indices: 31641465--31641518 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 26
31641455 TAAATCAAAC
31641465 TTTTCAAAAGTACTTTTAAAAATCACT
1 TTTTCAAAAGTACTTTTAAAAAT-ACT
31641492 TTTTCAAAA-TACTTTTTAAAAATACT
1 TTTTCAAAAGTAC-TTTTAAAAATACT
31641518 T
1 T
31641519 CTCAAACGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
26 7 0.27
27 19 0.73
ACGTcount: A:0.41, C:0.13, G:0.02, T:0.44
Consensus pattern (26 bp):
TTTTCAAAAGTACTTTTAAAAATACT
Found at i:31641612 original size:6 final size:6
Alignment explanation
Indices: 31641595--31641635 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
31641585 ATCTTACTAA
* * *
31641595 GCCTGG GACTGG GCCTGG GCCTGG GCCTGT GCCTGT GCCTG
1 GCCTGG GCCTGG GCCTGG GCCTGG GCCTGG GCCTGG GCCTG
31641636 TGCCAAAAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.02, C:0.32, G:0.44, T:0.22
Consensus pattern (6 bp):
GCCTGG
Found at i:31641628 original size:12 final size:12
Alignment explanation
Indices: 31641603--31641639 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
31641593 AAGCCTGGGA
*
31641603 CTGGGCCTGGGC
1 CTGGGCCTGTGC
31641615 CTGGGCCTGTGC
1 CTGGGCCTGTGC
*
31641627 CTGTGCCTGTGC
1 CTGGGCCTGTGC
31641639 C
1 C
31641640 AAAAGATTCG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.41, T:0.24
Consensus pattern (12 bp):
CTGGGCCTGTGC
Found at i:31644413 original size:20 final size:20
Alignment explanation
Indices: 31644367--31644432 Score: 87
Period size: 20 Copynumber: 3.2 Consensus size: 20
31644357 TCAGTTCATG
* **
31644367 GCCACGTCAGCGCCATGTCA
1 GCCACGTCAACGCCACATCA
31644387 TGCCACGTCAACGCCACATCA
1 -GCCACGTCAACGCCACATCA
*
31644408 GCCACGTCAATGCCACATCA
1 GCCACGTCAACGCCACATCA
31644428 GCCAC
1 GCCAC
31644433 TAACTCCTCG
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
20 24 0.59
21 17 0.41
ACGTcount: A:0.26, C:0.42, G:0.18, T:0.14
Consensus pattern (20 bp):
GCCACGTCAACGCCACATCA
Found at i:31651067 original size:12 final size:12
Alignment explanation
Indices: 31651050--31651080 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
31651040 ATGTTCACCC
31651050 AAAAAAAAGAAA
1 AAAAAAAAGAAA
31651062 AAAAAAAAGAAA
1 AAAAAAAAGAAA
*
31651074 CAAAAAA
1 AAAAAAA
31651081 GAGAGGTCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.90, C:0.03, G:0.06, T:0.00
Consensus pattern (12 bp):
AAAAAAAAGAAA
Found at i:31651164 original size:18 final size:18
Alignment explanation
Indices: 31651141--31651178 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
31651131 TTGAGTTGAA
31651141 AACCTGAAAAGGTGGCTC
1 AACCTGAAAAGGTGGCTC
31651159 AACCTGAAAAGGTGGCTC
1 AACCTGAAAAGGTGGCTC
31651177 AA
1 AA
31651179 TTTTGAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.37, C:0.21, G:0.26, T:0.16
Consensus pattern (18 bp):
AACCTGAAAAGGTGGCTC
Found at i:31652003 original size:50 final size:47
Alignment explanation
Indices: 31651919--31652052 Score: 126
Period size: 50 Copynumber: 2.7 Consensus size: 47
31651909 ACCGAGGAAA
* * * * *
31651919 CATAAAGACGTAATAGGAAGGGTTGAGGCCGCAACGGTAAACCCAATAC
1 CATAAAGA-TTAATGGGAAAGGTTGAGGCTGCAACGCT-AACCCAATAC
* *
31651968 C-TCAAAAGATATAATGGGAAAGGTTGAGGTTGCAACAGCTAACCCGATAC
1 CAT--AAAGAT-TAATGGGAAAGGTTGAGGCTGCAAC-GCTAACCCAATAC
* *
31652018 CATGAAGATTAAAGGGAAAGGTTGAGGCTGCAACG
1 CATAAAGATTAATGGGAAAGGTTGAGGCTGCAACG
31652053 ACGAACCCGG
Statistics
Matches: 70, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
47 1 0.01
48 24 0.34
49 6 0.09
50 36 0.51
51 3 0.04
ACGTcount: A:0.38, C:0.17, G:0.28, T:0.17
Consensus pattern (47 bp):
CATAAAGATTAATGGGAAAGGTTGAGGCTGCAACGCTAACCCAATAC
Found at i:31652050 original size:48 final size:49
Alignment explanation
Indices: 31651973--31652213 Score: 179
Period size: 48 Copynumber: 4.9 Consensus size: 49
31651963 AATACCTCAA
* *
31651973 AAGATATAATGGGAAAGGTTGAGGTTGCAACAGCTAACCCGATACCATG
1 AAGATATAATGGGAAAGGTTGAGGCTGCAACAGCGAACCCGATACCATG
* * * *
31652022 AAGAT-TAAAGGGAAAGGTTGAGGCTGCAAC-GACGAACCCGGTACCTTAA
1 AAGATATAATGGGAAAGGTTGAGGCTGCAACAG-CGAACCCGATACCAT-G
* * * * * * *
31652071 AAGATGTGATGAGAATGATTGAGG-TCGTAACAGCGAATCC-AGTACCATG
1 AAGATATAATGGGAAAGGTTGAGGCT-GCAACAGCGAACCCGA-TACCATG
* ** * * *
31652120 AA-ATATAATCGGAAAGGTTGAGGCCACAACGGCGAACCCGGTATCATG
1 AAGATATAATGGGAAAGGTTGAGGCTGCAACAGCGAACCCGATACCATG
* * ** *
31652168 AAGATTTGAA-GGGAAAGGTTGAGGCCGCAATGGCTAACCCGATACC
1 AAGATAT-AATGGGAAAGGTTGAGGCTGCAACAGCGAACCCGATACC
31652214 TTAGGAAAAT
Statistics
Matches: 146, Mismatches: 36, Indels: 20
0.72 0.18 0.10
Matches are distributed among these distances:
47 1 0.01
48 68 0.47
49 46 0.32
50 30 0.21
51 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (49 bp):
AAGATATAATGGGAAAGGTTGAGGCTGCAACAGCGAACCCGATACCATG
Found at i:31652492 original size:41 final size:41
Alignment explanation
Indices: 31652435--31652904 Score: 622
Period size: 41 Copynumber: 11.5 Consensus size: 41
31652425 GGACTAATTT
* * *
31652435 AAGATTCTAGTCTTTTACCCCTAATCAAGAAGGGCAGATTG
1 AAGATTCCAATCTTTTACCCTTAATCAAGAAGGGCAGATTG
* **
31652476 AAGATTCCAATCTTTTACCTTTAATCAAGAAGGGTGGATTG
1 AAGATTCCAATCTTTTACCCTTAATCAAGAAGGGCAGATTG
* *
31652517 AAGATTCCAGTCTCTTACCCTTAATCAAGAAGGGCAGATTG
1 AAGATTCCAATCTTTTACCCTTAATCAAGAAGGGCAGATTG
31652558 AAGA-TCCTAATCTTTTACCCTTAATCAAGAAGGGCAGATTG
1 AAGATTCC-AATCTTTTACCCTTAATCAAGAAGGGCAGATTG
* * * *
31652599 AAAATTCCAATCTTTTACCCTTAGTCAATAAGAGCAGATTGG
1 AAGATTCCAATCTTTTACCCTTAATCAAGAAGGGCAGATT-G
*
31652641 AA-ATTCCAATCTTTTACCCTTAATCAATAAGGGCAGATTG
1 AAGATTCCAATCTTTTACCCTTAATCAAGAAGGGCAGATTG
* * * * *
31652681 AAGATTTCAGTCTCTTACCCTTAATCAAGAAGGACAAATTG
1 AAGATTCCAATCTTTTACCCTTAATCAAGAAGGGCAGATTG
* *
31652722 AAGATTCCAATCTCTTAACCTTAATCAAGAAGGGCAGATTG
1 AAGATTCCAATCTTTTACCCTTAATCAAGAAGGGCAGATTG
* ** **
31652763 AAGATTTCAATCCCTTACCCTTAATCAAGAAGGATAGATTG
1 AAGATTCCAATCTTTTACCCTTAATCAAGAAGGGCAGATTG
*
31652804 AAGATTCCAATCTTTTACCCTTAATCAAGAAGTGCAGATTG
1 AAGATTCCAATCTTTTACCCTTAATCAAGAAGGGCAGATTG
* * * * *
31652845 AAGATTCCAGTCTCTTACTCTTGATCAAGAAGGGCAAATTG
1 AAGATTCCAATCTTTTACCCTTAATCAAGAAGGGCAGATTG
31652886 AAGATTCCAATC-TTTACCC
1 AAGATTCCAATCTTTTACCC
31652905 CGATCATGGG
Statistics
Matches: 375, Mismatches: 50, Indels: 9
0.86 0.12 0.02
Matches are distributed among these distances:
40 11 0.03
41 358 0.95
42 6 0.02
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (41 bp):
AAGATTCCAATCTTTTACCCTTAATCAAGAAGGGCAGATTG
Found at i:31653064 original size:78 final size:78
Alignment explanation
Indices: 31652972--31653254 Score: 277
Period size: 78 Copynumber: 3.6 Consensus size: 78
31652962 CTGTCAGCCA
* * * * *
31652972 ATCTCTTACCCCGATCAT-GGGTCAGATCACCTCCATCTAATCTCTTACCCCACGACAGGGGTAA
1 ATCTTTTACCCCGATCATAGGGTCAGATCACCT-CATCCAATCTCTTACCCCACGATAGGGGCAG
31653036 ATTACAACCATCCG
65 ATTACAACCATCCG
* ** * * * * *
31653050 ATCTTTTACACCGATCATAAAG-CAGAACACTGTCAGCCAATCTCTTACCCCGCGATAGCGGCAG
1 ATCTTTTACCCCGATCATAGGGTCAGATCAC-CTCATCCAATCTCTTACCCCACGATAGGGGCAG
*
31653114 ATTACAACCATCCA
65 ATTACAACCATCCG
* * * * * *
31653128 ATCTTTTACCCCGATCATGGGGT-AGATCACCATCATCCAATCTCTTATCTCACGATAAGAGCGG
1 ATCTTTTACCCCGATCATAGGGTCAGATCACC-TCATCCAATCTCTTACCCCACGATAGGGGCAG
* *
31653192 ATTGCAACCATCTG
65 ATTACAACCATCCG
* * *
31653206 ATCTTTTACCCCGATCATGGGGT-AAATCACCGTCAGCCAATCTCTTACC
1 ATCTTTTACCCCGATCATAGGGTCAGATCACC-TCATCCAATCTCTTACC
31653255 TCGATCGTAA
Statistics
Matches: 166, Mismatches: 35, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
78 164 0.99
79 2 0.01
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.25
Consensus pattern (78 bp):
ATCTTTTACCCCGATCATAGGGTCAGATCACCTCATCCAATCTCTTACCCCACGATAGGGGCAGA
TTACAACCATCCG
Found at i:31653129 original size:156 final size:156
Alignment explanation
Indices: 31652969--31653254 Score: 362
Period size: 156 Copynumber: 1.8 Consensus size: 156
31652959 TCACTGTCAG
* * *
31652969 CCAATCTCTTACCCCGATCAT-GGGTCAGATCACC-TCCATCTAATCTCTTACCCCACGACAGGG
1 CCAATCTCTTACCCCGATCATGGGGT-AGATCACCAT-CATCCAATCTCTTACCCCACGACAAGA
* *
31653032 GTAAATTACAACCATCCGATCTTTTACACCGATCATAAAGCAGAA-CACTGTCAGCCAATCTCTT
64 GCAAATTACAACCATCCGATCTTTTACACCGATCATAAAGCA-AATCACCGTCAGCCAATCTCTT
31653096 ACCCCGCGATAGCGGCAGATTACAACCAT
128 ACCCCGCGATAGCGGCAGATTACAACCAT
* * * *
31653125 CCAATCTTTTACCCCGATCATGGGGTAGATCACCATCATCCAATCTCTTATCTCACGATAAGAGC
1 CCAATCTCTTACCCCGATCATGGGGTAGATCACCATCATCCAATCTCTTACCCCACGACAAGAGC
** * * * *** *
31653190 GGATTGCAACCATCTGATCTTTTACCCCGATCATGGGGTAAATCACCGTCAGCCAATCTCTTACC
66 AAATTACAACCATCCGATCTTTTACACCGATCATAAAGCAAATCACCGTCAGCCAATCTCTTACC
31653255 TCGATCGTAA
Statistics
Matches: 109, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
155 2 0.02
156 102 0.94
157 5 0.05
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.25
Consensus pattern (156 bp):
CCAATCTCTTACCCCGATCATGGGGTAGATCACCATCATCCAATCTCTTACCCCACGACAAGAGC
AAATTACAACCATCCGATCTTTTACACCGATCATAAAGCAAATCACCGTCAGCCAATCTCTTACC
CCGCGATAGCGGCAGATTACAACCAT
Found at i:31653150 original size:117 final size:117
Alignment explanation
Indices: 31652891--31653151 Score: 277
Period size: 117 Copynumber: 2.2 Consensus size: 117
31652881 AATTGAAGAT
* * ***
31652891 TCCAATC-TTTACCCCGATCATGGGGTAGATTCTAACCATCCAATTTTTTACCCTGATCACGGGG
1 TCCAATCTTTTACCCCGATCATGGGGTAAATTCTAACCATCCAATCTTTTACCCTGATCACAAAG
* * **
31652955 TAGATCACTGTCAGCCAATCTCTTACCCCGATCATGGGTCAGATCACCTCCA
66 CAGAACACTGTCAGCCAATCTCTTACCCCGATCATGGGTCAGATCACAACCA
* * * *
31653007 TCTAATCTCTTACCCCACGA-CA-GGGGTAAATTAC-AACCATCCGATCTTTTACACC-GATCAT
1 TCCAATCTTTTA-CCC-CGATCATGGGGTAAATT-CTAACCATCCAATCTTTTAC-CCTGATCAC
*
31653068 AAAGCAGAACACTGTCAGCCAATCTCTTACCCCG--CGATAGCGG-CAGATTACAACCA
62 AAAGCAGAACACTGTCAGCCAATCTCTTACCCCGATC-AT-G-GGTCAGATCACAACCA
31653124 TCCAATCTTTTACCCCGATCATGGGGTA
1 TCCAATCTTTTACCCCGATCATGGGGTA
31653152 GATCACCATC
Statistics
Matches: 119, Mismatches: 16, Indels: 19
0.77 0.10 0.12
Matches are distributed among these distances:
115 4 0.03
116 13 0.11
117 89 0.75
118 10 0.08
119 3 0.03
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.26
Consensus pattern (117 bp):
TCCAATCTTTTACCCCGATCATGGGGTAAATTCTAACCATCCAATCTTTTACCCTGATCACAAAG
CAGAACACTGTCAGCCAATCTCTTACCCCGATCATGGGTCAGATCACAACCA
Found at i:31653165 original size:39 final size:39
Alignment explanation
Indices: 31652891--31653170 Score: 162
Period size: 39 Copynumber: 7.2 Consensus size: 39
31652881 AATTGAAGAT
* *
31652891 TCCAATC-TTTACCCCGATCATGGGGTAGATTC-TAACCA
1 TCCAATCTTTTACCCCGATCATGGGGTAGA-TCACAATCA
* * * **
31652929 TCCAATTTTTTACCCTGATCACGGGGTAGATCACTGTCA
1 TCCAATCTTTTACCCCGATCATGGGGTAGATCACAATCA
* * *
31652968 GCCAATCTCTTACCCCGATCAT-GGGTCAGATCAC-CTCCA
1 TCCAATCTTTTACCCCGATCATGGGGT-AGATCACAAT-CA
* * * * *
31653007 TCTAATCTCTTACCCCACGA-CA-GGGGTAAATTACAACCA
1 TCCAATCTTTTA-CCC-CGATCATGGGGTAGATCACAATCA
* * *** * * **
31653046 TCCGATCTTTTACACCGATCATAAAGCAGAACACTGTCA
1 TCCAATCTTTTACCCCGATCATGGGGTAGATCACAATCA
* * * * * *
31653085 GCCAATCTCTTACCCCG--CGATAGCGGCAGATTACAACCA
1 TCCAATCTTTTACCCCGATC-AT-GGGGTAGATCACAATCA
*
31653124 TCCAATCTTTTACCCCGATCATGGGGTAGATCACCATCA
1 TCCAATCTTTTACCCCGATCATGGGGTAGATCACAATCA
31653163 TCCAATCT
1 TCCAATCT
31653171 CTTATCTCAC
Statistics
Matches: 176, Mismatches: 52, Indels: 27
0.69 0.20 0.11
Matches are distributed among these distances:
37 4 0.02
38 19 0.11
39 138 0.78
40 11 0.06
41 4 0.02
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (39 bp):
TCCAATCTTTTACCCCGATCATGGGGTAGATCACAATCA
Found at i:31674679 original size:22 final size:22
Alignment explanation
Indices: 31674615--31674679 Score: 62
Period size: 21 Copynumber: 3.0 Consensus size: 22
31674605 TTATACCGAA
*
31674615 AATAATCTATTTAATTTAAAAT
1 AATAATTTATTTAATTTAAAAT
* * * *
31674637 CAGATTTTA-TTACTATT-AAAT
1 AATAATTTATTTAAT-TTAAAAT
31674658 AATAATTTATTTAATTTAAAAT
1 AATAATTTATTTAATTTAAAAT
31674680 CAGAAAATTG
Statistics
Matches: 31, Mismatches: 9, Indels: 6
0.67 0.20 0.13
Matches are distributed among these distances:
21 16 0.52
22 15 0.48
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.48
Consensus pattern (22 bp):
AATAATTTATTTAATTTAAAAT
Found at i:31675119 original size:20 final size:20
Alignment explanation
Indices: 31675096--31675136 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
31675086 CACAAATTAA
*
31675096 TTAAATATTAATTTAATTTT
1 TTAAAAATTAATTTAATTTT
* *
31675116 TTAAAAATTACTTTTATTTT
1 TTAAAAATTAATTTAATTTT
31675136 T
1 T
31675137 ATCAATATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (20 bp):
TTAAAAATTAATTTAATTTT
Found at i:31675800 original size:13 final size:13
Alignment explanation
Indices: 31675773--31675824 Score: 59
Period size: 13 Copynumber: 4.0 Consensus size: 13
31675763 TTAGCTCAAG
* *
31675773 CTTTTTAAAATCA
1 CTTTTCAAAAGCA
*
31675786 CTTTTCCAAAGCA
1 CTTTTCAAAAGCA
*
31675799 CTTTTTAAAAGCA
1 CTTTTCAAAAGCA
*
31675812 CTTCTCAAAAGCA
1 CTTTTCAAAAGCA
31675825 ATGCTAAACT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.35
Consensus pattern (13 bp):
CTTTTCAAAAGCA
Found at i:31675802 original size:26 final size:26
Alignment explanation
Indices: 31675773--31675824 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
31675763 TTAGCTCAAG
* * *
31675773 CTTTTTAAAATCACTTTTCCAAAGCA
1 CTTTTTAAAAGCACTTCTCAAAAGCA
31675799 CTTTTTAAAAGCACTTCTCAAAAGCA
1 CTTTTTAAAAGCACTTCTCAAAAGCA
31675825 ATGCTAAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.35
Consensus pattern (26 bp):
CTTTTTAAAAGCACTTCTCAAAAGCA
Found at i:31688307 original size:13 final size:13
Alignment explanation
Indices: 31688289--31688313 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31688279 TAATGTGTGT
31688289 TAAGGAAATGAAA
1 TAAGGAAATGAAA
31688302 TAAGGAAATGAA
1 TAAGGAAATGAA
31688314 GGGTATAAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.24, T:0.16
Consensus pattern (13 bp):
TAAGGAAATGAAA
Found at i:31692131 original size:18 final size:18
Alignment explanation
Indices: 31692108--31692149 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 18
31692098 AATAAATTTG
31692108 TAATTAAATAAATTT-AAT
1 TAATTAAA-AAATTTAAAT
31692126 TAATTAAAAAATTTAAAT
1 TAATTAAAAAATTTAAAT
31692144 TAATTA
1 TAATTA
31692150 CAATTAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 6 0.26
18 17 0.74
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TAATTAAAAAATTTAAAT
Found at i:31692584 original size:5 final size:5
Alignment explanation
Indices: 31692574--31692601 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
31692564 CCCACTCAAT
31692574 AACTG AACTG AACTG AACTG AACTG AAC
1 AACTG AACTG AACTG AACTG AACTG AAC
31692602 ATCTGCCTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.43, C:0.21, G:0.18, T:0.18
Consensus pattern (5 bp):
AACTG
Found at i:31693550 original size:14 final size:14
Alignment explanation
Indices: 31693531--31693559 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
31693521 CCCACGATTT
31693531 ATATTGGACCATTA
1 ATATTGGACCATTA
31693545 ATATTGGACCATTA
1 ATATTGGACCATTA
31693559 A
1 A
31693560 ACTTTTGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (14 bp):
ATATTGGACCATTA
Found at i:31712122 original size:3 final size:3
Alignment explanation
Indices: 31712116--31712149 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
31712106 GTACAAAAAT
31712116 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
31712150 ATGAAACCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:31713065 original size:32 final size:33
Alignment explanation
Indices: 31713029--31713092 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 33
31713019 TAAAATGAAG
* * * *
31713029 TTTTATGTTCCTTAAAAGTTGG-AGAAAATTTT
1 TTTTAAGTCCCTTAAAACTTGGTAAAAAATTTT
31713061 TTTTAAGTCCCTTAAAACTTGGTAAAAAATTT
1 TTTTAAGTCCCTTAAAACTTGGTAAAAAATTT
31713093 GAGCCCTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 19 0.70
33 8 0.30
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.44
Consensus pattern (33 bp):
TTTTAAGTCCCTTAAAACTTGGTAAAAAATTTT
Found at i:31714177 original size:2 final size:2
Alignment explanation
Indices: 31714170--31714201 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
31714160 TTAATTTTTA
31714170 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
31714202 TAATGTATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:31719541 original size:17 final size:17
Alignment explanation
Indices: 31719521--31719557 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
31719511 AAATAATTAC
*
31719521 AAGAATATGAAAGGTTA
1 AAGAAGATGAAAGGTTA
*
31719538 AAGAAGATGGAAGGTTA
1 AAGAAGATGAAAGGTTA
31719555 AAG
1 AAG
31719558 GTGAAGGGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.30, T:0.19
Consensus pattern (17 bp):
AAGAAGATGAAAGGTTA
Found at i:31722610 original size:17 final size:17
Alignment explanation
Indices: 31722584--31722619 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
31722574 AAGTAGTTAC
* *
31722584 AAGAATATGAAAGATTA
1 AAGAAGATGAAAAATTA
31722601 AAGAAGATGAAAAATTA
1 AAGAAGATGAAAAATTA
31722618 AA
1 AA
31722620 AGTCAAGGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.17, T:0.19
Consensus pattern (17 bp):
AAGAAGATGAAAAATTA
Found at i:31725826 original size:13 final size:13
Alignment explanation
Indices: 31725808--31725835 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
31725798 ATAGTAATAT
31725808 ATATTTTTTAAAA
1 ATATTTTTTAAAA
31725821 ATATTTTTTAAAA
1 ATATTTTTTAAAA
31725834 AT
1 AT
31725836 TGAATTTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATATTTTTTAAAA
Found at i:31726407 original size:2 final size:2
Alignment explanation
Indices: 31726400--31726428 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
31726390 AACGAGTTAT
31726400 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
31726429 ATCAGGTGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:31729762 original size:2 final size:2
Alignment explanation
Indices: 31729757--31729785 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
31729747 TCACACAAGT
31729757 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
31729786 TTAATCATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:31730200 original size:19 final size:20
Alignment explanation
Indices: 31730176--31730217 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
31730166 ATATACCTAA
31730176 AAAC-AATACTTTACTTTAT
1 AAACAAATACTTTACTTTAT
* *
31730195 AAACAAATATTTTACTTTTT
1 AAACAAATACTTTACTTTAT
31730215 AAA
1 AAA
31730218 AATGTTGGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.43
Consensus pattern (20 bp):
AAACAAATACTTTACTTTAT
Found at i:31732980 original size:12 final size:12
Alignment explanation
Indices: 31732963--31732990 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
31732953 TGCATGTAAG
31732963 ATGTCTTCTACA
1 ATGTCTTCTACA
31732975 ATGTCTTCTACA
1 ATGTCTTCTACA
31732987 ATGT
1 ATGT
31732991 TACTGAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.21, G:0.11, T:0.43
Consensus pattern (12 bp):
ATGTCTTCTACA
Found at i:31736059 original size:2 final size:2
Alignment explanation
Indices: 31736054--31736081 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
31736044 AATCCCCCCT
31736054 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
31736082 CCTTTTTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:31742894 original size:22 final size:21
Alignment explanation
Indices: 31742842--31742894 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 21
31742832 AAATATTTAT
*
31742842 AAATAAATTAAATTCATTAGA
1 AAATAAATTAAATTCAATAGA
31742863 AAATATAATTAAATTACAAATA-A
1 AAATA-AATTAAATT-C-AATAGA
31742886 AAATAAATT
1 AAATAAATT
31742895 CAGACGGTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 5 0.18
22 13 0.46
23 7 0.25
24 3 0.11
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (21 bp):
AAATAAATTAAATTCAATAGA
Found at i:31748410 original size:12 final size:13
Alignment explanation
Indices: 31748390--31748432 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
31748380 GTGCTGCTAT
31748390 TTATTTTAATTAC
1 TTATTTTAATTAC
*
31748403 TT-TTTTAATGTAT
1 TTATTTTAAT-TAC
*
31748416 TTATTTTCATTAC
1 TTATTTTAATTAC
31748429 TTAT
1 TTAT
31748433 ATCATATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
12 7 0.28
13 12 0.48
14 6 0.24
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.65
Consensus pattern (13 bp):
TTATTTTAATTAC
Found at i:31759812 original size:19 final size:20
Alignment explanation
Indices: 31759760--31759813 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 20
31759750 CGTGTGACCC
**
31759760 GACTCGTTGACTTGATCATT
1 GACTCGTTGACTTTTTCATT
31759780 GA-TCGTTGACTTTTTCATT
1 GACTCGTTGACTTTTTCATT
31759799 GACTCGTTGA-TTTTT
1 GACTCGTTGACTTTTT
31759814 TTCGAAAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 22 0.71
20 9 0.29
ACGTcount: A:0.17, C:0.17, G:0.19, T:0.48
Consensus pattern (20 bp):
GACTCGTTGACTTTTTCATT
Found at i:31761887 original size:36 final size:36
Alignment explanation
Indices: 31761846--31761914 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 36
31761836 GCGATCGTTA
* *
31761846 CTCATTTTACTCCCTGTCGACTTAAAGGTCATGATG
1 CTCATTTTACTCCCTATCGACCTAAAGGTCATGATG
* *
31761882 CTCATTTTACTCCCTATTGACCTAGAGGTCATG
1 CTCATTTTACTCCCTATCGACCTAAAGGTCATG
31761915 TATGTTACCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.22, C:0.26, G:0.16, T:0.36
Consensus pattern (36 bp):
CTCATTTTACTCCCTATCGACCTAAAGGTCATGATG
Found at i:31762928 original size:21 final size:22
Alignment explanation
Indices: 31762899--31762941 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
31762889 ACTTTCATCA
*
31762899 TTAAGCCTTAATTAACCCATTT
1 TTAAGCCTTAATCAACCCATTT
*
31762921 TTAA-CCTTAATCAACCTATTT
1 TTAAGCCTTAATCAACCCATTT
31762942 ATACTTAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.33, C:0.23, G:0.02, T:0.42
Consensus pattern (22 bp):
TTAAGCCTTAATCAACCCATTT
Found at i:31768406 original size:21 final size:19
Alignment explanation
Indices: 31768368--31768445 Score: 79
Period size: 19 Copynumber: 4.1 Consensus size: 19
31768358 ATCATACTAG
* *
31768368 TTTTTATATTTTTGTAATA
1 TTTTTAAATTTTTTTAATA
31768387 TTTTTAGAATTTTTATTAATA
1 TTTTTA-AATTTTT-TTAATA
31768408 -TTTTATAA-TTTTTTAATA
1 TTTTTA-AATTTTTTTAATA
* *
31768426 CTTTTAAATATTTTTAATA
1 TTTTTAAATTTTTTTAATA
31768445 T
1 T
31768446 ATTCTTAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
18 8 0.16
19 24 0.48
20 13 0.26
21 5 0.10
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.64
Consensus pattern (19 bp):
TTTTTAAATTTTTTTAATA
Found at i:31768413 original size:11 final size:10
Alignment explanation
Indices: 31768369--31768445 Score: 60
Period size: 9 Copynumber: 8.1 Consensus size: 10
31768359 TCATACTAGT
31768369 TTTTAT-AT-
1 TTTTATAATA
*
31768377 TTTTGTAATA
1 TTTTATAATA
*
31768387 TTTTTAGAAT-
1 -TTTTATAATA
31768397 TTTTATTAATA
1 TTTTA-TAATA
31768408 TTTTATAAT-
1 TTTTATAATA
31768417 TTTT-TAATA
1 TTTTATAATA
31768426 CTTTTA-AATA
1 -TTTTATAATA
31768436 TTTT-TAATA
1 TTTTATAATA
31768445 T
1 T
31768446 ATTCTTAAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 17
0.73 0.05 0.22
Matches are distributed among these distances:
8 9 0.16
9 20 0.36
10 15 0.27
11 12 0.21
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.64
Consensus pattern (10 bp):
TTTTATAATA
Found at i:31768425 original size:39 final size:37
Alignment explanation
Indices: 31768369--31768445 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 37
31768359 TCATACTAGT
* *
31768369 TTTTATATTTTTGTAATATTTTTAGAATTTTTATTAATA
1 TTTTATATTTTTGTAATACTTTTA-AATATTT-TTAATA
31768408 TTTTATAATTTTT-TAATACTTTTAAATATTTTTAATA
1 TTTTAT-ATTTTTGTAATACTTTTAAATATTTTTAATA
31768445 T
1 T
31768446 ATTCTTAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
37 7 0.20
38 6 0.17
39 16 0.46
40 6 0.17
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.64
Consensus pattern (37 bp):
TTTTATATTTTTGTAATACTTTTAAATATTTTTAATA
Found at i:31768445 original size:9 final size:9
Alignment explanation
Indices: 31768368--31768445 Score: 61
Period size: 10 Copynumber: 8.1 Consensus size: 9
31768358 ATCATACTAG
31768368 TTTTT-ATA
1 TTTTTAATA
31768376 TTTTTGTAATA
1 -TTTT-TAATA
*
31768387 TTTTTAGAATT
1 TTTTT--AATA
31768398 TTTATTAATA
1 TTT-TTAATA
31768408 TTTTATAAT-
1 TTTT-TAATA
31768417 TTTTTAATA
1 TTTTTAATA
*
31768426 CTTTTAAATA
1 -TTTTTAATA
31768436 TTTTTAATA
1 TTTTTAATA
31768445 T
1 T
31768446 ATTCTTAAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
8 4 0.07
9 19 0.33
10 23 0.40
11 9 0.16
12 2 0.04
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.64
Consensus pattern (9 bp):
TTTTTAATA
Found at i:31768447 original size:11 final size:10
Alignment explanation
Indices: 31768373--31768454 Score: 55
Period size: 10 Copynumber: 8.1 Consensus size: 10
31768363 ACTAGTTTTT
*
31768373 ATATTTTTGTA
1 ATATTTTT-AA
31768384 ATATTTTTAGA
1 ATATTTTTA-A
*
31768395 AT-TTTTATTA
1 ATATTTT-TAA
31768405 ATA-TTTTATA
1 ATATTTTTA-A
31768415 AT-TTTTT-A
1 ATATTTTTAA
*
31768423 ATACTTTTAA
1 ATATTTTTAA
31768433 ATATTTTTAA
1 ATATTTTTAA
*
31768443 TATATTCTTAA
1 -ATATTTTTAA
31768454 A
1 A
31768455 ATTATTGTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 17
0.71 0.08 0.21
Matches are distributed among these distances:
8 3 0.05
9 5 0.09
10 28 0.49
11 21 0.37
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (10 bp):
ATATTTTTAA
Found at i:31768448 original size:39 final size:40
Alignment explanation
Indices: 31768369--31768462 Score: 104
Period size: 40 Copynumber: 2.4 Consensus size: 40
31768359 TCATACTAGT
* * *
31768369 TTTTAT-ATTTTTGTAATATTTTTAGAATTTTTATTAATA
1 TTTTATAATTTTTGTAATACTTTTAAAATTTTTAATAATA
31768408 TTTTATAATTTTT-TAATACTTTTAAATATTTTTAAT-ATA
1 TTTTATAATTTTTGTAATACTTTTAAA-ATTTTTAATAATA
* *
31768447 TTCTTAAAATTATTGT
1 TT-TTATAATTTTTGT
31768463 TAAGAAAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
39 22 0.48
40 23 0.50
41 1 0.02
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (40 bp):
TTTTATAATTTTTGTAATACTTTTAAAATTTTTAATAATA
Found at i:31768453 original size:21 final size:20
Alignment explanation
Indices: 31768377--31768454 Score: 65
Period size: 19 Copynumber: 3.9 Consensus size: 20
31768367 GTTTTTATAT
*
31768377 TTTTGTAATAT-TTTTAGA-A
1 TTTT-TAATATATTTTAAATA
*
31768396 TTTTTATTAATATTTTATAAT-
1 TTTTTAAT-ATATTTTA-AATA
*
31768417 TTTTTAATA-CTTTTAAATA
1 TTTTTAATATATTTTAAATA
31768436 TTTTTAATATATTCTTAAA
1 TTTTTAATATATT-TTAAA
31768455 ATTATTGTTA
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
18 6 0.13
19 20 0.43
20 8 0.17
21 13 0.28
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (20 bp):
TTTTTAATATATTTTAAATA
Found at i:31771928 original size:20 final size:20
Alignment explanation
Indices: 31771857--31771919 Score: 85
Period size: 20 Copynumber: 3.1 Consensus size: 20
31771847 TCAAATATTT
31771857 AAAAAT-TAGAAAAAATTGTA
1 AAAAATATA-AAAAAATTGTA
*
31771877 AAAAATATAAAAAAATAT-AA
1 AAAAATATAAAAAAAT-TGTA
31771897 AAAAATATAAAAAAATTGTA
1 AAAAATATAAAAAAATTGTA
31771917 AAA
1 AAA
31771920 GTTATAAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
19 1 0.03
20 34 0.89
21 3 0.08
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (20 bp):
AAAAATATAAAAAAATTGTA
Found at i:31771955 original size:10 final size:10
Alignment explanation
Indices: 31771796--31771928 Score: 69
Period size: 10 Copynumber: 13.3 Consensus size: 10
31771786 TGCTTTAATT
31771796 AAAAATTATA
1 AAAAATTATA
31771806 AAAAATTAGCTA
1 AAAAATTA--TA
* *
31771818 TAAATATTATT
1 -AAAAATTATA
**
31771829 AAATTTTAATA
1 AAAAATT-ATA
* *
31771840 AAAAAAT-TC
1 AAAAATTATA
*
31771849 AAATATT-T-
1 AAAAATTATA
*
31771857 AAAAATTAGA
1 AAAAATTATA
*
31771867 AAAAATTGTA
1 AAAAATTATA
31771877 AAAAA-TATA
1 AAAAATTATA
*
31771886 AAAAAATATA
1 AAAAATTATA
*
31771896 AAAAAATATAA
1 AAAAATTAT-A
*
31771907 AAAAATTGT-
1 AAAAATTATA
*
31771916 AAAAGTTATA
1 AAAAATTATA
31771926 AAA
1 AAA
31771929 TGTATAGACA
Statistics
Matches: 95, Mismatches: 19, Indels: 18
0.72 0.14 0.14
Matches are distributed among these distances:
8 6 0.06
9 22 0.23
10 43 0.45
11 15 0.16
12 2 0.02
13 7 0.07
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.30
Consensus pattern (10 bp):
AAAAATTATA
Found at i:31772358 original size:18 final size:18
Alignment explanation
Indices: 31772290--31772358 Score: 54
Period size: 17 Copynumber: 3.8 Consensus size: 18
31772280 AAAATTCTAA
31772290 TTTT-TAATTTTTTATATT
1 TTTTATAATTTTTT-TATT
* ** *
31772308 TTATTAAAATTTAATAATT
1 TT-TTATAATTTTTTTATT
31772327 TTTCTA-AA-TTTTTTATT
1 TTT-TATAATTTTTTTATT
31772344 TTTTATAATTTTTTT
1 TTTTATAATTTTTTT
31772359 CTAATTTTTA
Statistics
Matches: 39, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
16 2 0.05
17 11 0.28
18 11 0.28
19 9 0.23
20 6 0.15
ACGTcount: A:0.29, C:0.01, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTTATAATTTTTTTATT
Found at i:31772476 original size:89 final size:89
Alignment explanation
Indices: 31772376--31772573 Score: 215
Period size: 89 Copynumber: 2.3 Consensus size: 89
31772366 TTAATAAGAG
* *** * * *
31772376 CAGGGGTTTAATTG-TTTTTTTTTTAAAATTAAGGGTCTTTTTGATGCATTTTGAAAGTTTAAGT
1 CAGGGGCTTAATTGCTTTTTTTAGGAAAATTAAGGAT-TTTTTAATGCATTTTGAAAGTTCAAGT
*
31772440 ACCCAATTAAGTGGAAAAAAATAAA
65 ACCCAATTAAGTGCAAAAAAATAAA
** * *
31772465 CAGGGGCTTAATTGCTTTTTTTAGGAAGTTTGAGGATTTTTTAATGCATTTTGAAAGTTCAAGTG
1 CAGGGGCTTAATTGCTTTTTTTAGGAAAATTAAGGATTTTTTAATGCATTTTGAAAGTTCAAGTA
* *
31772530 CTCAATTGAGTGC-AAAAAA-AAA
66 CCCAATTAAGTGCAAAAAAATAAA
**
31772552 -AGAAGCTTAATTGCTTTTTTTA
1 CAGGGGCTTAATTGCTTTTTTTA
31772574 AAAAAATTTG
Statistics
Matches: 92, Mismatches: 16, Indels: 5
0.81 0.14 0.04
Matches are distributed among these distances:
86 20 0.22
87 3 0.03
88 6 0.07
89 48 0.52
90 15 0.16
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.40
Consensus pattern (89 bp):
CAGGGGCTTAATTGCTTTTTTTAGGAAAATTAAGGATTTTTTAATGCATTTTGAAAGTTCAAGTA
CCCAATTAAGTGCAAAAAAATAAA
Found at i:31772595 original size:89 final size:89
Alignment explanation
Indices: 31772413--31772593 Score: 224
Period size: 89 Copynumber: 2.1 Consensus size: 89
31772403 ATTAAGGGTC
* * **
31772413 TTTTTGATGCATTTTGAAAGTTTAAGTACCCAATTAAGTGGAAAAAAATAAACAGGGGCTTAATT
1 TTTTTAATGCATTTTGAAAGTTCAAGTACCCAATTAAGTGGAAAAAAATAAACAGAAGCTTAATT
** *
31772478 GCTTTTTTTAGGAAGTTTGAGGAT
66 GCTTTTTTTAAAAAATTTGAGGAT
* * * *
31772502 TTTTTAATGCATTTTGAAAGTTCAAGTGCTCAATTGAGT-GCAAAAAA-AAA-AGAAGCTTAATT
1 TTTTTAATGCATTTTGAAAGTTCAAGTACCCAATTAAGTGGAAAAAAATAAACAGAAGCTTAATT
*
31772564 GCTTTTTTTAAAAAAATTTGAGGGT
66 GCTTTTTTT-AAAAAATTTGAGGAT
31772589 TTTTT
1 TTTTT
31772594 TTTACATATT
Statistics
Matches: 79, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
86 19 0.24
87 19 0.24
88 7 0.09
89 34 0.43
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.39
Consensus pattern (89 bp):
TTTTTAATGCATTTTGAAAGTTCAAGTACCCAATTAAGTGGAAAAAAATAAACAGAAGCTTAATT
GCTTTTTTTAAAAAATTTGAGGAT
Found at i:31773520 original size:10 final size:10
Alignment explanation
Indices: 31773495--31773609 Score: 76
Period size: 10 Copynumber: 11.6 Consensus size: 10
31773485 GTTAAAGGGC
31773495 ATTTTTTATA
1 ATTTTTTATA
31773505 CA--TTTTATA
1 -ATTTTTTATA
*
31773514 ATTTTTTATG
1 ATTTTTTATA
31773524 ATTTTTTATA
1 ATTTTTTATA
** *
31773534 AAATTTTAGA
1 ATTTTTTATA
31773544 ATTTTTTATA
1 ATTTTTTATA
* **
31773554 TTTTTTTACG
1 ATTTTTTATA
31773564 A-TTTTTATAA
1 ATTTTTTAT-A
*
31773574 ATTCTTTTCTA
1 ATT-TTTTATA
**
31773585 ATTTTCAATA
1 ATTTTTTATA
*
31773595 AATTTTTAT-
1 ATTTTTTATA
31773604 ATTTTT
1 ATTTTT
31773610 ATTAAAATTT
Statistics
Matches: 77, Mismatches: 22, Indels: 12
0.69 0.20 0.11
Matches are distributed among these distances:
8 1 0.01
9 18 0.23
10 47 0.61
11 6 0.08
12 5 0.06
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.63
Consensus pattern (10 bp):
ATTTTTTATA
Found at i:31773561 original size:30 final size:29
Alignment explanation
Indices: 31773495--31773559 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 29
31773485 GTTAAAGGGC
* *
31773495 ATTTTTTATACATTTTATAATTTTTTATG
1 ATTTTTTATAAATTTTAGAATTTTTTATG
31773524 ATTTTTTATAAAATTTTAGAATTTTTTAT-
1 ATTTTTTAT-AAATTTTAGAATTTTTTATG
31773553 ATTTTTT
1 ATTTTTT
31773560 TACGATTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (29 bp):
ATTTTTTATAAATTTTAGAATTTTTTATG
Found at i:31773888 original size:89 final size:87
Alignment explanation
Indices: 31773786--31774122 Score: 373
Period size: 89 Copynumber: 3.8 Consensus size: 87
31773776 GCATTTGATG
* * * * **
31773786 GTTTAAATACCCAATGGAGTGAAAAAAATTAGGGGTTTAATTACTTTTTTTTTTTTAAGTTTGAG
1 GTTTAAGTACCCAATTGAGTGAAAAAAAGTAGGGGCTTAATT-CTTTTTTTTTTAAAAGTTTGAG
*
31773851 GGCTTTTTTTTGTACATTTTGAAA
65 AGCTTTTTTTTGT-CATTTTGAAA
* **
31773875 GTTCAAGTACCCAATTGAGTGAAAAAAAGTAGGGGCTTAATTGC-TTTTTTTGAAAAAGTTTGAG
1 GTTTAAGTACCCAATTGAGTGAAAAAAAGTAGGGGCTTAATT-CTTTTTTTTTTAAAAGTTTGAG
*
31773939 -G-GTTTTTTTGATGCATTTTGAAA
65 AGCTTTTTTTTG-T-CATTTTGAAA
* * *
31773962 GTTTAAGTATCCAATTGAGTGCAAAAAAAGCAGGGGCTTAATTGTTTTTTTTTTAAATAGTTTGA
1 GTTTAAGTACCCAATTGAGTG-AAAAAAAGTAGGGGCTTAATTCTTTTTTTTTTAAA-AGTTTGA
*
31774027 GAGCTTTTTTGTTG-CATTTTTAAA
64 GAGCTTTTTT-TTGTCATTTTGAAA
* * *
31774051 GTTTAAGTACCAAATTGAGTGAAAAAAA--AGGGGTTTAATTTCTTTTTCTTTTTTAAAGTTTGA
1 GTTTAAGTACCCAATTGAGTGAAAAAAAGTAGGGGCTTAA-TTCTTTTT-TTTTTAAAAGTTTGA
31774114 -AGCTTTTTT
64 GAGCTTTTTT
31774123 ACATCCTTAA
Statistics
Matches: 214, Mismatches: 25, Indels: 21
0.82 0.10 0.08
Matches are distributed among these distances:
86 26 0.12
87 45 0.21
88 60 0.28
89 74 0.35
90 1 0.00
91 5 0.02
92 3 0.01
ACGTcount: A:0.30, C:0.07, G:0.19, T:0.43
Consensus pattern (87 bp):
GTTTAAGTACCCAATTGAGTGAAAAAAAGTAGGGGCTTAATTCTTTTTTTTTTAAAAGTTTGAGA
GCTTTTTTTTGTCATTTTGAAA
Found at i:31774111 original size:176 final size:174
Alignment explanation
Indices: 31773786--31774122 Score: 410
Period size: 176 Copynumber: 1.9 Consensus size: 174
31773776 GCATTTGATG
** * **
31773786 GTTTAAATACCCAATGGAGTGAAAAAAATTAGGGGTTTAATTACTTTTTTTTTTTTAAGTTTGAG
1 GTTTAAATACCCAATGGAGTGAAAAAAAGCAGGGGCTTAATTACTTTTTTTTTTAAAAGTTTGAG
* *
31773851 GGCTTTTTTTTGTACATTTTGAAAGTTCAAGTACCCAATTGAGTGAAAAAAAGTAGGGGCTTAAT
66 AGCTTTTTTTTG-ACATTTTGAAAGTTCAAGTACCAAATTGAGTGAAAAAAAG-AGGGGCTTAAT
* *
31773916 TGCTTTTTTTGAAAAAGTTTGAGGGTTTTTTTGATGCATTTTGAAA
129 TGCTTTTTTTGAAAAAGTTTGAAGCTTTTTTTGATGCATTTTGAAA
* * * *
31773962 GTTTAAGTATCCAATTGAGTGCAAAAAAAGCAGGGGCTTAATT-GTTTTTTTTTTAAATAGTTTG
1 GTTTAAATACCCAATGGAGTG-AAAAAAAGCAGGGGCTTAATTACTTTTTTTTTTAAA-AGTTTG
* * *
31774026 AGAGCTTTTTTGTTG-CATTTTTAAAGTTTAAGTACCAAATTGAGTGAAAAAAA-AGGGGTTTAA
64 AGAGCTTTTTT-TTGACATTTTGAAAGTTCAAGTACCAAATTGAGTGAAAAAAAGAGGGGCTTAA
* ***
31774089 TTTCTTTTTCTTTTTTAAAGTTTGAAGCTTTTTT
128 TTGC-TTTT-TTTGAAAAAGTTTGAAGCTTTTTT
31774123 ACATCCTTAA
Statistics
Matches: 136, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
174 12 0.09
175 4 0.03
176 83 0.61
177 34 0.25
178 3 0.02
ACGTcount: A:0.30, C:0.07, G:0.19, T:0.43
Consensus pattern (174 bp):
GTTTAAATACCCAATGGAGTGAAAAAAAGCAGGGGCTTAATTACTTTTTTTTTTAAAAGTTTGAG
AGCTTTTTTTTGACATTTTGAAAGTTCAAGTACCAAATTGAGTGAAAAAAAGAGGGGCTTAATTG
CTTTTTTTGAAAAAGTTTGAAGCTTTTTTTGATGCATTTTGAAA
Found at i:31782611 original size:12 final size:12
Alignment explanation
Indices: 31782602--31782635 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
31782592 GCAGAAGATA
31782602 AAGGAGAAGAAG
1 AAGGAGAAGAAG
*
31782614 AAGAAGAAGAAG
1 AAGGAGAAGAAG
*
31782626 ATGGAGAAGA
1 AAGGAGAAGA
31782636 TAGAGTGAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.38, T:0.03
Consensus pattern (12 bp):
AAGGAGAAGAAG
Found at i:31782987 original size:24 final size:26
Alignment explanation
Indices: 31782960--31783008 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 26
31782950 CCATGTTATT
31782960 ATCTCTCTT-TTTCA-TAAT-GTGAAA
1 ATCTCT-TTCTTTCATTAATGGTGAAA
31782984 ATCTCTTTCTTTCATTAATGGTGAA
1 ATCTCTTTCTTTCATTAATGGTGAA
31783009 GGGAAAAGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 2 0.09
24 11 0.50
25 4 0.18
26 5 0.23
ACGTcount: A:0.27, C:0.16, G:0.10, T:0.47
Consensus pattern (26 bp):
ATCTCTTTCTTTCATTAATGGTGAAA
Found at i:31787831 original size:18 final size:19
Alignment explanation
Indices: 31787803--31787838 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
31787793 GTGGCAAAAT
31787803 ATATATTTTAAAAAACATA
1 ATATATTTTAAAAAACATA
31787822 ATAT-TTTTAAAAAACAT
1 ATATATTTTAAAAAACAT
31787839 TTTTTTGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.39
Consensus pattern (19 bp):
ATATATTTTAAAAAACATA
Found at i:31787857 original size:24 final size:24
Alignment explanation
Indices: 31787826--31787871 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
31787816 AACATAATAT
31787826 TTTTAAAAAACATTTTTTTGAAAA
1 TTTTAAAAAACATTTTTTTGAAAA
* *
31787850 TTTTAAAATATATTTTTTTGAA
1 TTTTAAAAAACATTTTTTTGAA
31787872 TTTTTTTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.52
Consensus pattern (24 bp):
TTTTAAAAAACATTTTTTTGAAAA
Found at i:31787878 original size:25 final size:24
Alignment explanation
Indices: 31787824--31787877 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
31787814 AAAACATAAT
*
31787824 ATTTTTAAAAAACATTTTTTTGAA
1 ATTTTTAAAAAATATTTTTTTGAA
* *
31787848 AATTTTAAAATATATTTTTTTGAA
1 ATTTTTAAAAAATATTTTTTTGAA
*
31787872 TTTTTT
1 ATTTTT
31787878 TCAAAGATGT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (24 bp):
ATTTTTAAAAAATATTTTTTTGAA
Found at i:31790236 original size:24 final size:22
Alignment explanation
Indices: 31790204--31790249 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 22
31790194 CCCGATCCGG
31790204 ATTTATAATAATGATTTTATTTTT
1 ATTTATAATAAT-ATTTT-TTTTT
* *
31790228 ATTTTTAATACTATTTTTTTTT
1 ATTTATAATAATATTTTTTTTT
31790250 GCTTGTAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 5 0.25
23 5 0.25
24 10 0.50
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (22 bp):
ATTTATAATAATATTTTTTTTT
Found at i:31790645 original size:41 final size:41
Alignment explanation
Indices: 31790573--31790652 Score: 126
Period size: 41 Copynumber: 2.0 Consensus size: 41
31790563 TTTTATTGTA
31790573 TTTTCAATTTGTTTGTTGTTTTACAAATTGTTTTAATATCG
1 TTTTCAATTTGTTTGTTGTTTTACAAATTGTTTTAATATCG
* *
31790614 TTTTTAATTTGTTTGTTGTTTTA-ATATTTGTTTTAATAT
1 TTTTCAATTTGTTTGTTGTTTTACA-AATTGTTTTAATAT
31790653 TTTTAAATGT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 1 0.03
41 35 0.97
ACGTcount: A:0.21, C:0.04, G:0.11, T:0.64
Consensus pattern (41 bp):
TTTTCAATTTGTTTGTTGTTTTACAAATTGTTTTAATATCG
Found at i:31790646 original size:12 final size:12
Alignment explanation
Indices: 31790629--31790654 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
31790619 AATTTGTTTG
31790629 TTGTTTTAATAT
1 TTGTTTTAATAT
31790641 TTGTTTTAATAT
1 TTGTTTTAATAT
31790653 TT
1 TT
31790655 TTAAATGTAT
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:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (12 bp):
TTGTTTTAATAT
Found at i:31790680 original size:26 final size:24
Alignment explanation
Indices: 31790649--31790696 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
31790639 ATTTGTTTTA
*
31790649 ATATTTTTAAATGTATTTGATATATC
1 ATATTTTAAAAT-TATTT-ATATATC
31790675 ATATTTTAAAATTATTTATATA
1 ATATTTTAAAATTATTTATATA
31790697 ATAAAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.24
25 5 0.24
26 11 0.52
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (24 bp):
ATATTTTAAAATTATTTATATATC
Found at i:31791161 original size:91 final size:92
Alignment explanation
Indices: 31790981--31791178 Score: 353
Period size: 91 Copynumber: 2.2 Consensus size: 92
31790971 ATTTTAAAAT
* * *
31790981 TTGAATTAAACATTATAAAGTTAATACTGTTATAGTCAACTATCAAATATATGTAACTTTTATTA
1 TTGAATTAAACATTATAAAGTTAACACTATTATAATCAACTATCAAATATATGTAACTTTTATTA
31791046 AATACAAGTATTATATTAACTACTATA
66 AATACAAGTATTATATTAACTACTATA
31791073 TTGAATTAAACATTATAAAGTTAACACTATTATAATCAACTATCAAA-ATATGTAACTTTTATTA
1 TTGAATTAAACATTATAAAGTTAACACTATTATAATCAACTATCAAATATATGTAACTTTTATTA
*
31791137 AATATAAGTATTATATTAACTACTATA
66 AATACAAGTATTATATTAACTACTATA
31791164 TTGAATTAAACATTA
1 TTGAATTAAACATTA
31791179 AATTGGGTGC
Statistics
Matches: 102, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
91 58 0.57
92 44 0.43
ACGTcount: A:0.45, C:0.10, G:0.06, T:0.40
Consensus pattern (92 bp):
TTGAATTAAACATTATAAAGTTAACACTATTATAATCAACTATCAAATATATGTAACTTTTATTA
AATACAAGTATTATATTAACTACTATA
Found at i:31793670 original size:18 final size:18
Alignment explanation
Indices: 31793643--31793681 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
31793633 TTAGTAATGC
31793643 TTTTAACTCAAAAGTGAT
1 TTTTAACTCAAAAGTGAT
* *
31793661 TTTTATCTCAAAAGTGCT
1 TTTTAACTCAAAAGTGAT
31793679 TTT
1 TTT
31793682 GAAAAGCAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.31, C:0.13, G:0.10, T:0.46
Consensus pattern (18 bp):
TTTTAACTCAAAAGTGAT
Found at i:31794016 original size:13 final size:13
Alignment explanation
Indices: 31793995--31794034 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
31793985 CTATATTTTA
31793995 AATATTTAAATAT
1 AATATTTAAATAT
*
31794008 AATAATTAAATATT
1 AATATTTAAATA-T
*
31794022 TATATTTAAATAT
1 AATATTTAAATAT
31794035 TAGCACAGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
AATATTTAAATAT
Found at i:31794032 original size:14 final size:14
Alignment explanation
Indices: 31793995--31794036 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
31793985 CTATATTTTA
31793995 AATATTTAAATA-T
1 AATATTTAAATATT
*
31794008 AATAATTAAATATT
1 AATATTTAAATATT
*
31794022 TATATTTAAATATT
1 AATATTTAAATATT
31794036 A
1 A
31794037 GCACAGTTGT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AATATTTAAATATT
Found at i:31795950 original size:116 final size:115
Alignment explanation
Indices: 31795730--31795964 Score: 317
Period size: 116 Copynumber: 2.0 Consensus size: 115
31795720 TTACCTTGCA
* * *
31795730 ACTTTTACCAATACAAGTATTTAAACTACCGATACCTCAATGTACAGAACTACCGAACCTGTTAT
1 ACTTCTACCAATACAAGCATTTAAACTACCGATACCTCAATGCACAGAACTACCGAACCTGTTAT
* * * *
31795795 AAAACTACTGAAACAACTCAAGTCGGAGAACAATATCTCTCCTACCCTGT
66 AAAACTACCGAAACAACTCAAGCCAGAGAACAACATCTCTCCTACCCTGT
* * * * *
31795845 ACTTCTACCGATACAAGCATTTAAACTACGGATACCTCAATGCATAGAATTACCGATACTTGTTA
1 ACTTCTACCAATACAAGCATTTAAACTACCGATACCTCAATGCACAGAACTACCGA-ACCTGTTA
* * * *
31795910 TACAACTACCGAAACAACTCAAGCCAGAGAACAGCCTCTCTCCTATCCTGT
65 TAAAACTACCGAAACAACTCAAGCCAGAGAACAACATCTCTCCTACCCTGT
31795961 ACTT
1 ACTT
31795965 TTTACCTGTA
Statistics
Matches: 103, Mismatches: 16, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
115 49 0.48
116 54 0.52
ACGTcount: A:0.36, C:0.27, G:0.11, T:0.26
Consensus pattern (115 bp):
ACTTCTACCAATACAAGCATTTAAACTACCGATACCTCAATGCACAGAACTACCGAACCTGTTAT
AAAACTACCGAAACAACTCAAGCCAGAGAACAACATCTCTCCTACCCTGT
Found at i:31796555 original size:36 final size:37
Alignment explanation
Indices: 31796475--31796558 Score: 98
Period size: 36 Copynumber: 2.3 Consensus size: 37
31796465 GTTATTCGTA
* *
31796475 TTACTCCTTGTTAACCTCAAAGGTCATGATGCTCGTT
1 TTACTCCCTGTTAACCTCAAAGGTCATGATGCTCATT
* * * *
31796512 TTACTCCCTGTTGACCT-AAAGGTCATTATTCTTATT
1 TTACTCCCTGTTAACCTCAAAGGTCATGATGCTCATT
*
31796548 TTTCTCCCTGT
1 TTACTCCCTGT
31796559 ACATCAAAAG
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
36 25 0.62
37 15 0.38
ACGTcount: A:0.19, C:0.25, G:0.13, T:0.43
Consensus pattern (37 bp):
TTACTCCCTGTTAACCTCAAAGGTCATGATGCTCATT
Found at i:31798627 original size:18 final size:18
Alignment explanation
Indices: 31798598--31798667 Score: 97
Period size: 18 Copynumber: 3.9 Consensus size: 18
31798588 CGTTTCCATC
31798598 AATGTTAACATCATTTGA
1 AATGTTAACATCATTTGA
31798616 AAT-TTGAACATCATTTGA
1 AATGTT-AACATCATTTGA
* *
31798634 AGTGTTAACATCATTTAA
1 AATGTTAACATCATTTGA
*
31798652 AATGTTAATATCATTT
1 AATGTTAACATCATTT
31798668 CCTGCATTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
17 2 0.04
18 42 0.91
19 2 0.04
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (18 bp):
AATGTTAACATCATTTGA
Found at i:31802028 original size:70 final size:67
Alignment explanation
Indices: 31801945--31802077 Score: 178
Period size: 70 Copynumber: 1.9 Consensus size: 67
31801935 TCCGAATAAG
* * * *
31801945 AAAAGGCAAAACTACGTCGTTTTGATAAATGTTTA-TCTATTCTAAAGTTAAAAGTCAAAACCAT
1 AAAAGGAAAAACTACGTCGTGTTCATAAATGTTTACTC-A-T-T-AAGTTAAAAGGCAAAACCAT
31802009 TAAGTT
62 TAAGTT
*
31802015 AAAAGGAAAAACTATGTCGTGTTCATAAATGTTTACTCATTAAGTTAAAAGGCAAAACCATTA
1 AAAAGGAAAAACTACGTCGTGTTCATAAATGTTTACTCATTAAGTTAAAAGGCAAAACCATTA
31802078 TATTGTTTAT
Statistics
Matches: 57, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
67 21 0.37
68 1 0.02
69 1 0.02
70 32 0.56
71 2 0.04
ACGTcount: A:0.43, C:0.13, G:0.14, T:0.31
Consensus pattern (67 bp):
AAAAGGAAAAACTACGTCGTGTTCATAAATGTTTACTCATTAAGTTAAAAGGCAAAACCATTAAG
TT
Found at i:31804383 original size:16 final size:16
Alignment explanation
Indices: 31804362--31804393 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
31804352 GGGATTGATT
31804362 AGTGATTGAACTGTTA
1 AGTGATTGAACTGTTA
31804378 AGTGATTGAACTGTTA
1 AGTGATTGAACTGTTA
31804394 CGGTGGACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (16 bp):
AGTGATTGAACTGTTA
Found at i:31804506 original size:39 final size:39
Alignment explanation
Indices: 31804458--31804636 Score: 153
Period size: 39 Copynumber: 4.6 Consensus size: 39
31804448 TGCAATGTTC
* * *
31804458 AGCAATGACACTGTAAACACTACAAAGCTATTCGGAGCT
1 AGCAGTGACACTGTAAACACTACAAAGCTATACGGAACT
* * * * *
31804497 AGCGGTGACACTGAAAACACTACAATGTTATACTGAACT
1 AGCAGTGACACTGTAAACACTACAAAGCTATACGGAACT
* * *
31804536 AGTAGTGACACTGTAAACACTGCAATA-CTATACTGAACT
1 AGCAGTGACACTGTAAACACTACAA-AGCTATACGGAACT
* * * ** * * *
31804575 GGTAGTGACATTGTAAACACCGCAACGCTATACTGAAGT
1 AGCAGTGACACTGTAAACACTACAAAGCTATACGGAACT
**
31804614 AATAGTGACACTGTAAACACTAC
1 AGCAGTGACACTGTAAACACTAC
31804637 TAGACTATTA
Statistics
Matches: 114, Mismatches: 24, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
39 114 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (39 bp):
AGCAGTGACACTGTAAACACTACAAAGCTATACGGAACT
Found at i:31807766 original size:22 final size:20
Alignment explanation
Indices: 31807741--31807793 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 20
31807731 ATACATAACA
31807741 AATCAAATAATATTATAAAACT
1 AATCAAATAATATT-TAAAA-T
* *
31807763 AATCAATTATAGATTTAAAAT
1 AATCAAATA-ATATTTAAAAT
31807784 AAT-AAATAAT
1 AATCAAATAAT
31807794 TAAATCTAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
19 1 0.04
20 4 0.15
21 4 0.15
22 13 0.50
23 4 0.15
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.34
Consensus pattern (20 bp):
AATCAAATAATATTTAAAAT
Found at i:31809049 original size:44 final size:44
Alignment explanation
Indices: 31808996--31809079 Score: 141
Period size: 44 Copynumber: 1.9 Consensus size: 44
31808986 GTCTTTCAAC
* * *
31808996 TATGGTCTTTTCATTTCTGGAATATTATCGTTGTGTCTTTTGAT
1 TATGGTCTTTTCATTTCTGGAATACTATCGTAGTATCTTTTGAT
31809040 TATGGTCTTTTCATTTCTGGAATACTATCGTAGTATCTTT
1 TATGGTCTTTTCATTTCTGGAATACTATCGTAGTATCTTT
31809080 CAACTAGGGT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.18, C:0.13, G:0.17, T:0.52
Consensus pattern (44 bp):
TATGGTCTTTTCATTTCTGGAATACTATCGTAGTATCTTTTGAT
Found at i:31813758 original size:19 final size:20
Alignment explanation
Indices: 31813728--31813767 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
31813718 ACCATTCCAT
*
31813728 AACTTAAGATAACATAAAAA
1 AACTTAAGATAAAATAAAAA
31813748 AACTT-AGATAAAATAAAAA
1 AACTTAAGATAAAATAAAAA
31813767 A
1 A
31813768 TTATACTTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.68, C:0.07, G:0.05, T:0.20
Consensus pattern (20 bp):
AACTTAAGATAAAATAAAAA
Found at i:31816763 original size:103 final size:103
Alignment explanation
Indices: 31816580--31816784 Score: 383
Period size: 103 Copynumber: 2.0 Consensus size: 103
31816570 CTTTGTCGAG
*
31816580 TATAAACTCCTCATTTCCATCTCATATCTGACTGAAGGGCTTCACGAAACTCATCCATCCAGTTA
1 TATAAACTCCTCATTTCCATCTCATATCTGACTAAAGGGCTTCACGAAACTCATCCATCCAGTTA
31816645 TTATCCAGGTACGTACCAACATCTCCTTGAACTCCCAA
66 TTATCCAGGTACGTACCAACATCTCCTTGAACTCCCAA
31816683 TATAAACTCCTCATTTCCATCTCATATCTGACTAAAGGGCTTCACGAAACTCATCCATCCAGTTA
1 TATAAACTCCTCATTTCCATCTCATATCTGACTAAAGGGCTTCACGAAACTCATCCATCCAGTTA
* *
31816748 TTATCTAGGTTCGTACCAACATCTCCTTGAACTCCCA
66 TTATCCAGGTACGTACCAACATCTCCTTGAACTCCCA
31816785 GTTGTGCTTA
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 99 1.00
ACGTcount: A:0.29, C:0.31, G:0.10, T:0.30
Consensus pattern (103 bp):
TATAAACTCCTCATTTCCATCTCATATCTGACTAAAGGGCTTCACGAAACTCATCCATCCAGTTA
TTATCCAGGTACGTACCAACATCTCCTTGAACTCCCAA
Found at i:31819360 original size:6 final size:6
Alignment explanation
Indices: 31819349--31819393 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
31819339 GGCCCAACAG
* * *
31819349 AATTTA AATTT- ATTTTA AAGTTA AATTTA AATTTA AAATTA AATT
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATT
31819394 AATGTCCAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
5 4 0.12
6 28 0.88
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (6 bp):
AATTTA
Found at i:31819395 original size:23 final size:23
Alignment explanation
Indices: 31819349--31819395 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
31819339 GGCCCAACAG
**
31819349 AATTTAAATTTATTTTAAAGTTA
1 AATTTAAATTTAAATTAAAGTTA
31819372 AATTTAAATTTAAAATTAAA-TTA
1 AATTTAAATTT-AAATTAAAGTTA
31819395 A
1 A
31819396 TGTCCAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 15 0.71
24 6 0.29
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (23 bp):
AATTTAAATTTAAATTAAAGTTA
Found at i:31819413 original size:14 final size:14
Alignment explanation
Indices: 31819394--31819423 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
31819384 AAATTAAATT
31819394 AATGTCCAAATACA
1 AATGTCCAAATACA
*
31819408 AATGTCCAATTACA
1 AATGTCCAAATACA
31819422 AA
1 AA
31819424 AGCCCAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.20, G:0.07, T:0.23
Consensus pattern (14 bp):
AATGTCCAAATACA
Found at i:31820176 original size:3 final size:3
Alignment explanation
Indices: 31820158--31820220 Score: 65
Period size: 3 Copynumber: 21.0 Consensus size: 3
31820148 AGTTATAACC
* * * *
31820158 TAA TAAA TAT TAA TAA TAA TAA TAT TAT TAA TAA TCA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
31820204 T-T TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
31820221 ATGTTTAAAT
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
2 1 0.02
3 46 0.92
4 3 0.06
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Done.