Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 298 of 320
Found at i:94830416 original size:27 final size:27
Alignment explanation
Indices: 94830385--94830562 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
94830375 TAAATTGTAC
94830385 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
94830412 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
94830438 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
94830466 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
94830494 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
94830521 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
94830548 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
94830563 GACTCGATGT
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 108 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:94830499 original size:82 final size:81
Alignment explanation
Indices: 94830386--94830541 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
94830376 AAATTGTACA
*
94830386 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
94830450 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
94830467 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
94830532 TGCGAGTTGA
65 TGCGAATTGA
94830542 TTATATAGCA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:94830553 original size:82 final size:81
Alignment explanation
Indices: 94830382--94830562 Score: 238
Period size: 82 Copynumber: 2.2 Consensus size: 81
94830372 GATTAAATTG
*
94830382 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
94830447 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
94830463 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
94830527 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
94830545 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
94830563 GACTCGATGT
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 18 0.21
82 67 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:94832582 original size:14 final size:14
Alignment explanation
Indices: 94832559--94832589 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
94832549 TGTCACGTTC
*
94832559 TTAGTTAATTTAGA
1 TTAGTAAATTTAGA
94832573 TTAGTAAATTTAGA
1 TTAGTAAATTTAGA
94832587 TTA
1 TTA
94832590 AAATAATCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (14 bp):
TTAGTAAATTTAGA
Found at i:94833677 original size:7 final size:7
Alignment explanation
Indices: 94833667--94833732 Score: 53
Period size: 7 Copynumber: 8.6 Consensus size: 7
94833657 AAAGTTAAAA
94833667 TATATAT
1 TATATAT
94833674 TATAATAT
1 TAT-ATAT
94833682 TATAATAT
1 TAT-ATAT
*
94833690 TATATCT
1 TATATAT
94833697 TA-ATTAT
1 TATA-TAT
94833704 TAAGTATAT
1 T-A-TATAT
94833713 ATATTATAT
1 -TA-TATAT
94833722 TATATAT
1 TATATAT
94833729 TATA
1 TATA
94833733 ATAAGTAAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
6 1 0.02
7 20 0.40
8 18 0.36
9 9 0.18
10 2 0.04
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (7 bp):
TATATAT
Found at i:94833683 original size:8 final size:8
Alignment explanation
Indices: 94833670--94833735 Score: 50
Period size: 8 Copynumber: 8.4 Consensus size: 8
94833660 GTTAAAATAT
94833670 ATATTATA
1 ATATTATA
94833678 ATATTATA
1 ATATTATA
94833686 ATATTAT-
1 ATATTATA
*
94833693 ATCTTA-A
1 ATATTATA
*
94833700 TTATTA-A
1 ATATTATA
*
94833707 GTATATATATT
1 --ATAT-TATA
94833718 ATATTAT-
1 ATATTATA
94833725 ATATTATA
1 ATATTATA
94833733 ATA
1 ATA
94833736 AGTAAATATA
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
7 17 0.36
8 21 0.45
9 7 0.15
10 2 0.04
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (8 bp):
ATATTATA
Found at i:94833702 original size:27 final size:26
Alignment explanation
Indices: 94833667--94833735 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 26
94833657 AAAGTTAAAA
94833667 TATATATTATAATATTATAATATTATAT
1 TATATATTATAATA-TAT-ATATTATAT
94833695 CT-TA-ATTATTAAGTATATATATTATAT
1 -TATATATTA-TAA-TATATATATTATAT
94833722 TATATATTATAATA
1 TATATATTATAATA
94833736 AGTAAATATA
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 12 0.33
29 3 0.08
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (26 bp):
TATATATTATAATATATATATTATAT
Found at i:94833745 original size:30 final size:32
Alignment explanation
Indices: 94833677--94833745 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 32
94833667 TATATATTAT
* *
94833677 AATATTATAATATTATATCTTAATTATTAAGTA
1 AATA-TATAATATTATATATTAATTAATAAGTA
* *
94833710 TATATATTATATTATATATT-A-TAATAAGTA
1 AATATATAATATTATATATTAATTAATAAGTA
94833740 AATATA
1 AATATA
94833746 ATAAATAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
30 13 0.42
31 1 0.03
32 14 0.45
33 3 0.10
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (32 bp):
AATATATAATATTATATATTAATTAATAAGTA
Found at i:94833872 original size:53 final size:54
Alignment explanation
Indices: 94833796--94833902 Score: 180
Period size: 53 Copynumber: 2.0 Consensus size: 54
94833786 AAATAGAAAG
94833796 AAAAAGAAAAAGAAAAAGAAGGAAGGAGAAAGACACAAAGATAAGGATTTCAAT
1 AAAAAGAAAAAGAAAAAGAAGGAAGGAGAAAGACACAAAGATAAGGATTTCAAT
* * *
94833850 AAAAA-AAAAAGAGAAAGAAGGAAGGAGAAAGACACAAAGCTAGGGATTTCAAT
1 AAAAAGAAAAAGAAAAAGAAGGAAGGAGAAAGACACAAAGATAAGGATTTCAAT
94833903 TGTTCAAAGC
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
53 45 0.90
54 5 0.10
ACGTcount: A:0.61, C:0.07, G:0.23, T:0.09
Consensus pattern (54 bp):
AAAAAGAAAAAGAAAAAGAAGGAAGGAGAAAGACACAAAGATAAGGATTTCAAT
Found at i:94834998 original size:18 final size:18
Alignment explanation
Indices: 94834955--94834991 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
94834945 TGAAAGTGAA
94834955 ATAGTGAATTGAAAATAG
1 ATAGTGAATTGAAAATAG
94834973 ATAGTGAATTGAAAATAG
1 ATAGTGAATTGAAAATAG
94834991 A
1 A
94834992 ATGTGAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.22, T:0.27
Consensus pattern (18 bp):
ATAGTGAATTGAAAATAG
Found at i:94835606 original size:5 final size:5
Alignment explanation
Indices: 94835596--94835628 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
94835586 TTGTGTGTTC
94835596 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
94835629 CACAATTGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:94839864 original size:17 final size:17
Alignment explanation
Indices: 94839832--94839871 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
94839822 AAAAAAGAAT
94839832 AAAAAATATTACCCCAA
1 AAAAAATATTACCCCAA
94839849 AAAAACATATTA-CCCAA
1 AAAAA-ATATTACCCCAA
94839866 AAAAAA
1 AAAAAA
94839872 GAGGGGGAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 1 0.05
17 15 0.68
18 6 0.27
ACGTcount: A:0.65, C:0.20, G:0.00, T:0.15
Consensus pattern (17 bp):
AAAAAATATTACCCCAA
Found at i:94841426 original size:416 final size:416
Alignment explanation
Indices: 94840655--94841489 Score: 1670
Period size: 416 Copynumber: 2.0 Consensus size: 416
94840645 ATCTTTGTAT
94840655 CTGGTACTATTCTTCTTGACCAAAATAGATTTAACAACAAGACATGTTATGTTAAATGTATATAT
1 CTGGTACTATTCTTCTTGACCAAAATAGATTTAACAACAAGACATGTTATGTTAAATGTATATAT
94840720 TGATTGGAAAAGTTGGATATAGAACACGGACATATTCGTGGAGAAGCGAGAAGGTGGAGGATTTA
66 TGATTGGAAAAGTTGGATATAGAACACGGACATATTCGTGGAGAAGCGAGAAGGTGGAGGATTTA
94840785 CAGTGATAACAGCACAAGCGAGAGAAAGTTCATCGGAAGACACGGGTTATTCGTTCGTGCATGGC
131 CAGTGATAACAGCACAAGCGAGAGAAAGTTCATCGGAAGACACGGGTTATTCGTTCGTGCATGGC
94840850 AGCATTACCGGAACAGCCAGCAATTCATTTTTGGGGAGGGCTTGGAGGAGCAATCCAAGAGTTGT
196 AGCATTACCGGAACAGCCAGCAATTCATTTTTGGGGAGGGCTTGGAGGAGCAATCCAAGAGTTGT
94840915 TTATGCATATACTGATATGAGCAACGTGGTCAATCCAGCCTGCTGGATGGACTCATAATAGGTTT
261 TTATGCATATACTGATATGAGCAACGTGGTCAATCCAGCCTGCTGGATGGACTCATAATAGGTTT
94840980 CCTGAACGAGCCAAGTAAGATAAATTACTTTTTCTATATATATTAATCCTTCTAAGAAACAAAAT
326 CCTGAACGAGCCAAGTAAGATAAATTACTTTTTCTATATATATTAATCCTTCTAAGAAACAAAAT
94841045 CTTATTAAGGTGAGAATGATGCAGAG
391 CTTATTAAGGTGAGAATGATGCAGAG
94841071 CTGGTACTATTCTTCTTGACCAAAATAGATTTAACAACAAGACATGTTATGTTAAATGTATATAT
1 CTGGTACTATTCTTCTTGACCAAAATAGATTTAACAACAAGACATGTTATGTTAAATGTATATAT
94841136 TGATTGGAAAAGTTGGATATAGAACACGGACATATTCGTGGAGAAGCGAGAAGGTGGAGGATTTA
66 TGATTGGAAAAGTTGGATATAGAACACGGACATATTCGTGGAGAAGCGAGAAGGTGGAGGATTTA
94841201 CAGTGATAACAGCACAAGCGAGAGAAAGTTCATCGGAAGACACGGGTTATTCGTTCGTGCATGGC
131 CAGTGATAACAGCACAAGCGAGAGAAAGTTCATCGGAAGACACGGGTTATTCGTTCGTGCATGGC
94841266 AGCATTACCGGAACAGCCAGCAATTCATTTTTGGGGAGGGCTTGGAGGAGCAATCCAAGAGTTGT
196 AGCATTACCGGAACAGCCAGCAATTCATTTTTGGGGAGGGCTTGGAGGAGCAATCCAAGAGTTGT
94841331 TTATGCATATACTGATATGAGCAACGTGGTCAATCCAGCCTGCTGGATGGACTCATAATAGGTTT
261 TTATGCATATACTGATATGAGCAACGTGGTCAATCCAGCCTGCTGGATGGACTCATAATAGGTTT
94841396 CCTGAACGAGCCAAGTAAGATAAATTACTTTTTCTATATATATTAATCCTTCTAAGAAACAAAAT
326 CCTGAACGAGCCAAGTAAGATAAATTACTTTTTCTATATATATTAATCCTTCTAAGAAACAAAAT
94841461 CTTATTAAGGTGAGAATGATGCAGAG
391 CTTATTAAGGTGAGAATGATGCAGAG
94841487 CTG
1 CTG
94841490 TTTATTATGG
Statistics
Matches: 419, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
416 419 1.00
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (416 bp):
CTGGTACTATTCTTCTTGACCAAAATAGATTTAACAACAAGACATGTTATGTTAAATGTATATAT
TGATTGGAAAAGTTGGATATAGAACACGGACATATTCGTGGAGAAGCGAGAAGGTGGAGGATTTA
CAGTGATAACAGCACAAGCGAGAGAAAGTTCATCGGAAGACACGGGTTATTCGTTCGTGCATGGC
AGCATTACCGGAACAGCCAGCAATTCATTTTTGGGGAGGGCTTGGAGGAGCAATCCAAGAGTTGT
TTATGCATATACTGATATGAGCAACGTGGTCAATCCAGCCTGCTGGATGGACTCATAATAGGTTT
CCTGAACGAGCCAAGTAAGATAAATTACTTTTTCTATATATATTAATCCTTCTAAGAAACAAAAT
CTTATTAAGGTGAGAATGATGCAGAG
Found at i:94853772 original size:88 final size:88
Alignment explanation
Indices: 94853619--94853788 Score: 295
Period size: 88 Copynumber: 1.9 Consensus size: 88
94853609 TCATATATAG
* * **
94853619 TAATCACTACGAATAATGTTGTGACTATTACATAGTAATCTAAGAAACATACTCATAGCGGGTCA
1 TAATCACTACGAATAATGTTGTGACCATTACATAGTAATCCAAGAAACATACTCATAGCAAGTCA
94853684 GTCCAATCAAGTGGCACTCATGA
66 GTCCAATCAAGTGGCACTCATGA
*
94853707 TAATCACTACGAATAATGTTGTGACCATTACCTAGTAATCCAAGAAACATACTCATAGCAAGTCA
1 TAATCACTACGAATAATGTTGTGACCATTACATAGTAATCCAAGAAACATACTCATAGCAAGTCA
94853772 GTCCAATCAAGTGGCAC
66 GTCCAATCAAGTGGCAC
94853789 CATTGTTTAG
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 77 1.00
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (88 bp):
TAATCACTACGAATAATGTTGTGACCATTACATAGTAATCCAAGAAACATACTCATAGCAAGTCA
GTCCAATCAAGTGGCACTCATGA
Found at i:94881680 original size:29 final size:29
Alignment explanation
Indices: 94881647--94881708 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
94881637 ATTTTTGGGT
*
94881647 AAAGTATACCAAC-AATCACTAAAC-TTCGA
1 AAAGT-TA-CAACTAATCACTAAACGTTAGA
94881676 AAAGTTACAACTTAATCACTAAACGTTAGA
1 AAAGTTACAAC-TAATCACTAAACGTTAGA
94881706 AAA
1 AAA
94881709 ATAATAAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
27 4 0.14
28 2 0.07
29 16 0.55
30 7 0.24
ACGTcount: A:0.50, C:0.19, G:0.08, T:0.23
Consensus pattern (29 bp):
AAAGTTACAACTAATCACTAAACGTTAGA
Found at i:94883167 original size:2 final size:2
Alignment explanation
Indices: 94883160--94883187 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
94883150 CAAAACTTTC
94883160 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
94883188 TTCAAAACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:94886274 original size:88 final size:88
Alignment explanation
Indices: 94886167--94886348 Score: 292
Period size: 88 Copynumber: 2.1 Consensus size: 88
94886157 TTTTCTTACA
*
94886167 TTAATCACCACGTATCAAAAAGTTTATAGTTTAAAATGTTTCCACCGACCATCGAACGTATCAAA
1 TTAATCACCACGTATCAAAAAGTTTATAGTTTAAAACGTTTCCACCGACCATCGAACGTATCAAA
*
94886232 ATATATTTCCTTTCAAATAGTTT
66 ATATATTTCCTTTCAAATAGCTT
* * * *
94886255 TTAATCACCACGTATCAAAAAGTTTATATTTTAAAACGTTTCCACCGACTATTGAACGTATCGAA
1 TTAATCACCACGTATCAAAAAGTTTATAGTTTAAAACGTTTCCACCGACCATCGAACGTATCAAA
*
94886320 ATATATTTTCTTTCAAATAGCTT
66 ATATATTTCCTTTCAAATAGCTT
*
94886343 TCAATC
1 TTAATC
94886349 TGCTATCATA
Statistics
Matches: 86, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
88 86 1.00
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (88 bp):
TTAATCACCACGTATCAAAAAGTTTATAGTTTAAAACGTTTCCACCGACCATCGAACGTATCAAA
ATATATTTCCTTTCAAATAGCTT
Found at i:94890389 original size:6 final size:6
Alignment explanation
Indices: 94890382--94890445 Score: 65
Period size: 6 Copynumber: 10.7 Consensus size: 6
94890372 CGAGGCTGAA
* * * * *
94890382 GCTCAA GCTCAA GCTCAG GCACAG GCACAG GCACAG GCTCAG GCTCAG
1 GCTCAG GCTCAG GCTCAG GCTCAG GCTCAG GCTCAG GCTCAG GCTCAG
* *
94890430 GCTCAA GCTCTG GCTC
1 GCTCAG GCTCAG GCTC
94890446 GATACAACAA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 52 1.00
ACGTcount: A:0.23, C:0.34, G:0.28, T:0.14
Consensus pattern (6 bp):
GCTCAG
Found at i:94890439 original size:18 final size:18
Alignment explanation
Indices: 94890374--94890445 Score: 63
Period size: 18 Copynumber: 4.0 Consensus size: 18
94890364 GCTGAGGCCG
* *
94890374 AGGCTGAAGCTCAAGCTC
1 AGGCTCAAGCTCAGGCTC
* * * *
94890392 AAGCTCAGGCACAGGCAC
1 AGGCTCAAGCTCAGGCTC
* *
94890410 AGGCACAGGCTCAGGCTC
1 AGGCTCAAGCTCAGGCTC
*
94890428 AGGCTCAAGCTCTGGCTC
1 AGGCTCAAGCTCAGGCTC
94890446 GATACAACAA
Statistics
Matches: 41, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 41 1.00
ACGTcount: A:0.25, C:0.32, G:0.29, T:0.14
Consensus pattern (18 bp):
AGGCTCAAGCTCAGGCTC
Found at i:94895947 original size:17 final size:17
Alignment explanation
Indices: 94895921--94895954 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
94895911 TATATAATTG
*
94895921 AAATATGTTATAATATA
1 AAATAAGTTATAATATA
94895938 AAATAAGTTATAATATA
1 AAATAAGTTATAATATA
94895955 TTAAGTAGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (17 bp):
AAATAAGTTATAATATA
Found at i:94897396 original size:24 final size:24
Alignment explanation
Indices: 94897369--94897420 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
94897359 TTAGTAAGTC
*
94897369 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
94897393 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
94897417 AAAT
1 AAAT
94897421 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:94899366 original size:24 final size:24
Alignment explanation
Indices: 94899339--94899390 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
94899329 TTAGTAAGTC
*
94899339 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
94899363 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
94899387 AAAT
1 AAAT
94899391 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:94899576 original size:24 final size:24
Alignment explanation
Indices: 94899549--94899616 Score: 100
Period size: 24 Copynumber: 2.8 Consensus size: 24
94899539 GAAATGATTT
94899549 TGGCATTATGTGTGCGAATTTGAA
1 TGGCATTATGTGTGCGAATTTGAA
*
94899573 TGGCATTATGTGTGCGAATTTGTA
1 TGGCATTATGTGTGCGAATTTGAA
* *
94899597 TGGCACTCTGTGTGCAGAAT
1 TGGCATTATGTGTGC-GAAT
94899617 AGAATGTCAA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
24 36 0.90
25 4 0.10
ACGTcount: A:0.22, C:0.12, G:0.29, T:0.37
Consensus pattern (24 bp):
TGGCATTATGTGTGCGAATTTGAA
Found at i:94899609 original size:48 final size:47
Alignment explanation
Indices: 94899550--94899660 Score: 114
Period size: 48 Copynumber: 2.3 Consensus size: 47
94899540 AAATGATTTT
* * * * ** *
94899550 GGCATTATGTGTGCGAATTTGAATGGCATTATGTGTGCGAATTTGTAT
1 GGCACTATGTGTGCGAA-TAGAATGGCAATATGTATGCGAATTACTAA
* * *
94899598 GGCACTCTGTGTGCAGAATAGAATGTCAATATGTATGTGAATTACTAA
1 GGCACTATGTGTGC-GAATAGAATGGCAATATGTATGCGAATTACTAA
94899646 GGCACTATGTGTGCG
1 GGCACTATGTGTGCG
94899661 GGTTAACATG
Statistics
Matches: 51, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
47 1 0.02
48 47 0.92
49 3 0.06
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (47 bp):
GGCACTATGTGTGCGAATAGAATGGCAATATGTATGCGAATTACTAA
Found at i:94905512 original size:22 final size:19
Alignment explanation
Indices: 94905432--94905526 Score: 119
Period size: 17 Copynumber: 5.2 Consensus size: 19
94905422 AGATTACAAG
94905432 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
**
94905453 ATTGTATC-AAGATTGCAT
1 ATCATATCTAAGATTGCAT
94905471 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
94905488 ATCATATCTAAGATTGC--
1 ATCATATCTAAGATTGCAT
94905505 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
94905524 ATC
1 ATC
94905527 CTTAAAGATT
Statistics
Matches: 66, Mismatches: 4, Indels: 10
0.82 0.05 0.12
Matches are distributed among these distances:
17 34 0.52
18 16 0.24
19 10 0.15
21 6 0.09
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:94906149 original size:44 final size:44
Alignment explanation
Indices: 94906099--94906849 Score: 531
Period size: 44 Copynumber: 17.3 Consensus size: 44
94906089 TCGAAATAGA
* *
94906099 GATGCCAGATCTGTTATCTTTGATTTGTTCCCTATAAACACAGG
1 GATGCCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGG
94906143 GATGCC--A-----TATCTTCGATTTGTTCCCTATAAACACAGG
1 GATGCCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGG
* ** * ** * *
94906180 GATG--ACATGCTGAAATCTTCGATCTGCTTTGCTATAAGCATAGG
1 GATGCCAGAT-CTGCTATCTTCGATTTG-TTCCCTATAAACACAGG
* *
94906224 AATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGG
1 GATGCCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGG
* * *
94906268 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGG
1 GATGCCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGG
** * ** * *
94906312 GATGCC--ATGCTGAAATCTTTGATTTGCTTTGCTGTAATCACAGG
1 GATGCCAGAT-CTGCTATCTTCGATTTG-TTCCCTATAAACACAGG
* *
94906356 AATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGG
1 GATGCCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGG
* * *
94906400 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGG
1 GATGCCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGG
** * * * * *
94906444 GATGCC--ATGCTGAAATCTTCAATCTGCTTCGCTGTAATCACA-G
1 GATGCCAGAT-CTGCTATCTTCGATTTG-TTCCCTATAAACACAGG
** * **
94906487 GAGTGTTAAATCTATTATCTTCGATTTGTTCCCTATAAACACAGG
1 GA-TGCCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGG
** * * * * *
94906532 GATGCCATG-T-TGAAATCTTCGATCTGCTTCGCTGTAAGCACAGA
1 GATGCCA-GATCTGCTATCTTCGATTTG-TTCCCTATAAACACAGG
* * *
94906576 G-TGTCAGATCTGCTATCTTCAACTTGTTCCCTATAAACACAGG
1 GATGCCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGG
** * * * * *
94906619 GATGCCATG-T-TGAAATCTTCGATCTGCTTCGCTGTAAGCACAGA
1 GATGCCA-GATCTGCTATCTTCGATTTG-TTCCCTATAAACACAGG
* * * * *
94906663 G-TGTCAGATCTACTATCTTCAATCTGTTCCCTATAAATACAGG
1 GATGCCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGG
* * * *
94906706 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACATG
1 GATGCCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGG
** * * * * **
94906750 GATGCC--ATGCTGAAATCTTCAATCTGCTTCGCTGTAGGCACA-G
1 GATGCCAGAT-CTGCTATCTTCGATTTG-TTCCCTATAAACACAGG
* *
94906793 GAGTGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGG
1 GA-TGCCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGG
*
94906838 GATGCCAAATCT
1 GATGCCAGATCT
94906850 TGTTTCTCTG
Statistics
Matches: 543, Mismatches: 127, Indels: 74
0.73 0.17 0.10
Matches are distributed among these distances:
37 34 0.06
42 9 0.02
43 115 0.21
44 315 0.58
45 61 0.11
46 9 0.02
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (44 bp):
GATGCCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGG
Found at i:94906163 original size:37 final size:37
Alignment explanation
Indices: 94906113--94906183 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
94906103 CCAGATCTGT
*
94906113 TATCTTTGATTTGTTCCCTATAAACACAGGGATGCCA
1 TATCTTCGATTTGTTCCCTATAAACACAGGGATGCCA
94906150 TATCTTCGATTTGTTCCCTATAAACACAGGGATG
1 TATCTTCGATTTGTTCCCTATAAACACAGGGATG
94906184 ACATGCTGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (37 bp):
TATCTTCGATTTGTTCCCTATAAACACAGGGATGCCA
Found at i:94906574 original size:132 final size:132
Alignment explanation
Indices: 94906104--94906538 Score: 668
Period size: 132 Copynumber: 3.3 Consensus size: 132
94906094 ATAGAGATGC
* * * *
94906104 CAGATCTGTTATCTTTGATTTGTTCCCTATAAACACAGGGATGCC--A-----TATCTTCGATTT
1 CAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
* * * *
94906162 GTTCCCTATAAACACAGGGATGACATGCTGAAATCTTCGATCTGCTTTGCTATAAGCATAGGAAT
66 GTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTTGCTGTAATCACAGGAAT
94906227 GT
131 GT
94906229 CAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
1 CAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
* *
94906294 GTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTTGATTTGCTTTGCTGTAATCACAGGAAT
66 GTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTTGCTGTAATCACAGGAAT
94906359 GT
131 GT
94906361 CAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
1 CAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
* * *
94906426 GTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCAATCTGCTTCGCTGTAATCACAGGAGT
66 GTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTTGCTGTAATCACAGGAAT
94906491 GT
131 GT
* * **
94906493 TAAATCTATTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCA
1 CAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCA
94906539 TGTTGAAATC
Statistics
Matches: 284, Mismatches: 19, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
125 43 0.15
127 1 0.00
132 240 0.85
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (132 bp):
CAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
GTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTTGCTGTAATCACAGGAAT
GT
Found at i:94906681 original size:131 final size:132
Alignment explanation
Indices: 94906546--94906849 Score: 459
Period size: 131 Copynumber: 2.3 Consensus size: 132
94906536 CCATGTTGAA
* * * * *
94906546 ATCTTCGATCTGCTTCGCTGTAAGCACAGAG-TGTCAGATCTGCTATCTTCAACTTGTTCCCTAT
1 ATCTTCGATCTG-TTCCCTATAAACACAGAGATGCCAAATCTGCTATCTTCAACTTGTTCCCTAT
* *
94906610 AAACACAGGGATGCCATGTTGAAATCTTCGATCTGCTTCGCTGTAAGCACA-GAGTGTCAGATCT
65 AAACACAGGGATGCCATGCTGAAATCTTCAATCTGCTTCGCTGTAAGCACAGGAGTGTCAGATCT
94906674 ACT
130 ACT
* * *
94906677 ATCTTCAATCTGTTCCCTATAAATACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATA
1 ATCTTCGATCTGTTCCCTATAAACACAGAGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATA
* * *
94906742 AACACATGGATGCCATGCTGAAATCTTCAATCTGCTTCGCTGTAGGCACAGGAGTGTCAGATCTG
66 AACACAGGGATGCCATGCTGAAATCTTCAATCTGCTTCGCTGTAAGCACAGGAGTGTCAGATCTA
94906807 CT
131 CT
*
94906809 ATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCT
1 ATCTTCGATCTGTTCCCTATAAACACAGAGATGCCAAATCT
94906850 TGTTTCTCTG
Statistics
Matches: 156, Mismatches: 15, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
130 13 0.08
131 89 0.57
132 54 0.35
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (132 bp):
ATCTTCGATCTGTTCCCTATAAACACAGAGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATA
AACACAGGGATGCCATGCTGAAATCTTCAATCTGCTTCGCTGTAAGCACAGGAGTGTCAGATCTA
CT
Found at i:94906739 original size:306 final size:307
Alignment explanation
Indices: 94906276--94906844 Score: 969
Period size: 306 Copynumber: 1.9 Consensus size: 307
94906266 GGGATGCCAA
* *
94906276 ATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTTGATTTGCTT
1 ATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTT
* * * * *
94906341 TGCTGTAATCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCC
66 CGCTGTAAGCACAGGAATGTCAGATCTACTATCTTCAATCTGTTCCCTATAAACACAGGGATGCC
94906406 AAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCAATCTGC
131 AAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCAATCTGC
* * * *
94906471 TTCGCTGTAATCACAGGAGTGTTAAATCTATTATCTTCGATTTGTTCCCTATAAACACAGGGATG
196 TTCGCTGTAAGCACAGGAGTGTCAAATCTACTATCTTCGATCTGTTCCCTATAAACACAGGGATG
94906536 CCATGTTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGAGTGTCAG
261 CCATGTTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGAGTGTCAG
*
94906583 ATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGTTGAAATCTTCGATCTGCTT
1 ATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTT
* *
94906648 CGCTGTAAGCACA-GAGTGTCAGATCTACTATCTTCAATCTGTTCCCTATAAATACAGGGATGCC
66 CGCTGTAAGCACAGGAATGTCAGATCTACTATCTTCAATCTGTTCCCTATAAACACAGGGATGCC
*
94906712 AAATCTGCTATCTTCAACTTGTTCCCTATAAACACATGGATGCCATGCTGAAATCTTCAATCTGC
131 AAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCAATCTGC
* * *
94906777 TTCGCTGTAGGCACAGGAGTGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATG
196 TTCGCTGTAAGCACAGGAGTGTCAAATCTACTATCTTCGATCTGTTCCCTATAAACACAGGGATG
94906842 CCA
261 CCA
94906845 AATCTTGTTT
Statistics
Matches: 244, Mismatches: 18, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
306 171 0.70
307 73 0.30
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (307 bp):
ATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTT
CGCTGTAAGCACAGGAATGTCAGATCTACTATCTTCAATCTGTTCCCTATAAACACAGGGATGCC
AAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCAATCTGC
TTCGCTGTAAGCACAGGAGTGTCAAATCTACTATCTTCGATCTGTTCCCTATAAACACAGGGATG
CCATGTTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGAGTGTCAG
Found at i:94907742 original size:1 final size:1
Alignment explanation
Indices: 94907731--94907782 Score: 50
Period size: 1 Copynumber: 52.0 Consensus size: 1
94907721 GGCCTCTCCA
* * * * * *
94907731 TTTTTTCTTTTTTTTTTTCTTTTTATTATTTTTTTCTTTTTCTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
94907783 GAAATAGAAG
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.04, C:0.08, G:0.00, T:0.88
Consensus pattern (1 bp):
T
Found at i:94907782 original size:17 final size:17
Alignment explanation
Indices: 94907732--94907782 Score: 75
Period size: 17 Copynumber: 2.9 Consensus size: 17
94907722 GCCTCTCCAT
94907732 TTTTTCTTTTTTTTTTTC
1 TTTTTC-TTTTTTTTTTC
* *
94907750 TTTTTATTATTTTTTTC
1 TTTTTCTTTTTTTTTTC
94907767 TTTTTCTTTTTTTTTT
1 TTTTTCTTTTTTTTTT
94907783 GAAATAGAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
17 24 0.83
18 5 0.17
ACGTcount: A:0.04, C:0.08, G:0.00, T:0.88
Consensus pattern (17 bp):
TTTTTCTTTTTTTTTTC
Found at i:94913464 original size:19 final size:19
Alignment explanation
Indices: 94913440--94913527 Score: 153
Period size: 19 Copynumber: 4.7 Consensus size: 19
94913430 ATCATACCTT
94913440 TAAGATTGCATATCATATC
1 TAAGATTGCATATCATATC
*
94913459 TAAGATTGGATATCATATC
1 TAAGATTGCATATCATATC
94913478 TAAGATTGCATATCATATC
1 TAAGATTGCATATCATATC
94913497 TAAGATTG--TATCATATC
1 TAAGATTGCATATCATATC
94913514 TAAGATTGCATATC
1 TAAGATTGCATATC
94913528 CTTAAAGATT
Statistics
Matches: 65, Mismatches: 2, Indels: 4
0.92 0.03 0.06
Matches are distributed among these distances:
17 17 0.26
19 48 0.74
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (19 bp):
TAAGATTGCATATCATATC
Found at i:94914626 original size:132 final size:132
Alignment explanation
Indices: 94914389--94914629 Score: 331
Period size: 132 Copynumber: 1.8 Consensus size: 132
94914379 ATTTCCTTTA
* * ** * **
94914389 AAATGAAGGCGATATTCGATACTTGGTAATTCGTGGAATCGTGCCCTAACGTGTTGGGTTGCAAT
1 AAATGAAGGCGATATGCGATACTTGGGAATTCACGGAATCGTACCCTAACGTGCAGGGTTGCAAT
* * * * *
94914454 TCCTCGTTTGCTAAAAATAATCGAAGGTCCCTTTAGAATTTCACCCACGGCTATTAAAAAATCCC
66 TCCTCGTCTGCTAAAAATAATCAAAGATCCCTTCAAAATTTCACCCACGGCTATTAAAAAATCCC
94914519 TT
131 TT
*
94914521 AAATGAAGGCGATATGCGATATTTGGGAATTCACGGAATCGTACCCTAACGTGCAGGGTTGCAAT
1 AAATGAAGGCGATATGCGATACTTGGGAATTCACGGAATCGTACCCTAACGTGCAGGGTTGCAAT
* *
94914586 TTCTCGTCTGCTTAAAAA-AATCAAATATCCCTTCAAAATTTCAC
66 TCCTCGTCTGC-TAAAAATAATCAAAGATCCCTTCAAAATTTCAC
94914630 TCATATCCTT
Statistics
Matches: 93, Mismatches: 15, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
132 87 0.94
133 6 0.06
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (132 bp):
AAATGAAGGCGATATGCGATACTTGGGAATTCACGGAATCGTACCCTAACGTGCAGGGTTGCAAT
TCCTCGTCTGCTAAAAATAATCAAAGATCCCTTCAAAATTTCACCCACGGCTATTAAAAAATCCC
TT
Found at i:94914643 original size:132 final size:132
Alignment explanation
Indices: 94914386--94914662 Score: 326
Period size: 132 Copynumber: 2.1 Consensus size: 132
94914376 ACAATTTCCT
* * ** * **
94914386 TTAAAATGAAGGCGATATTCGATACTTGGTAATTCGTGGAATCGTGCCCTAACGTGTTGGGTTGC
1 TTAAAATGAAGGCGATATGCGATACTTGGGAATTCACGGAATCGTACCCTAACGTGCAGGGTTGC
* * * * * * *
94914451 AATTCCTCGTTTGCTAAAAATAATCGAAGGTCCCTTTAGAATTTCACCCACGGCTATTAAAAAAT
66 AATTCCTCGTCTGCTAAAAATAATCAAAGATCCCTTCAAAATTTCACCCAAGCCTATT-AAAAAT
94914516 CCC
130 CCC
*
94914519 TT-AAATGAAGGCGATATGCGATATTTGGGAATTCACGGAATCGTACCCTAACGTGCAGGGTTGC
1 TTAAAATGAAGGCGATATGCGATACTTGGGAATTCACGGAATCGTACCCTAACGTGCAGGGTTGC
* * * *
94914583 AATTTCTCGTCTGCTTAAAAA-AATCAAATATCCCTTCAAAATTTCACTCATATCCT-TTAAAAA
66 AATTCCTCGTCTGC-TAAAAATAATCAAAGATCCCTTCAAAATTTCACCCA-AGCCTATTAAAAA
*
94914646 TCCT
129 TCCC
94914650 TTAAAATGAAGGC
1 TTAAAATGAAGGC
94914663 AATACTCGGG
Statistics
Matches: 121, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
131 10 0.08
132 101 0.83
133 10 0.08
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.31
Consensus pattern (132 bp):
TTAAAATGAAGGCGATATGCGATACTTGGGAATTCACGGAATCGTACCCTAACGTGCAGGGTTGC
AATTCCTCGTCTGCTAAAAATAATCAAAGATCCCTTCAAAATTTCACCCAAGCCTATTAAAAATC
CC
Found at i:94914721 original size:131 final size:131
Alignment explanation
Indices: 94914564--94914844 Score: 289
Period size: 131 Copynumber: 2.1 Consensus size: 131
94914554 CGGAATCGTA
* *
94914564 CCCTAACGTGCAGGGTTGCAATTTCTCGTCTGCTT-AAAAAAATCAAATATCCCTTCAAAATTTC
1 CCCTATCGTGCTGGGTTGCAATTTCTCGTCTG-TTCAAAAAAATCAAATATCCCTTCAAAATTTC
* *
94914628 ACTCATATCCT-TTAAAAATCCTTT-AAAATGAAGGCAATACTCGGGGTTTGACAATTCGAGAAT
65 ACTCATAT-CTATTAAAAA-CCTTTCAAAACGAAGGCAATACTCGAGGTTTGACAATTCGAGAAT
94914691 CATG
128 CATG
** * * * * * *** *
94914695 CCCTATCGTGCTGGGTTGTGATTTCTCGTTTGTTCAAAACAATCGAATATTCCTTTAGGTTTTTA
1 CCCTATCGTGCTGGGTTGCAATTTCTCGTCTGTTCAAAAAAATCAAATATCCCTTCAAAATTTCA
* * * ** * * * * *
94914760 CTCATGTTTATTAAAAACCTTTCAAAACGAAGGCGATGTTTGATGTTTGGCAATTTGAGAATCGT
66 CTCATATCTATTAAAAACCTTTCAAAACGAAGGCAATACTCGAGGTTTGACAATTCGAGAATCAT
94914825 G
131 G
94914826 CCCTATCGTGCTGGGTTGC
1 CCCTATCGTGCTGGGTTGC
94914845 GCTTTTTCAT
Statistics
Matches: 121, Mismatches: 26, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
130 8 0.07
131 113 0.93
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.35
Consensus pattern (131 bp):
CCCTATCGTGCTGGGTTGCAATTTCTCGTCTGTTCAAAAAAATCAAATATCCCTTCAAAATTTCA
CTCATATCTATTAAAAACCTTTCAAAACGAAGGCAATACTCGAGGTTTGACAATTCGAGAATCAT
G
Found at i:94915794 original size:16 final size:16
Alignment explanation
Indices: 94915773--94915829 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
94915763 AAAAGAATAT
94915773 CATTACAGTTCTATTC
1 CATTACAGTTCTATTC
**
94915789 CATTACAACTCTATTC
1 CATTACAGTTCTATTC
* *
94915805 AATTACAG-CCTTATTC
1 CATTACAGTTC-TATTC
94915821 CATTACAGT
1 CATTACAGT
94915830 GAACCAAACG
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
15 1 0.03
16 32 0.97
ACGTcount: A:0.30, C:0.26, G:0.05, T:0.39
Consensus pattern (16 bp):
CATTACAGTTCTATTC
Found at i:94917792 original size:22 final size:21
Alignment explanation
Indices: 94917766--94917806 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
94917756 TATGTTCATT
94917766 TAAAT-TTAATTATTAAAATATG
1 TAAATATTAA-TA-TAAAATATG
94917788 TAAATATTAATATAAAATA
1 TAAATATTAATATAAAATA
94917807 ATATATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.39
22 7 0.39
23 4 0.22
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (21 bp):
TAAATATTAATATAAAATATG
Found at i:94922741 original size:16 final size:16
Alignment explanation
Indices: 94922720--94922752 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
94922710 ATTAAAGAAG
94922720 ATGTTG-TATCTTGTTT
1 ATGTTGCTATCTT-TTT
94922736 ATGTTGCTATCTTTTT
1 ATGTTGCTATCTTTTT
94922752 A
1 A
94922753 GTTCTAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.15, C:0.09, G:0.15, T:0.61
Consensus pattern (16 bp):
ATGTTGCTATCTTTTT
Found at i:94926028 original size:22 final size:22
Alignment explanation
Indices: 94925990--94926031 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
94925980 TGTAAATTTA
*
94925990 ATTATAAAGTATATTATAAAAT
1 ATTATAAAATATATTATAAAAT
94926012 ATTATAAAATA-ATTTATAAA
1 ATTATAAAATATA-TTATAAA
94926032 CAAACAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
ATTATAAAATATATTATAAAAT
Found at i:94927477 original size:27 final size:26
Alignment explanation
Indices: 94927432--94927498 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 26
94927422 ACATTATTTT
* *
94927432 TTTTATAAATTATTGATATTTTTAAATA
1 TTTTAT-AATTATTTATATATTT-AATA
*
94927460 TTTTATAATTATTTATATATTTAATT
1 TTTTATAATTATTTATATATTTAATA
94927486 TTTTATAA-TATTT
1 TTTTATAATTATTT
94927499 TTTATAATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
25 5 0.14
26 11 0.31
27 14 0.39
28 6 0.17
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (26 bp):
TTTTATAATTATTTATATATTTAATA
Found at i:94927490 original size:16 final size:17
Alignment explanation
Indices: 94927465--94927498 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
94927455 AAATATTTTA
94927465 TAATTATTTAT-ATATT
1 TAATTATTTATAATATT
*
94927481 TAATTTTTTATAATATT
1 TAATTATTTATAATATT
94927498 T
1 T
94927499 TTTATAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TAATTATTTATAATATT
Found at i:94928672 original size:31 final size:32
Alignment explanation
Indices: 94928574--94928674 Score: 125
Period size: 32 Copynumber: 3.2 Consensus size: 32
94928564 AATGACCTAC
94928574 CCTGCATACTGCCCGAACAGTCCTCCCTGCAG
1 CCTGCATACTGCCCGAACAGTCCTCCCTGCAG
* * * * *
94928606 CCTGCCTGCTGCCCGAATAGTTCTCCCTACA-
1 CCTGCATACTGCCCGAACAGTCCTCCCTGCAG
* *
94928637 CCTGCGTATTGCCCGAACAGTCCT-CCTGCAG
1 CCTGCATACTGCCCGAACAGTCCTCCCTGCAG
94928668 CCTGCAT
1 CCTGCAT
94928675 GCATGCCCCC
Statistics
Matches: 56, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
30 5 0.09
31 25 0.45
32 26 0.46
ACGTcount: A:0.17, C:0.42, G:0.19, T:0.23
Consensus pattern (32 bp):
CCTGCATACTGCCCGAACAGTCCTCCCTGCAG
Found at i:94928823 original size:9 final size:10
Alignment explanation
Indices: 94928799--94928854 Score: 51
Period size: 11 Copynumber: 5.3 Consensus size: 10
94928789 ACACCGGAAG
94928799 AGAGAAAGAAA
1 AGAG-AAGAAA
94928810 AGAG-AGAAA
1 AGAGAAGAAA
*
94928819 GGAGAAGAAA
1 AGAGAAGAAA
*
94928829 AAAGGAAGAAGA
1 AGA-GAAGAA-A
94928841 AGAGAAGAAGA
1 AGAGAAGAA-A
94928852 AGA
1 AGA
94928855 AGGGGAGAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
9 8 0.21
10 6 0.16
11 21 0.55
12 3 0.08
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (10 bp):
AGAGAAGAAA
Found at i:94928863 original size:14 final size:14
Alignment explanation
Indices: 94928795--94928876 Score: 66
Period size: 14 Copynumber: 6.0 Consensus size: 14
94928785 CCACACACCG
94928795 GAAG-AGAGAAAGAA
1 GAAGAAGAG-AAGAA
*
94928809 -AAG-AGAGAAAGGA
1 GAAGAAGAG-AAGAA
*
94928822 GAAGAA-AAAAGGAA
1 GAAGAAGAGAA-GAA
94928836 GAAGAAGAGAAGAA
1 GAAGAAGAGAAGAA
* *
94928850 GAAGAAGGGGAGAA
1 GAAGAAGAGAAGAA
94928864 GAAGAAGA-AAGAA
1 GAAGAAGAGAAGAA
94928877 AAAAGAAAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
13 18 0.32
14 34 0.61
15 4 0.07
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (14 bp):
GAAGAAGAGAAGAA
Found at i:94928882 original size:17 final size:17
Alignment explanation
Indices: 94928795--94928883 Score: 51
Period size: 17 Copynumber: 5.2 Consensus size: 17
94928785 CCACACACCG
94928795 GAAGAGAGAAAGAAAAGAGA
1 GAAGA-AGAAAGAAAA-A-A
*
94928815 GAA-AGGAGAAGAAAAAA
1 GAAGAAGA-AAGAAAAAA
*
94928832 G--GAAG-AAGAAGAGAA
1 GAAGAAGAAAGAA-AAAA
* ** *
94928847 GAAGAAGAAGGGGAGAA
1 GAAGAAGAAAGAAAAAA
94928864 GAAGAAGAAAGAAAAAA
1 GAAGAAGAAAGAAAAAA
94928881 GAA
1 GAA
94928884 AAAAAAGGTA
Statistics
Matches: 53, Mismatches: 10, Indels: 15
0.68 0.13 0.19
Matches are distributed among these distances:
14 5 0.09
15 4 0.08
16 2 0.04
17 26 0.49
18 5 0.09
19 8 0.15
20 3 0.06
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (17 bp):
GAAGAAGAAAGAAAAAA
Found at i:94929038 original size:33 final size:32
Alignment explanation
Indices: 94929001--94929096 Score: 80
Period size: 33 Copynumber: 3.1 Consensus size: 32
94928991 TGTTTTTATA
94929001 ATTATTTTAAAAATAATTTGTTTGTAATTTAGG
1 ATTATTTTAAAAATAATTT-TTTGTAATTTAGG
* *
94929034 ATTATGTT-AAAAT--TTTTGTGT--TTGTA--
1 ATTATTTTAAAAATAATTTTTTGTAATT-TAGG
* *
94929060 ATTATTTTAAAATTAATTTATTAGTAATTTAGG
1 ATTATTTTAAAAATAATTT-TTTGTAATTTAGG
94929093 ATTA
1 ATTA
94929097 AGTTATAAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 18
0.67 0.08 0.25
Matches are distributed among these distances:
26 7 0.15
27 6 0.12
28 2 0.04
29 7 0.15
30 6 0.12
31 2 0.04
32 7 0.15
33 11 0.23
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.53
Consensus pattern (32 bp):
ATTATTTTAAAAATAATTTTTTGTAATTTAGG
Found at i:94929062 original size:59 final size:60
Alignment explanation
Indices: 94928987--94929117 Score: 192
Period size: 59 Copynumber: 2.2 Consensus size: 60
94928977 AATGTAATTT
* * * *
94928987 TTTTTGTTTTTATAATTATTTTAAAAATAATTTGTTTGTAATTTAGGATTATGTTA-AAA
1 TTTTTGTGTTTATAATTATTTTAAAAATAATTTATTAGTAATTTAGGATTAAGTTATAAA
* *
94929046 TTTTTGTGTTTGTAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAA
1 TTTTTGTGTTTATAATTATTTTAAAAATAATTTATTAGTAATTTAGGATTAAGTTATAAA
*
94929106 TTGTTGTGTTTA
1 TTTTTGTGTTTA
94929118 GTTTAGTATT
Statistics
Matches: 63, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
59 50 0.79
60 13 0.21
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (60 bp):
TTTTTGTGTTTATAATTATTTTAAAAATAATTTATTAGTAATTTAGGATTAAGTTATAAA
Found at i:94932272 original size:13 final size:13
Alignment explanation
Indices: 94932254--94932285 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
94932244 TTTCCAGCAA
94932254 TTATGAATTTATT
1 TTATGAATTTATT
94932267 TTATGAATTTATT
1 TTATGAATTTATT
*
94932280 TGATGA
1 TTATGA
94932286 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:94932493 original size:50 final size:50
Alignment explanation
Indices: 94932380--94932621 Score: 279
Period size: 50 Copynumber: 4.7 Consensus size: 50
94932370 ATTTGGGTAA
* * * *
94932380 AGAGATCCCATGTAAGACAATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
94932436 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
94932486 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
94932536 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
** *
94932586 AGAACATCCCATGTAAGACCATGTCTAGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
94932622 TTTGGCATGT
Statistics
Matches: 164, Mismatches: 20, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 28 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 38 0.23
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:94932568 original size:100 final size:103
Alignment explanation
Indices: 94932380--94932629 Score: 346
Period size: 100 Copynumber: 2.4 Consensus size: 103
94932370 ATTTGGGTAA
*
94932380 AGAGATCCCATGTAAGACAATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
94932445 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
94932486 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
94932548 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* * *
94932586 AGAACATCCCATGTAAGACCATGTCTAGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
94932630 GTTATTATCA
Statistics
Matches: 131, Mismatches: 10, Indels: 10
0.87 0.07 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.39
101 38 0.29
105 2 0.02
106 39 0.30
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:94947515 original size:1 final size:1
Alignment explanation
Indices: 94947511--94947537 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
94947501 AGAGCATTGT
94947511 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
94947538 TCATAGTTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:94948465 original size:13 final size:14
Alignment explanation
Indices: 94948438--94948471 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
94948428 AATATTTTAG
94948438 TTTATTTATTAATT
1 TTTATTTATTAATT
94948452 TTTATTTA-TAATT
1 TTTATTTATTAATT
94948465 TTT-TTTA
1 TTTATTTA
94948472 AAATCATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 4 0.20
13 8 0.40
14 8 0.40
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTATTTATTAATT
Found at i:94953243 original size:30 final size:30
Alignment explanation
Indices: 94953207--94953273 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
94953197 GTTTGATAAA
*
94953207 TTAAAAAATTAAGGGTTGAAAAAATAAGTG
1 TTAAAAAATTAAGGATTGAAAAAATAAGTG
* **
94953237 TTAAAAAATTAAGTATTGAAAATGTAAGTG
1 TTAAAAAATTAAGGATTGAAAAAATAAGTG
*
94953267 CTAAAAA
1 TTAAAAA
94953274 TATATATTCT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.54, C:0.01, G:0.16, T:0.28
Consensus pattern (30 bp):
TTAAAAAATTAAGGATTGAAAAAATAAGTG
Found at i:94953249 original size:15 final size:15
Alignment explanation
Indices: 94953207--94953273 Score: 66
Period size: 15 Copynumber: 4.5 Consensus size: 15
94953197 GTTTGATAAA
*
94953207 TTAAAAAATTAAGGG
1 TTAAAAAATTAAGTG
94953222 TTGAAAAAA-TAAGTG
1 TT-AAAAAATTAAGTG
*
94953237 TTAAAAAATTAAGTA
1 TTAAAAAATTAAGTG
*
94953252 TT-GAAAATGTAAGTG
1 TTAAAAAAT-TAAGTG
*
94953267 CTAAAAA
1 TTAAAAA
94953274 TATATATTCT
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
14 11 0.26
15 22 0.52
16 9 0.21
ACGTcount: A:0.54, C:0.01, G:0.16, T:0.28
Consensus pattern (15 bp):
TTAAAAAATTAAGTG
Found at i:94953750 original size:21 final size:21
Alignment explanation
Indices: 94953711--94953751 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
94953701 TTCAATCAGA
*
94953711 AATTTATAAAAGTATAGATTT
1 AATTTATAAAAGTACAGATTT
94953732 AATTTATAAAA-TAGCAGATT
1 AATTTATAAAAGTA-CAGATT
94953752 GATTAAATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.49, C:0.02, G:0.10, T:0.39
Consensus pattern (21 bp):
AATTTATAAAAGTACAGATTT
Found at i:94959593 original size:13 final size:13
Alignment explanation
Indices: 94959575--94959605 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
94959565 TTCCAGCAAC
94959575 TATGAATTTATTT
1 TATGAATTTATTT
94959588 TATGAATTTATTT
1 TATGAATTTATTT
*
94959601 GATGA
1 TATGA
94959606 TGATCTAAGC
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:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (13 bp):
TATGAATTTATTT
Found at i:94959778 original size:49 final size:50
Alignment explanation
Indices: 94959703--94959934 Score: 325
Period size: 49 Copynumber: 4.8 Consensus size: 50
94959693 TGGGTAAAGA
94959703 GTCCCATGTAAGA-CATGTCTGGGACATGGCATTGGCACC-AGATGAGAG
1 GTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAG
*
94959751 GTCCCATGTAAGACCATGTCTGGGACATGGCA-TGGCACCGAGATGAGAG
1 GTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAG
*
94959800 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACC-AGATGAGAG
1 GTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAG
* * * * *
94959849 GTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCAACATGAGAAC
1 GTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAG-AG
* *
94959900 AT-CCATGTAAGA-CATGTCT-GGACATGGCTTTGGCA
1 GTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
94959935 TGTTATTATC
Statistics
Matches: 167, Mismatches: 12, Indels: 10
0.88 0.06 0.05
Matches are distributed among these distances:
48 34 0.20
49 110 0.66
50 21 0.13
51 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.30, T:0.21
Consensus pattern (50 bp):
GTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAG
Found at i:94966981 original size:13 final size:13
Alignment explanation
Indices: 94966963--94966994 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
94966953 TTTCCAGCAA
94966963 TTATGAATTTATT
1 TTATGAATTTATT
94966976 TTATGAATTTATT
1 TTATGAATTTATT
*
94966989 TGATGA
1 TTATGA
94966995 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:94967202 original size:50 final size:50
Alignment explanation
Indices: 94967089--94967330 Score: 288
Period size: 50 Copynumber: 4.7 Consensus size: 50
94967079 ATTTGGGTAA
* * * *
94967089 AGAGATCCCATGTAAGACAATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
94967145 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
94967195 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
94967245 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
94967295 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
94967331 TTTGGCATGT
Statistics
Matches: 165, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.18
52 1 0.01
53 3 0.02
55 2 0.01
56 38 0.23
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:94967277 original size:100 final size:103
Alignment explanation
Indices: 94967089--94967338 Score: 355
Period size: 100 Copynumber: 2.4 Consensus size: 103
94967079 ATTTGGGTAA
*
94967089 AGAGATCCCATGTAAGACAATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
94967154 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
94967195 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
94967257 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
94967295 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
94967339 GTTATTATCA
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.39
101 39 0.30
105 2 0.02
106 39 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:94972707 original size:27 final size:27
Alignment explanation
Indices: 94972671--94972748 Score: 120
Period size: 27 Copynumber: 2.9 Consensus size: 27
94972661 TGTGGGCCAC
*
94972671 ACCATATGCGCCTCTGAGATAGGCACA
1 ACCATTTGCGCCTCTGAGATAGGCACA
* *
94972698 ATCATTTGCGTCTCTGAGATAGGCACA
1 ACCATTTGCGCCTCTGAGATAGGCACA
*
94972725 ACCATTTGCGCCTCTGAGAAAGGC
1 ACCATTTGCGCCTCTGAGATAGGC
94972749 TCGATTAGTT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (27 bp):
ACCATTTGCGCCTCTGAGATAGGCACA
Found at i:94972775 original size:54 final size:54
Alignment explanation
Indices: 94972671--94972781 Score: 132
Period size: 54 Copynumber: 2.1 Consensus size: 54
94972661 TGTGGGCCAC
* * * *
94972671 ACCATATGCGCCTCTGAGATAGGCACAATCATTTGCGTCTCTGAGATAGGCACA
1 ACCATATGCGCCTCTGAGAAAGGCACAATCAGTTGCGCCTCTCAGATAGGCACA
* * * * * *
94972725 ACCATTTGCGCCTCTGAGAAAGGCTCGATTAGTTGTGCCTCTCAGGTAGGCACA
1 ACCATATGCGCCTCTGAGAAAGGCACAATCAGTTGCGCCTCTCAGATAGGCACA
94972779 ACC
1 ACC
94972782 TGTATTTTTA
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (54 bp):
ACCATATGCGCCTCTGAGAAAGGCACAATCAGTTGCGCCTCTCAGATAGGCACA
Found at i:94974247 original size:27 final size:29
Alignment explanation
Indices: 94974217--94974270 Score: 76
Period size: 27 Copynumber: 1.9 Consensus size: 29
94974207 TATGATTATT
*
94974217 ATAAATATTATAA-AACTTA-AAAAAATC
1 ATAAATATCATAAGAACTTATAAAAAATC
*
94974244 ATAAATATCATAAGAATTTATAAAAAA
1 ATAAATATCATAAGAACTTATAAAAAA
94974271 GACTATAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 12 0.52
28 5 0.22
29 6 0.26
ACGTcount: A:0.63, C:0.06, G:0.02, T:0.30
Consensus pattern (29 bp):
ATAAATATCATAAGAACTTATAAAAAATC
Found at i:94974366 original size:21 final size:20
Alignment explanation
Indices: 94974325--94974369 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
94974315 TAAAATACTT
* *
94974325 AAAAATTTATAAATGATATA
1 AAAAATTTAGAAATGAAATA
*
94974345 AAAAATTTAGAAATTACAATA
1 AAAAATTTAGAAATGA-AATA
94974366 AAAA
1 AAAA
94974370 GATATTTAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.29
Consensus pattern (20 bp):
AAAAATTTAGAAATGAAATA
Found at i:94975419 original size:17 final size:17
Alignment explanation
Indices: 94975376--94975435 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
94975366 GTTTTATGTT
*
94975376 TTTTATAATTTACTAGAA
1 TTTTATAATTTA-TATAA
* *
94975394 CTGTTATAAGTTT-TATAT
1 -TTTTATAA-TTTATATAA
94975412 TTTTATAATTTATATAA
1 TTTTATAATTTATATAA
94975429 TTTTATA
1 TTTTATA
94975436 TATATTTAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
16 3 0.09
17 18 0.53
18 3 0.09
19 7 0.21
20 3 0.09
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (17 bp):
TTTTATAATTTATATAA
Found at i:94975422 original size:9 final size:9
Alignment explanation
Indices: 94975397--94975455 Score: 50
Period size: 9 Copynumber: 6.4 Consensus size: 9
94975387 ACTAGAACTG
*
94975397 TTATAAGTT
1 TTATAATTT
94975406 TTAT-ATTT
1 TTATAATTT
94975414 TTATAATTT
1 TTATAATTT
*
94975423 ATATAA-TT
1 TTATAATTT
94975431 TTATATATATT
1 TTATA-AT-TT
*
94975442 TAATAAATTT
1 TTAT-AATTT
94975452 TTAT
1 TTAT
94975456 GCTTTTTAAG
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
8 13 0.32
9 14 0.35
10 5 0.12
11 7 0.17
12 1 0.03
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (9 bp):
TTATAATTT
Found at i:94975447 original size:19 final size:19
Alignment explanation
Indices: 94975410--94975455 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
94975400 TAAGTTTTAT
94975410 ATTTTTATAATTTATAT-A
1 ATTTTTATAATTTATATAA
94975428 ATTTTATATATATTTA-ATAA
1 ATTTT-TATA-ATTTATATAA
94975448 ATTTTTAT
1 ATTTTTAT
94975456 GCTTTTTAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 5 0.20
19 9 0.36
20 11 0.44
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTTTATAATTTATATAA
Found at i:94979545 original size:52 final size:48
Alignment explanation
Indices: 94979526--94979728 Score: 256
Period size: 46 Copynumber: 4.3 Consensus size: 48
94979516 TGACAAGTGG
* * *
94979526 AAAGTGATAAGTAATAGCTTCGGCTATAATTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
94979572 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
94979624 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
94979670 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
94979716 AAAGTGATAAGTG
1 AAAGTGATAAGTG
94979729 GCTACACTTA
Statistics
Matches: 143, Mismatches: 8, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
46 99 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:94979590 original size:98 final size:98
Alignment explanation
Indices: 94979460--94979728 Score: 448
Period size: 98 Copynumber: 2.7 Consensus size: 98
94979450 TTTGAGTACT
*
94979460 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
94979525 GAAAGTGATAAGTAATAGCTTCGGCTATAATTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATAATTA
**
94979558 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
* *
94979623 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATAATTA
* *
94979656 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
94979721 GATAAGTG
65 GAAAAGTG
94979729 GCTACACTTA
Statistics
Matches: 159, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
98 148 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATAATTA
Found at i:94979736 original size:37 final size:37
Alignment explanation
Indices: 94979692--94979837 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
94979682 GATAGCTTTA
*
94979692 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
94979729 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
94979766 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
94979803 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
94979838 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:94981168 original size:58 final size:58
Alignment explanation
Indices: 94981091--94981258 Score: 237
Period size: 58 Copynumber: 3.0 Consensus size: 58
94981081 CATGTGAACA
94981091 TGTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
1 TGTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
94981150 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATA--
1 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
* * *
94981206 TGTG--A--T--TT-CGTGTAAGACCATAGTTGGGCTATGGCATCGGTATGTGATTTG
1 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
94981257 TG
1 TG
94981259 ATTACGTGTA
Statistics
Matches: 104, Mismatches: 3, Indels: 12
0.87 0.03 0.10
Matches are distributed among these distances:
49 38 0.37
50 2 0.02
51 2 0.02
52 1 0.01
54 1 0.01
56 4 0.04
58 51 0.49
59 5 0.05
ACGTcount: A:0.23, C:0.13, G:0.31, T:0.33
Consensus pattern (58 bp):
TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
Found at i:94981200 original size:28 final size:28
Alignment explanation
Indices: 94981110--94981200 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
94981100 GTGATTCCGT
94981110 GTAAGACCATAGCTGGGCTATGGCATCG
1 GTAAGACCATAGCTGGGCTATGGCATCG
** * *
94981138 GTAAG-TGATATG-TGTGATATGTG-ATTCCG
1 GTAAGACCATA-GCTGGGCTATG-GCA-T-CG
94981167 TGTAAGACCATAGCTGGGCTATGGCATCG
1 -GTAAGACCATAGCTGGGCTATGGCATCG
94981196 GTAAG
1 GTAAG
94981201 TGATATGTGA
Statistics
Matches: 47, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
27 11 0.23
28 13 0.28
29 4 0.09
30 8 0.17
31 11 0.23
ACGTcount: A:0.25, C:0.15, G:0.32, T:0.27
Consensus pattern (28 bp):
GTAAGACCATAGCTGGGCTATGGCATCG
Found at i:94981223 original size:49 final size:49
Alignment explanation
Indices: 94981151--94981293 Score: 232
Period size: 49 Copynumber: 2.9 Consensus size: 49
94981141 AGTGATATGT
* *
94981151 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
94981200 GTGATATGTGATTTCGTGTAAGACCATAGTTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
94981249 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCG
94981294 AGAAAACGAA
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 88 1.00
ACGTcount: A:0.24, C:0.14, G:0.30, T:0.32
Consensus pattern (49 bp):
GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
Found at i:94984502 original size:52 final size:48
Alignment explanation
Indices: 94984483--94984685 Score: 256
Period size: 46 Copynumber: 4.3 Consensus size: 48
94984473 TGACAAGTGG
* * *
94984483 AAAGTGATAAGTAATAGCTTCGGCTATAATTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
94984529 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
94984581 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
94984627 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
94984673 AAAGTGATAAGTG
1 AAAGTGATAAGTG
94984686 GCTACACTTA
Statistics
Matches: 143, Mismatches: 8, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
46 99 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:94984547 original size:98 final size:98
Alignment explanation
Indices: 94984417--94984685 Score: 448
Period size: 98 Copynumber: 2.7 Consensus size: 98
94984407 TTTGAGTACT
*
94984417 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
94984482 GAAAGTGATAAGTAATAGCTTCGGCTATAATTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATAATTA
**
94984515 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
* *
94984580 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATAATTA
* *
94984613 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
94984678 GATAAGTG
65 GAAAAGTG
94984686 GCTACACTTA
Statistics
Matches: 159, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
98 148 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATAATTA
Found at i:94984693 original size:37 final size:37
Alignment explanation
Indices: 94984649--94984757 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
94984639 GATAGCTTTA
94984649 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
94984686 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
94984723 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
94984758 ATCATACGTA
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
35 11 0.16
36 4 0.06
37 52 0.78
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:94990607 original size:21 final size:21
Alignment explanation
Indices: 94990583--94990670 Score: 97
Period size: 21 Copynumber: 4.2 Consensus size: 21
94990573 TTCGGGTGGA
*
94990583 TTAGCTCTTACGAGCTTCTAT
1 TTAGCTCTTATGAGCTTCTAT
94990604 TTAGCTCTTATGAGCTTCTAT
1 TTAGCTCTTATGAGCTTCTAT
* * * * *
94990625 TCAGCTATTTTGAGCTTTTGT
1 TTAGCTCTTATGAGCTTCTAT
* *
94990646 TAAGCTCTTATGAGCTT-TTT
1 TTAGCTCTTATGAGCTTCTAT
94990666 TTAGC
1 TTAGC
94990671 GTGATCCGGA
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
20 6 0.11
21 50 0.89
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (21 bp):
TTAGCTCTTATGAGCTTCTAT
Found at i:94990929 original size:30 final size:30
Alignment explanation
Indices: 94990895--94990967 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 30
94990885 ATGTTTAATA
94990895 TTAATG-ATATACATTGACATGGTAATTGGT
1 TTAATGAAT-TACATTGACATGGTAATTGGT
94990925 TTAATGGAATTACATTGACATGGTAATTGGT
1 TTAAT-GAATTACATTGACATGGTAATTGGT
*
94990956 TAAATGGAATTA
1 TTAAT-GAATTA
94990968 TGCTTATGTT
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
30 5 0.12
31 33 0.82
32 2 0.05
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (30 bp):
TTAATGAATTACATTGACATGGTAATTGGT
Found at i:94990940 original size:31 final size:31
Alignment explanation
Indices: 94990904--94990967 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
94990894 ATTAATGATA
*
94990904 TACATTGACATGGTAATTGGTTTAATGGAAT
1 TACATTGACATGGTAATTGGTTAAATGGAAT
94990935 TACATTGACATGGTAATTGGTTAAATGGAAT
1 TACATTGACATGGTAATTGGTTAAATGGAAT
94990966 TA
1 TA
94990968 TGCTTATGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.34, C:0.06, G:0.22, T:0.38
Consensus pattern (31 bp):
TACATTGACATGGTAATTGGTTAAATGGAAT
Found at i:94993171 original size:31 final size:31
Alignment explanation
Indices: 94993133--94993195 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
94993123 GTTTAAAAAT
94993133 GTAAGTTTCTTTTTTAATGTAGAAACAAGAG
1 GTAAGTTTCTTTTTTAATGTAGAAACAAGAG
94993164 GTAAGTTTCTTTTTTAATGTAGAAACAAGAG
1 GTAAGTTTCTTTTTTAATGTAGAAACAAGAG
94993195 G
1 G
94993196 GTACTTGCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.38
Consensus pattern (31 bp):
GTAAGTTTCTTTTTTAATGTAGAAACAAGAG
Found at i:94995193 original size:237 final size:237
Alignment explanation
Indices: 94994774--94995210 Score: 619
Period size: 237 Copynumber: 1.8 Consensus size: 237
94994764 CGTGTGGACA
* **
94994774 GGGCGTGTAACTCGCTAGACTCATGTACGACACCAACAACGATTTTTAGTTTTTAGGTTTTTGGC
1 GGGCGTGTAACTCACTAGACTCATGTACGACACCAACAACGATTTTTAGTTTTTAGGTTTTCAGC
* * *
94994839 ACTTTGAGAAGGCATATATAAGGAAATAAAAAGGGAGAACAATAGTCGTCTTATTTTTGCACAAA
66 ACTTTGAGAAGGCATATATAAGAAAATAAAAAGGGAGAACAATAGTCCTCCTATTTTTGCACAAA
* *
94994904 AATTACCCAAAAGAACACCTTTGAAATTGATATTGAAGCAGTTCTCCATCAAGATTGAAGATTCC
131 AATTACCCAAAAGAACACCTTTGAAATTGATATTGAAGCAGATCTCCATCAAGATTAAAGATTCC
94994969 AAGCTAAATTAGAAGCTACACACGGTCAACAGTGTTCCACAC
196 AAGCTAAATTAGAAGCTACACACGGTCAACAGTGTTCCACAC
* * ***
94995011 GGGCGTGTAACTCACTAGACTCATGTATGACACCAGCGGGGATTTTT-GATTTTTAGGTTTTCAG
1 GGGCGTGTAACTCACTAGACTCATGTACGACACCAACAACGATTTTTAG-TTTTTAGGTTTTCAG
* *** * **
94995075 CACTTTGAGAGGGCATATATAAGAAAATAAAAAGGGAGAATGGTAGTCCTCCTATTTTTTCATGA
65 CACTTTGAGAAGGCATATATAAGAAAATAAAAAGGGAGAACAATAGTCCTCCTATTTTTGCACAA
* * *
94995140 AAATTACCCAAAAGAACAGCC-TTGAAGTTGAT-TCTGAGGCAGATCTTCATCAAGATTAAAGAT
130 AAATTACCCAAAAGAACA-CCTTTGAAATTGATAT-TGAAGCAGATCTCCATCAAGATTAAAGAT
94995203 TCCAAGCT
193 TCCAAGCT
94995211 GATTTTCGAG
Statistics
Matches: 174, Mismatches: 23, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
236 2 0.01
237 170 0.98
238 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (237 bp):
GGGCGTGTAACTCACTAGACTCATGTACGACACCAACAACGATTTTTAGTTTTTAGGTTTTCAGC
ACTTTGAGAAGGCATATATAAGAAAATAAAAAGGGAGAACAATAGTCCTCCTATTTTTGCACAAA
AATTACCCAAAAGAACACCTTTGAAATTGATATTGAAGCAGATCTCCATCAAGATTAAAGATTCC
AAGCTAAATTAGAAGCTACACACGGTCAACAGTGTTCCACAC
Found at i:94996314 original size:46 final size:46
Alignment explanation
Indices: 94996244--94996517 Score: 415
Period size: 46 Copynumber: 6.0 Consensus size: 46
94996234 TTTGACACGA
* * * * * *
94996244 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
94996290 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
94996336 TGCCATGGTATCTTTCAACCATGGTTTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
94996382 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
94996428 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
94996474 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
94996518 AGAGCACACT
Statistics
Matches: 213, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 4 0.02
46 209 0.98
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:94999583 original size:22 final size:22
Alignment explanation
Indices: 94999557--94999619 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
94999547 CATCATAAAC
* *
94999557 AATAACAACAAAATAGTAGTAA
1 AATAACAATAAAATAGTAATAA
* * *
94999579 TATAATAGTAAAA-AGGTAATAA
1 AATAACAATAAAATA-GTAATAA
94999601 AATAACAATAAAATAGTAA
1 AATAACAATAAAATAGTAA
94999620 CAGAAAAGAA
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
21 1 0.03
22 29 0.94
23 1 0.03
ACGTcount: A:0.63, C:0.05, G:0.10, T:0.22
Consensus pattern (22 bp):
AATAACAATAAAATAGTAATAA
Found at i:95000565 original size:17 final size:18
Alignment explanation
Indices: 95000523--95000570 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
95000513 TTAATGGATC
*
95000523 AAATTTTAAT-TTTATAA
1 AAATTTAAATATTTATAA
*
95000540 AACTATTAAATATTTA-AA
1 AAAT-TTAAATATTTATAA
95000558 AAATTTAAATATT
1 AAATTTAAATATT
95000571 ATTATTTCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 12 0.46
18 10 0.38
19 4 0.15
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (18 bp):
AAATTTAAATATTTATAA
Found at i:95001492 original size:20 final size:20
Alignment explanation
Indices: 95001451--95001493 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
95001441 TACTTTTGTT
* *
95001451 TTTTAAAATTAAAATAATAA
1 TTTTAAAAATAAAATAAAAA
95001471 TTTTAAAAATAAACA-AAAAA
1 TTTTAAAAATAAA-ATAAAAA
95001491 TTT
1 TTT
95001494 CGTTTATTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 19 0.95
21 1 0.05
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (20 bp):
TTTTAAAAATAAAATAAAAA
Found at i:95005464 original size:30 final size:30
Alignment explanation
Indices: 95005428--95005487 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
95005418 ACTTAACAAT
*
95005428 CAAATGTCTCTAAAATAATAATAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
*
95005458 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
95005488 TAATAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.03, T:0.30
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAATTAA
Found at i:95009578 original size:19 final size:19
Alignment explanation
Indices: 95009526--95009593 Score: 75
Period size: 19 Copynumber: 3.4 Consensus size: 19
95009516 TGTCAATATC
95009526 TAATTATAAATATTTAATTA
1 TAATT-TAAATATTTAATTA
*
95009546 TTATATTTAAATATTTAAATA
1 -TA-ATTTAAATATTTAATTA
*
95009567 TAATTTATATATTATAATTA
1 TAATTTAAATATT-TAATTA
95009587 -AATTTAA
1 TAATTTAA
95009594 TAAATAATTA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
19 16 0.39
20 7 0.17
21 15 0.37
22 3 0.07
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TAATTTAAATATTTAATTA
Found at i:95018088 original size:1 final size:1
Alignment explanation
Indices: 95018082--95018106 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
95018072 CATCCTCTTC
95018082 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
95018107 GCTTGACCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:95020178 original size:137 final size:137
Alignment explanation
Indices: 95019899--95020158 Score: 450
Period size: 137 Copynumber: 1.9 Consensus size: 137
95019889 GTAAATTCTT
* *
95019899 ATTTGGAAAGATCTTACATAAGATACCATTTTCACCACAAATTTCTTGTTCTTTTCTTTTTTAAA
1 ATTTGGAAAGATCTTACATAAGATACCATTTTCACCACAAATTTCTTATGCTTTTCTTTTTTAAA
*
95019964 ATAAATAAAGAAGAGAAGAAATGGTTCTTCCCAATATACACATCATATATCATCAGGGCCATGTA
66 ATAAATAAAGAAGAGAAGAAATGGTTCTTCCCAATATACACATCATATATCATCAGGACCATGTA
** *
95020029 AATTCTC
131 AAGGCGC
95020036 ATTTGGAAAGATCTTACATAAGATACCATTTTCACCACAAATTTCTTATGCTTTTCTTTTTT-AA
1 ATTTGGAAAGATCTTACATAAGATACCATTTTCACCACAAATTTCTTATGCTTTTCTTTTTTAAA
95020100 ATAAATAAAGAAGAGAAGAAATGGTTCTTCCCAATATACACATCATATATCATCTAGGA
66 ATAAATAAAGAAGAGAAGAAATGGTTCTTCCCAATATACACATCATATATCATC-AGGA
95020159 ACCAGAAAGG
Statistics
Matches: 119, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
136 56 0.47
137 63 0.53
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (137 bp):
ATTTGGAAAGATCTTACATAAGATACCATTTTCACCACAAATTTCTTATGCTTTTCTTTTTTAAA
ATAAATAAAGAAGAGAAGAAATGGTTCTTCCCAATATACACATCATATATCATCAGGACCATGTA
AAGGCGC
Found at i:95024960 original size:17 final size:19
Alignment explanation
Indices: 95024938--95024976 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
95024928 TAGGGGAAGG
95024938 AAAGAAAG-A-AAAAGAGA
1 AAAGAAAGAAGAAAAGAGA
95024955 AAAGAAAGAAGAAAAGAGA
1 AAAGAAAGAAGAAAAGAGA
95024974 AAA
1 AAA
95024977 TTAAAGGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 8 0.40
18 1 0.05
19 11 0.55
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (19 bp):
AAAGAAAGAAGAAAAGAGA
Found at i:95025985 original size:18 final size:18
Alignment explanation
Indices: 95025959--95025993 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
95025949 TGTGTACCGC
*
95025959 TACTATTACTATTACTGT
1 TACTATTACCATTACTGT
*
95025977 TACTGTTACCATTACTG
1 TACTATTACCATTACTG
95025994 ACACAGTATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.20, G:0.09, T:0.46
Consensus pattern (18 bp):
TACTATTACCATTACTGT
Found at i:95026139 original size:18 final size:18
Alignment explanation
Indices: 95026116--95026150 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
95026106 TATTGAAGAC
*
95026116 TAACTGCTATTGAATAAT
1 TAACTGCTACTGAATAAT
*
95026134 TAACTGTTACTGAATAA
1 TAACTGCTACTGAATAA
95026151 ACGACTGATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.37
Consensus pattern (18 bp):
TAACTGCTACTGAATAAT
Found at i:95026157 original size:18 final size:18
Alignment explanation
Indices: 95026136--95026182 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
95026126 TGAATAATTA
95026136 ACTGTTACTGAATAAACG
1 ACTGTTACTGAATAAACG
* *
95026154 ACTGATACTGAATAAATG
1 ACTGTTACTGAATAAACG
95026172 A-TCGTTACTGA
1 ACT-GTTACTGA
95026183 TTAACCGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 1 0.04
18 24 0.96
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (18 bp):
ACTGTTACTGAATAAACG
Found at i:95027838 original size:29 final size:29
Alignment explanation
Indices: 95027796--95027966 Score: 114
Period size: 30 Copynumber: 5.8 Consensus size: 29
95027786 TAGCCTTCGG
*
95027796 TGGTCGTCACCATCCCTTTTCATTGTTGA
1 TGGTCATCACCATCCCTTTTCATTGTTGA
* * *
95027825 TGGTCATCATCATCTCTTTCCATAAT-TTGA
1 TGGTCATCACCATCCCTTTTCAT--TGTTGA
* * * * ** *
95027855 TAGTCA-AAGCTATCCTTTTTCATAATCCGA
1 TGGTCATCA-CCATCCCTTTTCATTGT-TGA
* * *
95027885 TAGCCAT-ATCTATCCCTTTTCATTGTTCGA
1 TGGTCATCA-CCATCCCTTTTCATTGTT-GA
*
95027915 TGGTCGTCACCATCCCTTTTCATTGTTGA
1 TGGTCATCACCATCCCTTTTCATTGTTGA
**
95027944 TGGTTGTCACCATCCCTTTTCAT
1 TGGTCATCACCATCCCTTTTCAT
95027967 AATTTGATAG
Statistics
Matches: 110, Mismatches: 24, Indels: 16
0.73 0.16 0.11
Matches are distributed among these distances:
29 45 0.41
30 63 0.57
31 2 0.02
ACGTcount: A:0.19, C:0.26, G:0.13, T:0.42
Consensus pattern (29 bp):
TGGTCATCACCATCCCTTTTCATTGTTGA
Found at i:95027930 original size:30 final size:29
Alignment explanation
Indices: 95027896--95027966 Score: 124
Period size: 29 Copynumber: 2.4 Consensus size: 29
95027886 AGCCATATCT
95027896 ATCCCTTTTCATTGTTCGATGGTCGTCACC
1 ATCCCTTTTCATTGTT-GATGGTCGTCACC
*
95027926 ATCCCTTTTCATTGTTGATGGTTGTCACC
1 ATCCCTTTTCATTGTTGATGGTCGTCACC
95027955 ATCCCTTTTCAT
1 ATCCCTTTTCAT
95027967 AATTTGATAG
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
29 24 0.60
30 16 0.40
ACGTcount: A:0.14, C:0.28, G:0.14, T:0.44
Consensus pattern (29 bp):
ATCCCTTTTCATTGTTGATGGTCGTCACC
Found at i:95029687 original size:30 final size:31
Alignment explanation
Indices: 95029651--95029719 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 31
95029641 GGTTTCATTT
* *
95029651 CAGTCACTCAAC-TTTTGAAAAA-TAACAAAA
1 CAGTCACT-AACGTTATAAAAAATTAACAAAA
*
95029681 CAGTCACTAACGTTATAAAAAATTGACAAAA
1 CAGTCACTAACGTTATAAAAAATTAACAAAA
95029712 CAGTCACT
1 CAGTCACT
95029720 GATTAATAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 3 0.09
30 16 0.47
31 15 0.44
ACGTcount: A:0.48, C:0.20, G:0.09, T:0.23
Consensus pattern (31 bp):
CAGTCACTAACGTTATAAAAAATTAACAAAA
Found at i:95031676 original size:3 final size:3
Alignment explanation
Indices: 95031670--95031732 Score: 90
Period size: 3 Copynumber: 21.0 Consensus size: 3
95031660 TTTTTTATAG
* * * *
95031670 TCT TCT TCT TCT ACT GCT GCT TCT TCT TAT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
95031718 TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT
95031733 CTGTTCAGGG
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.03, C:0.32, G:0.03, T:0.62
Consensus pattern (3 bp):
TCT
Found at i:95031820 original size:21 final size:20
Alignment explanation
Indices: 95031794--95031836 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
95031784 ACGTGGCAAT
*
95031794 TTAACTGGCCACATCAGCTAG
1 TTAACTGACCACATCAGC-AG
*
95031815 TTAACTTACCACATCAGCAG
1 TTAACTGACCACATCAGCAG
95031835 TT
1 TT
95031837 CTGTTAAAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (20 bp):
TTAACTGACCACATCAGCAG
Found at i:95031933 original size:30 final size:31
Alignment explanation
Indices: 95031868--95031936 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
95031858 ACTGTTAATC
* * *
95031868 AGTGACTATTTTGTCACTTTTTTATAACGTT
1 AGTGACTGTTTTGTCACTTTTTCATAAAGTT
*
95031899 AGTGACTGTTTTGTTA-TTTTTCA-AAAGTT
1 AGTGACTGTTTTGTCACTTTTTCATAAAGTT
95031928 GAGTGACTG
1 -AGTGACTG
95031937 AAATGAAACT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 5 0.15
30 14 0.42
31 14 0.42
ACGTcount: A:0.23, C:0.10, G:0.19, T:0.48
Consensus pattern (31 bp):
AGTGACTGTTTTGTCACTTTTTCATAAAGTT
Found at i:95033934 original size:35 final size:35
Alignment explanation
Indices: 95033855--95033927 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
95033845 TTAATCTAAC
95033855 ATATAAAAATTAATTTATTCATTTTTTTAATAGCA
1 ATATAAAAATTAATTTATTCATTTTTTTAATAGCA
*
95033890 ATATAAAAATTAATTTATTCATTTTTTTAGTAGCA
1 ATATAAAAATTAATTTATTCATTTTTTTAATAGCA
95033925 ATA
1 ATA
95033928 ACAAAATATG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.42, C:0.05, G:0.04, T:0.48
Consensus pattern (35 bp):
ATATAAAAATTAATTTATTCATTTTTTTAATAGCA
Found at i:95034119 original size:20 final size:21
Alignment explanation
Indices: 95034072--95034121 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
95034062 ATGTCACATC
95034072 AGTATTCTTATCCTGAATTTCA
1 AGTATT-TTATCCTGAATTTCA
*
95034094 AG-ATTTTATCCTGAATTT-T
1 AGTATTTTATCCTGAATTTCA
95034113 AGTATTTTA
1 AGTATTTTA
95034122 ATTCGGATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 2 0.08
20 19 0.73
21 3 0.12
22 2 0.08
ACGTcount: A:0.28, C:0.12, G:0.10, T:0.50
Consensus pattern (21 bp):
AGTATTTTATCCTGAATTTCA
Found at i:95043766 original size:13 final size:13
Alignment explanation
Indices: 95043748--95043774 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
95043738 TGTAATTTAA
95043748 AAAAAAGAAAAAG
1 AAAAAAGAAAAAG
95043761 AAAAAAGAAAAAG
1 AAAAAAGAAAAAG
95043774 A
1 A
95043775 TTGACCAGAC
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:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAAAG
Found at i:95044358 original size:3 final size:3
Alignment explanation
Indices: 95044352--95044403 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
95044342 TATAAAAAAA
95044352 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
95044400 AAG A
1 AAG A
95044404 GAATCAAGCA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:95048805 original size:20 final size:20
Alignment explanation
Indices: 95048780--95048819 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
95048770 TTCAACTAAA
95048780 TATTCATTGAATAATTATGT
1 TATTCATTGAATAATTATGT
*
95048800 TATTCATTGGATAATTATGT
1 TATTCATTGAATAATTATGT
95048820 ATCTATGAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.50
Consensus pattern (20 bp):
TATTCATTGAATAATTATGT
Found at i:95053700 original size:18 final size:20
Alignment explanation
Indices: 95053677--95053714 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
95053667 TGTAACCATG
95053677 AAAAT-ATCTTTATT-TTAT
1 AAAATAATCTTTATTATTAT
*
95053695 AAAATAATTTTTATTATTAT
1 AAAATAATCTTTATTATTAT
95053715 CTATTTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 8 0.47
20 4 0.24
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (20 bp):
AAAATAATCTTTATTATTAT
Found at i:95055335 original size:3 final size:3
Alignment explanation
Indices: 95055327--95055366 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
95055317 GAAAATGTAG
95055327 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
95055367 AACATTGATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:95065522 original size:20 final size:23
Alignment explanation
Indices: 95065482--95065522 Score: 61
Period size: 20 Copynumber: 1.9 Consensus size: 23
95065472 ACTCTCACCT
95065482 GATAACCAATACAATATGTATGA
1 GATAACCAATACAATATGTATGA
95065505 GATAA-CAA-ACAA-ATGTAT
1 GATAACCAATACAATATGTAT
95065523 ATATCATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 4 0.22
22 3 0.17
23 5 0.28
ACGTcount: A:0.51, C:0.12, G:0.12, T:0.24
Consensus pattern (23 bp):
GATAACCAATACAATATGTATGA
Found at i:95066163 original size:31 final size:31
Alignment explanation
Indices: 95066128--95066189 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
95066118 ATCAAGTGTT
*
95066128 TTAAATAAAAAC-TTTAACATATTTTAATAAC
1 TTAAATAAAAACTTTTAA-ATAGTTTAATAAC
95066159 TTAAATAAAAACTTTTAAATAGTTTAATAAC
1 TTAAATAAAAACTTTTAAATAGTTTAATAAC
95066190 AAAATTATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 24 0.83
32 5 0.17
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.39
Consensus pattern (31 bp):
TTAAATAAAAACTTTTAAATAGTTTAATAAC
Found at i:95074390 original size:13 final size:11
Alignment explanation
Indices: 95074354--95074384 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
95074344 CCGCCTGTAT
95074354 TAATTTTTATA
1 TAATTTTTATA
*
95074365 TTATTTTTATA
1 TAATTTTTATA
95074376 TAATTTTTA
1 TAATTTTTA
95074385 AGTATATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TAATTTTTATA
Found at i:95095957 original size:88 final size:88
Alignment explanation
Indices: 95095856--95096438 Score: 520
Period size: 88 Copynumber: 6.6 Consensus size: 88
95095846 CTATTCTACT
* * * *
95095856 GCCAGTACATGAAGACAAGATTTGCTTTCTTCGATCCACTCCCTACCACTATAGGGAGACAGGAC
1 GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCCACTCCCTACCAATATAGGAAGACAGGAC
95095921 CTGTTATCTTCGATCTACTTCAC
66 CTGTTATCTTCGATCTACTTCAC
* * *
95095944 GCCAATACATGAAGACAAGATTTGCTTTCTTCGATCCACTCCCTACCACTATAGGGAGACAGGAC
1 GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCCACTCCCTACCAATATAGGAAGACAGGAC
*
95096009 CTGTTATCTTTGATCTACTTCAC
66 CTGTTATCTTCGATCTACTTCAC
* * * *
95096032 GCCAATACATGAAGACAAGATCTGC-ATCTTGGATCCACTTCCTATCAATATAGGAAGACAGGAC
1 GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCCACTCCCTACCAATATAGGAAGACAGGAC
* **
95096096 CAGCCATCTTCGATCTACTTCAC
66 CTGTTATCTTCGATCTACTTCAC
* * * * * *
95096119 GCCAATACGTGAAGA-TAGATCTTCTTTCTTTGATCTACTTCGCC-ACCAATAT-GGAAAGACAA
1 GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCCAC-TC-CCTACCAATATAGG-AAGACAG
* * * *
95096181 GATCTG-CATCTTGGATCCACTTC-C
63 GACCTGTTATCTTCGATCTACTTCAC
** * * * * * * * * * * * * *
95096205 TATCAATATAGGAAAATAGGACCTGCTATCTTCGATCTACTTCAC-GCCAATACATGAAGACAAG
1 -GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCCAC-TCCCTACCAATATAGGAAGACAGG
* * * *
95096269 ATCTGTTTTCTGCGATCTACTTCGCC
64 ACCTGTTATCTTCGATCTACTTC-AC
* *** * * * *
95096295 ACCAATATGGGAAGACAAGATCTGC-GTCGTCGATCCACTTCCTACCAATATAGGAAGATAGGAC
1 GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCCACTCCCTACCAATATAGGAAGACAGGAC
*
95096359 CTGCTATCTTCGATCTACTTCAC
66 CTGTTATCTTCGATCTACTTCAC
* * *
95096382 GCCAATACATGAAGACAAGATCTGTTTTCTGCGATCTACTTCGCC-ACCAATAT-GGAA
1 GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCCAC-TC-CCTACCAATATAGGAA
95096439 AGACCAGATC
Statistics
Matches: 403, Mismatches: 78, Indels: 28
0.79 0.15 0.06
Matches are distributed among these distances:
86 8 0.02
87 145 0.36
88 217 0.54
89 30 0.07
90 3 0.01
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (88 bp):
GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCCACTCCCTACCAATATAGGAAGACAGGAC
CTGTTATCTTCGATCTACTTCAC
Found at i:95096125 original size:44 final size:44
Alignment explanation
Indices: 95095866--95096511 Score: 420
Period size: 44 Copynumber: 14.7 Consensus size: 44
95095856 GCCAGTACAT
* * * * *
95095866 GAAGACAAGATTTGCTTTCTTCGATCCAC-TCCCTACCACTATAG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATATAG
* * * * * * *
95095910 GGAGACAGGACCTGTTATCTTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATATAG
* * * * *
95095954 GAAGACAAGATTTGCTTTCTTCGATCCAC-TCCCTACCACTATAG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATATAG
* * * * * * * *
95095998 GGAGACAGGACCTGTTATCTTTGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATATAG
* * *
95096042 GAAGACAAGATCTGC-ATCTTGGATCCACTTC-CTATCAATATAG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATATAG
* * * * * *
95096085 GAAGACAGGACCAGCCATCTTCGATCTACTTCACGCCAATA-CG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATATAG
* * * * *
95096128 TGAAGA-TAGATCTTCTTTCTTTGATCTACTTCGCCACCAATAT-G
1 -GAAGACAAGATCTGCTATCTTCGATCTACTTC-ACACCAATATAG
* * *
95096172 GAAAGACAAGATCTGC-ATCTTGGATCCACTTC-CTATCAATATAG
1 G-AAGACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATATAG
* * * * * * *
95096216 GAAAATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATATAG
* * * * *
95096260 GAAGACAAGATCTGTTTTCTGCGATCTACTTCGCCACCAATATGG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTC-ACACCAATATAG
* * *
95096305 GAAGACAAGATCTGC-GTCGTCGATCCACTTC-CTACCAATATAG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATATAG
* * * * * *
95096348 GAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATATAG
* * * *
95096392 GAAGACAAGATCTGTTTTCTGCGATCTACTTCGCCACCAATAT-G
1 GAAGACAAGATCTGCTATCTTCGATCTACTTC-ACACCAATATAG
* * * *
95096436 GAAAGACCAGATCTGC-GTCGTCGATCCACTTC-CTACCAATATAG
1 G-AAGACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATATAG
* * *
95096480 GAAGATAGGACCTGCTATCTTCGATCTACTTC
1 GAAGACAAGATCTGCTATCTTCGATCTACTTC
95096512 TTGCCCCGGG
Statistics
Matches: 447, Mismatches: 131, Indels: 48
0.71 0.21 0.08
Matches are distributed among these distances:
42 4 0.01
43 111 0.25
44 276 0.62
45 56 0.13
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.28
Consensus pattern (44 bp):
GAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATATAG
Found at i:95096349 original size:132 final size:132
Alignment explanation
Indices: 95096043--95096511 Score: 753
Period size: 132 Copynumber: 3.6 Consensus size: 132
95096033 CCAATACATG
* * * * * *
95096043 AAGACAAGATCTGCATCTTGGATCCACTTCCTATCAATATAGGAAGACAGGACCAGCCATCTTCG
1 AAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCG
* * **
95096108 ATCTACTTCACGCCAATACGTGAAGA-TAGATCT-TCTTTCTTTGATCTACTTCGCCACCAATAT
66 ATCTACTTCACGCCAATACATGAAGACAAGATCTGT-TTTCTGCGATCTACTTCGCCACCAATAT
95096171 GGA
130 GGA
* * * *
95096174 AAGACAAGATCTGCATCTTGGATCCACTTCCTATCAATATAGGAAAATAGGACCTGCTATCTTCG
1 AAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCG
95096239 ATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTGCGATCTACTTCGCCACCAATATG
66 ATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTGCGATCTACTTCGCCACCAATATG
*
95096304 GG
131 GA
*
95096306 AAGACAAGATCTGCGTCGTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCG
1 AAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCG
95096371 ATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTGCGATCTACTTCGCCACCAATATG
66 ATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTGCGATCTACTTCGCCACCAATATG
95096436 GA
131 GA
* *
95096438 AAGACCAGATCTGCGTCGTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCG
1 AAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCG
95096503 ATCTACTTC
66 ATCTACTTC
95096512 TTGCCCCGGG
Statistics
Matches: 320, Mismatches: 16, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
131 86 0.27
132 233 0.73
133 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (132 bp):
AAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCG
ATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTGCGATCTACTTCGCCACCAATATG
GA
Found at i:95096824 original size:131 final size:133
Alignment explanation
Indices: 95096519--95097424 Score: 1405
Period size: 132 Copynumber: 6.8 Consensus size: 133
95096509 TTCTTGCCCC
** * * * * * *
95096519 GGGAGATAGAACTATCAGCTTCAAAGTACTCCACTGTAATCAGGGAGGTAAAATCCGCCGTCTTC
1 GGGAGATAGAGTTATCGGCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAAATCTGCCATCTTC
* * *
95096584 AACCTGCTTTGCTGCC-AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAT
66 GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAT
95096648 ACA
131 ACA
* * * *
95096651 GGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGTAGGT-AAATCTGCCATCTTT
1 GGGAGATAGAGTTATCGGCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAAATCTGCCATCTTC
*
95096715 GATCTGCTTCGCTGCCAAATATAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAA-
66 GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAT
*
95096779 CCA
131 ACA
*
95096782 GGGAGATAGAGTTATTGGCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAAATCTGCCATCTTC
1 GGGAGATAGAGTTATCGGCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAAATCTGCCATCTTC
* * *
95096847 GATCTGCTTTGCTGCC-AATATAGGAAGGCAAGATCTGTAATCTTCAATCTATTCCACTGCCAA-
66 GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAT
*
95096910 CCA
131 ACA
*
95096913 GGGAGATAGAGTTATTGGCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAAATCTGCCATCTTC
1 GGGAGATAGAGTTATCGGCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAAATCTGCCATCTTC
* *
95096978 GATCTGCTTTGCTGCCAAATATAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAA-
66 GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAT
*
95097042 CCA
131 ACA
* * *
95097045 GGGAGATAGAGTTATTGGCTTCAATGTACTCCTATGTAGTCAGGGAGGTAAAATCTGCCATCTTT
1 GGGAGATAGAGTTATCGGCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAAATCTGCCATCTTC
* *
95097110 GATCTGCTTCACTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCATTGCCAAA
66 GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCC-AA
95097175 TACA
130 TACA
* * *
95097179 GGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTT
1 GGGAGATAGAGTTATCGGCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAAATCTGCCATCTTC
95097244 GATCTGCTTCGCTGCC-AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
66 GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCC-AA
95097308 TACA
130 TACA
*
95097312 GGGAGATAGAGTTATCGGCTTCAATGTACTCCTCTGTAGTCAGTGAGGTAAAATCTGCCATCTTC
1 GGGAGATAGAGTTATCGGCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAAATCTGCCATCTTC
*
95097377 GATCTGCTTCGCTGCCAAATACAGGAAAGCAAGATCTG-ATATCTTCAA
66 GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCA-ATCTTCAA
95097425 CCAGCTCTGC
Statistics
Matches: 726, Mismatches: 41, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
131 202 0.28
132 287 0.40
133 131 0.18
134 106 0.15
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (133 bp):
GGGAGATAGAGTTATCGGCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAAATCTGCCATCTTC
GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAT
ACA
Found at i:95096986 original size:263 final size:265
Alignment explanation
Indices: 95096536--95097424 Score: 1457
Period size: 263 Copynumber: 3.4 Consensus size: 265
95096526 AGAACTATCA
* * * * * * * *
95096536 GCTTCAAAGTACTCCACTGTAATCAGGGAGGTAAAATCCGCCGTCTTCAACCTGCTTTGCTGCC-
1 GCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCA
95096600 AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAATACAGGGAGATAGAGTTA
66 AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAATACAGGGAGATAGAGTTA
*
95096665 TCGGCTTCAATGTACTCCACTGTGGTCAGGTAGGT-AAATCTGCCATCTTTGATCTGCTTCGCTG
131 TCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTG
95096729 CCAAATATAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAGT
196 CCAAATATAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAGT
95096794 TATTG
261 TATTG
*
95096799 GCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTTGCTGCC-
1 GCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCA
* * *
95096863 AATATAGGAAGGCAAGATCTGTAATCTTCAATCTATTCCACTGCCAA-CCAGGGAGATAGAGTTA
66 AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAATACAGGGAGATAGAGTTA
* * * * *
95096927 TTGGCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTTGCTG
131 TCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTG
95096992 CCAAATATAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAGT
196 CCAAATATAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAGT
95097057 TATTG
261 TATTG
* * *
95097062 GCTTCAATGTACTCCTATGTAGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCACTGCCA
1 GCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCA
*
95097127 AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCATTGCCAAATACAGGGAGATAGAGTT
66 AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCC-AATACAGGGAGATAGAGTT
95097192 ATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCT
130 ATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCT
* *
95097257 GCC-AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAG
195 GCCAAATATAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCC-AA-CCAGGGAGATAG
*
95097321 AGTTATCG
258 AGTTATTG
*
95097329 GCTTCAATGTACTCCTCTGTAGTCAGTGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCA
1 GCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCA
*
95097394 AATACAGGAAAGCAAGATCTG-ATATCTTCAA
66 AATACAGGAAGGCAAGATCTGCA-ATCTTCAA
95097425 CCAGCTCTGC
Statistics
Matches: 582, Mismatches: 37, Indels: 10
0.93 0.06 0.02
Matches are distributed among these distances:
262 47 0.08
263 259 0.45
264 42 0.07
265 46 0.08
266 81 0.14
267 107 0.18
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (265 bp):
GCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCA
AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAATACAGGGAGATAGAGTTA
TCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTG
CCAAATATAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAGT
TATTG
Found at i:95097495 original size:86 final size:87
Alignment explanation
Indices: 95097376--95097543 Score: 259
Period size: 86 Copynumber: 1.9 Consensus size: 87
95097366 CTGCCATCTT
*
95097376 CGATCTGCTTCGCTGCCAAATACAGGAAAGCAAGATCTGATATCTTCAACCAGCTCTGCTACAAA
1 CGATCTGCTTCGCTGCCAAATACAGGAAAGCAAGATCTGATAACTTCAACCAGCTCTGCTAC-AA
95097441 C-GAGAGAGGCAAGGTTTGTATC
65 CTGAGAGAGGCAAGGTTTGTATC
* * * * *
95097463 CGATCTGCTTCGCTGTC-AATGCAGGAAGGCAAGATCTGATAACTTCAACCAGCTCTGCTGCGAC
1 CGATCTGCTTCGCTGCCAAATACAGGAAAGCAAGATCTGATAACTTCAACCAGCTCTGCTACAAC
95097527 TGAGAGAGGCAAGGTTT
66 TGAGAGAGGCAAGGTTT
95097544 ATCTTCAATT
Statistics
Matches: 74, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
85 2 0.03
86 56 0.76
87 16 0.22
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.23
Consensus pattern (87 bp):
CGATCTGCTTCGCTGCCAAATACAGGAAAGCAAGATCTGATAACTTCAACCAGCTCTGCTACAAC
TGAGAGAGGCAAGGTTTGTATC
Found at i:95097539 original size:397 final size:395
Alignment explanation
Indices: 95096519--95097516 Score: 1121
Period size: 399 Copynumber: 2.5 Consensus size: 395
95096509 TTCTTGCCCC
** * * * * * *
95096519 GGGAGATAGAACTATCAGCTTCAAAGTACTCCACTGTAATCAGGGAGGTAAAATCCGCCGTCTTC
1 GGGAGATAGAGTTATCGGCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAAATCTGCCATCTTC
* * * * * * *
95096584 AACCTGCTTTGCTGCC-AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAT
66 GATCTGCTTCGCTGCCAAATACAGGAAAGCAAGATCTGCAATCTTCAATCCACTCCACT-ACAA-
* * * * * * * ** * * *
95096648 A-CAGGGAGATAGAGTTATCGGCTTCAATGTACTCC-ACTGTGGTCAGGTAGG-TAAATCTGCCA
129 ACCAGAGAGACAGAGGTATTGGATCCAATCTACTCCGA-TGTAATCAGGAAGGCAAAATCTGACA
* ** * * * *
95096710 TCTTTGATCTGCTTCGCTGCCAAATATAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTG
193 ACTTCAACCAGCTTCACTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTG
* * *
95096775 CCAACCAGGGAGATAGAGTTATTGGCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAAATCTGC
258 CCAAACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGC
* * *
95096840 CATCTTCGATCTGCTTTGCTGCCAATATAGGAAGGCAAGATCTGTAATCTTCAATCTATTCCACT
323 CATCTTCGATCTGCTTCGCTGCCAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACT
*
95096905 GCCAACCA
388 GCCAAACA
*
95096913 GGGAGATAGAGTTATTGGCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAAATCTGCCATCTTC
1 GGGAGATAGAGTTATCGGCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAAATCTGCCATCTTC
* * * * * * *
95096978 GATCTGCTTTGCTGCCAAATATAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAC
66 GATCTGCTTCGCTGCCAAATACAGGAAAGCAAGATCTGCAATCTTCAATCCACTCCACTACAAAC
* * * * * * * * * * * *
95097043 CAGGGAGATAGAGTTATTGGCTTCAATGTACTCCTATGTAGTCAGGGAGGTAAAATCTGCCATCT
131 CAGAGAGACAGAGGTATTGGATCCAATCTACTCCGATGTAATCAGGAAGGCAAAATCTGACAACT
** * * *
95097108 TTGATCTGCTTCACTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCATTGCCA
196 TCAACCAGCTTCACTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCC-
*
95097173 AATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCC
260 AA-ACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCC
*
95097238 ATCTTTGATCTGCTTCGCTGCCAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTG
324 ATCTTCGATCTGCTTCGCTGCCAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTG
95097303 CCAAATACA
389 CC-AA-ACA
*
95097312 GGGAGATAGAGTTATCGGCTTCAATGTACTCCTCTGTAGTCAGTGAGGTAAAATCTGCCATCTTC
1 GGGAGATAGAGTTATCGGCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAAATCTGCCATCTTC
**
95097377 GATCTGCTTCGCTGCCAAATACAGGAAAGCAAGATCTG-ATATCTTCAA-CCAGCTCTGCTACAA
66 GATCTGCTTCGCTGCCAAATACAGGAAAGCAAGATCTGCA-ATCTTCAATCCA-CTCCACTACAA
* * * * * * * * *
95097440 ACGAGAGAGGCA-AGGT-TTGTATCCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGAT
129 ACCAGAGAGACAGAGGTATTGGATCCAATCTACTCCGATGT-AAT-CAGGAAGGCAAAATCTGAC
95097503 AACTTCAACCAGCT
192 AACTTCAACCAGCT
95097517 CTGCTGCGAC
Statistics
Matches: 526, Mismatches: 66, Indels: 19
0.86 0.11 0.03
Matches are distributed among these distances:
393 1 0.00
394 117 0.22
395 116 0.22
396 2 0.00
397 135 0.26
398 10 0.02
399 145 0.28
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.27
Consensus pattern (395 bp):
GGGAGATAGAGTTATCGGCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAAATCTGCCATCTTC
GATCTGCTTCGCTGCCAAATACAGGAAAGCAAGATCTGCAATCTTCAATCCACTCCACTACAAAC
CAGAGAGACAGAGGTATTGGATCCAATCTACTCCGATGTAATCAGGAAGGCAAAATCTGACAACT
TCAACCAGCTTCACTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCA
AACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCAT
CTTCGATCTGCTTCGCTGCCAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCC
AAACA
Found at i:95101697 original size:19 final size:20
Alignment explanation
Indices: 95101673--95101716 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
95101663 CGTGAAAGTC
* *
95101673 TAATGCATATG-ATGCAATG
1 TAATGCAAATGCATGAAATG
95101692 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
95101712 -AATGC
1 TAATGC
95101717 CAAAAGAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.27
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:95108981 original size:10 final size:9
Alignment explanation
Indices: 95108952--95109110 Score: 51
Period size: 9 Copynumber: 16.7 Consensus size: 9
95108942 GCTAAAATGT
95108952 TAAAATGTTA
1 TAAAAT-TTA
*
95108962 -AAATTTTA
1 TAAAATTTA
95108970 TATAAATTTA
1 TA-AAATTTA
*
95108980 TAAAAAGTTA
1 T-AAAATTTA
*
95108990 TAAAATAATCA
1 TAAAAT--TTA
95109001 TAATAACTTT-
1 TAA-AA-TTTA
95109011 T-AAATATTA
1 TAAAAT-TTA
*
95109020 TAAAAACTTA
1 T-AAAATTTA
95109030 TAAAAATTCTA
1 T-AAAATT-TA
*
95109041 -AAAATATA
1 TAAAATTTA
95109049 TTAAAAATTTA
1 -T-AAAATTTA
*
95109060 TAAACTTATA
1 TAAAATT-TA
* *
95109070 AAAAATTCA
1 TAAAATTTA
*
95109079 TAAAAATTA
1 TAAAATTTA
*
95109088 -AAATTATTA
1 TAAAAT-TTA
95109097 T-AAATTTA
1 TAAAATTTA
95109105 TAAAAT
1 TAAAAT
95109111 ATATGAATTA
Statistics
Matches: 110, Mismatches: 20, Indels: 39
0.65 0.12 0.23
Matches are distributed among these distances:
7 1 0.01
8 16 0.15
9 38 0.35
10 33 0.30
11 19 0.17
12 2 0.02
13 1 0.01
ACGTcount: A:0.57, C:0.04, G:0.01, T:0.38
Consensus pattern (9 bp):
TAAAATTTA
Found at i:95108995 original size:19 final size:19
Alignment explanation
Indices: 95108967--95109072 Score: 67
Period size: 19 Copynumber: 5.4 Consensus size: 19
95108957 TGTTAAAATT
*
95108967 TTATATAAATTTATAAAAAG
1 TTATA-AAATTTATAAAAAC
* *
95108987 TTATAAAATAATCATAATAAC
1 TTATAAAAT--TTATAAAAAC
*
95109008 TT-TTAAATATTATAAAAAC
1 TTATAAAAT-TTATAAAAAC
* *
95109027 TTATAAAAATTCTAAAAA-
1 TTATAAAATTTATAAAAAC
95109045 TATATTAAAAATTTAT--AAAC
1 T-TA-T-AAAATTTATAAAAAC
95109065 TTATAAAA
1 TTATAAAA
95109073 AATTCATAAA
Statistics
Matches: 68, Mismatches: 11, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
17 4 0.06
18 2 0.03
19 30 0.44
20 16 0.24
21 16 0.24
ACGTcount: A:0.57, C:0.05, G:0.01, T:0.38
Consensus pattern (19 bp):
TTATAAAATTTATAAAAAC
Done.