Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008187.1 Hibiscus syriacus cultivar Beakdansim tig00110794_pilon, whole genome shotgun sequence
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: 1300289
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
File 1 of 5
Found at i:3722 original size:14 final size:13
Alignment explanation
Indices: 3698--3730 Score: 57
Period size: 14 Copynumber: 2.5 Consensus size: 13
3688 TAAAATTATT
3698 TATTAAATAATAA
1 TATTAAATAATAA
3711 TATTATAATAATAA
1 TATTA-AATAATAA
3725 TATTAA
1 TATTAA
3731 TAAAAAATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
TATTAAATAATAA
Found at i:11436 original size:23 final size:23
Alignment explanation
Indices: 11410--11453 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
11400 TTAAATGATT
*
11410 ATTTTAT-TTCTTATTTTTTTAGC
1 ATTTTATATTCTT-TTGTTTTAGC
11433 ATTTTATATTCTTTTGTTTTA
1 ATTTTATATTCTTTTGTTTTA
11454 ATTTTTGGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.18, C:0.07, G:0.05, T:0.70
Consensus pattern (23 bp):
ATTTTATATTCTTTTGTTTTAGC
Found at i:13190 original size:18 final size:18
Alignment explanation
Indices: 13167--13201 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
13157 AATGCAGGCC
13167 GAGGTGGATGCCGTGGCT
1 GAGGTGGATGCCGTGGCT
13185 GAGGTGGATGCCGTGGC
1 GAGGTGGATGCCGTGGC
13202 CGTGGCCGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.17, G:0.51, T:0.20
Consensus pattern (18 bp):
GAGGTGGATGCCGTGGCT
Found at i:17833 original size:12 final size:12
Alignment explanation
Indices: 17809--17864 Score: 51
Period size: 12 Copynumber: 4.5 Consensus size: 12
17799 ATTTTAAATA
17809 AAAAAT-ATGTTT
1 AAAAATAAT-TTT
17821 AAAAATAATTTT
1 AAAAATAATTTT
* **
17833 AAATTATTAAACTT
1 AAA--AATAATTTT
17847 AAAAATAATTTT
1 AAAAATAATTTT
17859 AAAAAT
1 AAAAAT
17865 GGATCCCTGG
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
12 24 0.69
13 2 0.06
14 9 0.26
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (12 bp):
AAAAATAATTTT
Found at i:18694 original size:3 final size:3
Alignment explanation
Indices: 18686--18710 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
18676 AGTGTAGTTT
18686 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
18711 ATATATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:18715 original size:2 final size:2
Alignment explanation
Indices: 18708--18737 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
18698 TTATTATTAT
*
18708 TA TA TA TA TA TA TA TA TA TA TA TA AA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18738 AATAAAAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:23215 original size:21 final size:21
Alignment explanation
Indices: 23185--23238 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
23175 TGTTGAGCCT
*
23185 GTCGGGTTACATCCCAAGCTC
1 GTCGGTTTACATCCCAAGCTC
** *
23206 GTCGGTTTACATGTCAAGCTT
1 GTCGGTTTACATCCCAAGCTC
*
23227 GTTGGTTTACAT
1 GTCGGTTTACAT
23239 TTCGAGCACG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.19, C:0.22, G:0.24, T:0.35
Consensus pattern (21 bp):
GTCGGTTTACATCCCAAGCTC
Found at i:31018 original size:23 final size:26
Alignment explanation
Indices: 30978--31048 Score: 89
Period size: 24 Copynumber: 2.9 Consensus size: 26
30968 ATTTCTCTTG
30978 ATATCATGTATCTCATATCAC-T-TC
1 ATATCATGTATCTCATATCACATGTC
31002 ATATCATGT-TCTCATATCACATGTC
1 ATATCATGTATCTCATATCACATGTC
* *
31027 ATATCA--CATATCATATCACATG
1 ATATCATGTATCTCATATCACATG
31049 AACATATATA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
23 11 0.26
24 23 0.55
25 8 0.19
ACGTcount: A:0.32, C:0.24, G:0.06, T:0.38
Consensus pattern (26 bp):
ATATCATGTATCTCATATCACATGTC
Found at i:31030 original size:12 final size:12
Alignment explanation
Indices: 31013--31048 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
31003 TATCATGTTC
31013 TCATATCACATG
1 TCATATCACATG
*
31025 TCATATCACATA
1 TCATATCACATG
31037 TCATATCACATG
1 TCATATCACATG
31049 AACATATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (12 bp):
TCATATCACATG
Found at i:37741 original size:12 final size:12
Alignment explanation
Indices: 37724--37759 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
37714 TATCATGTTC
37724 TCATATCACATG
1 TCATATCACATG
*
37736 TCATATCACATA
1 TCATATCACATG
37748 TCATATCACATG
1 TCATATCACATG
37760 AACATATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (12 bp):
TCATATCACATG
Found at i:39715 original size:16 final size:16
Alignment explanation
Indices: 39691--39731 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
39681 TTGAAACTTA
*
39691 AACTTGAAAAGGCTTG
1 AACTCGAAAAGGCTTG
39707 AACTCGAAAAGGCTTG
1 AACTCGAAAAGGCTTG
39723 AACTC-AAAA
1 AACTCGAAAA
39732 AAAATTAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 4 0.17
16 20 0.83
ACGTcount: A:0.44, C:0.17, G:0.20, T:0.20
Consensus pattern (16 bp):
AACTCGAAAAGGCTTG
Found at i:41672 original size:23 final size:21
Alignment explanation
Indices: 41578--41672 Score: 77
Period size: 21 Copynumber: 4.4 Consensus size: 21
41568 TTGTGCTTCA
*
41578 TGCATCGATACACC-T-AACAG
1 TGCATCGATACACCTTGAA-TG
*
41598 TGCATCGATGCATCCTTGAATG
1 TGCATCGATACA-CCTTGAATG
* * *
41620 TGCATCTATACACCATGAAGG
1 TGCATCGATACACCTTGAATG
* *
41641 TGTACCGATACACGCCTTGAATG
1 TGCATCGATACA--CCTTGAATG
41664 TGCATCGAT
1 TGCATCGAT
41673 GCACATGGTC
Statistics
Matches: 57, Mismatches: 13, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
20 11 0.19
21 18 0.32
22 12 0.21
23 16 0.28
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.26
Consensus pattern (21 bp):
TGCATCGATACACCTTGAATG
Found at i:43251 original size:21 final size:21
Alignment explanation
Indices: 43209--43252 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
43199 ACCCCGGGAG
*
43209 CTAGCTCTTCACGAGCTGCTC
1 CTAGCTCTTCACGAGCTCCTC
* *
43230 CTAGCTCTTCTCGTGCTCCTC
1 CTAGCTCTTCACGAGCTCCTC
43251 CT
1 CT
43253 CCTCCTCTGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.09, C:0.41, G:0.16, T:0.34
Consensus pattern (21 bp):
CTAGCTCTTCACGAGCTCCTC
Found at i:43989 original size:29 final size:29
Alignment explanation
Indices: 43956--44013 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
43946 TGTTAAAAGG
*
43956 GAGAAGTGTTATAGTAAGGGGGAGTAATT
1 GAGAAGTGTTATAGTAAAGGGGAGTAATT
43985 GAGAAGTGTTATAGTAAAGGGGAGTAATT
1 GAGAAGTGTTATAGTAAAGGGGAGTAATT
44014 TTTTGAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.36, C:0.00, G:0.36, T:0.28
Consensus pattern (29 bp):
GAGAAGTGTTATAGTAAAGGGGAGTAATT
Found at i:45454 original size:75 final size:75
Alignment explanation
Indices: 45331--45588 Score: 322
Period size: 75 Copynumber: 3.4 Consensus size: 75
45321 CTTAACCGGT
* * * * *
45331 TAAAATAAAATAGGTGCTACCTATTATGTTAAACTACATACCGGTTTGTTTGAAGGTTACTAGTA
1 TAAAATAAAATAGGTGATACCTATTACGTTAAACTACATACTGGTTTGTTTAAAGGTTACTAATA
45396 TTGTAAACGG
66 TTGTAAACGG
* * *
45406 TAAAATAAAATAGGTGTTATCTATTACGTTAAAATACATACTGGTTTGTTTAAAGGTTACTAATA
1 TAAAATAAAATAGGTGATACCTATTACGTTAAACTACATACTGGTTTGTTTAAAGGTTACTAATA
*
45471 ATGTAAACGG
66 TTGTAAACGG
* *** * *
45481 TAAACTAAAATAGACAATACCTATTACGTTAAACTACCTACTGGTTTGTTTAAAGATTACTAAT-
1 TAAAATAAAATAGGTGATACCTATTACGTTAAACTACATACTGGTTTGTTTAAAGGTTACTAATA
*
45545 TATATAAACGG
66 T-TGTAAACGG
* *
45556 TAAAATAAAATAGGCTCA-ACCTATTATGTTAAA
1 TAAAATAAAATAGG-TGATACCTATTACGTTAAA
45589 TAGACGCTAC
Statistics
Matches: 157, Mismatches: 24, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
75 156 0.99
76 1 0.01
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (75 bp):
TAAAATAAAATAGGTGATACCTATTACGTTAAACTACATACTGGTTTGTTTAAAGGTTACTAATA
TTGTAAACGG
Found at i:45619 original size:23 final size:23
Alignment explanation
Indices: 45574--45633 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
45564 AATAGGCTCA
*
45574 ACCTATTATGTTAAATAGACGCT
1 ACCTATTACGTTAAATAGACGCT
45597 ACCTATTACGTTAAATA-AGCGCT
1 ACCTATTACGTTAAATAGA-CGCT
*
45620 -CATATTACGTTAAA
1 ACCTATTACGTTAAA
45634 CTAGCTACCG
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
22 14 0.41
23 20 0.59
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (23 bp):
ACCTATTACGTTAAATAGACGCT
Found at i:45781 original size:119 final size:117
Alignment explanation
Indices: 45501--45801 Score: 363
Period size: 120 Copynumber: 2.5 Consensus size: 117
45491 TAGACAATAC
* * * * * *
45501 CTATTACGTTAAACTACCTACTGGTTTGTTTAAAGATTACTAATTATATAAACGGTAAAATAAAA
1 CTATTACGTTAAACTAACTACCGATTTGTTTAAAG-TTAATAATAATGTAAACGGTAAAATAAAA
* * * * *
45566 TAGGCTCAACCTATTATGTTAAATAGACGCTACCTATTACGTTAAATAAGCGCT
65 TAGACGCAACCTAGTATGTTAAATAGACGCTACC-ATTACATTAAATAAGCGAT
*
45620 CATATTACGTTAAACTAGCTACCGATTTGTTTAAAGGTTAATAATAATGTAAACGGTAAAATAAA
1 C-TATTACGTTAAACTAACTACCGATTTGTTTAAA-GTTAATAATAATGTAAACGGTAAAATAAA
* * * *
45685 ATAGACGCTACTTGGTATGTTAAATATG-CGCTACC-TTACATTAAATAAGTACTAT
64 ATAGACGCAACCTAGTATGTTAAATA-GACGCTACCATTACATTAAATAAG--CGAT
*
45740 CTATTACGTTAAACTAACTACCGATTTGTTTAAATGTTAATAATAATGTAAACGATAAAATA
1 CTATTACGTTAAACTAACTACCGATTTGTTTAAA-GTTAATAATAATGTAAACGGTAAAATA
45802 TATACAATTT
Statistics
Matches: 159, Mismatches: 18, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
118 13 0.08
119 59 0.37
120 85 0.53
121 2 0.01
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.34
Consensus pattern (117 bp):
CTATTACGTTAAACTAACTACCGATTTGTTTAAAGTTAATAATAATGTAAACGGTAAAATAAAAT
AGACGCAACCTAGTATGTTAAATAGACGCTACCATTACATTAAATAAGCGAT
Found at i:46626 original size:108 final size:107
Alignment explanation
Indices: 46420--46697 Score: 344
Period size: 108 Copynumber: 2.6 Consensus size: 107
46410 TGTTAATATT
* * * * * *
46420 TATTTATAACAAAATAAGAAATTAACTTATTTTGTTGTCG-TGAGATTTCGAATGCCTCATCAGC
1 TATTAATAACAAAATAA-AAATTAACCTATTTTGTTATCGTTG-GATTTCTAAAGCCCCATCAGC
*
46484 TTAAACTTTGGTAACATTTTAGGCGCTACTTAATATGTTGATAA
64 TTAAACTTTGGTAACATTTTAGACGCTACTTAATATGTTGATAA
46528 TATTAATAACAAAATAAACAATTAACCTATTTTGTTATCGTTGGATTTCTAAAGCCCCATCAGCT
1 TATTAATAACAAAATAAA-AATTAACCTATTTTGTTATCGTTGGATTTCTAAAGCCCCATCAGCT
* * *
46593 TAAACTTTTGTAATATTTTAGATGCTA-TCTAATATGTTGATAA
65 TAAACTTTGGTAACATTTTAGACGCTACT-TAATATGTTGATAA
* * * ** * *
46636 TATTGATAACAAATTAAGTAATTAACCTATTTTGTTATCGTCAGATTTCTAAGGTCCCATCA
1 TATTAATAACAAAATAA-AAATTAACCTATTTTGTTATCGTTGGATTTCTAAAGCCCCATCA
46698 ACTTTAAATA
Statistics
Matches: 149, Mismatches: 17, Indels: 8
0.86 0.10 0.05
Matches are distributed among these distances:
107 2 0.01
108 145 0.97
109 2 0.01
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (107 bp):
TATTAATAACAAAATAAAAATTAACCTATTTTGTTATCGTTGGATTTCTAAAGCCCCATCAGCTT
AAACTTTGGTAACATTTTAGACGCTACTTAATATGTTGATAA
Found at i:46798 original size:77 final size:77
Alignment explanation
Indices: 46668--46827 Score: 284
Period size: 77 Copynumber: 2.1 Consensus size: 77
46658 TAACCTATTT
*
46668 TGTTATCGTCAGATTTCTAAGGTCCCATCAACTTTAAATAGACGCTACTTATTACATTAAATATA
1 TGTTATCGTCAGATTTCTAAGGTCCCATCAACTTTAAATAGACGCTACGTATTACATTAAATATA
46733 CACTACCTGTTA
66 CACTACCTGTTA
* * *
46745 TGTTATCGTCAGATTTCTACGGTCTCATCAATTTTAAATAGACGCTACGTATTACATTAAATATA
1 TGTTATCGTCAGATTTCTAAGGTCCCATCAACTTTAAATAGACGCTACGTATTACATTAAATATA
46810 CACTACCTGTTA
66 CACTACCTGTTA
46822 TGTTAT
1 TGTTAT
46828 TATGTTAATA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
77 79 1.00
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.38
Consensus pattern (77 bp):
TGTTATCGTCAGATTTCTAAGGTCCCATCAACTTTAAATAGACGCTACGTATTACATTAAATATA
CACTACCTGTTA
Found at i:47541 original size:7 final size:7
Alignment explanation
Indices: 47529--47570 Score: 57
Period size: 7 Copynumber: 6.0 Consensus size: 7
47519 TCGACCGACC
47529 GTTTAAG
1 GTTTAAG
*
47536 GTTTAAA
1 GTTTAAG
*
47543 GTTTAAA
1 GTTTAAG
47550 GTTTAAG
1 GTTTAAG
*
47557 ATTTAAG
1 GTTTAAG
47564 GTTTAAG
1 GTTTAAG
47571 ACTTTAGGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.36, C:0.00, G:0.21, T:0.43
Consensus pattern (7 bp):
GTTTAAG
Found at i:47555 original size:21 final size:21
Alignment explanation
Indices: 47529--47569 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
47519 TCGACCGACC
*
47529 GTTTAAGGTTTAAAGTTTAAA
1 GTTTAAGATTTAAAGTTTAAA
*
47550 GTTTAAGATTTAAGGTTTAA
1 GTTTAAGATTTAAAGTTTAA
47570 GACTTTAGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.00, G:0.20, T:0.44
Consensus pattern (21 bp):
GTTTAAGATTTAAAGTTTAAA
Found at i:47570 original size:14 final size:15
Alignment explanation
Indices: 47530--47580 Score: 63
Period size: 14 Copynumber: 3.6 Consensus size: 15
47520 CGACCGACCG
*
47530 TTTAAGGTTTAA-AG
1 TTTAAGGTTTAAGAC
*
47544 TTTAAAGTTTAAGA-
1 TTTAAGGTTTAAGAC
47558 TTTAAGGTTTAAGAC
1 TTTAAGGTTTAAGAC
47573 TTT-AGGTT
1 TTTAAGGTT
47581 CAAGTCAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
14 29 0.88
15 4 0.12
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.45
Consensus pattern (15 bp):
TTTAAGGTTTAAGAC
Found at i:56099 original size:21 final size:21
Alignment explanation
Indices: 56070--56113 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
56060 CAAGGGGCAA
56070 TTTTATTTA-AAAAAAAATAT
1 TTTTATTTATAAAAAAAATAT
* *
56090 TTTTGATTTATGAAAATAATAT
1 TTTT-ATTTATAAAAAAAATAT
56112 TT
1 TT
56114 AAAAATATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 5 0.25
22 11 0.55
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (21 bp):
TTTTATTTATAAAAAAAATAT
Found at i:56205 original size:2 final size:2
Alignment explanation
Indices: 56198--56227 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
56188 TTTAAGGTGA
56198 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
56228 TAGGAATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:59585 original size:24 final size:23
Alignment explanation
Indices: 59558--59603 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
59548 TTTAATTTTT
*
59558 AATATTGCTTTGAACTATTAAAAA
1 AATAATGCTTTGAACTA-TAAAAA
*
59582 AATAATGCTTTGAATTATAAAA
1 AATAATGCTTTGAACTATAAAA
59604 CCTAATCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.48, C:0.07, G:0.09, T:0.37
Consensus pattern (23 bp):
AATAATGCTTTGAACTATAAAAA
Found at i:60674 original size:14 final size:14
Alignment explanation
Indices: 60655--60687 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
60645 GTTCGCCATA
*
60655 AATTTATACTTGTT
1 AATTTATACATGTT
60669 AATTTATACATGTT
1 AATTTATACATGTT
60683 AATTT
1 AATTT
60688 TAGTTTAACG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.55
Consensus pattern (14 bp):
AATTTATACATGTT
Found at i:62934 original size:20 final size:20
Alignment explanation
Indices: 62909--62948 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
62899 ATATTTACTT
62909 AGCGGTAATTCTGAAGGTGC
1 AGCGGTAATTCTGAAGGTGC
62929 AGCGGTAATTCTGAAGGTGC
1 AGCGGTAATTCTGAAGGTGC
62949 TGTTCTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.15, G:0.35, T:0.25
Consensus pattern (20 bp):
AGCGGTAATTCTGAAGGTGC
Found at i:65584 original size:25 final size:25
Alignment explanation
Indices: 65550--65608 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
65540 ATCATCACTC
65550 CACTGCCTCCATCACCTTCAACCTT
1 CACTGCCTCCATCACCTTCAACCTT
*
65575 CACTGCCTCCATCTCCTTCAACCTT
1 CACTGCCTCCATCACCTTCAACCTT
65600 CACTGCCTC
1 CACTGCCTC
65609 AACCCTCAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.17, C:0.49, G:0.05, T:0.29
Consensus pattern (25 bp):
CACTGCCTCCATCACCTTCAACCTT
Found at i:72204 original size:44 final size:45
Alignment explanation
Indices: 72124--72212 Score: 135
Period size: 44 Copynumber: 2.0 Consensus size: 45
72114 TGCAATTATC
* * *
72124 TAATTGTTGTTTTGATCCGATAGATTCTTTTAATAGTTCCACCAA
1 TAATTATTATTTTGATCCGATAGATTCTCTTAATAGTTCCACCAA
*
72169 TAATTATTATTTTGATCC-ATAGATTCTCTTGATAGTTCCACCAA
1 TAATTATTATTTTGATCCGATAGATTCTCTTAATAGTTCCACCAA
72213 AAAAATGACT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 24 0.60
45 16 0.40
ACGTcount: A:0.28, C:0.17, G:0.11, T:0.44
Consensus pattern (45 bp):
TAATTATTATTTTGATCCGATAGATTCTCTTAATAGTTCCACCAA
Found at i:74490 original size:21 final size:20
Alignment explanation
Indices: 74455--74531 Score: 57
Period size: 21 Copynumber: 3.6 Consensus size: 20
74445 ATTAATCATT
*
74455 AGAAAATAATAAATGAAAATAA
1 AGAAAA-AAAAAATG-AAATAA
* *
74477 CGAAAAAAAAAATGTCAA-AA
1 AGAAAAAAAAAATG-AAATAA
* *
74497 GGCAAAAAAAAAATGATATAA
1 AG-AAAAAAAAAATGAAATAA
74518 AGACAAAAAAAAAT
1 AGA-AAAAAAAAAT
74532 ATGACAAAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 7
0.75 0.14 0.12
Matches are distributed among these distances:
20 5 0.11
21 34 0.77
22 5 0.11
ACGTcount: A:0.71, C:0.05, G:0.10, T:0.13
Consensus pattern (20 bp):
AGAAAAAAAAAATGAAATAA
Found at i:74507 original size:22 final size:21
Alignment explanation
Indices: 74479--74540 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 21
74469 GAAAATAACG
*
74479 AAAAAAAAAATGTCAAAAGGC
1 AAAAAAAAAATGTCAAAAGAC
74500 AAAAAAAAAATGAT-ATAAAGAC
1 AAAAAAAAAATG-TCA-AAAGAC
*
74522 AAAAAAAAATATGACAAAA
1 AAAAAAAAA-ATGTCAAAA
74541 ACATAGGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
21 13 0.37
22 18 0.51
23 4 0.11
ACGTcount: A:0.73, C:0.06, G:0.10, T:0.11
Consensus pattern (21 bp):
AAAAAAAAAATGTCAAAAGAC
Found at i:74639 original size:25 final size:25
Alignment explanation
Indices: 74609--74657 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
74599 TAATTATACG
74609 TTGACTAATAGACTAAGTGGATATA
1 TTGACTAATAGACTAAGTGGATATA
74634 TTGACTAATAGACTAAGTGGATAT
1 TTGACTAATAGACTAAGTGGATAT
74658 GATCAACACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.08, G:0.20, T:0.33
Consensus pattern (25 bp):
TTGACTAATAGACTAAGTGGATATA
Found at i:75841 original size:28 final size:28
Alignment explanation
Indices: 75801--75866 Score: 132
Period size: 28 Copynumber: 2.4 Consensus size: 28
75791 ACCGGTGTAG
75801 ATTGAACCGAACTAGACAATAATTTTTA
1 ATTGAACCGAACTAGACAATAATTTTTA
75829 ATTGAACCGAACTAGACAATAATTTTTA
1 ATTGAACCGAACTAGACAATAATTTTTA
75857 ATTGAACCGA
1 ATTGAACCGA
75867 TTGAACCGAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.30
Consensus pattern (28 bp):
ATTGAACCGAACTAGACAATAATTTTTA
Found at i:78555 original size:17 final size:18
Alignment explanation
Indices: 78511--78556 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 18
78501 ATCAGTTGAT
*
78511 TATTAATAAAATATTATA
1 TATTTATAAAATATTATA
78529 TATTT-T-AAATATT-TA
1 TATTTATAAAATATTATA
*
78544 TTTTTATAAAATA
1 TATTTATAAAATA
78557 ATTTTAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
15 6 0.25
16 8 0.33
17 6 0.25
18 4 0.17
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
TATTTATAAAATATTATA
Found at i:92932 original size:17 final size:17
Alignment explanation
Indices: 92910--92947 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
92900 TTGACCGGTC
*
92910 TGACCCGACCCGACCGT
1 TGACCCAACCCGACCGT
92927 TGACCCAACCCGACCGT
1 TGACCCAACCCGACCGT
92944 TGAC
1 TGAC
92948 TGTGATCGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.21, C:0.45, G:0.21, T:0.13
Consensus pattern (17 bp):
TGACCCAACCCGACCGT
Found at i:106099 original size:21 final size:22
Alignment explanation
Indices: 106028--106108 Score: 71
Period size: 21 Copynumber: 3.8 Consensus size: 22
106018 CTTTATAATG
* *
106028 TAATGTAATAATTGAT-TATAT
1 TAATGTGATAATTTATATATAT
*
106049 TAGTGTGATAATTTAT-TATAT
1 TAATGTGATAATTTATATATAT
* * *
106070 TGATATGATATTTTATATA-AT
1 TAATGTGATAATTTATATATAT
106091 TAATGTGAT-ATTTCATAT
1 TAATGTGATAATTT-ATAT
106109 GTGAATAATG
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
20 3 0.06
21 43 0.90
22 2 0.04
ACGTcount: A:0.37, C:0.01, G:0.11, T:0.51
Consensus pattern (22 bp):
TAATGTGATAATTTATATATAT
Found at i:107058 original size:8 final size:8
Alignment explanation
Indices: 107047--107105 Score: 50
Period size: 8 Copynumber: 7.2 Consensus size: 8
107037 ATTTTATAAT
107047 TTTTTATA
1 TTTTTATA
107055 TTTTTA-A
1 TTTTTATA
* *
107062 ATTTAATA
1 TTTTTATA
107070 TTTTTATAA
1 TTTTTAT-A
107079 TGTTTTAGTA
1 T-TTTTA-TA
*
107089 ATTTTATA
1 TTTTTATA
107097 TTTTT-TA
1 TTTTTATA
107104 TT
1 TT
107106 AAAATTAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
7 9 0.22
8 18 0.44
9 7 0.17
10 6 0.15
11 1 0.02
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (8 bp):
TTTTTATA
Found at i:107058 original size:17 final size:17
Alignment explanation
Indices: 107036--107104 Score: 63
Period size: 18 Copynumber: 4.1 Consensus size: 17
107026 CATAATTGAT
107036 TATTTTATAATTTTTTA
1 TATTTTATAATTTTTTA
* *
107053 TATTTT-TAA-ATTTAA
1 TATTTTATAATTTTTTA
*
107068 TATTTTTATAATGTTTTA
1 TA-TTTTATAATTTTTTA
107086 GTAATTTTAT-ATTTTTTA
1 -T-ATTTTATAATTTTTTA
107104 T
1 T
107105 TAAAATTAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
15 6 0.14
16 7 0.17
17 10 0.24
18 11 0.26
19 7 0.17
20 1 0.02
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (17 bp):
TATTTTATAATTTTTTA
Found at i:107299 original size:49 final size:48
Alignment explanation
Indices: 107246--107395 Score: 143
Period size: 45 Copynumber: 3.2 Consensus size: 48
107236 GTAATGATTG
*
107246 AATGATAAAATTGATATAATTTAATAAATTAAAATATGAAATTAATATA
1 AATGA-AAAATTGATATAATTTAATAAATTTAAATATGAAATTAATATA
* * * * * * *
107295 AATGAAAAAAT-AT-TAA-TTATTTAGATTTACA-ACGTAA-TGAT-T-
1 AATGAAAAATTGATATAATTTA-ATAAATTTAAATATGAAATTAATATA
*
107337 AATGATAAAGTTGATATAATTTAATAAATTTAAATATGAAATTAATATA
1 AATGA-AAAATTGATATAATTTAATAAATTTAAATATGAAATTAATATA
107386 AATGAAAAAT
1 AATGAAAAAT
107396 ATTAATTATT
Statistics
Matches: 75, Mismatches: 17, Indels: 19
0.68 0.15 0.17
Matches are distributed among these distances:
42 5 0.07
43 5 0.07
44 5 0.07
45 18 0.24
46 17 0.23
47 5 0.07
48 10 0.13
49 10 0.13
ACGTcount: A:0.54, C:0.01, G:0.08, T:0.37
Consensus pattern (48 bp):
AATGAAAAATTGATATAATTTAATAAATTTAAATATGAAATTAATATA
Found at i:107351 original size:91 final size:91
Alignment explanation
Indices: 107236--107414 Score: 324
Period size: 91 Copynumber: 2.0 Consensus size: 91
107226 ATTAATATTT
107236 GTAATGATTGAATGATAAAATTGATATAATTTAATAAATTAAAATATGAAATTAATATAAATGAA
1 GTAATGATTGAATGATAAAATTGATATAATTTAATAAATTAAAATATGAAATTAATATAAATG-A
107301 AAAATATTAATTATTTAGATTTACAAC
65 AAAATATTAATTATTTAGATTTACAAC
* *
107328 GTAATGATT-AATGATAAAGTTGATATAATTTAATAAATTTAAATATGAAATTAATATAAATGAA
1 GTAATGATTGAATGATAAAATTGATATAATTTAATAAATTAAAATATGAAATTAATATAAATGAA
107392 AAATATTAATTATTTAGATTTAC
66 AAATATTAATTATTTAGATTTAC
107415 TGTAAAGATA
Statistics
Matches: 85, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
90 25 0.29
91 51 0.60
92 9 0.11
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.39
Consensus pattern (91 bp):
GTAATGATTGAATGATAAAATTGATATAATTTAATAAATTAAAATATGAAATTAATATAAATGAA
AAATATTAATTATTTAGATTTACAAC
Found at i:107387 original size:42 final size:41
Alignment explanation
Indices: 107253--107388 Score: 116
Period size: 41 Copynumber: 3.1 Consensus size: 41
107243 TTGAATGATA
*
107253 AAATTGATATAATTTAATAAATTAAAATATGAAATTAATAT
1 AAATTGATATAATTTAATAAATTTAAATATGAAATTAATAT
* *
107294 AAA-TGAAAAAATATTAATTATTTAGATTTACAACGTAATG--ATTAATGAT
1 AAATTGATATAAT-TTAA-TA---A-ATTTA-AA--T-ATGAAATTAAT-AT
107343 AAAGTTGATATAATTTAATAAATTTAAATATGAAATTAATAT
1 AAA-TTGATATAATTTAATAAATTTAAATATGAAATTAATAT
107385 AAAT
1 AAAT
107389 GAAAAATATT
Statistics
Matches: 75, Mismatches: 5, Indels: 30
0.68 0.05 0.27
Matches are distributed among these distances:
40 7 0.09
41 11 0.15
42 8 0.11
43 6 0.08
44 2 0.03
45 6 0.08
46 5 0.07
47 2 0.03
48 6 0.08
49 8 0.11
50 7 0.09
51 7 0.09
ACGTcount: A:0.53, C:0.01, G:0.07, T:0.38
Consensus pattern (41 bp):
AAATTGATATAATTTAATAAATTTAAATATGAAATTAATAT
Found at i:109037 original size:14 final size:15
Alignment explanation
Indices: 109018--109050 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
109008 TTTAAAAATG
109018 TATTTTT-AAA-TAA
1 TATTTTTGAAATTAA
109031 TATTTTTGAAATTAA
1 TATTTTTGAAATTAA
109046 TATTT
1 TATTT
109051 ATTCGTAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 3 0.17
15 8 0.44
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (15 bp):
TATTTTTGAAATTAA
Found at i:114811 original size:24 final size:24
Alignment explanation
Indices: 114801--114915 Score: 169
Period size: 24 Copynumber: 4.8 Consensus size: 24
114791 CATAATTCAC
* *
114801 GTCAAGTATCATATCAAAATCCAA
1 GTCAAGTATCAGATCAGAATCCAA
*
114825 GTCAAGTGTCAGATCAGAATCCAA
1 GTCAAGTATCAGATCAGAATCCAA
*
114849 GTCAAGTATCAGATCAGAATCCAT
1 GTCAAGTATCAGATCAGAATCCAA
*
114873 GTC-AGATATCAGATCAGAATCCAT
1 GTCAAG-TATCAGATCAGAATCCAA
114897 GTCAAGTATCAGATCAGAA
1 GTCAAGTATCAGATCAGAA
114916 ATCAAATCGA
Statistics
Matches: 84, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
23 2 0.02
24 80 0.95
25 2 0.02
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAA
Found at i:114932 original size:48 final size:48
Alignment explanation
Indices: 114779--114932 Score: 161
Period size: 48 Copynumber: 3.2 Consensus size: 48
114769 AATGAATATA
* * * * *
114779 TCAAAATCAAATCATAATTCACGTCAAGTATCATATCA-AAATCCAAG
1 TCAAAATCAGATCAGAATCCAAGTCAAGTATCAGATCAGAAATCCAAG
** *
114826 TCAAGTGTCAGATCAGAATCCAAGTCAAGTATCAGATCAG-AATCCATG
1 TCAA-AATCAGATCAGAATCCAAGTCAAGTATCAGATCAGAAATCCAAG
* * *
114874 TCAGATATCAGATCAGAATCCATGTCAAGTATCAGATCAGAAAT-CAAA
1 TCA-AAATCAGATCAGAATCCAAGTCAAGTATCAGATCAGAAATCCAAG
114922 TCGAAAATCAG
1 TC-AAAATCAG
114933 GTAAAATATT
Statistics
Matches: 89, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
47 4 0.04
48 80 0.90
49 5 0.06
ACGTcount: A:0.43, C:0.20, G:0.14, T:0.23
Consensus pattern (48 bp):
TCAAAATCAGATCAGAATCCAAGTCAAGTATCAGATCAGAAATCCAAG
Found at i:114932 original size:72 final size:71
Alignment explanation
Indices: 114778--114932 Score: 170
Period size: 72 Copynumber: 2.2 Consensus size: 71
114768 AAATGAATAT
* * * * *
114778 ATCAAAATCAAATCATAATTCACGTCAAGTATCATATCAAAATCCAAGTCAAGTGTCAGATCAGA
1 ATCAAAATCAGATCAGAATCCACGTCAAGTATCAGATCAAAATCCAAGTCAAGTATCAGATCAGA
114843 ATCCAA
66 ATCCAA
* * * * *
114849 GTCAAGTATCAGATCAGAATCCATGTC-AGATATCAGATCAGAATCCATGTCAAGTATCAGATCA
1 ATCAA-AATCAGATCAGAATCCACGTCAAG-TATCAGATCAAAATCCAAGTCAAGTATCAGATCA
114913 GAAAT-CAA
64 G-AATCCAA
114921 ATCGAAAATCAG
1 ATC-AAAATCAG
114933 GTAAAATATT
Statistics
Matches: 68, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
71 6 0.09
72 57 0.84
73 5 0.07
ACGTcount: A:0.43, C:0.20, G:0.14, T:0.23
Consensus pattern (71 bp):
ATCAAAATCAGATCAGAATCCACGTCAAGTATCAGATCAAAATCCAAGTCAAGTATCAGATCAGA
ATCCAA
Found at i:117425 original size:13 final size:13
Alignment explanation
Indices: 117407--117437 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
117397 GGATCGGATT
117407 GGGTCAACAGGTC
1 GGGTCAACAGGTC
*
117420 GGGTCAACGGGTC
1 GGGTCAACAGGTC
117433 GGGTC
1 GGGTC
117438 GGGTTGTGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.16, C:0.23, G:0.45, T:0.16
Consensus pattern (13 bp):
GGGTCAACAGGTC
Found at i:119062 original size:2 final size:2
Alignment explanation
Indices: 119055--119079 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
119045 CAAAACGTGC
119055 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
119080 AAGTGTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:124147 original size:24 final size:24
Alignment explanation
Indices: 124106--124153 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
124096 TTTAAAATTT
*
124106 TTATATAAAATTTAAAAAATAAAA
1 TTATATAAAATTTAAAAAAGAAAA
* * *
124130 TTATATATATTTTTAAAAAGAAAA
1 TTATATAAAATTTAAAAAAGAAAA
124154 CACAATAATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (24 bp):
TTATATAAAATTTAAAAAAGAAAA
Found at i:134125 original size:2 final size:2
Alignment explanation
Indices: 134118--134143 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
134108 GATTGTTTTA
134118 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
134144 TCTCCTTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:147639 original size:21 final size:21
Alignment explanation
Indices: 147597--147639 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
147587 TTTTTGGGCT
* * *
147597 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
147618 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
147639 A
1 A
147640 CGAATATGAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:148373 original size:149 final size:150
Alignment explanation
Indices: 148181--148506 Score: 557
Period size: 150 Copynumber: 2.2 Consensus size: 150
148171 GGGTAGAGGG
* * *
148181 TCTACGCGGTCCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTT-GAAAGACACA
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
* *
148245 TACTTGATCCTTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
66 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTATATGTGGTCCTTATGGACATCATT
148310 ATATGGCACTACGGTGCAAT
131 ATATGGCACTACGGTGCAAT
*
148330 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
148395 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTATATGTGGTCCTTATGGACATCATT
66 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTATATGTGGTCCTTATGGACATCATT
148460 ATATGGCACTACGGTGCAAT
131 ATATGGCACTACGGTGCAAT
* *
148480 TCTACGCGG-CACTTCGGTACATTTATA
1 TCTACGCGGTC-CTTCGGGACATATATA
148507 CGAGCTGTGG
Statistics
Matches: 166, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
149 51 0.31
150 115 0.69
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (150 bp):
TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTATATGTGGTCCTTATGGACATCATT
ATATGGCACTACGGTGCAAT
Found at i:148508 original size:23 final size:23
Alignment explanation
Indices: 148464--148508 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
148454 ATCATTATAT
* *
148464 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTACAATTATACGC
* *
148487 GGCACTTCGGTACATTTATACG
1 GGCACTACGGTACAATTATACG
148509 AGCTGTGGTG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTACAATTATACGC
Found at i:154585 original size:21 final size:21
Alignment explanation
Indices: 154543--154585 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
154533 TTTTTGGGCT
* * *
154543 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
154564 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
154585 A
1 A
154586 CGAATATGAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:155316 original size:149 final size:150
Alignment explanation
Indices: 155127--155442 Score: 564
Period size: 150 Copynumber: 2.1 Consensus size: 150
155117 AGGTAGAGGG
* *
155127 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTT-GAAAGACACA
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
* *
155191 TACTTGATCCTTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
66 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTATATGTGGTCCTTATGGACATCATT
155256 ATATGGCACTACGGTGCAAT
131 ATATGGCACTACGGTGCAAT
*
155276 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
155341 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTATATGTGGTCCTTATGGACATCATT
66 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTATATGTGGTCCTTATGGACATCATT
155406 ATATGGCACTACGGTGCAAT
131 ATATGGCACTACGGTGCAAT
155426 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
155443 TGCATTTATA
Statistics
Matches: 160, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
149 52 0.32
150 108 0.68
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (150 bp):
TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTATATGTGGTCCTTATGGACATCATT
ATATGGCACTACGGTGCAAT
Found at i:155454 original size:23 final size:23
Alignment explanation
Indices: 155410--155454 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
155400 ATCATTATAT
*
155410 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
* *
155433 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
155455 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:162523 original size:28 final size:28
Alignment explanation
Indices: 162483--162543 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 28
162473 CGTTGGGCAT
*
162483 CCGAAGGCATCCGACCGAGGGCATCCGA
1 CCGAGGGCATCCGACCGAGGGCATCCGA
*
162511 CCGAGGGCATCCGACCGAGGGCATTCGA
1 CCGAGGGCATCCGACCGAGGGCATCCGA
*
162539 GCGAG
1 CCGAG
162544 CTATGCGAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.23, C:0.33, G:0.36, T:0.08
Consensus pattern (28 bp):
CCGAGGGCATCCGACCGAGGGCATCCGA
Found at i:162543 original size:14 final size:14
Alignment explanation
Indices: 162483--162534 Score: 95
Period size: 14 Copynumber: 3.7 Consensus size: 14
162473 CGTTGGGCAT
*
162483 CCGAAGGCATCCGA
1 CCGAGGGCATCCGA
162497 CCGAGGGCATCCGA
1 CCGAGGGCATCCGA
162511 CCGAGGGCATCCGA
1 CCGAGGGCATCCGA
162525 CCGAGGGCAT
1 CCGAGGGCAT
162535 TCGAGCGAGC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 37 1.00
ACGTcount: A:0.23, C:0.35, G:0.35, T:0.08
Consensus pattern (14 bp):
CCGAGGGCATCCGA
Found at i:162631 original size:29 final size:29
Alignment explanation
Indices: 162590--162666 Score: 154
Period size: 29 Copynumber: 2.7 Consensus size: 29
162580 GAGGAGCAGG
162590 AGGAGTGCATGGCGACCTACAAGGTCGCC
1 AGGAGTGCATGGCGACCTACAAGGTCGCC
162619 AGGAGTGCATGGCGACCTACAAGGTCGCC
1 AGGAGTGCATGGCGACCTACAAGGTCGCC
162648 AGGAGTGCATGGCGACCTA
1 AGGAGTGCATGGCGACCTA
162667 TGCTGGGAAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 48 1.00
ACGTcount: A:0.25, C:0.26, G:0.35, T:0.14
Consensus pattern (29 bp):
AGGAGTGCATGGCGACCTACAAGGTCGCC
Found at i:168237 original size:22 final size:22
Alignment explanation
Indices: 168209--168252 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
168199 ACAAAAATCT
*
168209 GAAAAAGGCTAAATATACACAA
1 GAAAAAGGCGAAATATACACAA
168231 GAAAAAGGCGAAATATACACAA
1 GAAAAAGGCGAAATATACACAA
168253 ATCATACTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.59, C:0.14, G:0.16, T:0.11
Consensus pattern (22 bp):
GAAAAAGGCGAAATATACACAA
Found at i:174273 original size:30 final size:30
Alignment explanation
Indices: 174239--174306 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 30
174229 CTTCTAAAAA
*
174239 GTTATAAACATATAATTTAAACAAAATATT
1 GTTATAAACATATAATTCAAACAAAATATT
* * **
174269 GTTATAAATATATCATTCAATTAAAATATT
1 GTTATAAACATATAATTCAAACAAAATATT
*
174299 ATTATAAA
1 GTTATAAA
174307 TATGATTTAC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.51, C:0.06, G:0.03, T:0.40
Consensus pattern (30 bp):
GTTATAAACATATAATTCAAACAAAATATT
Found at i:174862 original size:42 final size:43
Alignment explanation
Indices: 174798--174880 Score: 98
Period size: 42 Copynumber: 2.0 Consensus size: 43
174788 TTTAAACTCT
* * *
174798 AAAGTAACTATTCACAATTATAT-CAACTAACATGTTACAACC
1 AAAGTAACAATCCACAATTATATGCAACTAACATATTACAACC
* *
174840 AAAGTAACAATCCACACA-TATATGGAACTAACTTATTACAA
1 AAAGTAACAATCCACA-ATTATATGCAACTAACATATTACAA
174881 TCATTTTTGA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
42 19 0.56
43 15 0.44
ACGTcount: A:0.47, C:0.20, G:0.06, T:0.27
Consensus pattern (43 bp):
AAAGTAACAATCCACAATTATATGCAACTAACATATTACAACC
Found at i:175681 original size:21 final size:21
Alignment explanation
Indices: 175657--175701 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
175647 ATAAAGTACA
*
175657 ATAACATACTAGGTAGCGCTT
1 ATAACATAATAGGTAGCGCTT
**
175678 ATAATGTAATAGGTAGCGCTT
1 ATAACATAATAGGTAGCGCTT
175699 ATA
1 ATA
175702 TTACCTATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (21 bp):
ATAACATAATAGGTAGCGCTT
Found at i:176671 original size:23 final size:23
Alignment explanation
Indices: 176645--176709 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
176635 ATGCGAGATA
176645 GATACCTATTACATTATATAAAC
1 GATACCTATTACATTATATAAAC
**
176668 GATACCTATTACATTATATAAGG
1 GATACCTATTACATTATATAAAC
* *
176691 GCTACCTATTACATCATAT
1 GATACCTATTACATTATAT
176710 GTTACCTATT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.35
Consensus pattern (23 bp):
GATACCTATTACATTATATAAAC
Found at i:177058 original size:18 final size:19
Alignment explanation
Indices: 177021--177057 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
177011 TCCACAGTGA
* *
177021 AAAAAGTATGGACACTTTT
1 AAAAAGGATAGACACTTTT
177040 AAAAAGGATAGACACTTT
1 AAAAAGGATAGACACTTT
177058 ACAATATAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.11, G:0.16, T:0.27
Consensus pattern (19 bp):
AAAAAGGATAGACACTTTT
Found at i:177217 original size:994 final size:996
Alignment explanation
Indices: 175811--178078 Score: 4168
Period size: 994 Copynumber: 2.3 Consensus size: 996
175801 ATCGATATTT
175811 ACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATTATTT
1 ACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATTATTT
* *
175876 GATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACCGTAA
66 GATTGTTTTTATATTTTATAAAATATTATTTAGAA-TTTTAAATT-ATAATAATATATACCGTAA
175941 CGTAAAAAAT-AATC----GACG-CTATAATTACT-AATTAATATCTTAAAACTCACTCAAAAGA
129 CGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGA
175999 TAACCTTAAATTAATGTTTTCCACAGTG-AAAAAGTATGGGAC-CTTTTATAAAAAGGATAGACA
194 TAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTAT-GGACACTTTTATAAAAAGGATAGACA
176062 CTTTACAATATAACCACTACCTATTGCTTGGCATCATATGAGATTTGGATTTTGATTTCCTTTGC
258 CTTTACAATATAACCACTACCTATTGCTTGGCATCATATGAGATTTGGATTTTGATTTCCTTTGC
176127 TTGGCACCAAATGAGCTTGGATTTTGATGAGCATCGGAAGTATTTCAGACTTATGATTTGGGTGG
323 TTGGCACCAAATGAGCTTGGATTTTGATGAGCATCGGAAGTATTTCAGACTTATGATTTGGGTGG
176192 TACTCAACTTATGATTTTAGTTGCTATTTGTTACATTTCTTGTATACCACCCAGATCATACGCCC
388 TACTCAACTTATGATTTTAGTTGCTATTTGTTACATTTCTTGTATACCACCCAGATCATACGCCC
176257 GAAACGTTTCTGACGCTTTAAAGTTGACC-AAAAATAAAATGGTC-GGATTTCCCTCGCGTTTAT
453 GAAACGTTTCTGACGC-TTAAAGTTGACCAAAAAATAAAATGGTCGGGATTTCCCTCGCGTTTAT
176320 AACGTTGG-AAAAAAACAATGGAAATTAGGAATAATCAATGATAACATGCATATTGGCTTGGGCT
517 -ACGTTGGAAAAAAAACAATGGAAATTAGGAATAATCAATGATAACATGCATA-TGGCTTGGGCT
*
176384 AATATTATAGTGGAGCCG-AA-ATATATTGAAATTC-AACTCAATTTGAAATTTAAATTCAAACT
580 AATATT-TAGTGGAGCCGAAATATATATTGAAATTCAAACTCAAATTGAAATTTAAATTCAAACT
176446 CCAATTACATATGAAATGAATTTGAAATGCAGTGTTAAATTGAACATGAAAATTGCATAATTGAT
644 CCAATTACATATGAAATGAATTTG-AATGCAGTGTTAAATTGAACATGAAAATTGCATAATTGAT
176511 TCATACTGTTCAAGTAACATGCTTTATGAACCATCAAGCTAAAAGAC-A-ATTGATTGAGTTCAA
708 TCATACTGTTCAAGTAACATGCTTTATGAACCATCAAGCTAAAAGACAATATTGATTGAGTTCAA
176574 AGCTGAGTTGTGAGTTGATGGAGTTGTCACACTTGTCACATGGTTGGAATAAAGTACTCACATGC
773 AGCTGAGTTGTGAGTTGATGGAGTTGTCACACTTGTCACATGGTTGGAATAAAGTACTCACATGC
176639 GAGATAGATACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACA
838 GAGATAGATACCTATTACATTATATAAACGATACC-ATTACA-T-TATAAGGGCTACCTATTACA
176704 TCATATG-TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTT
900 TCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTT
176768 AAAACTTATGTAATTTATGTTTCAATTTTTTTA
965 -AAACTTATGTAATTTATGTTTCAATTTTTTTA
176801 ACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAA-TTCATTTGCAC-AAAAATTATTT
1 ACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATTATTT
176864 GATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTAAATT-TAATAATATATACCGTAACG
66 GATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTAAATTATAATAATATATACCGTAACG
176928 TAAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGAT
131 T-AAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGAT
176993 AACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACAC-TTT-TAAAAAGGATAGACACT
195 AACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGACACT
177056 TTACAATATAACCACTACCTATTGCTTGGCATCATATGAGATTTGGATTTTGATTTCCTTTTGCT
260 TTACAATATAACCACTACCTATTGCTTGGCATCATATGAGATTTGGATTTTGATTTCC-TTTGCT
177121 TGGCACCAAATGAGCTTTGGATTTTGATGAGCATCGGAAGTATTTCAGACTTATGATTTGGGTGG
324 TGGCACCAAATGAGC-TTGGATTTTGATGAGCATCGGAAGTATTTCAGACTTATGATTTGGGTGG
177186 TACTCAACTTATGATTTTAGTTGCTATTTGTTACATTTCTTGTATACCACCCAGATCATACGCCC
388 TACTCAACTTATGATTTTAGTTGCTATTTGTTACATTTCTTGTATACCACCCAGATCATACGCCC
177251 GAAACGTTTCTGACGCTTAAAGTTGACCAAAAAATAAAATGGTCGGGATTTCCCTCGCGTTTATA
453 GAAACGTTTCTGACGCTTAAAGTTGACCAAAAAATAAAATGGTCGGGATTTCCCTCGCGTTTATA
177316 CGTTGGAAAAAAAACAATGGAAATTAGGAATAATCAATGATAACATGCATATGGCTTGGGCTAAT
518 CGTTGGAAAAAAAACAATGGAAATTAGGAATAATCAATGATAACATGCATATGGCTTGGGCTAAT
177381 ATTTAGTGGAGCCGAAATATATATTGAAATTCAAACTCAAATTGAAATTTAAATTCAAACTCCAA
583 ATTTAGTGGAGCCGAAATATATATTGAAATTCAAACTCAAATTGAAATTTAAATTCAAACTCCAA
177446 TTACATATGAAATGAATTTGAATGCAGTGTTAAATTGAACATGAAAATTGCATAATTGATTCATA
648 TTACATATGAAATGAATTTGAATGCAGTGTTAAATTGAACATGAAAATTGCATAATTGATTCATA
177511 CTGTTCAAGTAACATGCTTTATGAACCATCAAGCTAAAAGACAATATTGATTGAGTTCAAAGCTG
713 CTGTTCAAGTAACATGCTTTATGAACCATCAAGCTAAAAGACAATATTGATTGAGTTCAAAGCTG
177576 AGTTGTGAGTTGATGGAGTTGTCACACTTGTCACATGGTTGGAATAAAGTACTCACATGCGAGAT
778 AGTTGTGAGTTGATGGAGTTGTCACACTTGTCACATGGTTGGAATAAAGTACTCACATGCGAGAT
177641 AGATACCTATTACATTATATAAACGATACCATTACATTATAAGGGCTACCTATTACATCATATGT
843 AGATACCTATTACATTATATAAACGATACCATTACATTATAAGGGCTACCTATTACATCATATGT
177706 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAACTTAT
908 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAACTTAT
177771 GTAATTTATGTTTCAATTTTTTTA
973 GTAATTTATGTTTCAATTTTTTTA
177795 ACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATTATTT
1 ACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATTATTT
177860 GATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTAAATTTAATAATAATATATACCGTAA
66 GATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTAAA-TT-ATAATAATATATACCGTAA
177925 CGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGA
129 CGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGA
* *
177990 TAACCTTAAATTAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATATACAC
194 TAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGACAC
*
178055 TTTACAATATAACCATTACCTATT
259 TTTACAATATAACCACTACCTATT
178079 ACATTATATA
Statistics
Matches: 1244, Mismatches: 6, Indels: 46
0.96 0.00 0.04
Matches are distributed among these distances:
985 21 0.02
986 7 0.01
987 12 0.01
988 45 0.04
989 11 0.01
990 41 0.03
991 4 0.00
992 86 0.07
993 108 0.09
994 281 0.23
995 233 0.19
996 111 0.09
997 117 0.09
998 105 0.08
999 24 0.02
1000 38 0.03
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (996 bp):
ACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATTATTT
GATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTAAATTATAATAATATATACCGTAACG
TAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATA
ACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGACACTT
TACAATATAACCACTACCTATTGCTTGGCATCATATGAGATTTGGATTTTGATTTCCTTTGCTTG
GCACCAAATGAGCTTGGATTTTGATGAGCATCGGAAGTATTTCAGACTTATGATTTGGGTGGTAC
TCAACTTATGATTTTAGTTGCTATTTGTTACATTTCTTGTATACCACCCAGATCATACGCCCGAA
ACGTTTCTGACGCTTAAAGTTGACCAAAAAATAAAATGGTCGGGATTTCCCTCGCGTTTATACGT
TGGAAAAAAAACAATGGAAATTAGGAATAATCAATGATAACATGCATATGGCTTGGGCTAATATT
TAGTGGAGCCGAAATATATATTGAAATTCAAACTCAAATTGAAATTTAAATTCAAACTCCAATTA
CATATGAAATGAATTTGAATGCAGTGTTAAATTGAACATGAAAATTGCATAATTGATTCATACTG
TTCAAGTAACATGCTTTATGAACCATCAAGCTAAAAGACAATATTGATTGAGTTCAAAGCTGAGT
TGTGAGTTGATGGAGTTGTCACACTTGTCACATGGTTGGAATAAAGTACTCACATGCGAGATAGA
TACCTATTACATTATATAAACGATACCATTACATTATAAGGGCTACCTATTACATCATATGTTTA
CCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAACTTATGTA
ATTTATGTTTCAATTTTTTTA
Found at i:177426 original size:18 final size:18
Alignment explanation
Indices: 177403--177439 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
177393 CGAAATATAT
177403 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
177421 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
177439 A
1 A
177440 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:178086 original size:21 final size:20
Alignment explanation
Indices: 178056--178124 Score: 59
Period size: 23 Copynumber: 3.3 Consensus size: 20
178046 GATATACACT
*
178056 TTACAATATAACCATTACCTA
1 TTACATTATAACCA-TACCTA
*
178077 TTACATTATATAAACGATACCTA
1 TTACA-T-TAT-AACCATACCTA
**
178100 TTACATTATAGGC-TACCTA
1 TTACATTATAACCATACCTA
178119 TTACAT
1 TTACAT
178125 CATATGTTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
19 12 0.30
20 1 0.03
21 8 0.20
22 1 0.03
23 14 0.35
24 4 0.10
ACGTcount: A:0.39, C:0.20, G:0.04, T:0.36
Consensus pattern (20 bp):
TTACATTATAACCATACCTA
Found at i:179156 original size:181 final size:183
Alignment explanation
Indices: 178576--179413 Score: 1490
Period size: 180 Copynumber: 4.7 Consensus size: 183
178566 TTTTAAATGG
* *
178576 TATGGACATAAAGTACCGACACAATATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
*
178641 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTA-AATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
178705 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACA-TTTTCTTCCAA
131 GATGTGTAAAATGTCGACAC-TTTTTAAATCGTATCGACACATTTTTCTTCCAA
178758 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
178823 TAAGACC-GTAT-TTTATACC-GTTATATTAC-AAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
* *
178884 GATGTGTAAAATGTCGAC-TTTTTTAAATTGTATCGACACATTTTTCTT-CAA
131 GATGTGTAAAATGTCGACACTTTTTAAATCGTATCGACACATTTTTCTTCCAA
178935 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
179000 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTAT-ATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
*
179064 GATGTGTAAAATGTCGACACTTTTTAAATTGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTAAATCGTATCGACACATTTTTCTTCCAA
179117 TATGGACATAAAGTACCGACACAATATT-AAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
179181 TAAGACCGGTATA-TTATACCGGTTAT-TTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
179244 GATGTGTAAAATGTCGACACTTTTTAAATCGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTAAATCGTATCGACACATTTTTCTTCCAA
179297 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
**
179362 TAAGA-CGGTATA-TTATACCGGTTATATTAC-AAATTATCTATTTTATTATAAT
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAT
179414 ATGTTGAAAG
Statistics
Matches: 636, Mismatches: 9, Indels: 24
0.95 0.01 0.04
Matches are distributed among these distances:
177 95 0.15
178 29 0.05
179 73 0.11
180 193 0.30
181 146 0.23
182 100 0.16
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (183 bp):
TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
GATGTGTAAAATGTCGACACTTTTTAAATCGTATCGACACATTTTTCTTCCAA
Found at i:179398 original size:359 final size:359
Alignment explanation
Indices: 178576--179403 Score: 1488
Period size: 359 Copynumber: 2.3 Consensus size: 359
178566 TTTTAAATGG
* *
178576 TATGGACATAAAGTACCGACACAATATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
*
178641 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTAAATTATGGGTTCCG
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTAAATTATGGGTTCCG
178706 ATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTCTTCCAATATGGACATAAAG
131 ATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTCTTCCAATATGGACATAAAG
*
178771 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGTATTT
196 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGTATAT
178836 TATACCGTTATATTACAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGTCGA
261 TATACCGTTATATTACAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGTCGA
* *
178901 CTTTTTTAAATTGTATCGACACATTTTTCTTCAA
326 CCTTTTTAAATCGTATCGACACATTTTTCTTCAA
178935 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
*
179000 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATATTATGGGTTCCG
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTAAATTATGGGTTCCG
*
179065 ATGTGTAAAATGTCGACAC-TTTTTAAATTGTATCGACACATTTTTCTTCCAATATGGACATAAA
131 ATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACA-TTTTCTTCCAATATGGACATAAA
179129 GTACCGACACAATATT-AAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTAT
195 GTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACC-GTAT
179193 ATTATACCGGTTAT-TTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATG
259 ATTATACC-GTTATATTAC-AAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATG
179257 TCGACACTTTTTAAATCGTATCGACACATTTTTCTTCCAA
322 TCGAC-CTTTTTAAATCGTATCGACACATTTTTCTT-CAA
179297 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
179362 TAAGA-CGGTATA-TTATACCGGTTATATTAC-AAATTATCTATT
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATT
179404 TTATTATAAT
Statistics
Matches: 455, Mismatches: 8, Indels: 12
0.96 0.02 0.03
Matches are distributed among these distances:
358 63 0.14
359 211 0.46
360 73 0.16
361 35 0.08
362 73 0.16
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (359 bp):
TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTAAATTATGGGTTCCG
ATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTCTTCCAATATGGACATAAAG
TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGTATAT
TATACCGTTATATTACAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGTCGA
CCTTTTTAAATCGTATCGACACATTTTTCTTCAA
Found at i:180754 original size:3 final size:3
Alignment explanation
Indices: 180746--180831 Score: 84
Period size: 3 Copynumber: 29.0 Consensus size: 3
180736 ACTTGTTTGG
* * **
180746 ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC GTC ATC ATC -TC ATC GCC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * * * *
180793 AGC TTC ATC GTC ATC ATC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
180832 GTCAGCTTCA
Statistics
Matches: 65, Mismatches: 17, Indels: 2
0.77 0.20 0.02
Matches are distributed among these distances:
2 2 0.03
3 63 0.97
ACGTcount: A:0.24, C:0.35, G:0.06, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:183345 original size:192 final size:197
Alignment explanation
Indices: 182281--183667 Score: 2285
Period size: 192 Copynumber: 7.1 Consensus size: 197
182271 TTTAAATTAG
* * *
182281 TATCGACACAAAATATATTAGTGTCGACACATTATTTAGACATATTCTCTCAT-AAACCGGTATT
1 TATCGACAC-AAACATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
182345 ATTGTA-CGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTT-GAT-A--TTGGGAT
65 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * *
182405 CGACACGTTTTATATATGGATCG--ACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGG-GAA
130 CGACAC-TTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
182467 AAAA
194 AAAA
*
182471 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAAC-ATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
182536 ATTGTACCGGTTAGATTGAAAAATTACATATTACA-T-TACTTTTGGGTTCGATGATTTTGGGAT
65 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * * *
182599 CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTTATTCATTCTGGGAAAA
130 CGACACTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAAA
182664 AAA
195 AAA
*
182667 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTTATAAAACCGGTATA
1 TATCGACACAAAC-ATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
182732 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
65 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
182797 CGACACTTTT-TATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAAA
130 CGACACTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAAA
182861 AAA
195 AAA
182864 TATCGACACAAACTATATTAGTGTCG--ACATT-TTTAGACTTATTCTCTCAT-AAACCGGTATA
1 TATCGACACAAAC-ATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
182925 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
65 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
182990 CGACACTTTTTATATATGGATCGACACTTTATTGATGC-CCTTGTTTTTAATTCATTCTGGGAAA
130 CGACAC-TTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
183054 AAAA
194 AAAA
183058 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAAC-ATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
183123 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
65 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
183188 CGACAC-TTT-TATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAAA
130 CGACACTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAAA
183251 AAA
195 AAA
183254 TATCGACAC-AAC-TATTAGTGTCGACACATTATTT-GACTTATTCTCTCATAAAACCGGTATAA
1 TATCGACACAAACATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAA
*
183316 TTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATATTGGGATC
66 TTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
* *
183381 GACACTTTTTATATATGGATCGACACTTTA-TGGTGCACCTTGTTTTTAATTCATTCTGGGAAAA
131 GACAC-TTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAAA
183445 AAA
195 AAA
183448 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTA-T-TCTCATAAAACCGGTATA
1 TATCGACACAAAC-ATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
183511 ATTGTACCGGTTAGA-T-GAAAATTACATATTACATTATACTTTT--GTTCGATGATTTTGGGAT
65 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
183572 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTG-TTTTAATTCATTCTGGAAAA
130 CGACAC-TTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
183636 AAAA
194 AAAA
*
183640 TATCGACACAAACATATTAGTATCGACA
1 TATCGACACAAACATATTAGTGTCGACA
183668 TGACCCTTAA
Statistics
Matches: 1146, Mismatches: 24, Indels: 53
0.94 0.02 0.04
Matches are distributed among these distances:
189 3 0.00
190 60 0.05
191 34 0.03
192 209 0.18
193 131 0.11
194 163 0.14
195 118 0.10
196 182 0.16
197 122 0.11
198 124 0.11
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (197 bp):
TATCGACACAAACATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAA
TTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
GACACTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAAAA
AA
Found at i:183407 original size:390 final size:396
Alignment explanation
Indices: 182281--183667 Score: 2386
Period size: 390 Copynumber: 3.6 Consensus size: 396
182271 TTTAAATTAG
* * *
182281 TATCGACACAAAATATATTAGTGTCGACACATTATTTAGACATATTCTCTCAT-AAACCGGTATT
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
182345 ATTGTA-CGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTT-GAT-A--TTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * *
182405 CGACACGTTTTATATATGGATCG--ACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGG-GAA
131 CGACAC-TTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
*
182467 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
195 AAAATATCGACACAAAC-ATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGG
*
182532 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACA-T-TACTTTTGGGTTCGATGATTTTG
259 TATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
* *
182595 GGATCGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTTATTCATTCTGG
324 GGATCGACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGG
182659 GAAAAAAA
389 GAAAAAAA
*
182667 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTTATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
182732 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
182797 CGACACTTTT-TATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAAA
131 CGACACTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAAA
182861 AAATATCGACACAAACTATATTAGTGTCG--ACATT-TTTAGACTTATTCTCTCAT-AAACCGGT
196 AAATATCGACACAAAC-ATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGT
182922 ATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
260 ATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
*
182987 GATCGACACTTTTTATATATGGATCGACACTTTATTGATGC-CCTTGTTTTTAATTCATTCTGGG
325 GATCGACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGG
183051 AAAAAAA
390 AAAAAAA
183058 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
183123 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
183188 CGACAC-TTT-TATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAAA
131 CGACACTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAAA
183251 AAATATCGACAC-AAC-TATTAGTGTCGACACATTATTT-GACTTATTCTCTCATAAAACCGGTA
196 AAATATCGACACAAACATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTA
*
183313 TAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATATTGGG
261 TAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
183378 ATCGACACTTTTTATATATGGATCGACACTTTA-TGGTGCACCTTGTTTTTAATTCATTCTGGGA
326 ATCGACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGGA
183442 AAAAAA
391 AAAAAA
183448 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTA-T-TCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
183511 ATTGTACCGGTTAGA-TG-AAAATTACATATTACATTATACTTTT--GTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
183572 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTG-TTTTAATTCATTCTGGAAAA
131 CGACAC-TTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
*
183636 AAAATATCGACACAAACATATTAGTATCGACA
195 AAAATATCGACACAAACATATTAGTGTCGACA
183668 TGACCCTTAA
Statistics
Matches: 961, Mismatches: 18, Indels: 42
0.94 0.02 0.04
Matches are distributed among these distances:
384 24 0.02
386 112 0.12
387 64 0.07
388 88 0.09
389 77 0.08
390 283 0.29
391 205 0.21
392 76 0.08
393 32 0.03
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (396 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAAA
AAATATCGACACAAACATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTA
TAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
ATCGACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGGA
AAAAAA
Found at i:183787 original size:19 final size:19
Alignment explanation
Indices: 183745--183789 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
183735 TATTCACATA
*
183745 AAAAATATAAATCGTATAC
1 AAAATTATAAATCGTATAC
*
183764 AAAATTATAAATCTTATAC
1 AAAATTATAAATCGTATAC
183783 AAAATTA
1 AAAATTA
183790 ACTCGACATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.31
Consensus pattern (19 bp):
AAAATTATAAATCGTATAC
Found at i:187642 original size:23 final size:23
Alignment explanation
Indices: 187616--187662 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
187606 TATTTTCAGA
*
187616 GGATAT-TTAGCTTATATTTCATC
1 GGATATGTTA-CTTATATTTAATC
*
187639 GGATATGTTATTTATATTTAATC
1 GGATATGTTACTTATATTTAATC
187662 G
1 G
187663 ATACAAATAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 18 0.86
24 3 0.14
ACGTcount: A:0.28, C:0.09, G:0.15, T:0.49
Consensus pattern (23 bp):
GGATATGTTACTTATATTTAATC
Found at i:187818 original size:17 final size:18
Alignment explanation
Indices: 187796--187837 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
187786 ATATATCCGG
*
187796 TATCATTT-TACCGTTTT
1 TATCATTTATACCGGTTT
187813 TATCATTTGATACCGGTTT
1 TATCATTT-ATACCGGTTT
187832 TATCAT
1 TATCAT
187838 ATTTTTACCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.36
19 14 0.64
ACGTcount: A:0.21, C:0.17, G:0.10, T:0.52
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:187993 original size:20 final size:20
Alignment explanation
Indices: 187966--188012 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
187956 ACACTTTTAA
187966 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
187985 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
188006 TTTTACC
1 TTTTACC
188013 TGGTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:190308 original size:13 final size:12
Alignment explanation
Indices: 190286--190330 Score: 54
Period size: 13 Copynumber: 3.6 Consensus size: 12
190276 AGAACGAACG
190286 CAAAAGAAAAAAA
1 CAAAA-AAAAAAA
*
190299 CAAAACAAAAAA
1 CAAAAAAAAAAA
*
190311 CAAAAAACCAAAA
1 CAAAAAA-AAAAA
190324 CAAAAAA
1 CAAAAAA
190331 TGAAAGAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
12 12 0.43
13 16 0.57
ACGTcount: A:0.82, C:0.16, G:0.02, T:0.00
Consensus pattern (12 bp):
CAAAAAAAAAAA
Found at i:190315 original size:20 final size:20
Alignment explanation
Indices: 190287--190330 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
190277 GAACGAACGC
*
190287 AAAAGAAAAAAACAAAACAA
1 AAAACAAAAAAACAAAACAA
*
190307 AAAACAAAAAACCAAAACAA
1 AAAACAAAAAAACAAAACAA
190327 AAAA
1 AAAA
190331 TGAAAGAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.84, C:0.14, G:0.02, T:0.00
Consensus pattern (20 bp):
AAAACAAAAAAACAAAACAA
Found at i:192943 original size:6 final size:6
Alignment explanation
Indices: 192932--192974 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
192922 GATACGTATT
*
192932 ACCACG ACCACG ACCACG ACCACG ACCCCG ACC-CG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
192975 CGAGACGAGA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
5 10 0.28
6 26 0.72
ACGTcount: A:0.28, C:0.56, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:193835 original size:20 final size:20
Alignment explanation
Indices: 193810--193984 Score: 101
Period size: 20 Copynumber: 8.6 Consensus size: 20
193800 TTTTAAAACT
193810 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
* **
193830 ATCGCAA--CGACACTGTAGACT
1 ATCGCAACGCGA-AATG--GAAA
193851 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
* **
193871 ATCGCAA--CGACATTGTAGACT
1 ATCGCAACGCGA-AATG--GAAA
* *
193892 ATCGCAACACGAAATAGAAA
1 ATCGCAACGCGAAATGGAAA
* * **
193912 ACCGCAA--CGACACTGTAGACT
1 ATCGCAACGCGA-AATG--GAAA
193933 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
*
193953 ACCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
*
193973 ACCGCAACGCGA
1 ATCGCAACGCGA
193985 TTTTCAACTA
Statistics
Matches: 117, Mismatches: 23, Indels: 30
0.69 0.14 0.18
Matches are distributed among these distances:
18 9 0.08
19 8 0.07
20 57 0.49
21 26 0.22
22 8 0.07
23 9 0.08
ACGTcount: A:0.41, C:0.25, G:0.22, T:0.12
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:193856 original size:21 final size:21
Alignment explanation
Indices: 193830--193941 Score: 81
Period size: 21 Copynumber: 5.4 Consensus size: 21
193820 GAAATGGAAA
193830 ATCGCAACGACACTGTAGACT
1 ATCGCAACGACACTGTAGACT
* **
193851 ATCGCAACG-CGAAATG--GAAA
1 ATCGCAACGAC--ACTGTAGACT
*
193871 ATCGCAACGACATTGTAGACT
1 ATCGCAACGACACTGTAGACT
** **
193892 ATCGCAAC-ACGA-AATAGAAA
1 ATCGCAACGAC-ACTGTAGACT
*
193912 ACCGCAACGACACTGTAGACT
1 ATCGCAACGACACTGTAGACT
193933 ATCGCAACG
1 ATCGCAACG
193942 CGAAATGGAA
Statistics
Matches: 67, Mismatches: 16, Indels: 16
0.68 0.16 0.16
Matches are distributed among these distances:
19 3 0.04
20 26 0.39
21 35 0.52
22 3 0.04
ACGTcount: A:0.39, C:0.26, G:0.20, T:0.15
Consensus pattern (21 bp):
ATCGCAACGACACTGTAGACT
Found at i:193864 original size:41 final size:41
Alignment explanation
Indices: 193807--193961 Score: 265
Period size: 41 Copynumber: 3.8 Consensus size: 41
193797 CATTTTTAAA
*
193807 ACTATCGCAACGCGAAATGGAAAATCGCAACGACACTGTAG
1 ACTATCGCAACGCGAAATGGAAAACCGCAACGACACTGTAG
* *
193848 ACTATCGCAACGCGAAATGGAAAATCGCAACGACATTGTAG
1 ACTATCGCAACGCGAAATGGAAAACCGCAACGACACTGTAG
* *
193889 ACTATCGCAACACGAAATAGAAAACCGCAACGACACTGTAG
1 ACTATCGCAACGCGAAATGGAAAACCGCAACGACACTGTAG
193930 ACTATCGCAACGCGAAATGGAAAACCGCAACG
1 ACTATCGCAACGCGAAATGGAAAACCGCAACG
193962 CGAAATGGAA
Statistics
Matches: 107, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 107 1.00
ACGTcount: A:0.41, C:0.25, G:0.21, T:0.14
Consensus pattern (41 bp):
ACTATCGCAACGCGAAATGGAAAACCGCAACGACACTGTAG
Found at i:193966 original size:61 final size:61
Alignment explanation
Indices: 193894--194009 Score: 164
Period size: 61 Copynumber: 1.9 Consensus size: 61
193884 TGTAGACTAT
193894 CGCAACACGAAATAGAAAACCGCAACGAC-ACTGT-AGACTATCGCAACGCGAAATGGAAAAC
1 CGCAACACGAAATAGAAAACCGCAACG-CGACTGTCA-ACTATCGCAACGCGAAATGGAAAAC
* * * *
193955 CGCAACGCGAAATGGAAAACCGCAACGCGATTTTCAACTATCGCAACGCGAAATG
1 CGCAACACGAAATAGAAAACCGCAACGCGACTGTCAACTATCGCAACGCGAAATG
194010 CAGCGCGAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
60 1 0.02
61 47 0.96
62 1 0.02
ACGTcount: A:0.41, C:0.27, G:0.21, T:0.12
Consensus pattern (61 bp):
CGCAACACGAAATAGAAAACCGCAACGCGACTGTCAACTATCGCAACGCGAAATGGAAAAC
Found at i:194002 original size:82 final size:81
Alignment explanation
Indices: 193812--193980 Score: 207
Period size: 82 Copynumber: 2.1 Consensus size: 81
193802 TTAAAACTAT
* ** *
193812 CGCAACGCGAAATGGAAAATCGCAACGACACTGTAGACTATCGCAACGCGAAATGGAAAATCGCA
1 CGCAACACGAAATACAAAATCGCAACGACACTGTAGACTATCGCAACGCGAAATGGAAAACCGCA
* ** *
193877 ACGACATTGTAGACTAT
66 ACGACAATG-AGAAAAC
* *
193894 CGCAACACGAAATAGAAAACCGCAACGACACTGTAGACTATCGCAACGCGAAATGGAAAACCGCA
1 CGCAACACGAAATACAAAATCGCAACGACACTGTAGACTATCGCAACGCGAAATGGAAAACCGCA
193959 ACG-CGAAATG-GAAAAC
66 ACGAC--AATGAGAAAAC
193975 CGCAAC
1 CGCAAC
193981 GCGATTTTCA
Statistics
Matches: 77, Mismatches: 8, Indels: 5
0.86 0.09 0.06
Matches are distributed among these distances:
81 10 0.13
82 64 0.83
83 3 0.04
ACGTcount: A:0.41, C:0.25, G:0.21, T:0.12
Consensus pattern (81 bp):
CGCAACACGAAATACAAAATCGCAACGACACTGTAGACTATCGCAACGCGAAATGGAAAACCGCA
ACGACAATGAGAAAAC
Found at i:195459 original size:29 final size:29
Alignment explanation
Indices: 195424--195483 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
195414 CCTAAATTAA
195424 TTTTGATGTCATTGCTTACATCAATTTAG
1 TTTTGATGTCATTGCTTACATCAATTTAG
195453 TTTTGATGTCATTGCTTACATCAATTTAG
1 TTTTGATGTCATTGCTTACATCAATTTAG
195482 TT
1 TT
195484 AGGTGAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.23, C:0.13, G:0.13, T:0.50
Consensus pattern (29 bp):
TTTTGATGTCATTGCTTACATCAATTTAG
Found at i:200142 original size:29 final size:29
Alignment explanation
Indices: 200108--200166 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
200098 CCTAAATTAA
200108 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
200137 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
200166 T
1 T
200167 AGGTGAAAAT
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:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:210588 original size:49 final size:49
Alignment explanation
Indices: 210525--210619 Score: 138
Period size: 49 Copynumber: 1.9 Consensus size: 49
210515 TAGATACAAA
* * * *
210525 CAGGGGCGGACCTCCATGGTGTCCGGGGTAT-CTCAGGCAACCCCTCATC
1 CAGGAGCGGACCTCCATGGTGCCCAGGGTATCCT-AAGCAACCCCTCATC
210574 CAGGAGCGGACCTCCATGGTGCCCAGGGTATCCTAAGCAACCCCTC
1 CAGGAGCGGACCTCCATGGTGCCCAGGGTATCCTAAGCAACCCCTC
210620 CACAAGTGCC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
49 39 0.95
50 2 0.05
ACGTcount: A:0.19, C:0.36, G:0.28, T:0.17
Consensus pattern (49 bp):
CAGGAGCGGACCTCCATGGTGCCCAGGGTATCCTAAGCAACCCCTCATC
Found at i:210635 original size:17 final size:17
Alignment explanation
Indices: 210613--210669 Score: 55
Period size: 18 Copynumber: 3.4 Consensus size: 17
210603 ATCCTAAGCA
*
210613 ACCCCTCCACAAGTGCC
1 ACCCCTCCACAAGTGAC
**
210630 ACCCCTAATACAAGTGAC
1 ACCCCT-CCACAAGTGAC
210648 ACCCCT-CA-ATAGTGAC
1 ACCCCTCCACA-AGTGAC
210664 ACCCCT
1 ACCCCT
210670 GGGCTCTTGC
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
15 1 0.03
16 13 0.38
17 6 0.18
18 14 0.41
ACGTcount: A:0.30, C:0.44, G:0.11, T:0.16
Consensus pattern (17 bp):
ACCCCTCCACAAGTGAC
Found at i:210644 original size:18 final size:19
Alignment explanation
Indices: 210621--210669 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 19
210611 CAACCCCTCC
*
210621 ACAAGTGCCACCCCT-AAT
1 ACAAGTGACACCCCTCAAT
210639 ACAAGTGACACCCCTCAAT
1 ACAAGTGACACCCCTCAAT
210658 ---AGTGACACCCCT
1 ACAAGTGACACCCCT
210670 GGGCTCTTGC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 12 0.41
18 14 0.48
19 3 0.10
ACGTcount: A:0.33, C:0.39, G:0.12, T:0.16
Consensus pattern (19 bp):
ACAAGTGACACCCCTCAAT
Found at i:216264 original size:12 final size:12
Alignment explanation
Indices: 216247--216291 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
216237 AATAAAGTGA
216247 ATAAATAAA-CTT
1 ATAAATAAATC-T
*
216259 ATAAATAAATCG
1 ATAAATAAATCT
*
216271 ATAAATAAATCA
1 ATAAATAAATCT
216283 ATAAATAAA
1 ATAAATAAA
216292 CTTATTAATG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 29 0.97
13 1 0.03
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.27
Consensus pattern (12 bp):
ATAAATAAATCT
Found at i:216843 original size:27 final size:27
Alignment explanation
Indices: 216788--216843 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 27
216778 ACCCCTGAAC
*
216788 TTTATATAAAATTTTAATTATAGACTTT
1 TTTATATAAAATTTT-ATTATAGAATTT
*
216816 TTTATATAAAATTTCT-TTATATAATTT
1 TTTATATAAAATTT-TATTATAGAATTT
216843 T
1 T
216844 ATATTTTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 10 0.40
28 14 0.56
29 1 0.04
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.57
Consensus pattern (27 bp):
TTTATATAAAATTTTATTATAGAATTT
Found at i:222390 original size:45 final size:42
Alignment explanation
Indices: 222305--222406 Score: 100
Period size: 45 Copynumber: 2.4 Consensus size: 42
222295 GTCATTGCCT
* *
222305 TCTTCTCCAGCCAAGCCAATGGCAACTACTGCCTCTGTTCCC
1 TCTTCTCCAGCCAAGCCAATGGCAACTACTGCCTCGGTTCCA
*
222347 TCTTCTCCAGCCAAG-CAAGTGGCGACAACTACAT-TCTCGGTTCCA
1 TCTTCTCCAGCCAAGCCAA-T-G-G-CAACTAC-TGCCTCGGTTCCA
* *
222392 ACTTCACCAGCCAAG
1 TCTTCTCCAGCCAAG
222407 ACAGCCCCAA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
41 3 0.06
42 16 0.32
43 1 0.02
44 1 0.02
45 28 0.56
46 1 0.02
ACGTcount: A:0.24, C:0.37, G:0.16, T:0.24
Consensus pattern (42 bp):
TCTTCTCCAGCCAAGCCAATGGCAACTACTGCCTCGGTTCCA
Found at i:232161 original size:13 final size:13
Alignment explanation
Indices: 232143--232169 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
232133 GTTACAGAGG
232143 ATCAAACTTACTT
1 ATCAAACTTACTT
232156 ATCAAACTTACTT
1 ATCAAACTTACTT
232169 A
1 A
232170 CAGAGGAGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.22, G:0.00, T:0.37
Consensus pattern (13 bp):
ATCAAACTTACTT
Found at i:252484 original size:43 final size:44
Alignment explanation
Indices: 252408--252504 Score: 117
Period size: 43 Copynumber: 2.2 Consensus size: 44
252398 GCTAAAGTTC
252408 GCGGCGTTTGTTAACGAAAAACGCCACAATAGGTGA-CGATATATA
1 GCGGCGTTTGTTAAC-AAAAACGCCACAATAGGT-ATCGATATATA
* * * * *
252453 GCGGCGTTTGTTGA-AAAAACGCCGCAGTAGGTATTGATATTTA
1 GCGGCGTTTGTTAACAAAAACGCCACAATAGGTATCGATATATA
252496 GCGGCGTTT
1 GCGGCGTTT
252505 TGCTTACAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
42 1 0.02
43 32 0.70
45 13 0.28
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (44 bp):
GCGGCGTTTGTTAACAAAAACGCCACAATAGGTATCGATATATA
Found at i:252565 original size:43 final size:43
Alignment explanation
Indices: 252426--252633 Score: 140
Period size: 43 Copynumber: 4.8 Consensus size: 43
252416 TGTTAACGAA
* * * *
252426 AAACGCCACAATAGGTGA-CGATATATAGCGGCGTTTGTTGAAA-
1 AAACGCCGCAATAGGT-ATTGATATTTAGCGGCGTTT-TTCAAAC
* * **
252469 AAACGCCGCAGTAGGTATTGATATTTAGCGGCGTTTTGCTTAC
1 AAACGCCGCAATAGGTATTGATATTTAGCGGCGTTTTTCAAAC
* * *
252512 AAACGCCGCAATAGGTGTTGTTGTTTAGCGGCGTTTTTCAAAC
1 AAACGCCGCAATAGGTATTGATATTTAGCGGCGTTTTTCAAAC
* * * ** * * *
252555 AAGCGTCGCAATAAGCGTTGAGATTTAGCGGCATTTTT--ATC
1 AAACGCCGCAATAGGTATTGATATTTAGCGGCGTTTTTCAAAC
*
252596 GAAAACGCCGCTACAT-GTTA-TGATATTTAGCGGCGTTT
1 --AAACGCCGC-A-ATAGGTATTGATATTTAGCGGCGTTT
252634 GTGGTAAAAA
Statistics
Matches: 127, Mismatches: 32, Indels: 12
0.74 0.19 0.07
Matches are distributed among these distances:
41 2 0.02
42 3 0.02
43 119 0.94
44 1 0.01
45 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (43 bp):
AAACGCCGCAATAGGTATTGATATTTAGCGGCGTTTTTCAAAC
Found at i:256476 original size:42 final size:42
Alignment explanation
Indices: 256429--256625 Score: 192
Period size: 42 Copynumber: 4.7 Consensus size: 42
256419 TTCAAACAAC
256429 TGCGGCGTTTATTGAAAAAACGCCACTATAGGTA-AATACTAT
1 TGCGGCGTTTATTGAAAAAACGCCACTATAGGTATAAT-CTAT
* * * *
256471 TGCGGCGTTTATAT-AAAAAACGCCGCCAAAGTTATAATCTAT
1 TGCGGCGTTTAT-TGAAAAAACGCCACTATAGGTATAATCTAT
* * **
256513 TGCAGCGTTTATTGAAAAAACGCCACTATCGGTGA-ACCCTAT
1 TGCGGCGTTTATTGAAAAAACGCCACTATAGGT-ATAATCTAT
* * *
256555 TGCGGCGTTT-GT-ATAAAAACGCCGCTA-AAGTACTAATCTAT
1 TGCGGCGTTTATTGA-AAAAACGCCACTATAGGTA-TAATCTAT
*
256596 TGCGGCATTTATTG-AAAAACGCCACTATAG
1 TGCGGCGTTTATTGAAAAAACGCCACTATAG
256626 ATAGACCTAT
Statistics
Matches: 122, Mismatches: 23, Indels: 20
0.74 0.14 0.12
Matches are distributed among these distances:
39 1 0.01
40 3 0.02
41 40 0.33
42 73 0.60
43 5 0.04
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.28
Consensus pattern (42 bp):
TGCGGCGTTTATTGAAAAAACGCCACTATAGGTATAATCTAT
Found at i:256686 original size:72 final size:73
Alignment explanation
Indices: 256563--256710 Score: 203
Period size: 72 Copynumber: 2.0 Consensus size: 73
256553 ATTGCGGCGT
*
256563 TTGTATAAAAACGCCGCTAAAGTACTAATCTATTGCGGCATTTATTG-AAAAACGCCACTATAGA
1 TTGTATAAAAACGCCGCTAAAGTACCAATCTATTGCGGCATTTATTGAAAAAACGCCACTATAGA
256627 T-AGACCTA
66 TGA-ACCTA
* * * * *
256635 TTGTATAAAAACGCCGCTAAAGTACCACA-CTGTTGCGGCGTTTTTTTAAAAAATGCCACTATAG
1 TTGTATAAAAACGCCGCTAAAGTACCA-ATCTATTGCGGCATTTATTGAAAAAACGCCACTATAG
256699 ATGAACCTA
65 ATGAACCTA
256708 TTG
1 TTG
256711 CGGCGTTTGT
Statistics
Matches: 67, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
72 40 0.60
73 26 0.39
74 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (73 bp):
TTGTATAAAAACGCCGCTAAAGTACCAATCTATTGCGGCATTTATTGAAAAAACGCCACTATAGA
TGAACCTA
Found at i:261637 original size:21 final size:21
Alignment explanation
Indices: 261613--261656 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
261603 TTTGATCTTA
* * *
261613 AATCCTAAATCTTAATCTATT
1 AATCCTAAACCCTAATCCATT
*
261634 AATCTTAAACCCTAATCCATT
1 AATCCTAAACCCTAATCCATT
261655 AA
1 AA
261657 CCATAATACA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.23, G:0.00, T:0.36
Consensus pattern (21 bp):
AATCCTAAACCCTAATCCATT
Found at i:264858 original size:31 final size:31
Alignment explanation
Indices: 264817--264882 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
264807 CAACATGTGT
* * *
264817 CTACATGCTACTCAAGCATGTTATCATTCAC
1 CTACACGCTACTCAAGCATATAATCATTCAC
264848 CTACACGCTACTCAAGCATATAATCATTCAC
1 CTACACGCTACTCAAGCATATAATCATTCAC
264879 CTAC
1 CTAC
264883 TCATCCATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.32, C:0.32, G:0.08, T:0.29
Consensus pattern (31 bp):
CTACACGCTACTCAAGCATATAATCATTCAC
Found at i:268377 original size:43 final size:43
Alignment explanation
Indices: 268316--268402 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
268306 ACTTGGACTT
*
268316 GGTTGACCTCCACGGAGAGTCAAATGTCTAAAATAAACATGAA
1 GGTTGACCGCCACGGAGAGTCAAATGTCTAAAATAAACATGAA
*
268359 GGTTGACCGCCACGGAGAGTCCAATGTCTAAAATAAACATGAA
1 GGTTGACCGCCACGGAGAGTCAAATGTCTAAAATAAACATGAA
268402 G
1 G
268403 AAGATAATGA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.20
Consensus pattern (43 bp):
GGTTGACCGCCACGGAGAGTCAAATGTCTAAAATAAACATGAA
Found at i:269369 original size:94 final size:94
Alignment explanation
Indices: 269208--269398 Score: 364
Period size: 94 Copynumber: 2.0 Consensus size: 94
269198 GGTGAAGAAA
*
269208 TAGTTTCTGTCTAGAGTCTAGATAACTAGCTTGTTGTATCTGAAAGAATAGTGAACCCTTTCTTT
1 TAGTTTCTCTCTAGAGTCTAGATAACTAGCTTGTTGTATCTGAAAGAATAGTGAACCCTTTCTTT
269273 GTAACTAGTATTACATTTACATATATTTG
66 GTAACTAGTATTACATTTACATATATTTG
*
269302 TAGTTTCTCTCTAGAGTCTAGATAACTAGCTTGTTGTATCTGAAAGAATCGTGAACCCTTTCTTT
1 TAGTTTCTCTCTAGAGTCTAGATAACTAGCTTGTTGTATCTGAAAGAATAGTGAACCCTTTCTTT
269367 GTAACTAGTATTACATTTACATATATTTG
66 GTAACTAGTATTACATTTACATATATTTG
269396 TAG
1 TAG
269399 AGTTAGGACA
Statistics
Matches: 95, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
94 95 1.00
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.41
Consensus pattern (94 bp):
TAGTTTCTCTCTAGAGTCTAGATAACTAGCTTGTTGTATCTGAAAGAATAGTGAACCCTTTCTTT
GTAACTAGTATTACATTTACATATATTTG
Found at i:282199 original size:22 final size:22
Alignment explanation
Indices: 282149--282200 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
282139 CATTGTGACA
282149 TAATTTAATTTTGTTGCAGTTT
1 TAATTTAATTTTGTTGCAGTTT
**
282171 TGTTTTAATCTTT-TTGCA-TATT
1 TAATTTAAT-TTTGTTGCAGT-TT
282193 TAATTTAA
1 TAATTTAA
282201 GTCTGATTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
21 1 0.04
22 20 0.83
23 3 0.12
ACGTcount: A:0.25, C:0.06, G:0.10, T:0.60
Consensus pattern (22 bp):
TAATTTAATTTTGTTGCAGTTT
Found at i:284762 original size:2 final size:2
Alignment explanation
Indices: 284755--284783 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
284745 TATGTATTTA
284755 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
284784 TTCATATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:285443 original size:15 final size:15
Alignment explanation
Indices: 285419--285455 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
285409 ACATTATTAA
*
285419 ATTAATTTATAAAAT
1 ATTAAATTATAAAAT
*
285434 ATTAAATTATAAAGT
1 ATTAAATTATAAAAT
285449 ATTAAAT
1 ATTAAAT
285456 GAATAAATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (15 bp):
ATTAAATTATAAAAT
Found at i:286097 original size:2 final size:2
Alignment explanation
Indices: 286085--286128 Score: 79
Period size: 2 Copynumber: 21.5 Consensus size: 2
286075 TAATACGATA
286085 AT AT GAT 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 AT AT AT
286128 A
1 A
286129 ACTAATTGAT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 39 0.95
3 2 0.05
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:286618 original size:33 final size:33
Alignment explanation
Indices: 286548--286618 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 33
286538 TAAATTTACT
* * * *
286548 TTTATTTTAATTTTTTCATAAATTGTGATTTTA
1 TTTATTTTAATTTATTCAAAAATTATAATTTTA
*
286581 TTTATTTTAATTTATT-AAAAATTATAATATTTG
1 TTTATTTTAATTTATTCAAAAATTATAAT-TTTA
286614 TTTAT
1 TTTAT
286619 ATATATTTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
32 9 0.28
33 23 0.72
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.62
Consensus pattern (33 bp):
TTTATTTTAATTTATTCAAAAATTATAATTTTA
Found at i:295191 original size:15 final size:15
Alignment explanation
Indices: 295171--295199 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
295161 GAGACTTTAT
295171 CTGCCCCACATCCGC
1 CTGCCCCACATCCGC
295186 CTGCCCCACATCCG
1 CTGCCCCACATCCG
295200 GTTGGCCTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.59, G:0.14, T:0.14
Consensus pattern (15 bp):
CTGCCCCACATCCGC
Found at i:311040 original size:58 final size:58
Alignment explanation
Indices: 310941--311060 Score: 150
Period size: 58 Copynumber: 2.1 Consensus size: 58
310931 CGACATGACT
** * * *
310941 AACAACTTCCCATTTAATCAACCACATCGTTCGCCAAAAAAAGAATAATTAGATCCCC
1 AACAACTTCAAATTTAATCAACCACATCGTACACCAAAAAAAGAACAATTAGATCCCC
* * * * *
310999 AACAACTTCAAATTTTATCAACCACATCGTACACGACAAAAAGAACAATTGGATCTCC
1 AACAACTTCAAATTTAATCAACCACATCGTACACCAAAAAAAGAACAATTAGATCCCC
311057 AACA
1 AACA
311061 TGACAACAAC
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
58 52 1.00
ACGTcount: A:0.43, C:0.28, G:0.07, T:0.22
Consensus pattern (58 bp):
AACAACTTCAAATTTAATCAACCACATCGTACACCAAAAAAAGAACAATTAGATCCCC
Found at i:312876 original size:18 final size:18
Alignment explanation
Indices: 312841--312892 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 18
312831 GAATAAATTT
*
312841 ATAAAATTTAAAAAAAAA
1 ATAAAATTTATAAAAAAA
312859 ATTAAAAATTT-TAAAAAAA
1 A-T-AAAATTTATAAAAAAA
312878 ATAAAATTTATAAAA
1 ATAAAATTTATAAAA
312893 TTTTAAAAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
17 7 0.23
18 7 0.23
19 9 0.30
20 7 0.23
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
ATAAAATTTATAAAAAAA
Found at i:312943 original size:16 final size:17
Alignment explanation
Indices: 312914--312952 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
312904 AAAAATTAAT
*
312914 TAAAAATTTAAAATATA
1 TAAAAATTTAAAATAAA
312931 TAAAAATTT-AAATAAA
1 TAAAAATTTAAAATAAA
312947 TAAAAA
1 TAAAAA
312953 AATTGGCTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
TAAAAATTTAAAATAAA
Found at i:312953 original size:17 final size:17
Alignment explanation
Indices: 312854--312956 Score: 68
Period size: 17 Copynumber: 5.9 Consensus size: 17
312844 AAATTTAAAA
312854 AAAAAAT-TAAAAATTTT
1 AAAAAATATAAAAA-TTT
*
312871 AAAAAAAAT-AAAATTT
1 AAAAAATATAAAAATTT
* * * **
312887 ATAAAATTTTAAAA-GA
1 AAAAAATATAAAAATTT
312903 AAAAAATTAATTAAAAATTT
1 AAAAAA-T-A-TAAAAATTT
*
312923 AAAATATATAAAAATTT
1 AAAAAATATAAAAATTT
*
312940 AAATAAATAAAAAAATT
1 AAA-AAATATAAAAATT
312957 GGCTCCACCT
Statistics
Matches: 65, Mismatches: 14, Indels: 13
0.71 0.15 0.14
Matches are distributed among these distances:
16 14 0.22
17 27 0.42
18 13 0.20
19 6 0.09
20 5 0.08
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.31
Consensus pattern (17 bp):
AAAAAATATAAAAATTT
Found at i:315854 original size:12 final size:12
Alignment explanation
Indices: 315837--315862 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
315827 CTTGACTTTA
315837 CAATCTCAAATT
1 CAATCTCAAATT
315849 CAATCTCAAATT
1 CAATCTCAAATT
315861 CA
1 CA
315863 TAAATCTCAA
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:0.42, C:0.27, G:0.00, T:0.31
Consensus pattern (12 bp):
CAATCTCAAATT
Found at i:332149 original size:20 final size:20
Alignment explanation
Indices: 332124--332162 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
332114 TTGGTTCACC
* *
332124 CCGGTTTTACCGGTTTTCAG
1 CCGGTTCTACCAGTTTTCAG
332144 CCGGTTCTACCAGTTTTCA
1 CCGGTTCTACCAGTTTTCA
332163 ACTGGTTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.13, C:0.28, G:0.21, T:0.38
Consensus pattern (20 bp):
CCGGTTCTACCAGTTTTCAG
Found at i:332150 original size:30 final size:30
Alignment explanation
Indices: 332085--332150 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
332075 AGTGAATCGG
* *
332085 CGGTTCAAACCGGTTTTGCCGGTTTTCAGT
1 CGGTTCAAACCGGTTTTACCGGTTTTCAGC
* **
332115 TGGTTCACCCCGGTTTTACCGGTTTTCAGC
1 CGGTTCAAACCGGTTTTACCGGTTTTCAGC
332145 CGGTTC
1 CGGTTC
332151 TACCAGTTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.11, C:0.27, G:0.26, T:0.36
Consensus pattern (30 bp):
CGGTTCAAACCGGTTTTACCGGTTTTCAGC
Found at i:332169 original size:20 final size:20
Alignment explanation
Indices: 332124--332170 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
332114 TTGGTTCACC
* * *
332124 CCGGTTTTACCGGTTTTCAG
1 CCGGTTCTACCAGTTTTCAA
332144 CCGGTTCTACCAGTTTTCAA
1 CCGGTTCTACCAGTTTTCAA
*
332164 CTGGTTC
1 CCGGTTC
332171 ATTACCAGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.13, C:0.28, G:0.21, T:0.38
Consensus pattern (20 bp):
CCGGTTCTACCAGTTTTCAA
Found at i:343767 original size:47 final size:47
Alignment explanation
Indices: 343714--343808 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
343704 ATCAACACAG
343714 AGATCAACATATTTTGAAATCAATCTAATTTAATTATCAGATTATCT
1 AGATCAACATATTTTGAAATCAATCTAATTTAATTATCAGATTATCT
343761 AGATCAACATATTTTGAAATCAATCTAATTTAATTATCAGATTATCT
1 AGATCAACATATTTTGAAATCAATCTAATTTAATTATCAGATTATCT
343808 A
1 A
343809 ATTGGAGAAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.41, C:0.13, G:0.06, T:0.40
Consensus pattern (47 bp):
AGATCAACATATTTTGAAATCAATCTAATTTAATTATCAGATTATCT
Found at i:343968 original size:18 final size:18
Alignment explanation
Indices: 343940--343993 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 18
343930 CAAGTAACTG
*
343940 CTTTTAAGCATGTATCTT
1 CTTTTATGCATGTATCTT
* * *
343958 TTTTTATGCATGTAACTA
1 CTTTTATGCATGTATCTT
*
343976 CTCTTATGCATGTATCTT
1 CTTTTATGCATGTATCTT
343994 AATTGTAGTA
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.22, C:0.17, G:0.11, T:0.50
Consensus pattern (18 bp):
CTTTTATGCATGTATCTT
Found at i:344487 original size:21 final size:21
Alignment explanation
Indices: 344461--344614 Score: 124
Period size: 21 Copynumber: 7.3 Consensus size: 21
344451 ATTTTGGACT
344461 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
*
344482 ATCGCAACGCGAACTTT-GACT--
1 ATCGCAA--CGAA-TTTGGAATAA
344503 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
* * *
344524 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAATTTGGAATAA
344545 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
* * *
344566 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAATTTGGAATAA
*
344587 AGCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
344608 ATCGCAA
1 ATCGCAA
344615 TGCGAACTTG
Statistics
Matches: 103, Mismatches: 16, Indels: 28
0.70 0.11 0.19
Matches are distributed among these distances:
18 3 0.03
19 25 0.24
21 47 0.46
23 25 0.24
24 3 0.03
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.21
Consensus pattern (21 bp):
ATCGCAACGAATTTGGAATAA
Found at i:344516 original size:42 final size:42
Alignment explanation
Indices: 344457--344635 Score: 322
Period size: 42 Copynumber: 4.3 Consensus size: 42
344447 TGCGATTTTG
*
344457 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTT
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
344499 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
344541 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
* * *
344583 GACTAGCGCAACGAATTTGGAATAAATCGCAATGCGAACTTG
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
344625 GACTATCGCAA
1 GACTATCGCAA
344636 TGCGAATATG
Statistics
Matches: 132, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 132 1.00
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (42 bp):
GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
Found at i:344632 original size:21 final size:20
Alignment explanation
Indices: 344454--344641 Score: 123
Period size: 21 Copynumber: 8.9 Consensus size: 20
344444 CGTTGCGATT
*
344454 TTGGACTATCGCAA-CGAAT
1 TTGGACTATCGCAAGCGAAC
*
344473 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAA-GCGAAC
* *
344496 TTTGACTATCGCAA-CGAAT
1 TTGGACTATCGCAAGCGAAC
*
344515 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAA-GCGAAC
* *
344538 TTCGACTATCGCAA-CGAAT
1 TTGGACTATCGCAAGCGAAC
*
344557 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAA-GCGAAC
* * *
344580 TTCGACTAGCGCAA-CGAAT
1 TTGGACTATCGCAAGCGAAC
*
344599 TTGGAATAAATCGCAATGCGAAC
1 TTGGACT--ATCGCAA-GCGAAC
344622 TTGGACTATCGCAATGCGAA
1 TTGGACTATCGCAA-GCGAA
344642 TATGTAAATC
Statistics
Matches: 130, Mismatches: 23, Indels: 30
0.71 0.13 0.16
Matches are distributed among these distances:
19 33 0.25
21 60 0.46
23 37 0.28
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (20 bp):
TTGGACTATCGCAAGCGAAC
Done.