Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 219 of 332
Found at i:72606666 original size:12 final size:12
Alignment explanation
Indices: 72606649--72606674 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
72606639 GAAAACAGAC
72606649 TTTTAGCGGCGT
1 TTTTAGCGGCGT
72606661 TTTTAGCGGCGT
1 TTTTAGCGGCGT
72606673 TT
1 TT
72606675 GAATGAAAAA
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:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:72606707 original size:40 final size:38
Alignment explanation
Indices: 72606663--72606749 Score: 104
Period size: 39 Copynumber: 2.2 Consensus size: 38
72606653 AGCGGCGTTT
*
72606663 TTAGCGGCG-TTTGAATGAAAAACCCGCTAAAGATCTAGTA
1 TTAGCGGCGCTTTGAA--AAAAA-CCGCTAAAGATCAAGTA
* *
72606703 TTAGCGGCGCTTTTTAAAAAAACTGCTAAAGATCAAGTA
1 TTAGCGGCGC-TTTGAAAAAAACCGCTAAAGATCAAGTA
72606742 TTAGCGGC
1 TTAGCGGC
72606750 ATTTTTGTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
39 23 0.55
40 14 0.33
42 5 0.12
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.26
Consensus pattern (38 bp):
TTAGCGGCGCTTTGAAAAAAACCGCTAAAGATCAAGTA
Found at i:72606912 original size:76 final size:76
Alignment explanation
Indices: 72606832--72606979 Score: 179
Period size: 76 Copynumber: 1.9 Consensus size: 76
72606822 TTAAAATGCT
* * * * * *
72606832 GCAAAAAAAATTAACACAACGCCGTCATTTTGTGTTGAGCCTTTAGTGGCTTTAGCGGCGCTTTT
1 GCAAAAAAAATTAACAAAACGCCATCATTATGTATTGAGCCTTTAGTGGCTTTAACGGCACTTTT
*
72606897 TAGAAAACGCC
66 TAAAAAACGCC
* * ** * *
72606908 GCAAAAGAATTTTGCAAAACGCCATCGTTATGTATTGAGCTTTTAGTGGCTTTAACGGCACTTTT
1 GCAAAAAAAATTAACAAAACGCCATCATTATGTATTGAGCCTTTAGTGGCTTTAACGGCACTTTT
72606973 TAAAAAA
66 TAAAAAA
72606980 TGCCACAGAA
Statistics
Matches: 59, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
76 59 1.00
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (76 bp):
GCAAAAAAAATTAACAAAACGCCATCATTATGTATTGAGCCTTTAGTGGCTTTAACGGCACTTTT
TAAAAAACGCC
Found at i:72607218 original size:22 final size:22
Alignment explanation
Indices: 72607193--72607237 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
72607183 GAGTTACTAT
* *
72607193 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGATTATGGATTAAGGG
* *
72607215 TTTAGGGATTATGGTTTAAGGG
1 TTTAAGGATTATGGATTAAGGG
72607237 T
1 T
72607238 GGTTCAAGGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.44
Consensus pattern (22 bp):
TTTAAGGATTATGGATTAAGGG
Found at i:72607236 original size:15 final size:15
Alignment explanation
Indices: 72607198--72607232 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
72607188 ACTATTTTAA
*
72607198 GGTTTATGGATTATG
1 GGTTTAGGGATTATG
72607213 GGTTTAGGGATTAT-
1 GGTTTAGGGATTATG
72607227 GGTTTA
1 GGTTTA
72607233 AGGGTGGTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.20, C:0.00, G:0.34, T:0.46
Consensus pattern (15 bp):
GGTTTAGGGATTATG
Found at i:72607345 original size:7 final size:7
Alignment explanation
Indices: 72607252--72607360 Score: 67
Period size: 7 Copynumber: 15.0 Consensus size: 7
72607242 CAAGGGCTAT
*
72607252 GGTTTAA
1 GGTTTAG
72607259 GGTTTA-
1 GGTTTAG
72607265 GGTGTTAGG
1 GGT-TTA-G
*
72607274 GGTTAAG
1 GGTTTAG
**
72607281 GGTAAAG
1 GGTTTAG
*
72607288 GGTTCATAT
1 GGTT--TAG
*
72607297 GGTTTAT
1 GGTTTAG
*
72607304 GGTTTAT
1 GGTTTAG
*
72607311 GTTTTAG
1 GGTTTAG
*
72607318 GATTTAG
1 GGTTTAG
*
72607325 GGTTTAA
1 GGTTTAG
72607332 GGTTTAG
1 GGTTTAG
*
72607339 GGATTAG
1 GGTTTAG
72607346 GAGTTTAG
1 G-GTTTAG
72607354 GGTTTAG
1 GGTTTAG
72607361 ATTAATTAGT
Statistics
Matches: 83, Mismatches: 13, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
6 3 0.04
7 64 0.77
8 8 0.10
9 8 0.10
ACGTcount: A:0.22, C:0.01, G:0.36, T:0.41
Consensus pattern (7 bp):
GGTTTAG
Found at i:72607477 original size:14 final size:14
Alignment explanation
Indices: 72607454--72607498 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
72607444 TTAATTATCA
*
72607454 TTATAATTTAGGGT
1 TTATAGTTTAGGGT
*
72607468 TTATGGTTTAGGGT
1 TTATAGTTTAGGGT
*
72607482 ATATAGTTTAGGGT
1 TTATAGTTTAGGGT
72607496 TTA
1 TTA
72607499 AAGTGAATGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.49
Consensus pattern (14 bp):
TTATAGTTTAGGGT
Found at i:72608070 original size:13 final size:13
Alignment explanation
Indices: 72608052--72608095 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
72608042 AAAAATCTCC
**
72608052 AAAATAAAATTTA
1 AAAATAAAAAATA
72608065 AAAATAAAAAATAA
1 AAAATAAAAAAT-A
72608079 AAAATAAAAAATA
1 AAAATAAAAAATA
72608092 AAAA
1 AAAA
72608096 CTTAAAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 15 0.54
14 13 0.46
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (13 bp):
AAAATAAAAAATA
Found at i:72608074 original size:7 final size:7
Alignment explanation
Indices: 72608064--72608095 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
72608054 AATAAAATTT
72608064 AAAAATA
1 AAAAATA
72608071 AAAAATA
1 AAAAATA
72608078 AAAAATA
1 AAAAATA
72608085 AAAAATA
1 AAAAATA
72608092 AAAA
1 AAAA
72608096 CTTAAAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:72608074 original size:14 final size:14
Alignment explanation
Indices: 72608052--72608108 Score: 55
Period size: 14 Copynumber: 4.1 Consensus size: 14
72608042 AAAAATCTCC
72608052 AAAAT-AAAATTTA
1 AAAATAAAAATTTA
* *
72608065 AAAATAAAAAATAA
1 AAAATAAAAATTTA
*
72608079 AAAATAAAAA-ATA
1 AAAATAAAAATTTA
72608092 AAAACTTAAAAATTTA
1 AAAA--TAAAAATTTA
72608108 A
1 A
72608109 TATTTAATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
13 10 0.29
14 16 0.46
15 6 0.17
16 3 0.09
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (14 bp):
AAAATAAAAATTTA
Found at i:72612445 original size:23 final size:23
Alignment explanation
Indices: 72612418--72613033 Score: 416
Period size: 23 Copynumber: 26.9 Consensus size: 23
72612408 TAGTAAATGT
*
72612418 TGCAAATTGAAGTGTTTAAGTAC
1 TGCAAATTGAAGTGTTTAAGTGC
72612441 TGCAAATTGAAGTGTTT-AGTTGC
1 TGCAAATTGAAGTGTTTAAG-TGC
* * *
72612464 TGGAAATTG-AGATGTTTTA-TCGT
1 TGCAAATTGAAG-TGTTTAAGT-GC
* * * * * *
72612487 TG-TAATTGAGGAGTATAAATGT
1 TGCAAATTGAAGTGTTTAAGTGC
** * *
72612509 TGTTAATTGAAATGTTAAAGTGC
1 TGCAAATTGAAGTGTTTAAGTGC
* *
72612532 TACAAATTGAATTGTTTTAA-TGC
1 TGCAAATTGAAGTG-TTTAAGTGC
* *
72612555 TGTAAATTGAAGTGTTAAAGTGC
1 TGCAAATTGAAGTGTTTAAGTGC
72612578 TGCAAATTGAAGTGTTTGAA-TGC
1 TGCAAATTGAAGTGTTT-AAGTGC
* * *
72612601 TGTAAATTGAAGTGTTTAAATGT
1 TGCAAATTGAAGTGTTTAAGTGC
** * *
72612624 TGTTAATTGAAATGTTAAAGTGC
1 TGCAAATTGAAGTGTTTAAGTGC
72612647 TGCAAATTGAAGTGTTTTAA-TGC
1 TGCAAATTGAAGTG-TTTAAGTGC
** *
72612670 TATAAATTGAAGTGTTAAAGTGC
1 TGCAAATTGAAGTGTTTAAGTGC
* *
72612693 TGCAATTTGAAGTGTTTGAA-TCC
1 TGCAAATTGAAGTGTTT-AAGTGC
** *
72612716 TATAAATTG-AGTGTTTAAATGC
1 TGCAAATTGAAGTGTTTAAGTGC
* *
72612738 TGTAAATTGAAGTGTTAAAGTGC
1 TGCAAATTGAAGTGTTTAAGTGC
* *
72612761 TACAGATTGAAGTGTTTGAA-TGC
1 TGCAAATTGAAGTGTTT-AAGTGC
* *
72612784 TGTAAATTGAAGTGTTTAAATGC
1 TGCAAATTGAAGTGTTTAAGTGC
* * * *
72612807 TGTAAATTGAAGTGCTTAAATGT
1 TGCAAATTGAAGTGTTTAAGTGC
*
72612830 TGCAAATTGAAGTGTTTAAGTAC
1 TGCAAATTGAAGTGTTTAAGTGC
* *
72612853 TGAAAATTGTAGTGTTT-AGTTGC
1 TGCAAATTGAAGTGTTTAAG-TGC
* * *
72612876 TGGACATTG-AGATGTTTTA-TCGC
1 TGCAAATTGAAG-TGTTTAAGT-GC
* * * *
72612899 TG-TAATTGAAGTGTATAAATGT
1 TGCAAATTGAAGTGTTTAAGTGC
** * *
72612921 TGTTAATT-TAGATGTTAAAGTGC
1 TGCAAATTGAAG-TGTTTAAGTGC
* *
72612944 TACAAATTGAAGTGTTAAAGTGC
1 TGCAAATTGAAGTGTTTAAGTGC
* * *
72612967 TACAAATTGAAGTGTTTAAATGT
1 TGCAAATTGAAGTGTTTAAGTGC
* * * *
72612990 TGTAAATTGAAGTGCTTAAATGT
1 TGCAAATTGAAGTGTTTAAGTGC
*
72613013 TGCAAATTGAAGTGGTTAAGT
1 TGCAAATTGAAGTGTTTAAGT
72613034 ACTTATTTTG
Statistics
Matches: 472, Mismatches: 94, Indels: 54
0.76 0.15 0.09
Matches are distributed among these distances:
21 2 0.00
22 66 0.14
23 386 0.82
24 18 0.04
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.38
Consensus pattern (23 bp):
TGCAAATTGAAGTGTTTAAGTGC
Found at i:72612739 original size:183 final size:184
Alignment explanation
Indices: 72612530--72613036 Score: 649
Period size: 183 Copynumber: 2.8 Consensus size: 184
72612520 ATGTTAAAGT
* * * *
72612530 GCTACAAATTGAATTGTTTTAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTT
1 GCTATAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGCTACAAATTGAAGTGTTT
* * *
72612595 GAATGCTGTAAATTGAAGTGTTTAAATGTTGTTAATTGAAATG-TTAAAGTGCTGCAAATTGAAG
66 GAATGCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGCTTAAA-TGTTGCAAATTGAAG
*
72612659 TGTTTTAA-TGCT-ATAAATTGAAGTGTTAAAG-TGCTGCA-ATTTGA-AGTGTTTGAATC
130 TG-TTTAAGTACTGA-AAATTGAAGTGTT-AAGTTGCTGCACA-TTGAGA-TGTTT-AATC
*
72612715 -CTATAAATTG-AGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGCTACAGATTGAAGTGTTT
1 GCTATAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGCTACAAATTGAAGTGTTT
*
72612778 GAATGCTGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGT
66 GAATGCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGT
* * * *
72612843 GTTTAAGTACTGAAAATTGTAGTGTTTAGTTGCTGGACATTGAGATGTTTTATC
131 GTTTAAGTACTGAAAATTGAAGTGTTAAGTTGCTGCACATTGAGATGTTTAATC
* * * * *
72612897 GCTGT-AATTGAAGTGTATAAATGTTGTTAATT-TAGATGTTAAAGTGCTACAAATTGAAGTG-T
1 GCTATAAATTGAAGTGTTTAAATGCTGTAAATTGAAG-TGTTAAAGTGCTACAAATTGAAGTGTT
* **
72612959 TAAAGTGCTACAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAA
65 TGAA-TGCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAA
*
72613024 GTGGTTAAGTACT
129 GTGTTTAAGTACT
72613037 TATTTTGGGT
Statistics
Matches: 287, Mismatches: 25, Indels: 22
0.86 0.07 0.07
Matches are distributed among these distances:
182 21 0.07
183 249 0.87
184 17 0.06
ACGTcount: A:0.33, C:0.06, G:0.22, T:0.38
Consensus pattern (184 bp):
GCTATAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGCTACAAATTGAAGTGTTT
GAATGCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGT
GTTTAAGTACTGAAAATTGAAGTGTTAAGTTGCTGCACATTGAGATGTTTAATC
Found at i:72614466 original size:20 final size:20
Alignment explanation
Indices: 72614441--72614479 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
72614431 TTTCGACTAG
72614441 GTTCAGCTTGAACCTAAGTA
1 GTTCAGCTTGAACCTAAGTA
72614461 GTTCAGCTTGAACCTAAGT
1 GTTCAGCTTGAACCTAAGT
72614480 CTTTTCTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (20 bp):
GTTCAGCTTGAACCTAAGTA
Found at i:72617060 original size:37 final size:36
Alignment explanation
Indices: 72617009--72617084 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
72616999 ATTTTAAAAA
*
72617009 TAATATTATTTTAATAGT-TTAATATTAAATTTAAT-T
1 TAATATTATCTTAATAGTATT-ATATT-AATTTAATAT
*
72617045 TAATACTTATCTTAATAGTATTTTATTAATTTAATAT
1 TAATA-TTATCTTAATAGTATTATATTAATTTAATAT
72617082 TAA
1 TAA
72617085 AGTGGTTATC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 13 0.37
37 20 0.57
38 2 0.06
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (36 bp):
TAATATTATCTTAATAGTATTATATTAATTTAATAT
Found at i:72627094 original size:40 final size:40
Alignment explanation
Indices: 72627039--72627180 Score: 207
Period size: 40 Copynumber: 3.6 Consensus size: 40
72627029 TATTCGAACG
*
72627039 ATATCCGGGCTAAGTCCCGAAGGCATTTGGGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
72627079 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
72627119 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
72627159 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
72627181 TACTTGGGTT
Statistics
Matches: 92, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
39 14 0.15
40 76 0.83
41 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:72630798 original size:20 final size:20
Alignment explanation
Indices: 72630775--72630819 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
72630765 TGCAAACAGG
72630775 GGCACTGTA-GTCAAAATAGA
1 GGCACTG-AGGTCAAAATAGA
* *
72630795 GGCACTGAGGTGAAATTAGA
1 GGCACTGAGGTCAAAATAGA
72630815 GGCAC
1 GGCAC
72630820 CAAAGTGCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 21 0.95
ACGTcount: A:0.36, C:0.16, G:0.31, T:0.18
Consensus pattern (20 bp):
GGCACTGAGGTCAAAATAGA
Found at i:72630834 original size:20 final size:20
Alignment explanation
Indices: 72630788--72630849 Score: 81
Period size: 20 Copynumber: 3.1 Consensus size: 20
72630778 ACTGTAGTCA
** *
72630788 AAATAGAGGCACTGAGGTG-
1 AAATAGAGGCACCAAAGTGC
72630807 AAATTAGAGGCACCAAAGTGC
1 AAA-TAGAGGCACCAAAGTGC
72630828 AAATAGAGGCACCAAAGTGC
1 AAATAGAGGCACCAAAGTGC
72630848 AA
1 AA
72630850 TCCTGTACAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
19 3 0.08
20 32 0.84
21 3 0.08
ACGTcount: A:0.44, C:0.16, G:0.27, T:0.13
Consensus pattern (20 bp):
AAATAGAGGCACCAAAGTGC
Found at i:72633545 original size:62 final size:60
Alignment explanation
Indices: 72633467--72633611 Score: 159
Period size: 61 Copynumber: 2.4 Consensus size: 60
72633457 TCAAGCCTTA
* * * *
72633467 CTGGGCCTAAGCCCTATT-CAGAAATCAGTG-TTAACTGGGCCTTAGCCCATATTAATATTAAT
1 CTGGGCCT-AGCCCTATTACA-AAATCAGAGCAT-ACTGGGCC-TAGCCCATATCAATATCAAT
* * *
72633529 CTGGGCCATAGCCCTATTACAATATCAGAGCATACTGGGCCTAGCCCATATCAGTATCAGT
1 CTGGGCC-TAGCCCTATTACAAAATCAGAGCATACTGGGCCTAGCCCATATCAATATCAAT
72633590 CTGGGCCGTAGCCCTATTACAA
1 CTGGGCC-TAGCCCTATTACAA
72633612 GTCGAGATAT
Statistics
Matches: 72, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
61 37 0.51
62 31 0.43
63 4 0.06
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (60 bp):
CTGGGCCTAGCCCTATTACAAAATCAGAGCATACTGGGCCTAGCCCATATCAATATCAAT
Found at i:72633657 original size:20 final size:20
Alignment explanation
Indices: 72633632--72633671 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
72633622 ATTGGGTCTT
72633632 GCCCATATTAACACAGTTGG
1 GCCCATATTAACACAGTTGG
* *
72633652 GCCCATTTTAATACAGTTGG
1 GCCCATATTAACACAGTTGG
72633672 CCTATAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (20 bp):
GCCCATATTAACACAGTTGG
Found at i:72649802 original size:28 final size:28
Alignment explanation
Indices: 72649770--72649839 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
72649760 ATAGTAAGTC
72649770 CGCACACTTAGTGCT-TA-ATAGTCAAACT
1 CGCACACTTAGTGCTATACA-A-TCAAACT
*
72649798 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
72649826 CGCACACTTAGTGC
1 CGCACACTTAGTGC
72649840 CAATCTCATT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 35 0.90
29 3 0.08
30 1 0.03
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:72652594 original size:39 final size:39
Alignment explanation
Indices: 72652540--72652928 Score: 634
Period size: 39 Copynumber: 10.0 Consensus size: 39
72652530 AAGACACTGA
72652540 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
72652579 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* * *
72652618 AAATATATCCGGGCCAAAGTCCCGCAGGCTTTGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
72652657 AAATGTATCCGGACTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* * *
72652696 AAATATATCCGGGCTAAAGTCCCACAGGCTTCGTGTTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* * *
72652735 AAATATATCTGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
72652774 AAATGTATCCGGACTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
72652813 AAATGTATCCGGGCCAAAGTCCCACAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
72652852 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
72652891 AAATGTATCCGGGTTAAAGTCCCGCAGGCTTTGTGCTG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
72652929 ATAATATAAT
Statistics
Matches: 324, Mismatches: 26, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 324 1.00
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.23
Consensus pattern (39 bp):
AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
Found at i:72664138 original size:47 final size:45
Alignment explanation
Indices: 72664068--72664191 Score: 135
Period size: 47 Copynumber: 2.7 Consensus size: 45
72664058 TTATTGTGAG
* *
72664068 CTAGTGTAAGACATGTCTGGGACATGCATTGGCCACATT-ACA-AGAA
1 CTAGTGTAAGACATGTCTAGGACATGCATCGG---CATTGACAGAGAA
* *
72664114 CTAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGATGAGAG
1 CTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCATTGACA-GAGAA
*
72664162 CTAGTGTAAGACATGTCTAAGACATGCATC
1 CTAGTGTAAGACATGTCTAGGACATGCATC
72664192 AGCCTCGAGA
Statistics
Matches: 68, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
45 4 0.06
46 18 0.26
47 26 0.38
48 20 0.29
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (45 bp):
CTAGTGTAAGACATGTCTAGGACATGCATCGGCATTGACAGAGAA
Found at i:72664216 original size:46 final size:46
Alignment explanation
Indices: 72664118--72664237 Score: 143
Period size: 46 Copynumber: 2.6 Consensus size: 46
72664108 CAAGAACTAG
* * * *
72664118 TGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGATGAGAGCTAG
1 TGTAAGA-CATGTCTAGGACAT-GCATCAGCATCGAGATGAGAGCCAA
* *
72664166 TGTAAGACATGTCTAAGACATGCATCAGCCTCGAGATGTA-AGCCAA
1 TGTAAGACATGTCTAGGACATGCATCAGCATCGAGATG-AGAGCCAA
*
72664212 TGTAAGACATGTCTGGGACATGCATC
1 TGTAAGACATGTCTAGGACATGCATC
72664238 GACTACGAGT
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 42 0.67
47 14 0.22
48 7 0.11
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (46 bp):
TGTAAGACATGTCTAGGACATGCATCAGCATCGAGATGAGAGCCAA
Found at i:72665460 original size:21 final size:22
Alignment explanation
Indices: 72665420--72665461 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
72665410 GTCGAATTGG
72665420 TTACACGGGCGTGTTGCCCCTC
1 TTACACGGGCGTGTTGCCCCTC
72665442 TTACACGGGCGTG-TGCCCCT
1 TTACACGGGCGTGTTGCCCCT
72665462 GTAGCTAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.10, C:0.36, G:0.29, T:0.26
Consensus pattern (22 bp):
TTACACGGGCGTGTTGCCCCTC
Found at i:72672218 original size:58 final size:58
Alignment explanation
Indices: 72672124--72672290 Score: 166
Period size: 58 Copynumber: 2.9 Consensus size: 58
72672114 TTTTTATAGT
* *
72672124 ATTATATATTATGATTTT-TT-AATTCATA--TAATAATAATTATATTAAGAATTTTATTAA
1 ATTATATATTA-G-TTTTATTAAATT-ATATTTAACAATAATTATATTAA-AATTTGATTAA
* * *
72672182 ATTATATATT-GTTTTATTAAATTATATTTAGCAATAATTATGTTAAAATATGATTAA
1 ATTATATATTAGTTTTATTAAATTATATTTAACAATAATTATATTAAAATTTGATTAA
* * * *
72672239 ATTATTTATTATTTTTATTAAATTATTTTTAATAATAATCT-TATTAAAATTT
1 ATTATATATTAGTTTTATTAAATTATATTTAACAATAAT-TATATTAAAATTT
72672291 AATAATAATA
Statistics
Matches: 91, Mismatches: 12, Indels: 12
0.79 0.10 0.10
Matches are distributed among these distances:
55 4 0.04
56 6 0.07
57 22 0.24
58 58 0.64
59 1 0.01
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (58 bp):
ATTATATATTAGTTTTATTAAATTATATTTAACAATAATTATATTAAAATTTGATTAA
Found at i:72672476 original size:16 final size:16
Alignment explanation
Indices: 72672455--72672509 Score: 76
Period size: 16 Copynumber: 3.4 Consensus size: 16
72672445 TAAATTACTG
*
72672455 ATTACAACTCTATTTC
1 ATTACAGCTCTATTTC
72672471 ATTACAGCTCTA-TTC
1 ATTACAGCTCTATTTC
*
72672486 AATTACAGCTCTATTCC
1 -ATTACAGCTCTATTTC
72672503 ATTACAG
1 ATTACAG
72672510 TGAACCAAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 3 0.09
16 30 0.86
17 2 0.06
ACGTcount: A:0.31, C:0.25, G:0.05, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTTC
Found at i:72674406 original size:41 final size:40
Alignment explanation
Indices: 72674345--72674426 Score: 119
Period size: 41 Copynumber: 2.0 Consensus size: 40
72674335 TTTCTCATAT
*
72674345 ACTCATATTTCGAATATTTTAGCTACACTCATCTTTTGTG
1 ACTCATATTTCGAATATTTTACCTACACTCATCTTTTGTG
* * *
72674385 ACTCGATATTTTGGATATTTTACCTACACTTATCTTTTGTG
1 ACTC-ATATTTCGAATATTTTACCTACACTCATCTTTTGTG
72674426 A
1 A
72674427 ACGTTTAAAC
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
40 4 0.11
41 33 0.89
ACGTcount: A:0.24, C:0.18, G:0.11, T:0.46
Consensus pattern (40 bp):
ACTCATATTTCGAATATTTTACCTACACTCATCTTTTGTG
Found at i:72678814 original size:30 final size:30
Alignment explanation
Indices: 72678780--72678840 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
72678770 GCATTTTATG
72678780 TTACAAACATAACAAAGCTACCATTTTTCA
1 TTACAAACATAACAAAGCTACCATTTTTCA
* * ** *
72678810 TTACAGACTTAACGGAGCTGCCATTTTTCA
1 TTACAAACATAACAAAGCTACCATTTTTCA
72678840 T
1 T
72678841 CCTCCTATCA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.34, C:0.23, G:0.10, T:0.33
Consensus pattern (30 bp):
TTACAAACATAACAAAGCTACCATTTTTCA
Found at i:72679637 original size:33 final size:33
Alignment explanation
Indices: 72679600--72679674 Score: 96
Period size: 33 Copynumber: 2.3 Consensus size: 33
72679590 GAAAGGGACG
* *
72679600 GAGGGAAATGGTTAGCAAAGGGACGATGGGGGA
1 GAGGGAAAGGGTTAGCAAAGGGACGATAGGGGA
** * *
72679633 GAGGGGGAGGGTTAGCAAAGGGATGGTAGGGGA
1 GAGGGAAAGGGTTAGCAAAGGGACGATAGGGGA
72679666 GAGGGAAAG
1 GAGGGAAAG
72679675 AGAATCAAGG
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.32, C:0.04, G:0.53, T:0.11
Consensus pattern (33 bp):
GAGGGAAAGGGTTAGCAAAGGGACGATAGGGGA
Found at i:72679797 original size:30 final size:30
Alignment explanation
Indices: 72679744--72679811 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
72679734 AGGGGGATAG
*
72679744 AAAATGG-ATGCTCTGTTAAGTCTATAACGA
1 AAAATGGTA-GCTCCGTTAAGTCTATAACGA
* * *
72679774 AAACTGGTAGCTCCGTTATGTCTATAATGA
1 AAAATGGTAGCTCCGTTAAGTCTATAACGA
72679804 AAAATGGT
1 AAAATGGT
72679812 TAGTGGTGAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 31 0.97
31 1 0.03
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (30 bp):
AAAATGGTAGCTCCGTTAAGTCTATAACGA
Found at i:72687487 original size:12 final size:12
Alignment explanation
Indices: 72687455--72687480 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
72687445 TTACTATTAG
72687455 CAATAGCAACAA
1 CAATAGCAACAA
72687467 CAATAGCAACAA
1 CAATAGCAACAA
72687479 CA
1 CA
72687481 GTGGCAATAT
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:0.58, C:0.27, G:0.08, T:0.08
Consensus pattern (12 bp):
CAATAGCAACAA
Found at i:72691504 original size:21 final size:21
Alignment explanation
Indices: 72691478--72691521 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
72691468 TTCATAAGTA
72691478 TGTACCCTCATATGATATCCT
1 TGTACCCTCATATGATATCCT
72691499 TGTACCCTCATATGATATCCT
1 TGTACCCTCATATGATATCCT
72691520 TG
1 TG
72691522 ATCTCTTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.27, G:0.11, T:0.39
Consensus pattern (21 bp):
TGTACCCTCATATGATATCCT
Found at i:72693573 original size:43 final size:43
Alignment explanation
Indices: 72693526--72693618 Score: 123
Period size: 43 Copynumber: 2.2 Consensus size: 43
72693516 TTGTTAGAAT
* *
72693526 TATGTGGACAAGCCACTAGTATTTGCAATCAAGCTGCCAAAAA
1 TATGTGGACAAGCCACTAATAATTGCAATCAAGCTGCCAAAAA
* * * *
72693569 TATGTGGACAAGTCACTAATAATTGTAGTCAAGCTGCCAGAAA
1 TATGTGGACAAGCCACTAATAATTGCAATCAAGCTGCCAAAAA
*
72693612 CATGTGG
1 TATGTGG
72693619 TTAAACCCCC
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (43 bp):
TATGTGGACAAGCCACTAATAATTGCAATCAAGCTGCCAAAAA
Found at i:72695930 original size:43 final size:42
Alignment explanation
Indices: 72695839--72695946 Score: 155
Period size: 43 Copynumber: 2.5 Consensus size: 42
72695829 GATTAACGAG
* *
72695839 ATGTGATTACATGTAAGACCATGTTTGGGACATTGGCATTGT
1 ATGTGATTACGTGTAAGACCATGTTTGGGACATTGGCATCGT
72695881 ATTGTGATTACGTGTAAGACCATGTTTGGGACATTGGCATCGTT
1 A-TGTGATTACGTGTAAGACCATGTTTGGGACATTGGCATCG-T
*
72695925 ATGTGAATT-TGTGTAAGACCAT
1 ATGTG-ATTACGTGTAAGACCAT
72695947 AGCTAGGCTA
Statistics
Matches: 60, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
42 1 0.02
43 54 0.90
44 5 0.08
ACGTcount: A:0.26, C:0.12, G:0.26, T:0.36
Consensus pattern (42 bp):
ATGTGATTACGTGTAAGACCATGTTTGGGACATTGGCATCGT
Found at i:72703194 original size:43 final size:43
Alignment explanation
Indices: 72703145--72703252 Score: 162
Period size: 43 Copynumber: 2.5 Consensus size: 43
72703135 GATTAACAAG
** *
72703145 ATGTGATTAAATGTAAGACCATGTATGGGACATTGGCATTGTT
1 ATGTGATTACGTGTAAGACCATGTATGGGACATTGGCATCGTT
* *
72703188 TTGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTT
1 ATGTGATTACGTGTAAGACCATGTATGGGACATTGGCATCGTT
*
72703231 ATGTGATTTCGTGTAAGACCAT
1 ATGTGATTACGTGTAAGACCAT
72703253 AGCTAGGTTA
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.35
Consensus pattern (43 bp):
ATGTGATTACGTGTAAGACCATGTATGGGACATTGGCATCGTT
Found at i:72703266 original size:43 final size:43
Alignment explanation
Indices: 72703145--72703271 Score: 148
Period size: 43 Copynumber: 3.0 Consensus size: 43
72703135 GATTAACAAG
** * * *
72703145 ATGTGATTAAATGTAAGACCATGTATGGGACATTGGCATTGTT
1 ATGTGATTACGTGTAAGACCATGTCTAGGACATTGGCATCGTT
* *
72703188 TTGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTT
1 ATGTGATTACGTGTAAGACCATGTCTAGGACATTGGCATCGTT
* **
72703231 ATGTGATTTCGTGTAAGACCATAG-CTAGGTTATTGGCATCG
1 ATGTGATTACGTGTAAGACCAT-GTCTAGGACATTGGCATCG
72703272 ATATAAGATA
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
43 72 0.99
44 1 0.01
ACGTcount: A:0.25, C:0.13, G:0.27, T:0.35
Consensus pattern (43 bp):
ATGTGATTACGTGTAAGACCATGTCTAGGACATTGGCATCGTT
Found at i:72706748 original size:46 final size:46
Alignment explanation
Indices: 72706681--72707000 Score: 426
Period size: 46 Copynumber: 7.0 Consensus size: 46
72706671 AGGGTACTCT
**
72706681 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
**
72706727 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
*
72706773 CTGATATGAAATGAATAAGACCATCGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* *** *
72706819 ATGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
72706865 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
72706911 GTGACACGAAATGAATAAGACCATGGTTGAAAGATTCCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
72706957 ATGATA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCA
72707001 TCATGTCAAA
Statistics
Matches: 251, Mismatches: 22, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.00
46 250 1.00
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:72707307 original size:16 final size:17
Alignment explanation
Indices: 72707286--72707318 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
72707276 ATGATGGTGC
72707286 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
72707302 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
72707319 TACTTATGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:72725546 original size:50 final size:49
Alignment explanation
Indices: 72725441--72725613 Score: 180
Period size: 49 Copynumber: 3.6 Consensus size: 49
72725431 TAAGCCAGTA
* *
72725441 TAAGA-CATGTCTGGGACAT-GCATCGGC-TACG-AGATGTG-TC-AGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCAT-CGAAGATGAGAGCTAGTG
* * *
72725485 TAAGACCATGTCTGGGACATGGCATCGTCATGGTTATG-TGAGAGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCATCG--AAGATGAGAGCTAGTG
* * * *
72725535 TAGGACCATGTCTGGGACATGGCATAGGCCTCGAAGATGATAGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCATCGAAGATGAGAGCTAGTG
*
72725584 TAAGACCATGTCTAGGACATGGCATCGGCA
1 TAAGACCATGTCTGGGACATGGCATCGGCA
72725614 CTTTACCCAT
Statistics
Matches: 104, Mismatches: 16, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
44 5 0.05
45 14 0.13
46 8 0.08
47 1 0.01
48 5 0.05
49 39 0.38
50 32 0.31
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.24
Consensus pattern (49 bp):
TAAGACCATGTCTGGGACATGGCATCGGCATCGAAGATGAGAGCTAGTG
Found at i:72744165 original size:25 final size:24
Alignment explanation
Indices: 72744131--72744179 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 24
72744121 ATTTTTGTAA
*
72744131 TTATTTTGGGTTTATGTTAATATTT
1 TTATTTTGGGTTTATCTT-ATATTT
72744156 TTATTTTGGGTTTATCTTATATTT
1 TTATTTTGGGTTTATCTTATATTT
72744180 CTCGTTGGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 6 0.26
25 17 0.74
ACGTcount: A:0.18, C:0.02, G:0.14, T:0.65
Consensus pattern (24 bp):
TTATTTTGGGTTTATCTTATATTT
Found at i:72747101 original size:40 final size:40
Alignment explanation
Indices: 72747057--72747141 Score: 154
Period size: 40 Copynumber: 2.1 Consensus size: 40
72747047 TTCATATGCC
72747057 ATAGACATGGACTTACTTACACATATATGGCTCAAAGCCT
1 ATAGACATGGACTTACTTACACATATATGGCTCAAAGCCT
*
72747097 ATAGACATGGGCTTACTTACACATATATGGCTCAAAGCCT
1 ATAGACATGGACTTACTTACACATATATGGCTCAAAGCCT
72747137 -TAGAC
1 ATAGAC
72747142 TCCGTAGAGT
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
39 5 0.11
40 39 0.89
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.27
Consensus pattern (40 bp):
ATAGACATGGACTTACTTACACATATATGGCTCAAAGCCT
Found at i:72749284 original size:21 final size:19
Alignment explanation
Indices: 72749239--72749280 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
72749229 GTAGAGAAAG
72749239 AGAAT-GAAAAGAAAAAAT
1 AGAATGGAAAAGAAAAAAT
72749257 AGAATGGAAAAGGAAAAAA-
1 AGAATGGAAAA-GAAAAAAT
72749276 AGAAT
1 AGAAT
72749281 ATGGCAAGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 5 0.23
19 10 0.45
20 7 0.32
ACGTcount: A:0.69, C:0.00, G:0.21, T:0.10
Consensus pattern (19 bp):
AGAATGGAAAAGAAAAAAT
Found at i:72757966 original size:69 final size:69
Alignment explanation
Indices: 72757855--72757993 Score: 269
Period size: 69 Copynumber: 2.0 Consensus size: 69
72757845 CAAGACTCTA
*
72757855 TCAGCCCTACCACCACTACAAAACCTGCTGAAAATCCTACAGCCACTGTTATTCCTGTTTTGGAA
1 TCAGCCCTACCACAACTACAAAACCTGCTGAAAATCCTACAGCCACTGTTATTCCTGTTTTGGAA
72757920 CCTG
66 CCTG
72757924 TCAGCCCTACCACAACTACAAAACCTGCTGAAAATCCTACAGCCACTGTTATTCCTGTTTTGGAA
1 TCAGCCCTACCACAACTACAAAACCTGCTGAAAATCCTACAGCCACTGTTATTCCTGTTTTGGAA
72757989 CCTG
66 CCTG
72757993 T
1 T
72757994 TTTTCCTATC
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.28, C:0.32, G:0.13, T:0.27
Consensus pattern (69 bp):
TCAGCCCTACCACAACTACAAAACCTGCTGAAAATCCTACAGCCACTGTTATTCCTGTTTTGGAA
CCTG
Found at i:72772916 original size:22 final size:22
Alignment explanation
Indices: 72772891--72772974 Score: 105
Period size: 22 Copynumber: 3.8 Consensus size: 22
72772881 AGGATAGCTT
* *
72772891 AACGCCGTAGACAGGAGGACTC
1 AACGTCGTAGACAGGACGACTC
**
72772913 AACGTCGTAGACAGGATAACTC
1 AACGTCGTAGACAGGACGACTC
* *
72772935 AATGTCGTAGACAGGACGAGTC
1 AACGTCGTAGACAGGACGACTC
*
72772957 AACATCGTAGACAGGACG
1 AACGTCGTAGACAGGACG
72772975 GCTAAAGGCT
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 53 1.00
ACGTcount: A:0.35, C:0.23, G:0.29, T:0.14
Consensus pattern (22 bp):
AACGTCGTAGACAGGACGACTC
Found at i:72781939 original size:109 final size:109
Alignment explanation
Indices: 72781744--72781966 Score: 347
Period size: 109 Copynumber: 2.0 Consensus size: 109
72781734 GTACACAGGT
*** * * *
72781744 GTGTGGTTGGCCATGTGACCTAAGTCAGAGAGTTACACGGGGTAGGACACGGGCTGAGACATGGC
1 GTGTGGTTGGCCATGTGACCTAAGTCAGAGAGTTACAAAAGCTAGGACACGGGATGAGACACGGC
*
72781809 CATGTGATTCCATTTCTAATGTCCACACGGCCTGTGACACGGGC
66 CATGTGATTCCATTTCGAATGTCCACACGGCCTGTGACACGGGC
* * *
72781853 GTGTGGTTGGCCATGTGACCTAAGTTAGAGAGTTACAAAAGCTGGGACACGGGATGGGACACGGC
1 GTGTGGTTGGCCATGTGACCTAAGTCAGAGAGTTACAAAAGCTAGGACACGGGATGAGACACGGC
*
72781918 CATGTGATTCCATTTCGAATGTCCACACGGCCTGTGACACTGGC
66 CATGTGATTCCATTTCGAATGTCCACACGGCCTGTGACACGGGC
72781962 GTGTG
1 GTGTG
72781967 TCCCCTGTAC
Statistics
Matches: 103, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
109 103 1.00
ACGTcount: A:0.22, C:0.22, G:0.32, T:0.23
Consensus pattern (109 bp):
GTGTGGTTGGCCATGTGACCTAAGTCAGAGAGTTACAAAAGCTAGGACACGGGATGAGACACGGC
CATGTGATTCCATTTCGAATGTCCACACGGCCTGTGACACGGGC
Found at i:72783486 original size:70 final size:70
Alignment explanation
Indices: 72783372--72783703 Score: 371
Period size: 70 Copynumber: 4.7 Consensus size: 70
72783362 TCTAAAGATT
* * * * * *
72783372 GTAGGTTTAATACCGCAACCTCCAAACAGTTAGCTAGTGATAAAAGCTCCCAATTGTCACTCTAA
1 GTAGGTTTAATACTGCAGCCTCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAATTGTCACTCTAA
*
72783437 GGTTC
66 GGCTC
* * *
72783442 GTAGATTTGATACTGCAGCCTCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAATTGTCAATCTAA
1 GTAGGTTTAATACTGCAGCCTCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAATTGTCACTCTAA
72783507 GGCTC
66 GGCTC
* * * * * * * *
72783512 GTAGGTTTAATATTGC-GACCTTCAAATAATTAGCAAGAGTTAAAAGCTCCTAAGTATCACTCCA
1 GTAGGTTTAATACTGCAG-CCTCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAATTGTCACTCTA
72783576 AGGCTC
65 AGGCTC
* * * * * * * *
72783582 ATAGGTTTAGTACTTCAGCCTCTAAATAGTTAGCGAGAGTTAAAAGCTCCCAGTTGTTATTTTCA
1 GTAGGTTTAATACTGCAGCCTCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAATTGTCACTCT-A
72783647 A-GCTC
65 AGGCTC
* **
72783652 GTAGGTTTAATACTGCAGCTTTTAAATAGTTAGCGAGAGTTAAAAGCTCCCA
1 GTAGGTTTAATACTGCAGCCTCCAAATAGTTAGCGAGAGTTAAAAGCTCCCA
72783704 GCTGTTATTT
Statistics
Matches: 217, Mismatches: 42, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
69 1 0.00
70 213 0.98
71 3 0.01
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.30
Consensus pattern (70 bp):
GTAGGTTTAATACTGCAGCCTCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAATTGTCACTCTAA
GGCTC
Found at i:72783998 original size:19 final size:19
Alignment explanation
Indices: 72783950--72784001 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
72783940 TTTTCTTAGG
*
72783950 TCTAAAATTTTGC-TTGAGT
1 TCTAAAA-TTTGCTTTCAGT
*
72783969 T-TGAAAGTTTGCTTTCAGT
1 TCT-AAAATTTGCTTTCAGT
72783988 TCTAAAATTTGCTT
1 TCTAAAATTTGCTT
72784002 AAGTCAAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
18 6 0.22
19 20 0.74
20 1 0.04
ACGTcount: A:0.25, C:0.12, G:0.15, T:0.48
Consensus pattern (19 bp):
TCTAAAATTTGCTTTCAGT
Found at i:72788124 original size:43 final size:40
Alignment explanation
Indices: 72788034--72788145 Score: 100
Period size: 43 Copynumber: 2.6 Consensus size: 40
72788024 AATTACATGT
* **
72788034 AAGACCATGTCTGTGACATTGGCATTGTATTAAGATTACGTGT
1 AAGACCATGTCTG-GACATTGGCA-T-CATTAAGATTACGTAC
*
72788077 AAGACCATGTCTAGGACATTGGCATCATTAATCGATTTCGTAC
1 AAGACCATGTCT-GGACATTGGCATCATTAA--GATTACGTAC
*
72788120 AAGA-CACTGTCTGGGACAGTGGCATC
1 AAGACCA-TGTCT-GGACATTGGCATC
72788146 GATATGTGAT
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
41 5 0.08
42 3 0.05
43 50 0.85
44 1 0.02
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (40 bp):
AAGACCATGTCTGGACATTGGCATCATTAAGATTACGTAC
Found at i:72789941 original size:21 final size:20
Alignment explanation
Indices: 72789914--72789956 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
72789904 TCCTAGGAAT
* *
72789914 AGTGGGTTCAAGTCATGAAC
1 AGTGGGGTCAAATCATGAAC
72789934 AGTGGGGTCAAATCATGAAC
1 AGTGGGGTCAAATCATGAAC
72789954 AGT
1 AGT
72789957 AACAATAAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.14, G:0.30, T:0.23
Consensus pattern (20 bp):
AGTGGGGTCAAATCATGAAC
Found at i:72796426 original size:56 final size:57
Alignment explanation
Indices: 72796304--72796445 Score: 187
Period size: 57 Copynumber: 2.5 Consensus size: 57
72796294 TGCAAGCAAC
* * * * *
72796304 TTTATACTTGAGAAAATTTGAAAGATAACCAACTAGGGATGTGGATCCGCAAGTTGT
1 TTTATACTTAAGAAAATTTGAAAGATAAACAACTAGGGATGTGAAACCACAAGTTGT
* * **
72796361 TTCATACTTAAGAAAATTTGAAAGATAAAC-AGTTTGGATGTGAAACCACAAGTTGT
1 TTTATACTTAAGAAAATTTGAAAGATAAACAACTAGGGATGTGAAACCACAAGTTGT
72796417 TTTATACTTAAGAAAATTTTGAAAGATAA
1 TTTATACTTAAGAAAA-TTTGAAAGATAA
72796446 CATAGTTGGG
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
56 35 0.47
57 39 0.53
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.32
Consensus pattern (57 bp):
TTTATACTTAAGAAAATTTGAAAGATAAACAACTAGGGATGTGAAACCACAAGTTGT
Found at i:72796544 original size:69 final size:68
Alignment explanation
Indices: 72796465--72796796 Score: 294
Period size: 69 Copynumber: 4.8 Consensus size: 68
72796455 GAGTTTTCAA
* * * * *
72796465 CTCTCGCTAACTATGTTGGAGGTTGTAGTCTTTATCCTGCGAGCCTTAGTAGGACAGTTGGGAGC
1 CTCTCACTAACTGTGTTGGAGG-TGTAGTCTTTATCCTGCGAGCCTTAATATGACAGCTGGGAGC
72796530 TTTG
65 TTTG
* * * * * * * *
72796534 CTCTCACTAACTATGTTGGAAGTTGCAGTTTTTATCCTGTGATCCTTAGTATGATAGCTGGGAGC
1 CTCTCACTAACTGTGTTGG-AGGTGTAGTCTTTATCCTGCGAGCCTTAATATGACAGCTGGGAGC
72796599 TTTG
65 TTTG
* ** * *
72796603 CTCTCACTAATTGTGTTGGA-GACTACGAT-TTTAATCCTGTGAGCCTTAATATGACAGTTGGGA
1 CTCTCACTAACTGTGTTGGAGGTGTA-G-TCTTT-ATCCTGCGAGCCTTAATATGACAGCTGGGA
72796666 GCTTTG
63 GCTTTG
** * * * * *
72796672 CTCTTGCTAATTGTGTTGGAGG-CTACGACTTT-TCACTTGCAAGCCTTAATATGACACCTGGGA
1 CTCTCACTAACTGTGTTGGAGGTGTA-GTCTTTATC-C-TGCGAGCCTTAATATGACAGCTGGGA
72796735 GCTTTG
63 GCTTTG
* * * *
72796741 CTCTCACTAACTGTGTTAGAGGCTGCAGTTTTTATCTTGCGAGCCTTAATATGACA
1 CTCTCACTAACTGTGTTGGAGG-TGTAGTCTTTATCCTGCGAGCCTTAATATGACA
72796797 TAAATGTTGT
Statistics
Matches: 216, Mismatches: 36, Indels: 22
0.79 0.13 0.08
Matches are distributed among these distances:
67 3 0.01
68 6 0.03
69 197 0.91
70 7 0.03
71 3 0.01
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (68 bp):
CTCTCACTAACTGTGTTGGAGGTGTAGTCTTTATCCTGCGAGCCTTAATATGACAGCTGGGAGCT
TTG
Found at i:72801342 original size:46 final size:45
Alignment explanation
Indices: 72801289--72801464 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 45
72801279 TATTTGGGCA
*
72801289 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
72801335 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
72801382 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * **
72801428 CCCGAGCTTATTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
72801465 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 65 0.61
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:72801444 original size:93 final size:93
Alignment explanation
Indices: 72801285--72801456 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
72801275 AGGATATTTG
* * *
72801285 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
72801350 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
72801378 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTTATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
72801443 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
72801457 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:72803483 original size:15 final size:16
Alignment explanation
Indices: 72803463--72803492 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
72803453 ATTTTTATAG
72803463 TTATTTTTA-TTTTAA
1 TTATTTTTACTTTTAA
72803478 TTATTTTTACTTTTA
1 TTATTTTTACTTTTA
72803493 TCATATTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (16 bp):
TTATTTTTACTTTTAA
Found at i:72806243 original size:21 final size:19
Alignment explanation
Indices: 72806216--72806264 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
72806206 GGGTTCAAAT
72806216 CTTTTTTGTTCTTCTATACTC
1 CTTTTTTGTTC-TCTAT-CTC
* * *
72806237 TTTTTTTTTTCTCTCTCTC
1 CTTTTTTGTTCTCTATCTC
72806256 CTTTTTTGT
1 CTTTTTTGT
72806265 GTCCTTTTTA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 10 0.43
20 4 0.17
21 9 0.39
ACGTcount: A:0.04, C:0.22, G:0.04, T:0.69
Consensus pattern (19 bp):
CTTTTTTGTTCTCTATCTC
Found at i:72820479 original size:36 final size:36
Alignment explanation
Indices: 72820439--72820511 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
72820429 AATACATAGA
72820439 AAACTTTGAATAAAGTTGCTCATATTTGACATATTT
1 AAACTTTGAATAAAGTTGCTCATATTTGACATATTT
72820475 AAACTTTGAATAAAGTTGCTCATATTTGACATATTT
1 AAACTTTGAATAAAGTTGCTCATATTTGACATATTT
72820511 A
1 A
72820512 TATTTAACAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (36 bp):
AAACTTTGAATAAAGTTGCTCATATTTGACATATTT
Found at i:72823510 original size:32 final size:32
Alignment explanation
Indices: 72823469--72823531 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
72823459 GAGGGGGATG
72823469 GTGTCCTAGTTCAGAAACAGAGTCGAAGCTCA
1 GTGTCCTAGTTCAGAAACAGAGTCGAAGCTCA
*
72823501 GTGTTCTAGTTCAGAAACAGAGTCGAAGCTC
1 GTGTCCTAGTTCAGAAACAGAGTCGAAGCTC
72823532 TCAAAATAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (32 bp):
GTGTCCTAGTTCAGAAACAGAGTCGAAGCTCA
Found at i:72831863 original size:79 final size:82
Alignment explanation
Indices: 72831719--72831936 Score: 229
Period size: 79 Copynumber: 2.7 Consensus size: 82
72831709 AAATCACGTA
* * ** * *
72831719 CCTTCGGAAT-TTAA-CCGGATATAG-CTACTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTA
1 CCTTCGG-ATCTTAACCCGGATATAGTCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATA
72831780 TAGTAACTCGCACAAATG
65 TAGTAACTCGCACAAATG
* *
72831798 CCTTCGGGA-CTTAACCCGGATTTAGT-AACTCGCACAAATGCCTTCGGG-CTTAGCCCGGAAT-
1 CCTTC-GGATCTTAACCCGGATATAGTCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATA
*
72831859 TAGTATCTCGCACAAATG
65 TAGTAACTCGCACAAATG
** * **
72831877 CCTTCGGATCTTAGTCCGGATATGGTCATTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 CCTTCGGATCTTAACCCGGATATAGTCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGA
72831937 CATCATTCAA
Statistics
Matches: 117, Mismatches: 14, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
78 3 0.03
79 63 0.54
80 51 0.44
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (82 bp):
CCTTCGGATCTTAACCCGGATATAGTCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATAT
AGTAACTCGCACAAATG
Found at i:72831936 original size:40 final size:40
Alignment explanation
Indices: 72831733--72831936 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
72831723 CGGAATTTAA
** *
72831733 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
72831773 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
72831813 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
72831852 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* ** *
72831892 CCGGATATGGTCATTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGT-AACTCGCACAAATGCCTTCGGGACTTAGC
72831932 CCGGA
1 CCGGA
72831937 CATCATTCAA
Statistics
Matches: 142, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 93 0.65
41 14 0.10
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:72839761 original size:40 final size:40
Alignment explanation
Indices: 72839679--72839862 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
72839669 GCTACTCGTT
*
72839679 CAAATGCCTTCGGGACATAG-CCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
72839718 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
72839758 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
72839797 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
72839838 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
72839863 CATCATTCAA
Statistics
Matches: 126, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
38 2 0.02
39 51 0.40
40 60 0.48
41 13 0.10
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:72839789 original size:79 final size:82
Alignment explanation
Indices: 72839679--72839862 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
72839669 GCTACTCGTT
* *
72839679 CAAATGCCTTCGGGACATAG-CCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
72839741 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
72839758 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
72839821 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
72839838 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
72839863 CATCATTCAA
Statistics
Matches: 91, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
78 7 0.08
79 64 0.70
80 20 0.22
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:72843615 original size:42 final size:42
Alignment explanation
Indices: 72843568--72843806 Score: 185
Period size: 42 Copynumber: 5.6 Consensus size: 42
72843558 AATTATGTGT
* *
72843568 AAGACCATGTCTGGGACATTGACATCGTATCTGTTTTCGTAA
1 AAGACCATGTCTGGGACATAGGCATCGTATCTGTTTTCGTAA
* * * * * **
72843610 AAGACCCTGTCTGGGACAGAGGCAACG-ATACTGAATTACGTGT
1 AAGACCATGTCTGGGACATAGGCATCGTAT-CTG-TTTTCGTAA
* * * *
72843653 AAGACCATGTCTGGGACATCGACATAGTATCTATTTTCGTAA
1 AAGACCATGTCTGGGACATAGGCATCGTATCTGTTTTCGTAA
* * * * * **
72843695 AAGACCCTGTCTGGGACAGAGGCAACG-ATACTGAATTACGTGT
1 AAGACCATGTCTGGGACATAGGCATCGTAT-CTG-TTTTCGTAA
* * * *
72843738 AAGACCATGTCTGGAACATCGGCATCGTATTTGTTTTTGTAA
1 AAGACCATGTCTGGGACATAGGCATCGTATCTGTTTTCGTAA
* * *
72843780 AAGACCCTATCTGGGACAGAGGCATCG
1 AAGACCATGTCTGGGACATAGGCATCG
72843807 ATACTGAATT
Statistics
Matches: 144, Mismatches: 47, Indels: 12
0.71 0.23 0.06
Matches are distributed among these distances:
41 4 0.03
42 79 0.55
43 57 0.40
44 4 0.03
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (42 bp):
AAGACCATGTCTGGGACATAGGCATCGTATCTGTTTTCGTAA
Found at i:72843847 original size:85 final size:85
Alignment explanation
Indices: 72843555--72843839 Score: 453
Period size: 85 Copynumber: 3.4 Consensus size: 85
72843545 TGGTATTGAT
* *
72843555 CTGAATTATGTGTAAGACCATGTCTGGGACATTGACATCGTATCTGTTTTCGTAAAAGACCCTGT
1 CTGAATTACGTGTAAGACCATGTCTGGGACATCGACATCGTATCTGTTTTCGTAAAAGACCCTGT
72843620 CTGGGACAGAGGCAACGATA
66 CTGGGACAGAGGCAACGATA
* *
72843640 CTGAATTACGTGTAAGACCATGTCTGGGACATCGACATAGTATCTATTTTCGTAAAAGACCCTGT
1 CTGAATTACGTGTAAGACCATGTCTGGGACATCGACATCGTATCTGTTTTCGTAAAAGACCCTGT
72843705 CTGGGACAGAGGCAACGATA
66 CTGGGACAGAGGCAACGATA
* * * * *
72843725 CTGAATTACGTGTAAGACCATGTCTGGAACATCGGCATCGTATTTGTTTTTGTAAAAGACCCTAT
1 CTGAATTACGTGTAAGACCATGTCTGGGACATCGACATCGTATCTGTTTTCGTAAAAGACCCTGT
*
72843790 CTGGGACAGAGGCATCGATA
66 CTGGGACAGAGGCAACGATA
** *
72843810 CTGAATTATATGTAAGACCACGTCTGGGAC
1 CTGAATTACGTGTAAGACCATGTCTGGGAC
72843840 GTCGGCATTG
Statistics
Matches: 184, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
85 184 1.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (85 bp):
CTGAATTACGTGTAAGACCATGTCTGGGACATCGACATCGTATCTGTTTTCGTAAAAGACCCTGT
CTGGGACAGAGGCAACGATA
Found at i:72844377 original size:12 final size:13
Alignment explanation
Indices: 72844360--72844391 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
72844350 GCAAATGTTA
72844360 AGTTTTG-TGCAT
1 AGTTTTGATGCAT
72844372 AGTTTTGATGCAT
1 AGTTTTGATGCAT
72844385 -GTTTTGA
1 AGTTTTGA
72844392 AATGTGTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.19, C:0.06, G:0.25, T:0.50
Consensus pattern (13 bp):
AGTTTTGATGCAT
Found at i:72845247 original size:49 final size:49
Alignment explanation
Indices: 72845190--72845305 Score: 135
Period size: 49 Copynumber: 2.4 Consensus size: 49
72845180 GTCGATGTCG
**
72845190 TGTCCCAGACAGGTCTTACACTGACTTTCATATATCGCG-GCCGATGCCA
1 TGTCCCAGACAGGTCTTACACTGACTCCCATATATCG-GTGCCGATGCCA
* * * * * * *
72845239 TTTCCCAGATAGGTTTTACATTGGCTCCCATTTATCGGTGTCGATGCCA
1 TGTCCCAGACAGGTCTTACACTGACTCCCATATATCGGTGCCGATGCCA
72845288 TGTCCCAGACAGGTCTTA
1 TGTCCCAGACAGGTCTTA
72845306 TACTAGCTTG
Statistics
Matches: 54, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
48 1 0.02
49 53 0.98
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.31
Consensus pattern (49 bp):
TGTCCCAGACAGGTCTTACACTGACTCCCATATATCGGTGCCGATGCCA
Found at i:72845334 original size:98 final size:94
Alignment explanation
Indices: 72845180--72845407 Score: 228
Period size: 98 Copynumber: 2.4 Consensus size: 94
72845170 GCACATTAAA
* * * *
72845180 GTCGATGTCGTGTCCCAGACAGGTCTTACACT-GACTTTCATATATCGCGGCCGATGCCATTTCC
1 GTCGATG-CATGTCCCAGACAGGTCTTACACTAG-CTTTCATATACCGAGGCCGATG-CATGTCC
* * * * *
72845244 CAGATAGGTTTTACATTGGCTCCCATTTATCG-G
63 CAGACAGGTCTTACAGTGGCACCCA-TGAT-GTG
* * *
72845277 TGTCGATGCCATGTCCCAGACAGGTCTTATACTAGCTTGT-ATATCCCGAGGCTGATGCATGTCC
1 -GTCGATG-CATGTCCCAGACAGGTCTTACACTAGCTT-TCATATACCGAGGCCGATGCATGTCC
*
72845341 CAGACATGTCTTACAGTGGCACCCATGATGTG
63 CAGACAGGTCTTACAGTGGCACCCATGATGTG
* *
72845373 GTCGATGCATGTCCTAGACATGTCTTACACTAGCT
1 GTCGATGCATGTCCCAGACAGGTCTTACACTAGCT
72845408 CACATACCAC
Statistics
Matches: 110, Mismatches: 17, Indels: 10
0.80 0.12 0.07
Matches are distributed among these distances:
94 25 0.23
95 8 0.07
96 4 0.04
97 26 0.24
98 45 0.41
99 2 0.02
ACGTcount: A:0.21, C:0.26, G:0.22, T:0.30
Consensus pattern (94 bp):
GTCGATGCATGTCCCAGACAGGTCTTACACTAGCTTTCATATACCGAGGCCGATGCATGTCCCAG
ACAGGTCTTACAGTGGCACCCATGATGTG
Found at i:72850255 original size:29 final size:29
Alignment explanation
Indices: 72850192--72850265 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 29
72850182 GTTGTGAGAT
* *
72850192 TGGCACTAGGTGTGCGAAATTGAAATGCA
1 TGGCACTAAGTGTGCGAAATTGAAATACA
* * *
72850221 TAGCACTAAGTGTGCG-AGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAAATTGAAA-TACA
*
72850250 TGGCACTAAGCGTGCG
1 TGGCACTAAGTGTGCG
72850266 CGGTTGATTA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
28 6 0.16
29 31 0.84
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAAATTGAAATACA
Found at i:72852144 original size:27 final size:28
Alignment explanation
Indices: 72852060--72852154 Score: 122
Period size: 27 Copynumber: 3.4 Consensus size: 28
72852050 CATGAGATTG
* * *
72852060 GCACTAAGTGTGCGGGTTTAAATTGT-TCA
1 GCACTAAGTGTGCGAGTTT-GATTATAT-A
72852089 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
72852117 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
72852144 GCACTGAGTGT
1 GCACTAAGTGT
72852155 ACGGACTTAA
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
27 21 0.34
28 21 0.34
29 19 0.31
ACGTcount: A:0.26, C:0.13, G:0.27, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:72852171 original size:29 final size:27
Alignment explanation
Indices: 72852088--72852172 Score: 80
Period size: 27 Copynumber: 3.0 Consensus size: 27
72852078 TAAATTGTTC
* * *
72852088 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTACGA-CTTAATTATAT
* * *
72852116 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTACGACTTAATTATAT
*
72852143 AGCACTGAGTGTACGGACTTAATATATAT
1 AGCACTAAGTGTAC-GACTTAAT-TATAT
72852172 A
1 A
72852173 TTTTGAATCA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
27 22 0.44
28 22 0.44
29 6 0.12
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTACGACTTAATTATAT
Found at i:72864422 original size:32 final size:31
Alignment explanation
Indices: 72864375--72864462 Score: 95
Period size: 32 Copynumber: 2.7 Consensus size: 31
72864365 TGATATTGAA
* * *
72864375 ATGGGCTAGGCCCAACTAATACTGGTTCTGAT
1 ATGGGCTA-GCCCAACTAATACTGATTATGAG
*
72864407 ATGGGCTAGCTCCAACTAATATTGATTATGAG
1 ATGGGCTAGC-CCAACTAATACTGATTATGAG
* *
72864439 ATGGGCTAGGCCCAATTAAGACTG
1 ATGGGCTA-GCCCAACTAATACTG
72864463 TGTTGGGTTG
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
31 2 0.04
32 43 0.91
33 2 0.04
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.27
Consensus pattern (31 bp):
ATGGGCTAGCCCAACTAATACTGATTATGAG
Found at i:72866315 original size:15 final size:14
Alignment explanation
Indices: 72866290--72866347 Score: 62
Period size: 15 Copynumber: 3.9 Consensus size: 14
72866280 AGAATTCAAG
*
72866290 ATAAGGAAATCCATA
1 ATAAAGAAATCCA-A
*
72866305 ATAGAGAAATCCAGA
1 ATAAAGAAATCCA-A
*
72866320 ATATAGAAATCCAA
1 ATAAAGAAATCCAA
72866334 CATAAAGAAATCCA
1 -ATAAAGAAATCCA
72866348 GAAGAAAATA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
14 1 0.03
15 36 0.97
ACGTcount: A:0.55, C:0.16, G:0.12, T:0.17
Consensus pattern (14 bp):
ATAAAGAAATCCAA
Found at i:72878889 original size:30 final size:29
Alignment explanation
Indices: 72878855--72878914 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 29
72878845 TTCCCGAGCC
*
72878855 TAGGGGCAAAAGTGTAAATATGTAAAAGTT
1 TAGGGGCAAAAGTGT-AATATGAAAAAGTT
* *
72878885 TAGGGGCAAAATTGTAATTTGAAAAAGTT
1 TAGGGGCAAAAGTGTAATATGAAAAAGTT
72878914 T
1 T
72878915 GATTTAAGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 13 0.48
30 14 0.52
ACGTcount: A:0.42, C:0.03, G:0.25, T:0.30
Consensus pattern (29 bp):
TAGGGGCAAAAGTGTAATATGAAAAAGTT
Found at i:72882968 original size:28 final size:28
Alignment explanation
Indices: 72882936--72882993 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
72882926 AATATTGATG
* *
72882936 AGAAAAAGAAAGCCATTGAAGCTTCTTT
1 AGAAAAACAAAGCCATTGAAGCTTCCTT
72882964 AGAAAAACAAAGCCATTGAAGCTTCCTT
1 AGAAAAACAAAGCCATTGAAGCTTCCTT
72882992 AG
1 AG
72882994 TTTTGGCACT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.22
Consensus pattern (28 bp):
AGAAAAACAAAGCCATTGAAGCTTCCTT
Found at i:72885164 original size:13 final size:13
Alignment explanation
Indices: 72885148--72885173 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
72885138 ATATGTTTTA
72885148 TGATTGTTTTGGT
1 TGATTGTTTTGGT
72885161 TGATTGTTTTGGT
1 TGATTGTTTTGGT
72885174 ATGGGTTCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.00, G:0.31, T:0.62
Consensus pattern (13 bp):
TGATTGTTTTGGT
Found at i:72893824 original size:40 final size:40
Alignment explanation
Indices: 72893769--72893850 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
72893759 CTTATGTTTT
72893769 ATGACATGCTGATCATTTTTCCCTTCTATAGCAACATCAA
1 ATGACATGCTGATCATTTTTCCCTTCTATAGCAACATCAA
72893809 ATGACATGCTGATCATTTTTCCCTTCTATAGCAACATCAA
1 ATGACATGCTGATCATTTTTCCCTTCTATAGCAACATCAA
72893849 AT
1 AT
72893851 TCACACTCTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.30, C:0.24, G:0.10, T:0.35
Consensus pattern (40 bp):
ATGACATGCTGATCATTTTTCCCTTCTATAGCAACATCAA
Found at i:72895521 original size:24 final size:25
Alignment explanation
Indices: 72895494--72895545 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
72895484 GCCTAGCCTC
72895494 TTTTAAT-AACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
*
72895518 TTTTGATAAACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
72895543 TTT
1 TTT
72895546 AGCACTTCCT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 6 0.23
25 20 0.77
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (25 bp):
TTTTAATAAACTGGGGCAAAGCCCT
Found at i:72897684 original size:37 final size:37
Alignment explanation
Indices: 72897634--72897709 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
72897624 TGATTTGGGT
*
72897634 TAGTTTTAATAGATAGTTAAAAATGTCAAGTTGTTGC
1 TAGTTTTAATAGATAGTTAAAAAAGTCAAGTTGTTGC
72897671 TAGTTTTAATAGATAGTTAAAAAAGTCAAGTTGTTGC
1 TAGTTTTAATAGATAGTTAAAAAAGTCAAGTTGTTGC
72897708 TA
1 TA
72897710 ATATCAATAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.37, C:0.05, G:0.18, T:0.39
Consensus pattern (37 bp):
TAGTTTTAATAGATAGTTAAAAAAGTCAAGTTGTTGC
Found at i:72903896 original size:46 final size:46
Alignment explanation
Indices: 72903807--72904019 Score: 169
Period size: 46 Copynumber: 4.5 Consensus size: 46
72903797 TATGTGTGCT
* * ***
72903807 AGTGTAAGACATGTTTGGGACATGCATCGGCCA-C-ATTTTGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GACATCGA-GAAGAGAGCC
* * *
72903853 AATGTAAGACATGTCTGGGACATGCATCGACATTGAGAAGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGACATCGAGAAGAGAGCC
* * * * * * *
72903899 AGTGTAAGACATGTTTGGGACAAGCATTGACCTCGAGATATACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGACATCGAGA-AGA-GAGCC
* * * *
72903947 AGTGTAAGACCTATCTGGGACATGACATCGACACCGATAGATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATG-CATCGACATCG--AGAAGAGAGCC
*
72903996 AGTGTAAGACCTGTCTGGGACATG
1 AGTGTAAGACATGTCTGGGACATG
72904020 GCATTGACCT
Statistics
Matches: 132, Mismatches: 28, Indels: 11
0.77 0.16 0.06
Matches are distributed among these distances:
45 3 0.02
46 64 0.48
47 3 0.02
48 24 0.18
49 34 0.26
50 1 0.01
51 3 0.02
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACATCGAGAAGAGAGCC
Found at i:72904004 original size:49 final size:48
Alignment explanation
Indices: 72903804--72904116 Score: 210
Period size: 49 Copynumber: 6.6 Consensus size: 48
72903794 TGATATGTGT
* * * * **
72903804 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCAC-AT-TTTGAGA
1 GCTAGTGTAAGACCTGTCTGGGACATGCATCGACCTCGATAGATGAGA
* * * * * *
72903850 GCCAATGTAAGACATGTCTGGGACATGCATCGACATTG--AGAAGAGA
1 GCTAGTGTAAGACCTGTCTGGGACATGCATCGACCTCGATAGATGAGA
* * * * * * *
72903896 GCTAGTGTAAGACATGTTTGGGACAAGCATTGACCTCGAGATAT-ACAA
1 GCTAGTGTAAGACCTGTCTGGGACATGCATCGACCTCGATAGATGA-GA
*
72903944 GCTAGTGTAAGACCTATCTGGGACATGACATCGACAC-CGATAGATGAGA
1 GCTAGTGTAAGACCTGTCTGGGACATG-CATCGAC-CTCGATAGATGAGA
* * * * *
72903993 GCCAGTGTAAGACCTGTCTGGGACATGGCATTGACCTTGATATATGAAA
1 GCTAGTGTAAGACCTGTCTGGGACAT-GCATCGACCTCGATAGATGAGA
* * * * * * * **
72904042 GTTAGTGTAAGACCTATTTAGGACATGGCATCAACTTTGAT-G-TGCTA
1 GCTAGTGTAAGACCTGTCTGGGACAT-GCATCGACCTCGATAGATGAGA
72904089 GCTAGTGTAAGACCATGTCTGGGACATG
1 GCTAGTGTAAGACC-TGTCTGGGACATG
72904117 GCGTTGGCAT
Statistics
Matches: 207, Mismatches: 49, Indels: 21
0.75 0.18 0.08
Matches are distributed among these distances:
46 65 0.31
47 18 0.09
48 36 0.17
49 85 0.41
50 3 0.01
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.26
Consensus pattern (48 bp):
GCTAGTGTAAGACCTGTCTGGGACATGCATCGACCTCGATAGATGAGA
Found at i:72904056 original size:98 final size:97
Alignment explanation
Indices: 72903855--72904118 Score: 288
Period size: 98 Copynumber: 2.7 Consensus size: 97
72903845 TGAGAGCCAA
* * * * *
72903855 TGTAAGACATGTCTGGGACATGCATCGACATTG--AGAAGAGAGCTAGTGTAAGACATGTTTGGG
1 TGTAAGACCTATCTGGGACATGCATCGACATTGATAGATGAGAGCTAGTGTAAGACCTGTCTGGG
*
72903918 ACA-AGCATTGACCTCGAGATATACAAGCTAG
66 ACATGGCATTGACCTCGAGATATACAAGCTAG
** *
72903949 TGTAAGACCTATCTGGGACATGACATCGACACCGATAGATGAGAGCCAGTGTAAGACCTGTCTGG
1 TGTAAGACCTATCTGGGACATG-CATCGACATTGATAGATGAGAGCTAGTGTAAGACCTGTCTGG
* * *
72904014 GACATGGCATTGACCTTGATATATGA-AAGTTAG
65 GACATGGCATTGACCTCGAGATAT-ACAAGCTAG
* * * * **
72904047 TGTAAGACCTATTTAGGACATGGCATCAACTTTGAT-G-TGCTAGCTAGTGTAAGACCATGTCTG
1 TGTAAGACCTATCTGGGACAT-GCATCGACATTGATAGATGAGAGCTAGTGTAAGACC-TGTCTG
72904110 GGACATGGC
64 GGACATGGC
72904119 GTTGGCATCT
Statistics
Matches: 142, Mismatches: 21, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
94 20 0.14
95 9 0.06
96 16 0.11
97 45 0.32
98 50 0.35
99 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.25
Consensus pattern (97 bp):
TGTAAGACCTATCTGGGACATGCATCGACATTGATAGATGAGAGCTAGTGTAAGACCTGTCTGGG
ACATGGCATTGACCTCGAGATATACAAGCTAG
Found at i:72911174 original size:43 final size:43
Alignment explanation
Indices: 72911113--72911275 Score: 154
Period size: 43 Copynumber: 3.8 Consensus size: 43
72911103 AATGTCAACA
** * * *
72911113 TCCCAGATGTGGTCTTACATGTAATCAAATATCGATGCCACTG
1 TCCCAGACATGGTCTTACACGAAATCAAATATCGATGCAACTG
* *
72911156 TCCCAGACAGGGTCTTACACGAAATCAAATA-CGATGCTGA-TG
1 TCCCAGACATGGTCTTACACGAAATCAAATATCGATGC-AACTG
* * *
72911198 TTCCAGGCATGGTCTTACACGTAAATCTCAA-ATCGATGACAAC-G
1 TCCCAGACATGGTCTTACACG-AAATC-AAATATCGATG-CAACTG
* *
72911242 TCCCAGACATGGTCATACACGAAATCACATATCG
1 TCCCAGACATGGTCTTACACGAAATCAAATATCG
72911276 GAGTTCTATG
Statistics
Matches: 97, Mismatches: 16, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
42 27 0.28
43 42 0.43
44 27 0.28
45 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACGAAATCAAATATCGATGCAACTG
Found at i:72913380 original size:13 final size:13
Alignment explanation
Indices: 72913362--72913398 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
72913352 CAACACATAT
*
72913362 GCCCGTGTGGCTA
1 GCCCGTGTGGCGA
72913375 GCCCGTGTGGCGA
1 GCCCGTGTGGCGA
*
72913388 GCCTGTGTGGC
1 GCCCGTGTGGC
72913399 CTAAAAATGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.05, C:0.30, G:0.43, T:0.22
Consensus pattern (13 bp):
GCCCGTGTGGCGA
Found at i:72915160 original size:7 final size:7
Alignment explanation
Indices: 72915148--72915178 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
72915138 CCCCAAAATT
72915148 TTTGACA
1 TTTGACA
72915155 TTTGACA
1 TTTGACA
72915162 TTTGACA
1 TTTGACA
72915169 TTTGACA
1 TTTGACA
72915176 TTT
1 TTT
72915179 TAGTCTCTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.48
Consensus pattern (7 bp):
TTTGACA
Found at i:72916836 original size:50 final size:49
Alignment explanation
Indices: 72916720--72916895 Score: 167
Period size: 50 Copynumber: 3.5 Consensus size: 49
72916710 CTGGTATGCA
* * **
72916720 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
* * *
72916769 TAGCAGCCTGCACTTAGTACTACACACGTGACCTCACCA-TGTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAACAGTCTAATACACG
* * *** * *
72916819 TAGTAGCCTACACTTAGTACTACACACGTGATC-ACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAG---TCTAATACACG
72916870 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
72916896 TGCGACCTCA
Statistics
Matches: 103, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
49 28 0.27
50 38 0.37
51 34 0.33
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.24
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
Found at i:72916893 original size:101 final size:99
Alignment explanation
Indices: 72916720--72916906 Score: 250
Period size: 101 Copynumber: 1.9 Consensus size: 99
72916710 CTGGTATGCA
* * * *
72916720 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGCAGCCTGCACTTA
1 TAGTAGCCTACACTTAGTACTACACACGCGACCAACAGTCGGGTACACATAGCAGCCTGCACTTA
*
72916785 GTACTACACACGTGACCTCACCATGTAATACACG
66 GTACTACACACGCGACCTCACCATGTAATACACG
* * * *
72916819 TAGTAGCCTACACTTAGTACTACACACGTGATC-ACAGTTTTCGGGTACGCATAGTAGCCTGCAC
1 TAGTAGCCTACACTTAGTACTACACACGCGACCAACAG---TCGGGTACACATAGCAGCCTGCAC
*
72916883 TTAGTACTACACATGCGACCTCAC
63 TTAGTACTACACACGCGACCTCAC
72916907 AATAGATCAT
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
98 4 0.05
99 29 0.39
101 42 0.56
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.24
Consensus pattern (99 bp):
TAGTAGCCTACACTTAGTACTACACACGCGACCAACAGTCGGGTACACATAGCAGCCTGCACTTA
GTACTACACACGCGACCTCACCATGTAATACACG
Found at i:72919353 original size:27 final size:27
Alignment explanation
Indices: 72919315--72919371 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
72919305 ATAACGTATT
*
72919315 TTCCTTTTTAATGAGTGGAGCAGAACA
1 TTCCTTTTTAATAAGTGGAGCAGAACA
*
72919342 TTCCTTTTTAATAAGTGGAGCGGAACA
1 TTCCTTTTTAATAAGTGGAGCAGAACA
72919369 TTC
1 TTC
72919372 TCCTATTCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (27 bp):
TTCCTTTTTAATAAGTGGAGCAGAACA
Found at i:72923866 original size:40 final size:40
Alignment explanation
Indices: 72923767--72923909 Score: 171
Period size: 40 Copynumber: 3.5 Consensus size: 40
72923757 CTCGAATGAT
* *
72923767 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACTAC
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACTAA
* *
72923808 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGGCTAA
1 ATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACTAA
* * * *
72923848 ATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACTAA
* *
72923888 ATCCGGGTTAAGACCCGAAGGC
1 ATCCGGGCTAAGTCCCGAAGGC
72923910 CTTGTGTGAG
Statistics
Matches: 88, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.01
40 59 0.67
41 27 0.31
42 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.22
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACTAA
Found at i:72926686 original size:55 final size:55
Alignment explanation
Indices: 72926586--72926703 Score: 132
Period size: 55 Copynumber: 2.1 Consensus size: 55
72926576 ATGCCAAAAC
** * * *
72926586 AACACGGGCGTGTGACATGCCCGTGCCTTGAACCTGTGGCTGAACCTGTCAAATT
1 AACACGGGCGTGCAACACGCCCGTGCCGTGAACCTGTGGCTGAACCTATCAAATT
* * *
72926641 AGCACGGGCGTGCAACACGCCCGTGCCAAGTGAACGTG-GGC-GAACCTATTAAATT
1 AACACGGGCGTGCAACACGCCCGTGCC--GTGAACCTGTGGCTGAACCTATCAAATT
72926696 AACACGGG
1 AACACGGG
72926704 TGTGGGCTTA
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
55 42 0.81
56 3 0.06
57 7 0.13
ACGTcount: A:0.25, C:0.27, G:0.29, T:0.19
Consensus pattern (55 bp):
AACACGGGCGTGCAACACGCCCGTGCCGTGAACCTGTGGCTGAACCTATCAAATT
Found at i:72928932 original size:16 final size:16
Alignment explanation
Indices: 72928913--72928943 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
72928903 CTTCTTCACT
72928913 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
72928929 TACTTACTTACTTAA
1 TACTCACTTACTTAA
72928944 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:72928949 original size:20 final size:20
Alignment explanation
Indices: 72928910--72928949 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
72928900 AAACTTCTTC
* *
72928910 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
72928930 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
72928950 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:72929330 original size:55 final size:53
Alignment explanation
Indices: 72929199--72929394 Score: 198
Period size: 55 Copynumber: 3.6 Consensus size: 53
72929189 CTTACCATTT
*
72929199 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATG
1 CCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAATG
* * * * *
72929252 CCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTTATCACTG
1 CCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G-AACTCACCAATG
*** * *
72929307 CCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAATCTTACCAATTT
1 CCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA-CTCACCAA-TG
* * *
72929362 CCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 CCATGTCTTGACATGGTCTTACATGGGATCCTT
72929395 AAACCCTAAT
Statistics
Matches: 118, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
52 2 0.02
53 37 0.31
54 7 0.06
55 70 0.59
56 2 0.02
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.36
Consensus pattern (53 bp):
CCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAATG
Found at i:72935281 original size:13 final size:13
Alignment explanation
Indices: 72935263--72935289 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
72935253 ATGAATTTTA
72935263 CATAATTAGGCAT
1 CATAATTAGGCAT
72935276 CATAATTAGGCAT
1 CATAATTAGGCAT
72935289 C
1 C
72935290 TGCTCCAAAG
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:0.37, C:0.19, G:0.15, T:0.30
Consensus pattern (13 bp):
CATAATTAGGCAT
Found at i:72943434 original size:29 final size:29
Alignment explanation
Indices: 72943362--72943448 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 29
72943352 CATAGTATCG
* * *
72943362 TATCTTGGGTTTCTTTATCCTGGATCTCTT-
1 TATCTTGGATTTCTTTATTCTGGGT-T-TTC
72943392 TAT-TCTGGATTTCTTTATTCTGGGTTTTC
1 TATCT-TGGATTTCTTTATTCTGGGTTTTC
72943421 TATCTTGGATTTCTTTATTC--GGTTTTC
1 TATCTTGGATTTCTTTATTCTGGGTTTTC
72943448 T
1 T
72943449 TGTTATCTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
27 8 0.16
28 2 0.04
29 20 0.39
30 21 0.41
ACGTcount: A:0.10, C:0.16, G:0.16, T:0.57
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCTGGGTTTTC
Found at i:72943449 original size:14 final size:15
Alignment explanation
Indices: 72943371--72943449 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
72943361 GTATCTTGGG
*
72943371 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
72943386 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
72943401 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
*
72943416 TTT-TCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
72943430 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
72943444 TTTCTT
1 TTTCTT
72943450 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 2 0.04
14 17 0.32
15 32 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.16, G:0.14, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:72945881 original size:46 final size:46
Alignment explanation
Indices: 72945825--72946000 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 46
72945815 TATTTGGGCA
*
72945825 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *** * * ** *
72945871 TCTGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
* * *
72945918 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
72945964 CCCGACCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
72946001 GCGGGTTACA
Statistics
Matches: 102, Mismatches: 25, Indels: 6
0.77 0.19 0.05
Matches are distributed among these distances:
46 68 0.67
47 34 0.33
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:72945974 original size:93 final size:93
Alignment explanation
Indices: 72945821--72945993 Score: 283
Period size: 93 Copynumber: 1.9 Consensus size: 93
72945811 GGGATATTTG
* * * *
72945821 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAG
72945886 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
72945914 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGACCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAG
72945979 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
72945994 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:72950717 original size:14 final size:15
Alignment explanation
Indices: 72950698--72950726 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
72950688 GGTTGAAAAG
72950698 TATTTTTG-ATGTGT
1 TATTTTTGAATGTGT
72950712 TATTTTTGAATGTGT
1 TATTTTTGAATGTGT
72950727 GGTCTACCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.17, C:0.00, G:0.21, T:0.62
Consensus pattern (15 bp):
TATTTTTGAATGTGT
Found at i:72958954 original size:22 final size:22
Alignment explanation
Indices: 72958923--72958973 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 22
72958913 CGGCTCAACC
*
72958923 CCGTAGATAGG-GAAGCACATAG
1 CCGTAAATAGGAG-AGCACATAG
72958945 CCGTAAATAGGAGAGCACATAG
1 CCGTAAATAGGAGAGCACATAG
72958967 CCGTAAA
1 CCGTAAA
72958974 CATCGCAGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 26 0.96
23 1 0.04
ACGTcount: A:0.39, C:0.20, G:0.27, T:0.14
Consensus pattern (22 bp):
CCGTAAATAGGAGAGCACATAG
Found at i:72958983 original size:22 final size:22
Alignment explanation
Indices: 72958936--72958983 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
72958926 TAGATAGGGA
* * *
72958936 AGCACATAGCCGTAAATAGGAG
1 AGCACATAGCCGTAAACACGAC
72958958 AGCACATAGCCGTAAACATCG-C
1 AGCACATAGCCGTAAACA-CGAC
72958980 AGCA
1 AGCA
72958984 ACGCTGCCAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.40, C:0.25, G:0.23, T:0.12
Consensus pattern (22 bp):
AGCACATAGCCGTAAACACGAC
Found at i:72959205 original size:22 final size:22
Alignment explanation
Indices: 72959177--72959241 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
72959167 GCAAATACAT
*
72959177 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
*
72959199 TTGGCACAGAGCCATATAT-AGG
1 TTGGCACAAAGCCATA-ATCAGG
**
72959221 TTGGTGCAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
72959242 AATAATTGGC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.05
22 33 0.89
23 2 0.05
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:72959445 original size:41 final size:41
Alignment explanation
Indices: 72959383--72959505 Score: 192
Period size: 41 Copynumber: 3.0 Consensus size: 41
72959373 TAACAGCCAC
* * * *
72959383 CGGTAGATCCACGGTCATCAAGCAACCATACGATCCTTAAT
1 CGGTGGATCCACAGTCGTCAAGCAACCATACGATCCTCAAT
*
72959424 CGGTGGATCCACAGTCGTCAAGCAACCATGCGATCCTCAAT
1 CGGTGGATCCACAGTCGTCAAGCAACCATACGATCCTCAAT
*
72959465 CGGTGGATCCAGAGTCGTCAAGCAACCATACGATCCTCAAT
1 CGGTGGATCCACAGTCGTCAAGCAACCATACGATCCTCAAT
72959506 TTCTTCCTCC
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 75 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.20
Consensus pattern (41 bp):
CGGTGGATCCACAGTCGTCAAGCAACCATACGATCCTCAAT
Found at i:72959530 original size:18 final size:18
Alignment explanation
Indices: 72959507--72959544 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
72959497 ATCCTCAATT
72959507 TCTTCCTCCATTTCATAA
1 TCTTCCTCCATTTCATAA
*
72959525 TCTTCCTCCGTTTCATAA
1 TCTTCCTCCATTTCATAA
72959543 TC
1 TC
72959545 CCCACCAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.18, C:0.34, G:0.03, T:0.45
Consensus pattern (18 bp):
TCTTCCTCCATTTCATAA
Found at i:72959812 original size:27 final size:27
Alignment explanation
Indices: 72959761--72960182 Score: 317
Period size: 27 Copynumber: 15.7 Consensus size: 27
72959751 TTCACCCTCT
* * * * *
72959761 AAGGGTGTTTTGGTAAATCTACAAACC
1 AAGGGTATTTCGGTAATTTTACAAATC
* *
72959788 AAGGGTATTTCGGTAATTTTGCAAAGC
1 AAGGGTATTTCGGTAATTTTACAAATC
* ** **
72959815 AATGGTATTTTTGTAATTTTTTAAAGTC
1 AAGGGTATTTCGGTAATTTTACAAA-TC
* * ** * *
72959843 AATGGTACTTCTATAATTTTATAAATT
1 AAGGGTATTTCGGTAATTTTACAAATC
* ** *
72959870 AGGGGTATTTCTATAATTTTCCAAATC
1 AAGGGTATTTCGGTAATTTTACAAATC
*
72959897 AAGGGTATTTCGGTAATTTTCCAAATC
1 AAGGGTATTTCGGTAATTTTACAAATC
* * *
72959924 AAGGGTATTTTGGTAATTTTAAAAATT
1 AAGGGTATTTCGGTAATTTTACAAATC
* *
72959951 AAGGGTATTTCGATAATTTTCCAAATC
1 AAGGGTATTTCGGTAATTTTACAAATC
* * *
72959978 GAGGGTATTTTGGTAATTTTATAAATC
1 AAGGGTATTTCGGTAATTTTACAAATC
* * *
72960005 GAGGGTATTTCAGTAATTTTACAAGTC
1 AAGGGTATTTCGGTAATTTTACAAATC
* * *
72960032 GAGGGTATTTCGATAATTTTACAAATT
1 AAGGGTATTTCGGTAATTTTACAAATC
* * * *
72960059 AAGGGTGTTTTGTTAATTTTACAAACC
1 AAGGGTATTTCGGTAATTTTACAAATC
* * * * *
72960086 ACGGGCATTT-GGTAATTTTGCTAATT
1 AAGGGTATTTCGGTAATTTTACAAATC
* * ** *
72960112 GAGGGTATTTTGGTAATTTTGTAAACC
1 AAGGGTATTTCGGTAATTTTACAAATC
* ** *
72960139 AAGGGTATTT-AGTAATTTTGTAAACC
1 AAGGGTATTTCGGTAATTTTACAAATC
*
72960165 AAGGGTATTTCCGTAATT
1 AAGGGTATTTCGGTAATT
72960183 CTACCCTACA
Statistics
Matches: 320, Mismatches: 72, Indels: 6
0.80 0.18 0.02
Matches are distributed among these distances:
26 43 0.13
27 255 0.80
28 22 0.07
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (27 bp):
AAGGGTATTTCGGTAATTTTACAAATC
Found at i:72959967 original size:81 final size:81
Alignment explanation
Indices: 72959761--72960174 Score: 366
Period size: 81 Copynumber: 5.1 Consensus size: 81
72959751 TTCACCCTCT
* * * ** * * * *
72959761 AAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCGGTAATTTTGCAAAGCAATGGTATTTT
1 AAGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGATAATTTTCCAAATCAAGGGTATTTT
* *
72959826 TGTAATTTTTTAAAGTC
66 GGTAATTTTATAAA-TC
* * * * * *
72959843 AATGGTACTTCT-ATAATTTTATAAATTAGGGGTATTTCTATAATTTTCCAAATCAAGGGTATTT
1 AAGGGTA-TTTTGGTAATTTTACAAATTAAGGGTATTTCGATAATTTTCCAAATCAAGGGTATTT
* **
72959907 CGGTAATTTTCCAAATC
65 TGGTAATTTTATAAATC
* *
72959924 AAGGGTATTTTGGTAATTTTAAAAATTAAGGGTATTTCGATAATTTTCCAAATCGAGGGTATTTT
1 AAGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGATAATTTTCCAAATCAAGGGTATTTT
72959989 GGTAATTTTATAAATC
66 GGTAATTTTATAAATC
* ** * ** * * *
72960005 GAGGGTATTTCAGTAATTTTACAAGTCGAGGGTATTTCGATAATTTTACAAATTAAGGGTGTTTT
1 AAGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGATAATTTTCCAAATCAAGGGTATTTT
* * *
72960070 GTTAATTTTACAAACC
66 GGTAATTTTATAAATC
* * * * * * * ** *
72960086 ACGGGCA-TTTGGTAATTTTGCTAATTGAGGGTATTTTGGTAATTTTGTAAACCAAGGGTA-TTT
1 AAGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGATAATTTTCCAAATCAAGGGTATTTT
* * *
72960149 AGTAATTTTGTAAACC
66 GGTAATTTTATAAATC
72960165 AAGGGTATTT
1 AAGGGTATTT
72960175 CCGTAATTCT
Statistics
Matches: 264, Mismatches: 65, Indels: 8
0.78 0.19 0.02
Matches are distributed among these distances:
79 20 0.08
80 45 0.17
81 140 0.53
82 56 0.21
83 3 0.01
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (81 bp):
AAGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGATAATTTTCCAAATCAAGGGTATTTT
GGTAATTTTATAAATC
Found at i:72960201 original size:27 final size:27
Alignment explanation
Indices: 72960171--72960247 Score: 100
Period size: 27 Copynumber: 2.9 Consensus size: 27
72960161 AACCAAGGGT
*
72960171 ATTTCCGTAATTCTACCCTACAGGGGC
1 ATTTCAGTAATTCTACCCTACAGGGGC
* *
72960198 ATTTCAGCAATTCTACCCTACAGGGGT
1 ATTTCAGTAATTCTACCCTACAGGGGC
* * *
72960225 ATTTAAGTAATGCTAGCCTACAG
1 ATTTCAGTAATTCTACCCTACAG
72960248 ATATGAGCTT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (27 bp):
ATTTCAGTAATTCTACCCTACAGGGGC
Found at i:72962964 original size:22 final size:22
Alignment explanation
Indices: 72962939--72962985 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
72962929 AACGCAGTAG
*
72962939 ACAGGGCAGCACATAGCCGTAA
1 ACAGGACAGCACATAGCCGTAA
*
72962961 ACAGGATAGCACATAGCCGTAA
1 ACAGGACAGCACATAGCCGTAA
72962983 ACA
1 ACA
72962986 TCACAGCAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.40, C:0.26, G:0.23, T:0.11
Consensus pattern (22 bp):
ACAGGACAGCACATAGCCGTAA
Found at i:72962993 original size:22 final size:22
Alignment explanation
Indices: 72962945--72962993 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
72962935 GTAGACAGGG
*
72962945 CAGCACATAGCCGTAAACAGGA
1 CAGCACATAGCCGTAAACAGCA
* *
72962967 TAGCACATAGCCGTAAACATCA
1 CAGCACATAGCCGTAAACAGCA
72962989 CAGCA
1 CAGCA
72962994 ACGCTGCCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.41, C:0.29, G:0.18, T:0.12
Consensus pattern (22 bp):
CAGCACATAGCCGTAAACAGCA
Found at i:72963217 original size:22 final size:23
Alignment explanation
Indices: 72963189--72963249 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
72963179 CAAATACGTT
*
72963189 TGGCACACAGCCATAAT-CAGGC
1 TGGCACAAAGCCATAATGCAGGC
* * *
72963211 TGGCACAGAGCCAT-ATGTAGGT
1 TGGCACAAAGCCATAATGCAGGC
72963233 TGGCACAAAGCCATAAT
1 TGGCACAAAGCCATAAT
72963250 TAGAATAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 2 0.06
22 29 0.88
23 2 0.06
ACGTcount: A:0.33, C:0.25, G:0.25, T:0.18
Consensus pattern (23 bp):
TGGCACAAAGCCATAATGCAGGC
Found at i:72963477 original size:41 final size:41
Alignment explanation
Indices: 72963396--72963516 Score: 161
Period size: 41 Copynumber: 3.0 Consensus size: 41
72963386 AAAGCCACCT
* * * * *
72963396 GTGGGTCCACAATCATCAAGCAACCATGGGATCCTTAATCG
1 GTGGATCCACGATCGTCAAGCAACCATGCGATCCTCAATCG
* *
72963437 GTGGATCCATGATCGTCAAGCAACCATGCGATCATCAATCG
1 GTGGATCCACGATCGTCAAGCAACCATGCGATCCTCAATCG
* *
72963478 GTGGATCCACGGTTGTCAAGCAACCATGCGATCCTCAAT
1 GTGGATCCACGATCGTCAAGCAACCATGCGATCCTCAAT
72963517 TTCTTCCTCC
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 69 1.00
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.22
Consensus pattern (41 bp):
GTGGATCCACGATCGTCAAGCAACCATGCGATCCTCAATCG
Found at i:72963806 original size:27 final size:27
Alignment explanation
Indices: 72963754--72963818 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
72963744 TTTCGCCTTA
*
72963754 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAAATCTACAAAC
* * *
72963781 CAAGGGTATTTTGGTAATTTTGCAAAC
1 CAAGGGTATTTTGGTAAATCTACAAAC
*
72963808 CAATGGTATTT
1 CAAGGGTATTT
72963819 CTATAATTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.35
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAAATCTACAAAC
Found at i:72963825 original size:27 final size:27
Alignment explanation
Indices: 72963776--72963828 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
72963766 GGTAAATCTA
*
72963776 CAAACCAAGGGTATTTTGGTAATTTTG
1 CAAACCAAGGGTATTTTGATAATTTTG
*
72963803 CAAACCAATGGTATTTCT-ATAATTTT
1 CAAACCAAGGGTATTT-TGATAATTTT
72963829 TGGAAGTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.40
Consensus pattern (27 bp):
CAAACCAAGGGTATTTTGATAATTTTG
Found at i:72965362 original size:33 final size:32
Alignment explanation
Indices: 72965303--72965366 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
72965293 ACGAAGTCAC
* *
72965303 CAGATATAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATAGATATTGTGGCGAAGCCACCAGAA
*
72965335 CAGATATATATATGTGTGGCGAAGCCACCAGA
1 CAGATATAGATAT-TGTGGCGAAGCCACCAGA
72965367 TTGCAACGAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.22
Consensus pattern (32 bp):
CAGATATAGATATTGTGGCGAAGCCACCAGAA
Found at i:72970503 original size:43 final size:42
Alignment explanation
Indices: 72970405--72970525 Score: 172
Period size: 43 Copynumber: 2.9 Consensus size: 42
72970395 TAGGGTTACT
* *
72970405 GAGATTACATGTAAGACCATATCTGGGATATGACATCGATAT
1 GAGATTACATGTAAGACCATATCTGGGATATGGCATCGATAC
* * *
72970447 GAGACTT-CGTGTAAGACCATAGCTGGGCTATTGGCATCGATAC
1 GAGA-TTACATGTAAGACCATATCTGGGATA-TGGCATCGATAC
72970490 GAGATTACATGTAAGACCATATCTGGGATATGGCAT
1 GAGATTACATGTAAGACCATATCTGGGATATGGCAT
72970526 TGGTACAATA
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
42 32 0.47
43 36 0.53
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (42 bp):
GAGATTACATGTAAGACCATATCTGGGATATGGCATCGATAC
Found at i:72972060 original size:20 final size:20
Alignment explanation
Indices: 72972033--72972082 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
72972023 CACCGCCTAT
* *
72972033 CCACACGGGCGTGTCTCAGG
1 CCACACGGGCGTGGCCCAGG
*
72972053 CTACACGGGCGTGGCCCAGG
1 CCACACGGGCGTGGCCCAGG
72972073 CCACACGGGC
1 CCACACGGGC
72972083 ATGTAACCCC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.16, C:0.38, G:0.36, T:0.10
Consensus pattern (20 bp):
CCACACGGGCGTGGCCCAGG
Found at i:72975511 original size:31 final size:31
Alignment explanation
Indices: 72975463--72975578 Score: 130
Period size: 31 Copynumber: 3.7 Consensus size: 31
72975453 AAGATAATAT
* *
72975463 TATTTTAATAAATTTAATATTTATATAGATAA
1 TATTTT-ATTAATTTAATATTAATATAGATAA
72975495 TATTTTATTAATTTAATATTAATATA-AT-A
1 TATTTTATTAATTTAATATTAATATAGATAA
** * *
72975524 TATTAAATTTAATTTATTATTCATCA-AGATAA
1 TATTTTA-TTAATTTAATATTAAT-ATAGATAA
72975556 TATTTTATTAATTTAATATTAAT
1 TATTTTATTAATTTAATATTAAT
72975579 TTGATTAATT
Statistics
Matches: 70, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
29 6 0.09
30 17 0.24
31 35 0.50
32 12 0.17
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (31 bp):
TATTTTATTAATTTAATATTAATATAGATAA
Found at i:72975514 original size:11 final size:11
Alignment explanation
Indices: 72975457--72975580 Score: 54
Period size: 11 Copynumber: 12.1 Consensus size: 11
72975447 TTTTCAAAGA
*
72975457 TAATATTATTT
1 TAATATTAATT
72975468 TAATA--AATT
1 TAATATTAATT
* *
72975477 TAATATTTATA
1 TAATATTAATT
*
72975488 TAGATAAT-ATT
1 TA-ATATTAATT
72975499 T--TATTAATT
1 TAATATTAATT
*
72975508 TAATATTAATA
1 TAATATTAATT
72975519 TAATA-T-ATT
1 TAATATTAATT
*
72975528 AAAT-TTAATT
1 TAATATTAATT
* *
72975538 TATTATTCA-T
1 TAATATTAATT
* *
72975548 CAAGA-TAATAT
1 TAATATTAAT-T
*
72975559 T-TTATTAATT
1 TAATATTAATT
72975569 TAATATTAATT
1 TAATATTAATT
72975580 T
1 T
72975581 GATTAATTCT
Statistics
Matches: 80, Mismatches: 20, Indels: 26
0.63 0.16 0.21
Matches are distributed among these distances:
8 3 0.04
9 20 0.25
10 12 0.15
11 41 0.51
12 4 0.05
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (11 bp):
TAATATTAATT
Found at i:72976192 original size:11 final size:11
Alignment explanation
Indices: 72976176--72976201 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
72976166 GGATGCAATA
72976176 TTATATAATTG
1 TTATATAATTG
72976187 TTATATAATTG
1 TTATATAATTG
72976198 TTAT
1 TTAT
72976202 TTTTGTCAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.58
Consensus pattern (11 bp):
TTATATAATTG
Found at i:72977516 original size:13 final size:13
Alignment explanation
Indices: 72977498--72977524 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
72977488 GCTCGGCAGG
72977498 GACACGCCTGTGT
1 GACACGCCTGTGT
72977511 GACACGCCTGTGT
1 GACACGCCTGTGT
72977524 G
1 G
72977525 CGATTACTCC
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:0.15, C:0.30, G:0.33, T:0.22
Consensus pattern (13 bp):
GACACGCCTGTGT
Found at i:72978798 original size:27 final size:27
Alignment explanation
Indices: 72978760--72978838 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
72978750 GAAATCATGT
72978760 TCGCCAATCTATTTGGCGAGCTAGTGC
1 TCGCCAATCTATTTGGCGAGCTAGTGC
* ** * *
72978787 TCGCTAATCTATTTGGAAAGCTAGAGT
1 TCGCCAATCTATTTGGCGAGCTAGTGC
** *
72978814 TCGCCAGCCTATTTGACGAGCTAGT
1 TCGCCAATCTATTTGGCGAGCTAGT
72978839 ATTTGCTAGT
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.30
Consensus pattern (27 bp):
TCGCCAATCTATTTGGCGAGCTAGTGC
Found at i:72992938 original size:43 final size:44
Alignment explanation
Indices: 72992891--72993015 Score: 146
Period size: 43 Copynumber: 2.9 Consensus size: 44
72992881 ATCAGTTATC
* * *
72992891 GATGCCACTGTCCCAGACAGGGTCTTACACGAAATC-GAATAAA
1 GATGCCAATGTCCCAGACATGGTCTTACACGAAATCACAATAAA
* * *
72992934 GATGCTAATGTCCCAGACATGGTCTTACACGTAATCACAATACA
1 GATGCCAATGTCCCAGACATGGTCTTACACGAAATCACAATAAA
* * * *
72992978 -ATGCCAATGTCTCAGACATGGTCATACATGTAATCACA
1 GATGCCAATGTCCCAGACATGGTCTTACACGAAATCACA
72993016 GCTCGGTAAT
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
43 66 0.93
44 5 0.07
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (44 bp):
GATGCCAATGTCCCAGACATGGTCTTACACGAAATCACAATAAA
Done.