Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 41 of 222
Found at i:12259447 original size:11 final size:11
Alignment explanation
Indices: 12259427--12259503 Score: 91
Period size: 11 Copynumber: 6.6 Consensus size: 11
12259417 TAAAAAAATA
12259427 AAAAAGTATTTT
1 AAAAA-TATTTT
12259439 AAAAATATTTT
1 AAAAATATTTT
** *
12259450 AAAAATAAAAATA
1 AAAAAT--ATTTT
12259463 AAAAAGTATTTT
1 AAAAA-TATTTT
12259475 AAAAATATTTT
1 AAAAATATTTT
12259486 AAAAATATTTT
1 AAAAATATTTT
12259497 AAAAATA
1 AAAAATA
12259504 AAAAAATAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
11 36 0.64
12 12 0.21
13 7 0.12
14 1 0.02
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:12259464 original size:36 final size:36
Alignment explanation
Indices: 12259420--12259492 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
12259410 ATTTTTTTAA
12259420 AAAAATAAAAAAGTATTTTAAAAATATTTTAAAAAT
1 AAAAATAAAAAAGTATTTTAAAAATATTTTAAAAAT
12259456 AAAAATAAAAAAGTATTTTAAAAATATTTTAAAAAT
1 AAAAATAAAAAAGTATTTTAAAAATATTTTAAAAAT
12259492 A
1 A
12259493 TTTTAAAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (36 bp):
AAAAATAAAAAAGTATTTTAAAAATATTTTAAAAAT
Found at i:12259486 original size:47 final size:50
Alignment explanation
Indices: 12259427--12259525 Score: 159
Period size: 47 Copynumber: 2.0 Consensus size: 50
12259417 TAAAAAAATA
*
12259427 AAAAAGTATTTTAAAAATATTTTAAAAAT-AAAAATAAAAAAGTAT-TTT
1 AAAAAGTATTTTAAAAATATTTTAAAAATAAAAAATAAAAAAATATATTT
12259475 AAAAA-TATTTTAAAAATATTTTAAAAATAAAAAAATAAAAAAATATATTT
1 AAAAAGTATTTTAAAAATATTTTAAAAAT-AAAAAATAAAAAAATATATTT
12259525 A
1 A
12259526 TTATATTCGG
Statistics
Matches: 47, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
47 23 0.49
48 5 0.11
49 15 0.32
50 4 0.09
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (50 bp):
AAAAAGTATTTTAAAAATATTTTAAAAATAAAAAATAAAAAAATATATTT
Found at i:12266488 original size:12 final size:13
Alignment explanation
Indices: 12266431--12266496 Score: 62
Period size: 13 Copynumber: 5.1 Consensus size: 13
12266421 TTTAAACTAA
12266431 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* * *
12266444 ACTTCTCAATAGT
1 ACTTTTCAAAAGC
* *
12266457 ATTTTTTCACAA-C
1 A-CTTTTCAAAAGC
*
12266470 ACTTTTTAAAAGC
1 ACTTTTCAAAAGC
12266483 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
12266496 A
1 A
12266497 TTACCAAACT
Statistics
Matches: 39, Mismatches: 12, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
12 7 0.18
13 26 0.67
14 6 0.15
ACGTcount: A:0.36, C:0.21, G:0.06, T:0.36
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:12267176 original size:17 final size:18
Alignment explanation
Indices: 12267150--12267183 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
12267140 AAATTAGAGA
12267150 ATAAAAAAATAA-AAATC
1 ATAAAAAAATAAGAAATC
*
12267167 ATAAATAAATAAGAAAT
1 ATAAAAAAATAAGAAAT
12267184 AAAAAATGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (18 bp):
ATAAAAAAATAAGAAATC
Found at i:12274806 original size:21 final size:21
Alignment explanation
Indices: 12274774--12274814 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
12274764 GAACATTTGG
12274774 TGTATAGGCTAAGAA-AGGCCT
1 TGTATAGGCTAA-AACAGGCCT
12274795 TGTAT-GGCCTAAAACAGGCC
1 TGTATAGG-CTAAAACAGGCC
12274815 CCTCGAGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (21 bp):
TGTATAGGCTAAAACAGGCCT
Found at i:12277344 original size:29 final size:31
Alignment explanation
Indices: 12277273--12277345 Score: 78
Period size: 29 Copynumber: 2.4 Consensus size: 31
12277263 TAATTTCAAA
* * *
12277273 TATACATTTGAACCACAATTAGAGTTTCATG
1 TATACAATTGCACCACAATTAAAGTTTCATG
* * *
12277304 TGTATAACTGCACCA-AATTAAAG-TTCATG
1 TATACAATTGCACCACAATTAAAGTTTCATG
12277333 TATACAATTGCAC
1 TATACAATTGCAC
12277346 ATTAAACCAA
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
29 16 0.48
30 7 0.21
31 10 0.30
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (31 bp):
TATACAATTGCACCACAATTAAAGTTTCATG
Found at i:12280681 original size:29 final size:29
Alignment explanation
Indices: 12280623--12280688 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
12280613 GATTTCGCTG
* *
12280623 AAAAT-GGCTCATTCCGGTAAATAATCAA
1 AAAATCGGCCCATTCCGGTAAATAATAAA
* **
12280651 AAAATCGGCCCATTTCGGTAAATTTTAAA
1 AAAATCGGCCCATTCCGGTAAATAATAAA
*
12280680 AAAAACGGC
1 AAAATCGGC
12280689 TTTTTTTGGT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
28 5 0.16
29 26 0.84
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.24
Consensus pattern (29 bp):
AAAATCGGCCCATTCCGGTAAATAATAAA
Found at i:12281145 original size:34 final size:34
Alignment explanation
Indices: 12281107--12281223 Score: 112
Period size: 35 Copynumber: 3.4 Consensus size: 34
12281097 AATTAAATTA
12281107 AAATTTTAAGTCTTGATTTTGTTTTTATTAATGG
1 AAATTTTAAGTCTTGATTTTGTTTTTATTAATGG
* ** *
12281141 AAATTTTAACTAATGATTTT-TCGTTTTATTCATGG
1 AAATTTTAAGTCTTGATTTTGT--TTTTATTAATGG
* * *
12281176 AATTTTTAGGTCACTT-ATTTTGGTTTTATTAATGG
1 AAATTTTAAGT--CTTGATTTTGTTTTTATTAATGG
*
12281211 AAAATTTAAGTCT
1 AAATTTTAAGTCT
12281224 CCTTTGTGTT
Statistics
Matches: 64, Mismatches: 14, Indels: 11
0.72 0.16 0.12
Matches are distributed among these distances:
33 3 0.05
34 17 0.27
35 38 0.59
36 5 0.08
37 1 0.02
ACGTcount: A:0.28, C:0.06, G:0.14, T:0.52
Consensus pattern (34 bp):
AAATTTTAAGTCTTGATTTTGTTTTTATTAATGG
Found at i:12281716 original size:14 final size:14
Alignment explanation
Indices: 12281697--12281728 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
12281687 TCAGTGAAAA
12281697 AAAAGGAAGAGTGG
1 AAAAGGAAGAGTGG
12281711 AAAAGGAAGAGTGG
1 AAAAGGAAGAGTGG
12281725 AAAA
1 AAAA
12281729 AGATTTGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.38, T:0.06
Consensus pattern (14 bp):
AAAAGGAAGAGTGG
Found at i:12284336 original size:28 final size:28
Alignment explanation
Indices: 12284281--12284339 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
12284271 AATGGCCAAC
*
12284281 CATGCTACTATTATGTTTTGTTAAAATG
1 CATGCTACTATGATGTTTTGTTAAAATG
* *
12284309 CATGGTACTATGATGATTTTGTT-GAATG
1 CATGCTACTATGATG-TTTTGTTAAAATG
12284337 CAT
1 CAT
12284340 ACTGCTTGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 20 0.74
29 7 0.26
ACGTcount: A:0.27, C:0.10, G:0.19, T:0.44
Consensus pattern (28 bp):
CATGCTACTATGATGTTTTGTTAAAATG
Found at i:12297104 original size:3 final size:3
Alignment explanation
Indices: 12297057--12297084 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
12297047 AAAATAAAAT
12297057 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
12297085 GATGATGGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:12309206 original size:15 final size:15
Alignment explanation
Indices: 12309186--12309214 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
12309176 GAGGTCGGTA
12309186 TGTGTTTATATAAGT
1 TGTGTTTATATAAGT
12309201 TGTGTTTATATAAG
1 TGTGTTTATATAAG
12309215 CCTTAAAGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TGTGTTTATATAAGT
Found at i:12312768 original size:24 final size:23
Alignment explanation
Indices: 12312729--12312774 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
12312719 AGGAATACAT
*
12312729 GCAAAAGAAGAAATAACAGCAAG
1 GCAAAAGAAGAAATAAAAGCAAG
12312752 GCAAGAAGAA-AAGATAAAAGCAA
1 GCAA-AAGAAGAA-ATAAAAGCAA
12312775 AAAATGTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.63, C:0.11, G:0.22, T:0.04
Consensus pattern (23 bp):
GCAAAAGAAGAAATAAAAGCAAG
Found at i:12313827 original size:21 final size:20
Alignment explanation
Indices: 12313783--12313837 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
12313773 CCCTTTTATT
12313783 TATTATATTATTACTACTAC
1 TATTATATTATTACTACTAC
* * *
12313803 TATTATTATTATTAGTAGTAG
1 TATTA-TATTATTACTACTAC
12313824 TATTATATTTATTA
1 TATTATA-TTATTA
12313838 TTATTACTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.23
21 23 0.77
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (20 bp):
TATTATATTATTACTACTAC
Found at i:12319080 original size:69 final size:69
Alignment explanation
Indices: 12318983--12319120 Score: 204
Period size: 69 Copynumber: 2.0 Consensus size: 69
12318973 TGATTCAAAC
*
12318983 TAATCCATATCCTTAGTGCAATTGGACAATGAATCAAGTAACTTGTGATCAAAGAAAGAATCTAG
1 TAATCCATATCCTTAGTGCAATAGGACAATGAATCAAGTAACTTGTGATCAAAGAAAGAATCTAG
12319048 AAAA
66 AAAA
* * * * * * *
12319052 TAATTCATATCTTTAGTGCTATAGGACAATGAATCAAGTGAGTTGTGATCAAATAAAGAATCTGG
1 TAATCCATATCCTTAGTGCAATAGGACAATGAATCAAGTAACTTGTGATCAAAGAAAGAATCTAG
12319117 AAAA
66 AAAA
12319121 GGTAGAGGAA
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
69 61 1.00
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.28
Consensus pattern (69 bp):
TAATCCATATCCTTAGTGCAATAGGACAATGAATCAAGTAACTTGTGATCAAAGAAAGAATCTAG
AAAA
Found at i:12320728 original size:26 final size:26
Alignment explanation
Indices: 12320699--12320749 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
12320689 ATATATAAAA
12320699 TTATCATAAATG-TAAATATTATTTAG
1 TTATCATAAA-GATAAATATTATTTAG
* *
12320725 TTATCATTAAGATAAGTATTATTTA
1 TTATCATAAAGATAAATATTATTTA
12320750 TTAAAATTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 1 0.05
26 21 0.95
ACGTcount: A:0.41, C:0.04, G:0.08, T:0.47
Consensus pattern (26 bp):
TTATCATAAAGATAAATATTATTTAG
Found at i:12323576 original size:29 final size:30
Alignment explanation
Indices: 12323489--12323576 Score: 88
Period size: 31 Copynumber: 2.9 Consensus size: 30
12323479 GATTAAATCA
** * *
12323489 AAATTAAAGTTTCAAATATACATTTGAACC
1 AAATTAAAGTTTCATGTATACAATTGCACC
* * * *
12323519 ACAATTAGAGTTTCATGTGTATAACTGCACC
1 A-AATTAAAGTTTCATGTATACAATTGCACC
12323550 AAATTAAAG-TTCATGTATACAATTGCA
1 AAATTAAAGTTTCATGTATACAATTGCA
12323577 GATTAAACCA
Statistics
Matches: 45, Mismatches: 12, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
29 15 0.33
30 8 0.18
31 22 0.49
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (30 bp):
AAATTAAAGTTTCATGTATACAATTGCACC
Found at i:12326475 original size:22 final size:22
Alignment explanation
Indices: 12326450--12326541 Score: 105
Period size: 22 Copynumber: 4.2 Consensus size: 22
12326440 AAATTCAATA
* *
12326450 TCAATTTCTTTCAAAAATTCTC
1 TCAATTCCCTTCAAAAATTCTC
* *
12326472 TCAATTCCTTTCAAAATTTCTC
1 TCAATTCCCTTCAAAAATTCTC
*
12326494 TCAATTCCCTTCAAAATTTC-C
1 TCAATTCCCTTCAAAAATTCTC
* *
12326515 ATCAATTTCCTTCCAAAATTCTC
1 -TCAATTCCCTTCAAAAATTCTC
12326538 TCAA
1 TCAA
12326542 ACTCTCAAAT
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
21 1 0.02
22 60 0.97
23 1 0.02
ACGTcount: A:0.30, C:0.28, G:0.00, T:0.41
Consensus pattern (22 bp):
TCAATTCCCTTCAAAAATTCTC
Found at i:12326507 original size:44 final size:44
Alignment explanation
Indices: 12326450--12326541 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 44
12326440 AAATTCAATA
* * *
12326450 TCAATTTCTTTCAAAAATTCTC-TCAA-TTCCTTTCAAAATTTCTC
1 TCAATTCCCTTCAAAAATTC-CATCAATTTCCTTCCAAAA-TTCTC
*
12326494 TCAATTCCCTTCAAAATTTCCATCAATTTCCTTCCAAAATTCTC
1 TCAATTCCCTTCAAAAATTCCATCAATTTCCTTCCAAAATTCTC
12326538 TCAA
1 TCAA
12326542 ACTCTCAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
43 1 0.02
44 30 0.71
45 11 0.26
ACGTcount: A:0.30, C:0.28, G:0.00, T:0.41
Consensus pattern (44 bp):
TCAATTCCCTTCAAAAATTCCATCAATTTCCTTCCAAAATTCTC
Found at i:12326557 original size:52 final size:51
Alignment explanation
Indices: 12326491--12326593 Score: 122
Period size: 52 Copynumber: 2.0 Consensus size: 51
12326481 TTCAAAATTT
* *
12326491 CTCTCAATTCCCTT-CAAAATTTCC-ATCAATTTCCTTCCAAAATTCTCTCAAA
1 CTCTCAATTCCCTTCCAAAA--TCCTATCAATTTCCTTCAAAAAATCTC-CAAA
*
12326543 CTCTCAAATT-CCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCCAAA
1 CTCTC-AATTCCCTTCCAAAATCCTATCAATTTCCTTCAAAAAATCTCCAAA
12326594 TCCATATTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
51 7 0.16
52 29 0.64
53 9 0.20
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.34
Consensus pattern (51 bp):
CTCTCAATTCCCTTCCAAAATCCTATCAATTTCCTTCAAAAAATCTCCAAA
Found at i:12326582 original size:21 final size:22
Alignment explanation
Indices: 12326543--12326584 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
12326533 TTCTCTCAAA
12326543 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCCAAAATC
* *
12326565 CTCTCAATTTCCTTCAAAAA
1 CTCTCAAATTCCTTCCAAAA
12326585 ATCTCCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (22 bp):
CTCTCAAATTCCTTCCAAAATC
Found at i:12326681 original size:29 final size:29
Alignment explanation
Indices: 12326626--12326681 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 29
12326616 ATTAAATTTC
12326626 ATTTTTTTAAGAAAATTTTAAAATTTTTT
1 ATTTTTTTAAGAAAATTTTAAAATTTTTT
*
12326655 ATTTTTTTAA-ATAATTTTAAAATTTTT
1 ATTTTTTTAAGAAAATTTTAAAATTTTT
12326682 AATATTTTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 16 0.62
29 10 0.38
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (29 bp):
ATTTTTTTAAGAAAATTTTAAAATTTTTT
Found at i:12326689 original size:29 final size:29
Alignment explanation
Indices: 12326626--12326689 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 29
12326616 ATTAAATTTC
*
12326626 ATTTTTTTAAGAAAATTTTAAAATTTTTT
1 ATTTTTTTAAGAAAATTTTAAAATTTTTA
*
12326655 ATTTTTTTAA-ATAATTTTAAAATTTTTA
1 ATTTTTTTAAGAAAATTTTAAAATTTTTA
*
12326683 ATATTTT
1 ATTTTTT
12326690 CAACAATGGC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
28 22 0.69
29 10 0.31
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (29 bp):
ATTTTTTTAAGAAAATTTTAAAATTTTTA
Found at i:12326835 original size:24 final size:23
Alignment explanation
Indices: 12326773--12326835 Score: 58
Period size: 24 Copynumber: 2.7 Consensus size: 23
12326763 TAAATTTAAA
*
12326773 TTTTAAAT-TTTTTTTAAGATAT
1 TTTTATATATTTTTTTAAGATAT
*
12326795 TTTTATTTATGTATTTTT-AGATAT
1 TTTTATATAT-T-TTTTTAAGATAT
12326819 TTATTAATATATTTTTT
1 TT-TT-ATATATTTTTT
12326836 GTTATAAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
22 6 0.18
23 1 0.03
24 13 0.39
25 8 0.24
26 5 0.15
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.67
Consensus pattern (23 bp):
TTTTATATATTTTTTTAAGATAT
Found at i:12328989 original size:17 final size:18
Alignment explanation
Indices: 12328967--12329002 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
12328957 TAAAATCCCT
12328967 AAACCCT-ACTTAATTAA
1 AAACCCTAACTTAATTAA
*
12328984 AAACCCTAATTTAATTAA
1 AAACCCTAACTTAATTAA
12329002 A
1 A
12329003 TTAAAACCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.50, C:0.19, G:0.00, T:0.31
Consensus pattern (18 bp):
AAACCCTAACTTAATTAA
Found at i:12329029 original size:28 final size:27
Alignment explanation
Indices: 12328978--12329537 Score: 432
Period size: 28 Copynumber: 21.1 Consensus size: 27
12328968 AACCCTACTT
12328978 AATTAAAAACCCTAA--T--TTAATTA
1 AATTAAAAACCCTAACCTACTTAATTA
12329001 AATT-AAAACCCTAAACCCTACTTAATTA
1 AATTAAAAACCCT-AA-CCTACTTAATTA
***** *
12329029 AAACCCTAACCCTAACCTAATTTAATTA
1 AATTAAAAACCCTAACCT-ACTTAATTA
* *
12329057 AATTAAAAACCCTAACCTAACCTAATTT
1 AATTAAAAACCCTAACCT-ACTTAATTA
*
12329085 AATTAAAAACCCTAA-C--C-TAATTT
1 AATTAAAAACCCTAACCTACTTAATTA
12329108 AATTAAAAACCCTAACCTAC----TTA
1 AATTAAAAACCCTAACCTACTTAATTA
*
12329131 AATTAAAAACCCTAACCTTATTTAATTA
1 AATTAAAAACCCTAACC-TACTTAATTA
12329159 AATTAAAAACCCTAACCTAC----TTA
1 AATTAAAAACCCTAACCTACTTAATTA
12329182 AATTAAAAACCCTAACCCCTACTTAATTA
1 AATTAAAAACCCTAA--CCTACTTAATTA
12329211 AATTAAAAACCCTAAACCCTACTTAATTA
1 AATTAAAAACCCT-AA-CCTACTTAATTA
* * *
12329240 AA--AACCCTAACCCTAACTTAATTTAATTA
1 AATTAA---AAACCCTAACCT-ACTTAATTA
* *
12329269 AATTAAAAACCCTAACCTAACCTAATTT
1 AATTAAAAACCCTAACCT-ACTTAATTA
*
12329297 AATTAAAAACCCTAA-C--C-TAATTT
1 AATTAAAAACCCTAACCTACTTAATTA
*
12329320 AATTAAAAACCTTAACCTAC----TTA
1 AATTAAAAACCCTAACCTACTTAATTA
*
12329343 AATTAAAAACCCTAACCTAACCTAATTA
1 AATTAAAAACCCTAACCT-ACTTAATTA
*
12329371 AATTAAAAACCCTAACCCTAACCTAACCTAATTT
1 AATTAAAAACCCTAA-CCT-A-CT----TAATTA
*
12329405 AATTAAAAACCCTAA-C--C-TAATTT
1 AATTAAAAACCCTAACCTACTTAATTA
*
12329428 AATTAAAAACCCTAACCTTATTTAATTA
1 AATTAAAAACCCTAACC-TACTTAATTA
* *
12329456 AATTAAAAACCCTAA---ACCTAATTT
1 AATTAAAAACCCTAACCTACTTAATTA
*
12329480 AATTAAAAACCCTAACCTAACCTAATTA
1 AATTAAAAACCCTAACCT-ACTTAATTA
*
12329508 AATTAAAAACCCTAACCCTATTTAATTA
1 AATTAAAAACCCTAA-CCTACTTAATTA
12329536 AA
1 AA
12329538 AACCCTAATT
Statistics
Matches: 447, Mismatches: 37, Indels: 101
0.76 0.06 0.17
Matches are distributed among these distances:
22 8 0.02
23 124 0.28
24 30 0.07
25 5 0.01
26 3 0.01
27 9 0.02
28 179 0.40
29 57 0.13
30 9 0.02
31 2 0.00
32 1 0.00
34 20 0.04
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.29
Consensus pattern (27 bp):
AATTAAAAACCCTAACCTACTTAATTA
Found at i:12329042 original size:22 final size:23
Alignment explanation
Indices: 12328955--12329042 Score: 101
Period size: 23 Copynumber: 3.8 Consensus size: 23
12328945 ACATTATTTG
12328955 ATTAAAATCCCTAAACCCTACTTA
1 ATTAAAA-CCCTAAACCCTACTTA
** *
12328979 ATTAAAAACCCT-AA-TTTAATTAA
1 ATT-AAAACCCTAAACCCTACTT-A
12329002 ATTAAAACCCTAAACCCTACTTA
1 ATTAAAACCCTAAACCCTACTTA
12329025 ATTAAAACCCT-AACCCTA
1 ATTAAAACCCTAAACCCTA
12329043 ACCTAATTTA
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
22 19 0.35
23 20 0.37
24 11 0.20
25 4 0.07
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.28
Consensus pattern (23 bp):
ATTAAAACCCTAAACCCTACTTA
Found at i:12329064 original size:33 final size:33
Alignment explanation
Indices: 12329024--12329091 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
12329014 AACCCTACTT
12329024 AATT-AAAACCCTAACCCTAACCTAATTTAATTA
1 AATTAAAAACCCTAA-CCTAACCTAATTTAATTA
12329057 AATTAAAAACCCTAACCTAACCTAATTTAATTA
1 AATTAAAAACCCTAACCTAACCTAATTTAATTA
12329090 AA
1 AA
12329092 AACCCTAACC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 24 0.71
34 10 0.29
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.29
Consensus pattern (33 bp):
AATTAAAAACCCTAACCTAACCTAATTTAATTA
Found at i:12329070 original size:23 final size:23
Alignment explanation
Indices: 12329044--12329249 Score: 144
Period size: 23 Copynumber: 8.2 Consensus size: 23
12329034 CTAACCCTAA
*
12329044 CCTAATTTAATTAAATTAAAAAC
1 CCTAATCTAATTAAATTAAAAAC
*
12329067 CCTAACCTAACCTAATTTAATTAAAAAC
1 CCTAA--T---CTAATTAAATTAAAAAC
* *
12329095 CCTAACCTAATTTAATTAAAAAC
1 CCTAATCTAATTAAATTAAAAAC
* *
12329118 CCTAACCTACTTAAATTAAAAAC
1 CCTAATCTAATTAAATTAAAAAC
*
12329141 CCTAACCTTATTTAATTAAATTAAAAAC
1 CCT-A----ATCTAATTAAATTAAAAAC
* *
12329169 CCTAACCTACTTAAATTAAAAAC
1 CCTAATCTAATTAAATTAAAAAC
12329192 CCTAACCCCTACTTAATTAAATTAAAAAC
1 CCTAA----T-C-TAATTAAATTAAAAAC
* *
12329221 CCTAAACCCTACTT-AATTAAAAAC
1 CCT-AA-TCTAATTAAATTAAAAAC
12329245 CCTAA
1 CCTAA
12329250 CCCTAACTTA
Statistics
Matches: 151, Mismatches: 15, Indels: 34
0.75 0.08 0.17
Matches are distributed among these distances:
23 69 0.46
24 14 0.09
25 5 0.03
26 1 0.01
27 2 0.01
28 40 0.26
29 18 0.12
30 2 0.01
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (23 bp):
CCTAATCTAATTAAATTAAAAAC
Found at i:12329099 original size:51 final size:51
Alignment explanation
Indices: 12328978--12329545 Score: 370
Period size: 51 Copynumber: 10.7 Consensus size: 51
12328968 AACCCTACTT
* *
12328978 AATTAAAAACCCTAATTTAATTAAATT-AAAACCCTAAACCCT-ACTTAATTAA
1 AATTAAAAACCCTAATCTAATTAAATTAAAAACCCT-AA-CCTAACCTAATT-A
* * * *
12329030 AACCCTAACCCTAA-CCTAATTTAATTAAATTAAAAACCCTAACCTAACCTAATTT
1 AA--TTAA---AAACCCTAATCTAATTAAATTAAAAACCCTAACCTAACCTAATTA
* *
12329085 AATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCT-A-C---TTA
1 AATTAAAAACCCTAATCTAATTAAATTAAAAACCCTAACCTAACCTAATTA
*
12329131 AATTAAAAACCCTAACCTTATTTAATTAAATTAAAAACCCTAACCT-A-C---TTA
1 AATTAAAAACCCT-A----ATCTAATTAAATTAAAAACCCTAACCTAACCTAATTA
*
12329182 AATTAAAAACCCTAACCCCTACTTAATTAAATTAAAAACCCTAAACCCT-ACTTAATTA
1 AATTAAAAACCCTAA----T-C-TAATTAAATTAAAAACCCT-AA-CCTAACCTAATTA
* * *
12329240 AA--AACCCTAACCCTAACTTAATTTAATTAAATTAAAAACCCTAACCTAACCTAATTT
1 AATTAA----AAACC---C-TAATCTAATTAAATTAAAAACCCTAACCTAACCTAATTA
* * *
12329297 AATTAAAAACCCTAACCTAATTTAATTAAAAA-CCT----TAACCTACTTA
1 AATTAAAAACCCTAATCTAATTAAATTAAAAACCCTAACCTAACCTAATTA
*
12329343 AATTAAAAACCCTAACCTAACCTAATTAAATTAAAAACCCTAACCCTAACCTAACCTAATTT
1 AATTAAAAACCCTAA--T---CTAATTAAATT--AAA----AACCCTAACCTAACCTAATTA
* * * **
12329405 AATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCTTATTTAATTA
1 AATTAAAAACCCTAATCTAATTAAATTAAAAACCCTAACCTAACCTAATTA
* *
12329456 AATTAAAAACCCTAAACCTAATTTAATTAAAAACCCTAACCTAACCTAATTA
1 AATTAAAAACCCT-AATCTAATTAAATTAAAAACCCTAACCTAACCTAATTA
* *
12329508 AATTAAAAACCCTAACCCT-ATTTAATTAAAAACCCTAA
1 AATTAAAAACCCTAA-TCTAATTAAATTAAAAACCCTAA
12329546 TTAAATTGTA
Statistics
Matches: 424, Mismatches: 38, Indels: 109
0.74 0.07 0.19
Matches are distributed among these distances:
46 40 0.09
47 1 0.00
49 1 0.00
50 8 0.02
51 148 0.35
52 73 0.17
53 8 0.02
54 7 0.02
55 12 0.03
56 31 0.07
57 33 0.08
58 27 0.06
59 2 0.00
60 5 0.01
62 24 0.06
63 1 0.00
64 3 0.01
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (51 bp):
AATTAAAAACCCTAATCTAATTAAATTAAAAACCCTAACCTAACCTAATTA
Found at i:12329251 original size:23 final size:24
Alignment explanation
Indices: 12329108--12329265 Score: 169
Period size: 23 Copynumber: 6.2 Consensus size: 24
12329098 AACCTAATTT
12329108 AATTAAAAACCCTAA-CCTACTTA
1 AATTAAAAACCCTAACCCTACTTA
* *
12329131 AATTAAAAACCCTAACCTTATTTAATTA
1 AATTAAAAACCCTAACC----CTACTTA
12329159 AATTAAAAACCCTAA-CCTACTTA
1 AATTAAAAACCCTAACCCTACTTA
12329182 AATTAAAAACCCTAACCCCTACTTAATTA
1 AATTAAAAACCCTAA-CCCTAC----TTA
12329211 AATTAAAAACCCTAAACCCTACTT-
1 AATTAAAAACCCT-AACCCTACTTA
12329235 AATTAAAAACCCTAACCCTAACTTA
1 AATTAAAAACCCTAACCCT-ACTTA
*
12329260 ATTTAA
1 AATTAA
12329266 TTAAATTAAA
Statistics
Matches: 116, Mismatches: 5, Indels: 26
0.79 0.03 0.18
Matches are distributed among these distances:
23 41 0.35
24 18 0.16
25 12 0.10
27 1 0.01
28 20 0.17
29 22 0.19
30 2 0.02
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (24 bp):
AATTAAAAACCCTAACCCTACTTA
Found at i:12329295 original size:33 final size:34
Alignment explanation
Indices: 12329235--12329421 Score: 124
Period size: 34 Copynumber: 5.5 Consensus size: 34
12329225 AACCCTACTT
*
12329235 AATTAAAAACCCTAACCCTAACTTAATTTAATTA
1 AATTAAAAACCCTAACCCTAACCTAATTTAATTA
12329269 AATTAAAAACCCTAA-CCTAACCTAA--T--TT-
1 AATTAAAAACCCTAACCCTAACCTAATTTAATTA
** *
12329297 AATTAAAAACCCTAA-CCTAATTTAATTAAAAACCTTA
1 AATTAAAAACCCTAACCCTAACCTAATT--TAA--TTA
* **
12329334 ACCTACTTAAATTAA---AAACCCTAACCTAACCTAATTA
1 A---A-TTAAA--AACCCTAACCCTAACCTAATTTAATTA
** *
12329371 AATTAAAAACCCTAACCCTAACCTAACCTAATTT
1 AATTAAAAACCCTAACCCTAACCTAATTTAATTA
12329405 AATTAAAAACCCTAACC
1 AATTAAAAACCCTAACC
12329422 TAATTTAATT
Statistics
Matches: 122, Mismatches: 12, Indels: 38
0.71 0.07 0.22
Matches are distributed among these distances:
28 23 0.19
29 2 0.02
31 3 0.02
33 14 0.11
34 53 0.43
36 2 0.02
37 5 0.04
39 2 0.02
40 3 0.02
41 13 0.11
43 2 0.02
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.28
Consensus pattern (34 bp):
AATTAAAAACCCTAACCCTAACCTAATTTAATTA
Found at i:12329310 original size:23 final size:23
Alignment explanation
Indices: 12329284--12329545 Score: 157
Period size: 23 Copynumber: 10.2 Consensus size: 23
12329274 AAAACCCTAA
12329284 CCTAACCTAATTTAATTAAAAAC
1 CCTAACCTAATTTAATTAAAAAC
12329307 CCTAACCTAATTTAATTAAAAAC
1 CCTAACCTAATTTAATTAAAAAC
* * *
12329330 CTTAACCTACTTAAATTAAAAAC
1 CCTAACCTAATTTAATTAAAAAC
12329353 CCTAACCTAACCTAATTAAATTAAAAAC
1 CCTAACCTAA--T--TT-AATTAAAAAC
** * **
12329381 CCTAACCCTAACCTAACCTAATTTAATT
1 CCTAA-CCTAATTTAA-TTAA---AAAC
***
12329409 AAAAACCCTAACCTAATTTAATTAAAAAC
1 CCTAA-CCT-----AATTTAATTAAAAAC
*
12329438 CCTAACCTTATTTAATTAAATTAAAAAC
1 CCTAACC-----TAATTTAATTAAAAAC
12329466 CCTAAACCTAATTTAATTAAAAAC
1 CCT-AACCTAATTTAATTAAAAAC
12329490 CCTAACCTAACCTAATTAAATTAAAAAC
1 CCTAACCTAA--T--TT-AATTAAAAAC
12329518 CCTAACCCT-ATTTAATTAAAAAC
1 CCTAA-CCTAATTTAATTAAAAAC
12329541 CCTAA
1 CCTAA
12329546 TTAAATTGTA
Statistics
Matches: 188, Mismatches: 24, Indels: 54
0.71 0.09 0.20
Matches are distributed among these distances:
23 73 0.39
24 22 0.12
25 6 0.03
26 1 0.01
27 3 0.02
28 58 0.31
29 16 0.09
32 3 0.02
33 6 0.03
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (23 bp):
CCTAACCTAATTTAATTAAAAAC
Found at i:12329388 original size:34 final size:34
Alignment explanation
Indices: 12329350--12329421 Score: 135
Period size: 34 Copynumber: 2.1 Consensus size: 34
12329340 TTAAATTAAA
12329350 AACCCTAACCTAACCTAATTAAATTAAAAACCCT
1 AACCCTAACCTAACCTAATTAAATTAAAAACCCT
*
12329384 AACCCTAACCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAACCTAATTAAATTAAAAACCCT
12329418 AACC
1 AACC
12329422 TAATTTAATT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.24
Consensus pattern (34 bp):
AACCCTAACCTAACCTAATTAAATTAAAAACCCT
Found at i:12332967 original size:124 final size:124
Alignment explanation
Indices: 12332731--12332967 Score: 361
Period size: 124 Copynumber: 1.9 Consensus size: 124
12332721 ACACCGTTTG
*
12332731 CTCAGAAACGTCAAAAAAAATTATTTCCTACATGACCAACTGTAGCGAAATCGCGTCCACGAGGG
1 CTCAGAAACGTCAAAAAAAATTATTTCCTACATGACCAACTGTAGCGAAATCGCGTCCACGAGGC
* * * **
12332796 CGCGATTTCACAATTTCTTCTCATATAGCATCCTGGTATCAGCGATTTTATACTATTTC
66 CACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAAGCGATTTTATACTATTTC
12332855 CTCAGAAAACGTCAAAAAAAATTATTT-CTCACATGACC-ACTGTAGCGAAATCGCGTCCACGAG
1 CTCAG-AAACGTCAAAAAAAATTATTTCCT-ACATGACCAACTGTAGCGAAATCGCGTCCACGAG
* * *
12332918 GCCACTATTTCACAATTTCTTCTTAAATAGCATCCTAGTAGAAGTGATTT
64 GCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAAGCGATTT
12332968 CCCACTATTT
Statistics
Matches: 102, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
124 73 0.72
125 29 0.28
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (124 bp):
CTCAGAAACGTCAAAAAAAATTATTTCCTACATGACCAACTGTAGCGAAATCGCGTCCACGAGGC
CACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAAGCGATTTTATACTATTTC
Found at i:12332975 original size:124 final size:124
Alignment explanation
Indices: 12332713--12332992 Score: 359
Period size: 124 Copynumber: 2.3 Consensus size: 124
12332703 CCACGAGGGC
* ** *
12332713 GCGATTTGACACCGTTTGCTCAGAAACGTCAAAAAAAATTATTTCCTACATGACCAACTGTAGCG
1 GCGATTTCACACTATTTCCTCAGAAACGTCAAAAAAAATTATTTCCTACATGACCAACTGTAGCG
* * * * **
12332778 AAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCATATAGCATCCTGGTATCA
66 AAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAA
* *
12332837 GCGATTTTATACTATTTCCTCAGAAAACGTCAAAAAAAATTATTT-CTCACATGACC-ACTGTAG
1 GCGATTTCACACTATTTCCTCAG-AAACGTCAAAAAAAATTATTTCCT-ACATGACCAACTGTAG
* *
12332900 CGAAATCGCGTCCACGAGGCCACTATTTCACAATTTCTTCTTAAATAGCATCCTAGTAGAA
64 CGAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAA
* * *
12332961 GTGATTTCCCACTATTTAAC-CAGAAACGTCAA
1 GCGATTTCACACTATTT-CCTCAGAAACGTCAA
12332993 CTCAAAAAAA
Statistics
Matches: 135, Mismatches: 18, Indels: 7
0.84 0.11 0.04
Matches are distributed among these distances:
123 9 0.07
124 96 0.71
125 30 0.22
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (124 bp):
GCGATTTCACACTATTTCCTCAGAAACGTCAAAAAAAATTATTTCCTACATGACCAACTGTAGCG
AAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAA
Found at i:12342104 original size:3 final size:3
Alignment explanation
Indices: 12342096--12342121 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
12342086 AAATTTACTC
12342096 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
12342122 TGGTAGAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:12343536 original size:24 final size:24
Alignment explanation
Indices: 12343503--12343549 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
12343493 ATAAAATATT
*
12343503 TAATTTTATATTAAA-AATAAAAAG
1 TAATTATATATTAAATAA-AAAAAG
12343527 TAATTATATATTAAATAAAAAAA
1 TAATTATATATTAAATAAAAAAA
12343550 CAAAATTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 19 0.90
25 2 0.10
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (24 bp):
TAATTATATATTAAATAAAAAAAG
Found at i:12345424 original size:11 final size:11
Alignment explanation
Indices: 12345408--12345443 Score: 72
Period size: 11 Copynumber: 3.3 Consensus size: 11
12345398 ACGTCGTAGA
12345408 AAATTCAAATC
1 AAATTCAAATC
12345419 AAATTCAAATC
1 AAATTCAAATC
12345430 AAATTCAAATC
1 AAATTCAAATC
12345441 AAA
1 AAA
12345444 AAATAAAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.58, C:0.17, G:0.00, T:0.25
Consensus pattern (11 bp):
AAATTCAAATC
Found at i:12347229 original size:31 final size:31
Alignment explanation
Indices: 12347191--12347256 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
12347181 AATGTAATTT
* * *
12347191 TTGGCCCTTGAACTTGACAAGTATGTTCACA
1 TTGGCCCTTAAACTTGACAACTAGGTTCACA
*
12347222 TTGGCCCTTAAACTTGACAACTAGGTTCACT
1 TTGGCCCTTAAACTTGACAACTAGGTTCACA
12347253 TTGG
1 TTGG
12347257 TACTTGTACC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (31 bp):
TTGGCCCTTAAACTTGACAACTAGGTTCACA
Found at i:12355762 original size:48 final size:48
Alignment explanation
Indices: 12355709--12355852 Score: 261
Period size: 48 Copynumber: 3.0 Consensus size: 48
12355699 TAGCCTGCTT
12355709 CAGCACCCCAATTTTGACCAAAATCTTTTGCATTTTGACCAGGTCCAA
1 CAGCACCCCAATTTTGACCAAAATCTTTTGCATTTTGACCAGGTCCAA
* *
12355757 TAGCACCCCAATTTTGACCAAAATCTTTTGCATTTTGACCAAGTCCAA
1 CAGCACCCCAATTTTGACCAAAATCTTTTGCATTTTGACCAGGTCCAA
*
12355805 CAGCACACCAATTTTGACCAAAATCTTTTGCATTTTGACCAGGTCCAA
1 CAGCACCCCAATTTTGACCAAAATCTTTTGCATTTTGACCAGGTCCAA
12355853 AGTAATTTTG
Statistics
Matches: 91, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 91 1.00
ACGTcount: A:0.31, C:0.28, G:0.12, T:0.30
Consensus pattern (48 bp):
CAGCACCCCAATTTTGACCAAAATCTTTTGCATTTTGACCAGGTCCAA
Found at i:12366004 original size:24 final size:24
Alignment explanation
Indices: 12365975--12366054 Score: 106
Period size: 24 Copynumber: 3.3 Consensus size: 24
12365965 TAAATATGGA
* *
12365975 AATAAATAACAAATATTTTATACT
1 AATAAATATCAAATATATTATACT
*
12365999 AATAAATGTCAAATATATTATACT
1 AATAAATATCAAATATATTATACT
* * *
12366023 AATAATTGTTAAATATATTATACT
1 AATAAATATCAAATATATTATACT
12366047 AATAAATA
1 AATAAATA
12366055 CTAAATCTTC
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.39
Consensus pattern (24 bp):
AATAAATATCAAATATATTATACT
Found at i:12370894 original size:43 final size:43
Alignment explanation
Indices: 12370847--12371045 Score: 285
Period size: 43 Copynumber: 4.6 Consensus size: 43
12370837 TTTTAGAAAT
*
12370847 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTTTCAC
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTTCCAC
*
12370890 AAACGCCGCTATAGAACAAGACCTTTAGCGGCGCTTTTAT-CAC
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTT-TCCAC
* * *
12370933 AAACACCACTAAATAACAAGACCTTTAGCGGCGCTTTTTCCAC
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTTCCAC
** *
12370976 AAACGCTACTAAAGAACAAGACATTTAGCGGCGC-TTTTCCAGC
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTTCCA-C
*
12371019 AAACGCCGCTAAAGAACATGACCTTTA
1 AAACGCCGCTAAAGAACAAGACCTTTA
12371046 AAAAAATATT
Statistics
Matches: 140, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
42 8 0.06
43 131 0.94
44 1 0.01
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.22
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTTCCAC
Found at i:12371744 original size:4 final size:4
Alignment explanation
Indices: 12371735--12371765 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
12371725 GGTATATTAG
12371735 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
12371766 TATCTATATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:12373656 original size:10 final size:10
Alignment explanation
Indices: 12373641--12373665 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
12373631 TCCTAACCGT
12373641 TAACTGCTGC
1 TAACTGCTGC
12373651 TAACTGCTGC
1 TAACTGCTGC
12373661 TAACT
1 TAACT
12373666 ACCTCAGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.32
Consensus pattern (10 bp):
TAACTGCTGC
Found at i:12378223 original size:10 final size:10
Alignment explanation
Indices: 12378208--12378242 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
12378198 TCCTAACCGT
12378208 TAACTGCTGC
1 TAACTGCTGC
12378218 TAACTGCTGC
1 TAACTGCTGC
*
12378228 TAACTACTGC
1 TAACTGCTGC
12378238 TAACT
1 TAACT
12378243 ACATCAGCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (10 bp):
TAACTGCTGC
Found at i:12380243 original size:17 final size:17
Alignment explanation
Indices: 12380218--12380262 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
12380208 GGATTTAAAG
*
12380218 TTTATGGGTTAGGTG-GA
1 TTTAGGGGTTAGG-GAGA
12380235 TTTAGGGGTTAGGGAGA
1 TTTAGGGGTTAGGGAGA
12380252 TTTAGGGGTTA
1 TTTAGGGGTTA
12380263 AGATTAGGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 1 0.04
17 25 0.96
ACGTcount: A:0.20, C:0.00, G:0.42, T:0.38
Consensus pattern (17 bp):
TTTAGGGGTTAGGGAGA
Found at i:12380993 original size:9 final size:9
Alignment explanation
Indices: 12380976--12381012 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
12380966 TGAGTTTTCA
12380976 AATTCGAAT
1 AATTCGAAT
*
12380985 AACTCGAAT
1 AATTCGAAT
12380994 AATTCGAAT
1 AATTCGAAT
12381003 AATTCGAAT
1 AATTCGAAT
12381012 A
1 A
12381013 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:12381260 original size:30 final size:31
Alignment explanation
Indices: 12381226--12381285 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
12381216 AAACCTTTTA
*
12381226 TTTTCTCCC-AAAATTTTTACTCCC-TCCCAC
1 TTTTC-CCCTAAAACTTTTACTCCCTTCCCAC
*
12381256 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCTAAAACTTTTACTCCCTTCCCA
12381286 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 3 0.12
30 18 0.69
31 5 0.19
ACGTcount: A:0.20, C:0.38, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTTCCCCTAAAACTTTTACTCCCTTCCCAC
Found at i:12384130 original size:22 final size:21
Alignment explanation
Indices: 12384080--12384130 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 21
12384070 CATATCTATA
**
12384080 TTATAAAAAATATGTTTGTAT
1 TTATAAAAAATATGTACGTAT
* *
12384101 GTACAAAAATATATGTACGTAT
1 TTATAAAAA-ATATGTACGTAT
12384123 TTATAAAA
1 TTATAAAA
12384131 GTTTTTAAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.47, C:0.04, G:0.10, T:0.39
Consensus pattern (21 bp):
TTATAAAAAATATGTACGTAT
Found at i:12384198 original size:25 final size:24
Alignment explanation
Indices: 12384170--12384217 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
12384160 ATATGCGTAG
12384170 AAAT-ATAGAAATAATAAGTGATAAT
1 AAATAATA-AAATAATAA-TGATAAT
*
12384195 AAATAATATAATAATAATGATAA
1 AAATAATAAAATAATAATGATAA
12384218 AAGTAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 6 0.29
25 12 0.57
26 3 0.14
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.29
Consensus pattern (24 bp):
AAATAATAAAATAATAATGATAAT
Found at i:12384207 original size:12 final size:12
Alignment explanation
Indices: 12384179--12384217 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
12384169 GAAATATAGA
12384179 AATAATAAGTGAT
1 AATAATAA-TGAT
12384192 AATAAATAAT-AT
1 AAT-AATAATGAT
12384204 AATAATAATGAT
1 AATAATAATGAT
12384216 AA
1 AA
12384218 AAGTAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 6 0.25
12 9 0.38
13 4 0.17
14 5 0.21
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (12 bp):
AATAATAATGAT
Found at i:12387320 original size:38 final size:39
Alignment explanation
Indices: 12387269--12387348 Score: 135
Period size: 38 Copynumber: 2.1 Consensus size: 39
12387259 TAAAAAATTT
* *
12387269 TTAGGGGTTATGCTTTAAGGG-TTAGGGGGATTTAGGGG
1 TTAGGAGTTATGCTTTAAGGGCTAAGGGGGATTTAGGGG
12387307 TTAGGAGTTATGCTTTAAGGGCTAAGGGGGATTTAGGGG
1 TTAGGAGTTATGCTTTAAGGGCTAAGGGGGATTTAGGGG
12387346 TTA
1 TTA
12387349 TGGGTTAGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
38 20 0.51
39 19 0.49
ACGTcount: A:0.21, C:0.04, G:0.41, T:0.34
Consensus pattern (39 bp):
TTAGGAGTTATGCTTTAAGGGCTAAGGGGGATTTAGGGG
Found at i:12389848 original size:23 final size:23
Alignment explanation
Indices: 12389787--12389850 Score: 63
Period size: 18 Copynumber: 3.1 Consensus size: 23
12389777 CATTACTTAC
12389787 ATTAC-TTAC-TAAAATTTATA-
1 ATTACATTACTTAAAATTTATAT
12389807 ATTTACATTACTT--AA---ATAT
1 A-TTACATTACTTAAAATTTATAT
12389826 ATTACATTACTTAAAATTTATAT
1 ATTACATTACTTAAAATTTATAT
12389849 AT
1 AT
12389851 ATATTTAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 15
0.70 0.00 0.30
Matches are distributed among these distances:
18 14 0.40
19 1 0.03
20 3 0.09
21 6 0.17
22 4 0.11
23 7 0.20
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (23 bp):
ATTACATTACTTAAAATTTATAT
Found at i:12390109 original size:12 final size:12
Alignment explanation
Indices: 12390092--12390120 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
12390082 ATACTTACAT
12390092 AACTTATATATA
1 AACTTATATATA
12390104 AACTTATATATA
1 AACTTATATATA
12390116 AACTT
1 AACTT
12390121 GCATAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.41
Consensus pattern (12 bp):
AACTTATATATA
Found at i:12390134 original size:9 final size:9
Alignment explanation
Indices: 12390116--12390812 Score: 187
Period size: 9 Copynumber: 80.4 Consensus size: 9
12390106 CTTATATATA
*
12390116 AACTTGCAT
1 AACTTACAT
12390125 AACTTACAT
1 AACTTACAT
*
12390134 AA-TAACATAAT
1 AACTTAC---AT
12390145 AACTTACAT
1 AACTTACAT
*
12390154 AA--TACAC
1 AACTTACAT
12390161 AACTTACAT
1 AACTTACAT
*
12390170 AACTTAAAT
1 AACTTACAT
12390179 AACTTACAT
1 AACTTACAT
*
12390188 -A-GTACAT
1 AACTTACAT
**
12390195 AACTTTGAT
1 AACTTACAT
12390204 AAC-TA-AT
1 AACTTACAT
* *
12390211 -ATTATACAC
1 AACT-TACAT
*
12390220 AAATTACAT
1 AACTTACAT
*
12390229 AACATACACTT
1 AACTTACA--T
*
12390240 AA-ATACAT
1 AACTTACAT
12390248 AACTTACAT
1 AACTTACAT
12390257 AACTTACAT
1 AACTTACAT
*
12390266 -A-GTACAT
1 AACTTACAT
12390273 AACTTACAT
1 AACTTACAT
*
12390282 AA--TACAC
1 AACTTACAT
12390289 AACTTA-ATT
1 AACTTACA-T
*
12390298 AATATTATACAT
1 -A-ACT-TACAT
*
12390310 AACATACAT
1 AACTTACAT
12390319 AA--TACAT
1 AACTTACAT
**
12390326 AA--TACGC
1 AACTTACAT
12390333 AACTTA-ATT
1 AACTTACA-T
*
12390342 AATATTATACAT
1 -A-ACT-TACAT
*
12390354 AACATACAT
1 AACTTACAT
*
12390363 AA-TACACAT
1 AACT-TACAT
12390372 AACTTACAT
1 AACTTACAT
*
12390381 -A-GTACAT
1 AACTTACAT
*
12390388 AACATACACTT
1 AACTTACA--T
*
12390399 AA-ATACAT
1 AACTTACAT
12390407 AACTTACAT
1 AACTTACAT
*
12390416 -A-GTACAT
1 AACTTACAT
*
12390423 AACTAACAT
1 AACTTACAT
*
12390432 AA--TACAC
1 AACTTACAT
12390439 AACTTACAT
1 AACTTACAT
*
12390448 AACTTAAAT
1 AACTTACAT
12390457 AACTTACAT
1 AACTTACAT
*
12390466 ---TGTACAG
1 AACT-TACAT
**
12390473 AACTTTGAT
1 AACTTACAT
12390482 AAC-TA-AT
1 AACTTACAT
* *
12390489 -ATTATACAC
1 AACT-TACAT
*
12390498 AAATTACAT
1 AACTTACAT
*
12390507 AACATACACTT
1 AACTTACA--T
*
12390518 AA-ATACAT
1 AACTTACAT
12390526 AACTTACAT
1 AACTTACAT
12390535 AACTTACAT
1 AACTTACAT
*
12390544 -A-GTACAT
1 AACTTACAT
12390551 AACTTACAT
1 AACTTACAT
*
12390560 AA--TACAC
1 AACTTACAT
12390567 AACTTA-ATT
1 AACTTACA-T
*
12390576 AATATTATACAT
1 -A-ACT-TACAT
*
12390588 AACATACAT
1 AACTTACAT
12390597 AA--TACAT
1 AACTTACAT
*
12390604 AA--TACAC
1 AACTTACAT
12390611 AACTTA-ATT
1 AACTTACA-T
*
12390620 AATATTATACAT
1 -A-ACT-TACAT
*
12390632 AACATACAT
1 AACTTACAT
12390641 AA--TACAT
1 AACTTACAT
*
12390648 AA-TACACAT
1 AACT-TACAT
12390657 AACTTACAT
1 AACTTACAT
*
12390666 -A-GTACAT
1 AACTTACAT
*
12390673 AACTAACAT
1 AACTTACAT
*
12390682 AA--TACAC
1 AACTTACAT
*
12390689 AACTTAAAT
1 AACTTACAT
*
12390698 AACTTAAAT
1 AACTTACAT
*
12390707 AAGTTACAT
1 AACTTACAT
*
12390716 AGCTTACAT
1 AACTTACAT
12390725 AA--TACAT
1 AACTTACAT
12390732 AACTTACAT
1 AACTTACAT
*
12390741 AACTTATAT
1 AACTTACAT
12390750 AA--TACAT
1 AACTTACAT
12390757 AACTTACAT
1 AACTTACAT
* *
12390766 AATTTACCT
1 AACTTACAT
12390775 AA--TACAT
1 AACTTACAT
* *
12390782 AA-ATATAT
1 AACTTACAT
* *
12390790 ATCATATCAT
1 AACTTA-CAT
12390800 AACTTACAT
1 AACTTACAT
12390809 AACT
1 AACT
12390813 CATTTATAGT
Statistics
Matches: 510, Mismatches: 95, Indels: 166
0.66 0.12 0.22
Matches are distributed among these distances:
6 3 0.01
7 117 0.23
8 38 0.07
9 272 0.53
10 36 0.07
11 25 0.05
12 15 0.03
13 4 0.01
ACGTcount: A:0.49, C:0.18, G:0.02, T:0.31
Consensus pattern (9 bp):
AACTTACAT
Found at i:12390166 original size:16 final size:16
Alignment explanation
Indices: 12390145--12390294 Score: 59
Period size: 16 Copynumber: 8.4 Consensus size: 16
12390135 ATAACATAAT
12390145 AACTTACATAATACAC
1 AACTTACATAATACAC
* *
12390161 AACTTACATAACTTAAAT
1 AACTTACATAA--TACAC
* *
12390179 AACTTACATAGTACAT
1 AACTTACATAATACAC
12390195 AACTTTGATAACTAATATTATACAC
1 AAC--T--T-AC--ATA--ATACAC
*
12390220 AAATTACATAACATACAC
1 AACTTACAT-A-ATACAC
* *
12390238 TTAAAT-ACATAACTTACAT
1 --AACTTACATAA-T-ACAC
* *
12390257 AACTTACATAGTACAT
1 AACTTACATAATACAC
12390273 AACTTACATAATACAC
1 AACTTACATAATACAC
12390289 AACTTA
1 AACTTA
12390295 ATTAATATTA
Statistics
Matches: 104, Mismatches: 13, Indels: 34
0.69 0.09 0.23
Matches are distributed among these distances:
16 42 0.40
17 5 0.05
18 29 0.28
19 8 0.08
20 7 0.07
21 3 0.03
23 4 0.04
25 6 0.06
ACGTcount: A:0.48, C:0.19, G:0.02, T:0.31
Consensus pattern (16 bp):
AACTTACATAATACAC
Found at i:12390193 original size:25 final size:26
Alignment explanation
Indices: 12390165--12390561 Score: 149
Period size: 25 Copynumber: 15.6 Consensus size: 26
12390155 ATACACAACT
*
12390165 TACATAACTTAAATAACTTACA-TAG
1 TACATAACTTACATAACTTACATTAG
** * *
12390190 TACATAACTTTGATAACTAATATTA-
1 TACATAACTTACATAACTTACATTAG
* * * *
12390215 TACACAAATTACATAACATACACTTAAA
1 TACATAACTTACATAACTTACA-TT-AG
12390243 TACATAACTTACATAACTTACA-TAG
1 TACATAACTTACATAACTTACATTAG
* *
12390268 TACATAACTTACATAA-TACACAACTTAAT
1 TACATAACTTACATAACT-TAC-A-TT-AG
* * *
12390297 TA-AT-ATTATACATAACATACA-TAA
1 TACATAACT-TACATAACTTACATTAG
**
12390321 TACATAA--TACGCAACTTA-ATTA-
1 TACATAACTTACATAACTTACATTAG
* * *
12390343 -ATATTA--TACATAACATACATAATA-
1 TACATAACTTACATAACTTACAT--TAG
* *
12390367 CACATAACTTACATAGTACATAACA-TA-
1 TACATAACTTACATA--AC-TTACATTAG
* * *
12390394 CACTTAA-ATACATAACTTACA-TAG
1 TACATAACTTACATAACTTACATTAG
* ** *
12390418 TACATAACTAACATAA--TACACAACT
1 TACATAACTTACATAACTTACATTA-G
*
12390443 TACATAACTTAAATAACTTACATT-G
1 TACATAACTTACATAACTTACATTAG
* ** * *
12390468 TACAGAACTTTGATAACTAATATTA-
1 TACATAACTTACATAACTTACATTAG
* * * *
12390493 TACACAAATTACATAACATACACTTAAA
1 TACATAACTTACATAACTTACA-TT-AG
12390521 TACATAACTTACATAACTTACA-TAG
1 TACATAACTTACATAACTTACATTAG
12390546 TACATAACTTACATAA
1 TACATAACTTACATAA
12390562 TACACAACTT
Statistics
Matches: 276, Mismatches: 63, Indels: 66
0.68 0.16 0.16
Matches are distributed among these distances:
21 12 0.04
22 3 0.01
23 20 0.07
24 14 0.05
25 130 0.47
26 16 0.06
27 23 0.08
28 50 0.18
29 5 0.02
30 3 0.01
ACGTcount: A:0.48, C:0.18, G:0.03, T:0.31
Consensus pattern (26 bp):
TACATAACTTACATAACTTACATTAG
Found at i:12390259 original size:53 final size:52
Alignment explanation
Indices: 12390190--12390561 Score: 118
Period size: 53 Copynumber: 6.8 Consensus size: 52
12390180 ACTTACATAG
**
12390190 TACATAACTTTGATAACTAATATTATACACAAATTACATAACATACACTTAAA
1 TACATAACTTACATAACTAATA-TATACACAAATTACATAACATACACTTAAA
* * * * * * *
12390243 TACATAACTTACATAACTTACATAGTACATAACTTACATAATACACAACTTAAT
1 TACATAACTTACATAACTAATATA-TACACAAATTACATAACATAC-ACTTAAA
* * ** *
12390297 TA-AT-ATTATACATAACATACATA-ATACA-TAA-TACGCAACTTA-A-TTAATATTA
1 TACATAACT-TACATAAC-TA-ATATATACACAAATTACATAACATACACTT-A-A--A
* * * *
12390349 TACATAACATACATAA-TACACATA-ACTTACATAGTACATAACATACACTTAAA
1 TACATAACTTACATAACTA-ATATATAC--ACAAATTACATAACATACACTTAAA
* * * *
12390402 TACATAACTTACATAGTACATAACTAACATAATACACAACTTACATAACTTA-A-ATAACT
1 TACATAACTTACATA--AC-TAA-T---AT-ATACACAAATTACATAACATACACTTAA-A
* ** *
12390461 TACATTGTACAGAACTTTGATAACTAATATTATACACAAATTACATAACATACACTTAAA
1 TACA-T-AAC-TTACA----TAACTAATA-TATACACAAATTACATAACATACACTTAAA
* * * *
12390521 TACATAACTTACATAACTTACATAGTACATAACTTACATAA
1 TACATAACTTACATAACTAATATA-TACACAAATTACATAA
12390562 TACACAACTT
Statistics
Matches: 227, Mismatches: 52, Indels: 80
0.63 0.14 0.22
Matches are distributed among these distances:
48 2 0.01
49 2 0.01
50 1 0.00
51 13 0.06
52 10 0.04
53 95 0.42
54 12 0.05
55 12 0.05
56 3 0.01
57 6 0.03
58 5 0.02
59 26 0.11
60 22 0.10
61 6 0.03
62 5 0.02
63 3 0.01
64 2 0.01
66 2 0.01
ACGTcount: A:0.48, C:0.18, G:0.02, T:0.31
Consensus pattern (52 bp):
TACATAACTTACATAACTAATATATACACAAATTACATAACATACACTTAAA
Found at i:12390272 original size:44 final size:40
Alignment explanation
Indices: 12390224--12390767 Score: 243
Period size: 41 Copynumber: 13.4 Consensus size: 40
12390214 ATACACAAAT
12390224 TACATAACATACACTTAAATACATAACTTACATAACTTACATA
1 TACATAACATACA--TAAATACATAACTTACATAACTTA-ATA
* * *
12390267 GTACATAACTTACAT-AATACACAACTTA-ATTAA--TATTA
1 -TACATAACATACATAAATACATAACTTACA-TAACTTAATA
**
12390305 TACATAACATACAT-AATACATAA--TACGCAACTTAAT-
1 TACATAACATACATAAATACATAACTTACATAACTTAATA
** *
12390341 TA-ATATTATACATAACATACATAA-TACACATAACTTACATA
1 TACATAACATACATAA-ATACATAACT-TACATAACTTA-ATA
*
12390382 GTACATAACATACACTTAAATACATAACTTACATAGTACATAACTA
1 -TACATAACATACA--TAAATACATAACTTACATA--ACTTAA-TA
* * * *
12390428 -ACAT-A-ATACACAACTTACATAACTTAAATAACTTACATTG
1 TACATAACATACATAA-ATACATAACTTACATAACTTA-A-TA
* * ** * *
12390468 TACAGAACTTTGATAACTA-AT-A-TT--ATACAC-AAAT-
1 TACATAACATACATAAATACATAACTTACATA-ACTTAATA
12390502 TACATAACATACACTTAAATACATAACTTACATAACTTACATA
1 TACATAACATACA--TAAATACATAACTTACATAACTTA-ATA
* * *
12390545 GTACATAACTTACAT-AATACACAACTTA-ATTAA--TATTA
1 -TACATAACATACATAAATACATAACTTACA-TAACTTAATA
*
12390583 TACATAACATACAT-AATACATAA--TACACAACTTAATTAATATTA
1 TACATAACATACATAAATACATAACTTACATAAC----TT-A-A-TA
*
12390627 TACATAACATACAT-AATACATAA-TACACATAACTTACATA
1 TACATAACATACATAAATACATAACT-TACATAACTTA-ATA
* *
12390667 GTACATAAC-TAACAT-AATACACAACTTAAATAACTTAAATAA
1 -TACATAACAT-ACATAAATACATAACTTACATAACTT-AAT-A
* *
12390709 GTTACATAGCTTACAT-AATACATAACTTACATAACTTATATAA
1 --TACATAACATACATAAATACATAACTTACATAACTTA-AT-A
*
12390752 TACATAACTTACATAA
1 TACATAACATACATAA
12390768 TTTACCTAAT
Statistics
Matches: 389, Mismatches: 54, Indels: 116
0.70 0.10 0.21
Matches are distributed among these distances:
34 9 0.02
35 18 0.05
36 10 0.03
37 59 0.15
38 7 0.02
39 20 0.05
40 14 0.04
41 99 0.25
42 22 0.06
43 47 0.12
44 67 0.17
45 5 0.01
46 12 0.03
ACGTcount: A:0.49, C:0.18, G:0.02, T:0.31
Consensus pattern (40 bp):
TACATAACATACATAAATACATAACTTACATAACTTAATA
Found at i:12390325 original size:16 final size:16
Alignment explanation
Indices: 12390242--12390449 Score: 90
Period size: 16 Copynumber: 12.5 Consensus size: 16
12390232 ATACACTTAA
12390242 ATACATAACTTACATAAC
1 ATACATAA--TACATAAC
* *
12390260 TTACATAGTACATAAC
1 ATACATAATACATAAC
* *
12390276 TTACATAATACACAAC
1 ATACATAATACATAAC
12390292 TTAATTA-ATATTATACATAAC
1 ---A-TACATA--ATACATAAC
12390313 ATACATAATACAT-A-
1 ATACATAATACATAAC
** *
12390327 ATACGCAACTTA-ATTA-
1 ATACATAA--TACATAAC
*
12390343 AT--ATTATACATAAC
1 ATACATAATACATAAC
12390357 ATACATAATACACATAAC
1 ATACATAAT--ACATAAC
* *
12390375 TTACATAGTACATAAC
1 ATACATAATACATAAC
12390391 ATACACTTAAATACATAAC
1 ATACA--T-AATACATAAC
* *
12390410 TTACATAGTACATAAC
1 ATACATAATACATAAC
*
12390426 -TAACATAATACACAAC
1 AT-ACATAATACATAAC
*
12390442 TTACATAA
1 ATACATAA
12390450 CTTAAATAAC
Statistics
Matches: 148, Mismatches: 21, Indels: 44
0.69 0.10 0.21
Matches are distributed among these distances:
12 2 0.01
13 3 0.02
14 9 0.06
15 4 0.03
16 75 0.51
17 4 0.03
18 25 0.17
19 16 0.11
20 2 0.01
21 8 0.05
ACGTcount: A:0.50, C:0.19, G:0.02, T:0.30
Consensus pattern (16 bp):
ATACATAATACATAAC
Found at i:12390381 original size:22 final size:22
Alignment explanation
Indices: 12390355--12390408 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
12390345 ATTATACATA
12390355 ACATACATAATACACATA-ACTT
1 ACATACATAATA-ACATACACTT
*
12390377 ACATA-GTACATAACATACACTT
1 ACATACATA-ATAACATACACTT
*
12390399 AAATACATAA
1 ACATACATAA
12390409 CTTACATAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
21 7 0.27
22 17 0.65
23 2 0.08
ACGTcount: A:0.52, C:0.20, G:0.02, T:0.26
Consensus pattern (22 bp):
ACATACATAATAACATACACTT
Found at i:12390413 original size:35 final size:34
Alignment explanation
Indices: 12390349--12390448 Score: 127
Period size: 35 Copynumber: 3.0 Consensus size: 34
12390339 ATTAATATTA
*
12390349 TACATAACATACA-TAATACACATAACTTACATAG
1 TACATAACATACACTAA-ATACATAACTTACATAG
12390383 TACATAACATACACTTAAATACATAACTTACATAG
1 TACATAACATACAC-TAAATACATAACTTACATAG
*
12390418 TACATAAC-TA-AC-ATAATACACAACTTACATA
1 TACATAACATACACTA-AATACATAACTTACATA
12390449 ACTTAAATAA
Statistics
Matches: 61, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
31 1 0.02
32 16 0.26
33 2 0.03
34 15 0.25
35 24 0.39
36 3 0.05
ACGTcount: A:0.50, C:0.21, G:0.02, T:0.27
Consensus pattern (34 bp):
TACATAACATACACTAAATACATAACTTACATAG
Found at i:12390445 original size:278 final size:278
Alignment explanation
Indices: 12390143--12390646 Score: 972
Period size: 278 Copynumber: 1.8 Consensus size: 278
12390133 TAATAACATA
* *
12390143 ATAACTTACATAATACACAACTTACATAACTTAAATAACTTACATAGTACATAACTTTGATAACT
1 ATAACTAACATAATACACAACTTACATAACTTAAATAACTTACATAGTACAGAACTTTGATAACT
12390208 AATATTATACACAAATTACATAACATACACTTAAATACATAACTTACATAACTTACATAGTACAT
66 AATATTATACACAAATTACATAACATACACTTAAATACATAACTTACATAACTTACATAGTACAT
*
12390273 AACTTACATAATACACAACTTAATTAATATTATACATAACATACATAATACATAATACGCAACTT
131 AACTTACATAATACACAACTTAATTAATATTATACATAACATACATAATACATAATACACAACTT
12390338 AATTAATATTATACATAACATACATAATACACATAACTTACATAGTACATAACATACACTTAAAT
196 AATTAATATTATACATAACATACATAATACACATAACTTACATAGTACATAACATACACTTAAAT
12390403 ACATAACTTACATAGTAC
261 ACATAACTTACATAGTAC
*
12390421 ATAACTAACATAATACACAACTTACATAACTTAAATAACTTACATTGTACAGAACTTTGATAACT
1 ATAACTAACATAATACACAACTTACATAACTTAAATAACTTACATAGTACAGAACTTTGATAACT
12390486 AATATTATACACAAATTACATAACATACACTTAAATACATAACTTACATAACTTACATAGTACAT
66 AATATTATACACAAATTACATAACATACACTTAAATACATAACTTACATAACTTACATAGTACAT
12390551 AACTTACATAATACACAACTTAATTAATATTATACATAACATACATAATACATAATACACAACTT
131 AACTTACATAATACACAACTTAATTAATATTATACATAACATACATAATACATAATACACAACTT
12390616 AATTAATATTATACATAACATACATAATACA
196 AATTAATATTATACATAACATACATAATACA
12390647 TAATACACAT
Statistics
Matches: 222, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
278 222 1.00
ACGTcount: A:0.49, C:0.18, G:0.02, T:0.31
Consensus pattern (278 bp):
ATAACTAACATAATACACAACTTACATAACTTAAATAACTTACATAGTACAGAACTTTGATAACT
AATATTATACACAAATTACATAACATACACTTAAATACATAACTTACATAACTTACATAGTACAT
AACTTACATAATACACAACTTAATTAATATTATACATAACATACATAATACATAATACACAACTT
AATTAATATTATACATAACATACATAATACACATAACTTACATAGTACATAACATACACTTAAAT
ACATAACTTACATAGTAC
Found at i:12390551 original size:16 final size:16
Alignment explanation
Indices: 12390530--12390768 Score: 123
Period size: 16 Copynumber: 15.1 Consensus size: 16
12390520 ATACATAACT
*
12390530 TACATAACTTACATAG
1 TACATAACTTACATAA
12390546 TACATAACTTACATAA
1 TACATAACTTACATAA
*
12390562 TACACAACTTA-AT--
1 TACATAACTTACATAA
*
12390575 TA-AT-ATTATACATAACA
1 TACATAACT-TACAT-A-A
12390592 TACATAA--TACATAA
1 TACATAACTTACATAA
*
12390606 TACACAACTTA-AT--
1 TACATAACTTACATAA
*
12390619 TA-AT-ATTATACATAACA
1 TACATAACT-TACAT-A-A
12390636 TACATAA--TACATAA
1 TACATAACTTACATAA
*
12390650 TACACATAACTTACATAG
1 T--ACATAACTTACATAA
*
12390668 TACATAACTAACATAA
1 TACATAACTTACATAA
* *
12390684 TACACAACTTAAATAA
1 TACATAACTTACATAA
* * *
12390700 CTTAAATAAGTTACATAGCT
1 --TACATAACTTACATA--A
12390720 TACATAA--TACATAA
1 TACATAACTTACATAA
*
12390734 CTTACATAACTTATATAA
1 --TACATAACTTACATAA
12390752 TACATAACTTACATAA
1 TACATAACTTACATAA
12390768 T
1 T
12390769 TTACCTAATA
Statistics
Matches: 171, Mismatches: 22, Indels: 60
0.68 0.09 0.24
Matches are distributed among these distances:
11 4 0.02
12 6 0.04
13 8 0.05
14 9 0.05
15 6 0.04
16 98 0.57
17 4 0.02
18 34 0.20
19 2 0.01
ACGTcount: A:0.50, C:0.17, G:0.02, T:0.31
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:12390596 original size:37 final size:37
Alignment explanation
Indices: 12390546--12390646 Score: 130
Period size: 44 Copynumber: 2.5 Consensus size: 37
12390536 ACTTACATAG
*
12390546 TACATAACTTACATAATACACAACTTAATTAATATTA
1 TACATAACATACATAATACACAACTTAATTAATATTA
12390583 TACATAACATACATAATACATAATACACAACTTAATTAATATTA
1 TACAT---A-AC---ATACATAATACACAACTTAATTAATATTA
12390627 TACATAACATACATAATACA
1 TACATAACATACATAATACA
12390647 TAATACACAT
Statistics
Matches: 56, Mismatches: 1, Indels: 14
0.79 0.01 0.20
Matches are distributed among these distances:
37 17 0.30
40 3 0.05
41 3 0.05
44 33 0.59
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (37 bp):
TACATAACATACATAATACACAACTTAATTAATATTA
Found at i:12390739 original size:25 final size:25
Alignment explanation
Indices: 12390582--12390783 Score: 133
Period size: 25 Copynumber: 8.3 Consensus size: 25
12390572 AATTAATATT
*
12390582 ATACATAACATACATAA--TACATA
1 ATACATAACTTACATAACTTACATA
* *
12390605 ATACACAACTTA-ATTAA--T--ATT
1 ATACATAACTTACA-TAACTTACATA
*
12390626 ATACATAACATACATAA--TACATA
1 ATACATAACTTACATAACTTACATA
*
12390649 ATACACATAACTTACAT-A-GTACATA
1 AT--ACATAACTTACATAACTTACATA
* *
12390674 ACTAACATAA--TACACAACTTAAATA
1 A-T-ACATAACTTACATAACTTACATA
* * *
12390699 ACTTAAATAAGTTACATAGCTTACATA
1 A--TACATAACTTACATAACTTACATA
*
12390726 ATACATAACTTACATAACTTATATA
1 ATACATAACTTACATAACTTACATA
* *
12390751 ATACATAACTTACATAATTTACCTA
1 ATACATAACTTACATAACTTACATA
12390776 ATACATAA
1 ATACATAA
12390784 ATATATATCA
Statistics
Matches: 143, Mismatches: 23, Indels: 24
0.75 0.12 0.13
Matches are distributed among these distances:
21 16 0.11
22 2 0.01
23 22 0.15
24 2 0.01
25 86 0.60
26 2 0.01
27 13 0.09
ACGTcount: A:0.50, C:0.17, G:0.01, T:0.31
Consensus pattern (25 bp):
ATACATAACTTACATAACTTACATA
Found at i:12390972 original size:28 final size:29
Alignment explanation
Indices: 12390931--12390989 Score: 102
Period size: 28 Copynumber: 2.1 Consensus size: 29
12390921 ATACATAACT
*
12390931 TTTCAACTATTTTATATGTGCTGTT-TTA
1 TTTCAACTACTTTATATGTGCTGTTATTA
12390959 TTTCAACTACTTTATATGTGCTGTTATTA
1 TTTCAACTACTTTATATGTGCTGTTATTA
12390988 TT
1 TT
12390990 GTAATTAGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 24 0.83
29 5 0.17
ACGTcount: A:0.22, C:0.12, G:0.10, T:0.56
Consensus pattern (29 bp):
TTTCAACTACTTTATATGTGCTGTTATTA
Found at i:12392605 original size:21 final size:21
Alignment explanation
Indices: 12392571--12392641 Score: 97
Period size: 21 Copynumber: 3.4 Consensus size: 21
12392561 CTACAACTTA
*
12392571 AAGCAGAGGCGGCAGTAAGGG
1 AAGCAGAGGCGGCAGTGAGGG
* * *
12392592 AAGCAAAGGTGGCAGCGAGGG
1 AAGCAGAGGCGGCAGTGAGGG
*
12392613 CAGCAGAGGCGGCAGTGAGGG
1 AAGCAGAGGCGGCAGTGAGGG
12392634 AAGCAGAG
1 AAGCAGAG
12392642 CAGAAAGTAC
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.32, C:0.15, G:0.48, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCGGCAGTGAGGG
Found at i:12393037 original size:43 final size:43
Alignment explanation
Indices: 12392983--12393184 Score: 241
Period size: 43 Copynumber: 4.7 Consensus size: 43
12392973 CATCAAACAA
* * *
12392983 TAGCGGCGTTTGTGAGGCAAGCGTCGCTAAAGAATATGAACTT
1 TAGCGGCGTTTGTGAGGAAAGCGCCGCTAAAGAACATGAACTT
*
12393026 TAGCGGCGTTTGTG-GGAAAAGCGCCGCTAAAGAACATGACCTT
1 TAGCGGCGTTTGTGAGG-AAAGCGCCGCTAAAGAACATGAACTT
* *
12393069 TAGCGGCGTTTGTGA-TAGATGCGCCGCTAAAGAACATG-ACTTT
1 TAGCGGCGTTTGTGAGGA-AAGCGCCGCTAAAGAACATGAAC-TT
* * **
12393112 TAGCGGCGTTTGTGGGGAAAACGCCGCTAAAGAACATGTTCTT
1 TAGCGGCGTTTGTGAGGAAAGCGCCGCTAAAGAACATGAACTT
*
12393155 TAGCGGCGTTTGTG-GGAGAAGCACCGCTAA
1 TAGCGGCGTTTGTGAGGA-AAGCGCCGCTAA
12393185 CTTTAGCGGC
Statistics
Matches: 138, Mismatches: 14, Indels: 14
0.83 0.08 0.08
Matches are distributed among these distances:
42 7 0.05
43 129 0.93
44 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (43 bp):
TAGCGGCGTTTGTGAGGAAAGCGCCGCTAAAGAACATGAACTT
Found at i:12393182 original size:86 final size:86
Alignment explanation
Indices: 12392983--12393184 Score: 275
Period size: 86 Copynumber: 2.3 Consensus size: 86
12392973 CATCAAACAA
* * *
12392983 TAGCGGCGTTTGTGAGG-CAAGCGTCGCTAAAGAATATGAACTTTAGCGGCGTTTGTGGGAAAAG
1 TAGCGGCGTTTGTG-GGAGAAGCGCCGCTAAAGAACATGAACTTTAGCGGCGTTTGTGGGAAAAG
12393047 CGCCGCTAAAGAACATGACCTT
65 CGCCGCTAAAGAACATGACCTT
** *
12393069 TAGCGGCGTTTGTGATAGATGCGCCGCTAAAGAACATG-ACTTTTAGCGGCGTTTGTGGGGAAAA
1 TAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGAACATGAAC-TTTAGCGGCGTTTGT-GGGAAAA
**
12393133 -CGCCGCTAAAGAACATGTTCTT
64 GCGCCGCTAAAGAACATGACCTT
*
12393155 TAGCGGCGTTTGTGGGAGAAGCACCGCTAA
1 TAGCGGCGTTTGTGGGAGAAGCGCCGCTAA
12393185 CTTTAGCGGC
Statistics
Matches: 101, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
85 2 0.02
86 92 0.91
87 7 0.07
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (86 bp):
TAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGAACATGAACTTTAGCGGCGTTTGTGGGAAAAGC
GCCGCTAAAGAACATGACCTT
Found at i:12393224 original size:33 final size:33
Alignment explanation
Indices: 12393153--12393225 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 33
12393143 GAACATGTTC
* * *
12393153 TTTAGCGGCGTTTGTGGGAGAAGCACCGCTAAC
1 TTTAGCGGCGTTTGTCGGAGAAACACCGCTAAA
* *
12393186 TTTAGCGGCGTTTGTCGGTGAAACGCCG-TAAA
1 TTTAGCGGCGTTTGTCGGAGAAACACCGCTAAA
12393218 TGTTAGCG
1 T-TTAGCG
12393226 CTGTTGACAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
32 4 0.12
33 30 0.88
ACGTcount: A:0.21, C:0.19, G:0.33, T:0.27
Consensus pattern (33 bp):
TTTAGCGGCGTTTGTCGGAGAAACACCGCTAAA
Found at i:12393395 original size:73 final size:73
Alignment explanation
Indices: 12393297--12393451 Score: 238
Period size: 73 Copynumber: 2.1 Consensus size: 73
12393287 TGGTGTAGTG
* * *
12393297 GCCGCTAAATCCCTGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTC
1 GCCGCTAAATCCCCGAAAGCTCAGAAAACGGCATCGTTGGGCTTAGGTTTTTTTGAGGCGCTTTC
12393362 TTAAAATT
66 TTAAAATT
* *
12393370 GCCGTTAAATCCCCGAAAGCTCAGAAAACGGCATCGTTGTGCTTAGGTTTTTTTGAGGCGCTTTC
1 GCCGCTAAATCCCCGAAAGCTCAGAAAACGGCATCGTTGGGCTTAGGTTTTTTTGAGGCGCTTTC
** *
12393435 CCAAAAAT
66 TTAAAATT
12393443 GCCGCTAAA
1 GCCGCTAAA
12393452 GCCTTGAGCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (73 bp):
GCCGCTAAATCCCCGAAAGCTCAGAAAACGGCATCGTTGGGCTTAGGTTTTTTTGAGGCGCTTTC
TTAAAATT
Found at i:12393595 original size:113 final size:114
Alignment explanation
Indices: 12393351--12393791 Score: 607
Period size: 113 Copynumber: 3.9 Consensus size: 114
12393341 AGGTTTTTTT
** ** * *
12393351 GCGGCGCTTTCTTAAAATTGCCGTTAAATCCCCGAAAGCTCAGAAAACGGCATCGTTGTGCTTAG
1 GCGGCGCTTTCTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCATCATTGGGCTTAG
* * *
12393416 GTTTTTTTGAGGCGCTTTCCCAAAAATGCCGCTAAAGCCTTGAGCATTA
66 GTTTTTTTGAGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* * * *
12393465 GCGACACTTTCTTAAAAACGCTACTAAATCCCCGAAAGCTCAGAAAACGGCATCGTTGGGCTTAG
1 GCGGCGCTTTCTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCATCATTGGGCTTAG
* * *
12393530 G-TTTTTTGCGACGCTTTCTCAAAAACGCCGTTAAAGCCCTGAGCATTA
66 GTTTTTTTGAGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* * * * *
12393578 GCGGCGCTTTCTTAAAAACGCCACAAAATCCCCGAAAGCTAAAAAAACGGCGTTATTGGGCTTAG
1 GCGGCGCTTTCTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCATCATTGGGCTTAG
**
12393643 GTTTTTTTGCTGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
66 GTTTTTTTGAGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* ** *
12393692 GCGGCGCTTTCTTAAAAACGCCACTAAATCCACGAAAGCTCAG-AAACAACGTCATTGGGCTTAG
1 GCGGCGCTTTCTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCATCATTGGGCTTAG
* *
12393756 GTTTTTTTGAGGCGCTTTCTCAAAAATGCTGCTAAA
66 GTTTTTTTGAGGCGCTTTCTCAAAAACGCCGCTAAA
12393792 TCCTCGAAAG
Statistics
Matches: 289, Mismatches: 37, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
113 148 0.51
114 141 0.49
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.27
Consensus pattern (114 bp):
GCGGCGCTTTCTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCATCATTGGGCTTAG
GTTTTTTTGAGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
Found at i:12393660 original size:227 final size:227
Alignment explanation
Indices: 12393351--12393781 Score: 612
Period size: 227 Copynumber: 1.9 Consensus size: 227
12393341 AGGTTTTTTT
** *** * * * *
12393351 GCGGCGCTTTCTTAAAATTGCCGTTAAATCCCCGAAAGCTCAGAAAACGGCATCGTTGTGCTTAG
1 GCGGCGCTTTCTTAAAAACGCCACAAAATCCCCGAAAGCTAAAAAAACGGCATCATTGGGCTTAG
* *
12393416 GTTTTTTTGAGGCGCTTTCCCAAAAATGCCGCTAAAGCCTTGAGCATTAGCGACACTTTCTTAAA
66 GTTTTTTTGAGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGACACTTTCTTAAA
* * ** * *
12393481 AACGCTACTAAATCCCCGAAAGCTCAGAAAACGGCATCGTTGGGCTTAGG-TTTTTTGCGACGCT
131 AACGCCACTAAATCCACGAAAGCTCAG-AAACAACATCATTGGGCTTAGGTTTTTTTGAGACGCT
12393545 TTCTCAAAAACGCCGTTAAAGCCCTGAGCATTA
195 TTCTCAAAAACGCCGTTAAAGCCCTGAGCATTA
* *
12393578 GCGGCGCTTTCTTAAAAACGCCACAAAATCCCCGAAAGCTAAAAAAACGGCGTTATTGGGCTTAG
1 GCGGCGCTTTCTTAAAAACGCCACAAAATCCCCGAAAGCTAAAAAAACGGCATCATTGGGCTTAG
** * * *
12393643 GTTTTTTTGCTGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAA
66 GTTTTTTTGAGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGACACTTTCTTAAA
* *
12393708 AACGCCACTAAATCCACGAAAGCTCAGAAACAACGTCATTGGGCTTAGGTTTTTTTGAGGCGCTT
131 AACGCCACTAAATCCACGAAAGCTCAGAAACAACATCATTGGGCTTAGGTTTTTTTGAGACGCTT
12393773 TCTCAAAAA
196 TCTCAAAAA
12393782 TGCTGCTAAA
Statistics
Matches: 177, Mismatches: 26, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
226 18 0.10
227 159 0.90
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (227 bp):
GCGGCGCTTTCTTAAAAACGCCACAAAATCCCCGAAAGCTAAAAAAACGGCATCATTGGGCTTAG
GTTTTTTTGAGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGACACTTTCTTAAA
AACGCCACTAAATCCACGAAAGCTCAGAAACAACATCATTGGGCTTAGGTTTTTTTGAGACGCTT
TCTCAAAAACGCCGTTAAAGCCCTGAGCATTA
Found at i:12412953 original size:30 final size:30
Alignment explanation
Indices: 12412919--12412980 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
12412909 ACTTATGTTA
*
12412919 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
12412949 TTGTTAATTTTGTTATTGTTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
12412979 TT
1 TT
12412981 TCTTGTTAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.24, C:0.03, G:0.15, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:12417446 original size:44 final size:44
Alignment explanation
Indices: 12417397--12417530 Score: 119
Period size: 44 Copynumber: 3.1 Consensus size: 44
12417387 CTTCGATCTG
*
12417397 CTCCACTAATGCTTAGGGAGATAAGATCTGTAATTTTCAACCTA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTA
* * * * ** * * ** *
12417441 CTCCACTGCTGCTCAGGGAGACAAG-GCTAG-GGTCTTCGATTTG
1 CTCCACTACTGCTTAGGGAGATAAGATCT-GTAATTTTCAACCTA
* *
12417484 CTCCACTACTACTTAGGGAGATAAGATCTATAATTTTCAACCTA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTA
12417528 CTC
1 CTC
12417531 TATTGTTGCT
Statistics
Matches: 62, Mismatches: 25, Indels: 6
0.67 0.27 0.06
Matches are distributed among these distances:
43 29 0.47
44 33 0.53
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.30
Consensus pattern (44 bp):
CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTA
Found at i:12417629 original size:88 final size:85
Alignment explanation
Indices: 12417385--12419011 Score: 1301
Period size: 87 Copynumber: 18.9 Consensus size: 85
12417375 AAAATTCGCT
* * * * *
12417385 GTCTTCGATCTGCTCCACTAATGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGC
1 GTCTTCGATTTGCTCCAC-ACTAC-TAGGAAGACAAGATCTGTAATTTTCAACCTACTCCACTGC
12417450 TGCTCAGGGAGACAAGGCTAGG
64 TGCTCAGGGAGACAAGGCTAGG
* * * * * *
12417472 GTCTTCGATTTGCTCCACTACTACTTAGGGAGATAAGATCTATAATTTTCAACCTACTCTATTGT
1 GTCTTCGATTTGCTCCAC-ACTAC-TAGGAAGACAAGATCTGTAATTTTCAACCTACTCCACTGC
* * *
12417537 TGCTCATGGAGATAAGGCTGGG
64 TGCTCAGGGAGACAAGGCTAGG
12417559 GTCTTCGATCTATTTAGCTGCCA-A-TAC-AGGAAGACAAGATCTGCT-ATTTTCAACCTACTCC
1 GTCTTCG----ATTT-GCT-CCACACTACTAGGAAGACAAGATCTG-TAATTTTCAACCTACTCC
** * *
12417620 ACTGCTGCTCAGAAAGAC--TGCT--C
59 ACTGCTGCTCAGGGAGACAAGGCTAGG
** * * * * ** * ***** * * ** * * *
12417643 CACTACTACTTAC-GGAGA-TA--A-GATCTGTA-ATTTTTAACCTTC-TCC-ACTGCTACT-CA
1 GTCTTCGATTTGCTCCACACTACTAGGAAGACAAGATCTGTAATTTTCAACCTACT-CCACTGCT
* *
12417699 -----GGAAGACAAGGCTGGG
65 GCTCAGGGAGACAAGGCTAGG
* * * * * *
12417715 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTTAACCTTCTCCACTGC
1 GTCTTCGATTTGCTCCAC-ACTAC-TAGGAAGACAAGATCTGTAATTTTCAACCTACTCCACTGC
* * *
12417780 TGCTCAGGAAGATAAGGCTGGG
64 TGCTCAGGGAGACAAGGCTAGG
* * * * *
12417802 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTATTCCACTGC
1 GTCTTCGATTTGCTCCAC-ACTAC-TAGGAAGACAAGATCTGTAATTTTCAACCTACTCCACTGC
* *
12417867 TACTCAGGGAAACAAGGCTAGG
64 TGCTCAGGGAGACAAGGCTAGG
* * * * *
12417889 GTCTTCGATTTGCTCCACTACTACTTAGGGAGATAATATCTGTAATTTTTAACCTACTCCACTAC
1 GTCTTCGATTTGCTCCAC-ACTAC-TAGGAAGACAAGATCTGTAATTTTCAACCTACTCCACTGC
*
12417954 TGCT-AGGGAGACAAGGCTGGG
64 TGCTCAGGGAGACAAGGCTAGG
* * * * * * *
12417975 GTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAATCTACTCCACTAC
1 GTCTTCGATTTGCTCCAC-ACTAC-TAGGAAGACAAGATCTGTAATTTTCAACCTACTCCACTGC
* * *
12418040 TGCCCAGGAAGACAAGGCTGGG
64 TGCTCAGGGAGACAAGGCTAGG
* * * *
12418062 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTTCAACCTACTCCACTG
1 GTCTTCGATTTGCTCCAC-ACTAC-TAGGAAGACAAGATCTGTAA-TTTTCAACCTACTCCACTG
* * *
12418127 CTGCTCAGAGAGACAAGGTTGGG
63 CTGCTCAGGGAGACAAGGCTAGG
* * *
12418150 GTCTTCGATCTGCTCCACTACTGCTTAAGG-AGATAAGAT-TGTAATTTTCAACCTACTCCACTG
1 GTCTTCGATTTGCTCCAC-ACTAC-T-AGGAAGACAAGATCTGTAATTTTCAACCTACTCCACTG
* *
12418213 CTGCTCAGGAAGACAAGGCTGGG
63 CTGCTCAGGGAGACAAGGCTAGG
* * * * *
12418236 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATTTTCAACCTACTCCACTGC
1 GTCTTCGATTTGCTCCAC-ACTAC-TAGGAAGACAAGATCTGTAATTTTCAACCTACTCCACTGC
* * *
12418301 TACTCAGGGAGACAAGGTTGGG
64 TGCTCAGGGAGACAAGGCTAGG
* * * * *
12418323 GTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGC
1 GTCTTCGATTTGCTCCAC-ACTAC-TAGGAAGACAAGATCTGTAATTTTCAACCTACTCCACTGC
*
12418388 TGCTCAGGGAGACAAGGCTGGG
64 TGCTCAGGGAGACAAGGCTAGG
* * * * * *
12418410 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATTTTTCAGCCTACTCCACTG
1 GTCTTCGATTTGCTCCAC-ACTAC-TAGGAAGACAAGATCTGTAA-TTTTCAACCTACTCCACTG
* *
12418475 CTGCTCAAGGAGACAAGGCTGGG
63 CTGCTCAGGGAGACAAGGCTAGG
* * * *
12418498 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTTCAACCTACTCCACTG
1 GTCTTCGATTTGCTCCAC-ACTAC-TAGGAAGACAAGATCTGTAA-TTTTCAACCTACTCCACTG
* * *
12418563 CTGCTCAGAGAGACAAGGTTGGG
63 CTGCTCAGGGAGACAAGGCTAGG
* * * *
12418586 GTCTTCGATCTGCTCCACTACTGCTTAAGG-AGATAAGATTTGTAATTTTCAACCTACTCCACTG
1 GTCTTCGATTTGCTCCAC-ACTAC-T-AGGAAGACAAGATCTGTAATTTTCAACCTACTCCACTG
* * *
12418650 CTGCTTAGGGAGATAAGGCTGGG
63 CTGCTCAGGGAGACAAGGCTAGG
* * * * *
12418673 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATTTTCAACCTACTCCACTGC
1 GTCTTCGATTTGCTCCAC-ACTAC-TAGGAAGACAAGATCTGTAATTTTCAACCTACTCCACTGC
** * *
12418738 TATTCAGGGAGACAAGGTTGGG
64 TGCTCAGGGAGACAAGGCTAGG
* * * *
12418760 GTCTTTGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGC
1 GTCTTCGATTTGCTCCAC-ACTAC-TAGGAAGACAAGATCTGTAATTTTCAACCTACTCCACTGC
12418825 TGCTCAGGGAGACAAGGCTAGG
64 TGCTCAGGGAGACAAGGCTAGG
* * * * * *
12418847 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTTCAGCCTACTCCATTG
1 GTCTTCGATTTGCTCCAC-ACTAC-TAGGAAGACAAGATCTGTAA-TTTTCAACCTACTCCACTG
*
12418912 CTGCTCAGGGAGACAAGGCTGGG
63 CTGCTCAGGGAGACAAGGCTAGG
* * * * * *
12418935 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTATTCCACTAC
1 GTCTTCGATTTGCTCCAC-ACTAC-TAGGAAGACAAGATCTGTAATTTTCAACCTACTCCACTGC
12419000 TG-TCCAGGGAGA
64 TGCT-CAGGGAGA
12419012 TAGGACTTAT
Statistics
Matches: 1348, Mismatches: 152, Indels: 80
0.85 0.10 0.05
Matches are distributed among these distances:
68 6 0.00
70 3 0.00
72 6 0.00
73 5 0.00
74 8 0.01
75 8 0.01
76 3 0.00
77 2 0.00
78 4 0.00
79 3 0.00
80 11 0.01
81 6 0.00
82 3 0.00
84 3 0.00
85 3 0.00
86 158 0.12
87 737 0.55
88 358 0.27
89 7 0.01
90 3 0.00
91 5 0.00
92 3 0.00
93 3 0.00
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.30
Consensus pattern (85 bp):
GTCTTCGATTTGCTCCACACTACTAGGAAGACAAGATCTGTAATTTTCAACCTACTCCACTGCTG
CTCAGGGAGACAAGGCTAGG
Found at i:12417786 original size:87 final size:87
Alignment explanation
Indices: 12417637--12418997 Score: 2158
Period size: 87 Copynumber: 15.6 Consensus size: 87
12417627 CTCAGAAAGA
* * * * *
12417637 CTGCTCCACTACTACTTACGGAGATAAGATCTGTAATTTTTAACCTTCTCCACTGCTACTCAGGA
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGA
12417702 AGACAAGGCTGGGGTCTTCGAT
66 AGACAAGGCTGGGGTCTTCGAT
* *
12417724 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTTAACCTTCTCCACTGCTGCTCAGGA
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGA
*
12417789 AGATAAGGCTGGGGTCTTCGAT
66 AGACAAGGCTGGGGTCTTCGAT
* *
12417811 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTATTCCACTGCTACTCAGGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCA-GG
*
12417876 AA-ACAAGGCTAGGGTCTTCGAT
65 AAGACAAGGCTGGGGTCTTCGAT
* * * * * *
12417898 TTGCTCCACTACTACTTAGGGAGATAATATCTGTAATTTTTAACCTACTCCACTACTGCT-AGGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGA
12417962 AGACAAGGCTGGGGTCTTCGAT
66 AGACAAGGCTGGGGTCTTCGAT
* * * *
12417984 CTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAATCTACTCCACTACTGCCCAGGA
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGA
12418049 AGACAAGGCTGGGGTCTTCGAT
66 AGACAAGGCTGGGGTCTTCGAT
12418071 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTTCAACCTACTCCACTGCTGCTCA-G
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAA-TTTTCAACCTACTCCACTGCTGCTCAGG
*
12418135 AGAGACAAGGTTGGGGTCTTCGAT
65 A-AGACAAGGCTGGGGTCTTCGAT
*
12418159 CTGCTCCACTACTGCTTAAGGAGATAAGAT-TGTAATTTTCAACCTACTCCACTGCTGCTCAGGA
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGA
12418223 AGACAAGGCTGGGGTCTTCGAT
66 AGACAAGGCTGGGGTCTTCGAT
* * *
12418245 CTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATTTTCAACCTACTCCACTGCTACTCAGGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGA
* *
12418310 AGACAAGGTTGGGGTCTTTGAT
66 AGACAAGGCTGGGGTCTTCGAT
*
12418332 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGA
12418397 AGACAAGGCTGGGGTCTTCGAT
66 AGACAAGGCTGGGGTCTTCGAT
* *
12418419 CTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATTTTTCAGCCTACTCCACTGCTGCTCAAG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAA-TTTTCAACCTACTCCACTGCTGCTC-AG
12418484 G-AGACAAGGCTGGGGTCTTCGAT
64 GAAGACAAGGCTGGGGTCTTCGAT
12418507 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTTCAACCTACTCCACTGCTGCTCA-G
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAA-TTTTCAACCTACTCCACTGCTGCTCAGG
*
12418571 AGAGACAAGGTTGGGGTCTTCGAT
65 A-AGACAAGGCTGGGGTCTTCGAT
* * * *
12418595 CTGCTCCACTACTGCTTAAGGAGATAAGATTTGTAATTTTCAACCTACTCCACTGCTGCTTAGGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGA
*
12418660 AGATAAGGCTGGGGTCTTCGAT
66 AGACAAGGCTGGGGTCTTCGAT
* ** *
12418682 CTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATTTTCAACCTACTCCACTGCTATTCAGGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGA
* *
12418747 AGACAAGGTTGGGGTCTTTGAT
66 AGACAAGGCTGGGGTCTTCGAT
* *
12418769 CTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGA
*
12418834 AGACAAGGCTAGGGTCTTCGAT
66 AGACAAGGCTGGGGTCTTCGAT
* *
12418856 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTTCAGCCTACTCCATTGCTGCTCAGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAA-TTTTCAACCTACTCCACTGCTGCTCAGG
*
12418921 GAGACAAGGCTGGGGTCTTCGAT
65 AAGACAAGGCTGGGGTCTTCGAT
*
12418944 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTATTCCACT
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACT
12418998 ACTGTCCAGG
Statistics
Matches: 1183, Mismatches: 78, Indels: 26
0.92 0.06 0.02
Matches are distributed among these distances:
85 3 0.00
86 150 0.13
87 704 0.60
88 323 0.27
89 3 0.00
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.30
Consensus pattern (87 bp):
CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGA
AGACAAGGCTGGGGTCTTCGAT
Found at i:12419057 original size:437 final size:437
Alignment explanation
Indices: 12417637--12418997 Score: 2356
Period size: 437 Copynumber: 3.1 Consensus size: 437
12417627 CTCAGAAAGA
* * * *
12417637 CTGCTCCACTACTACTTACGGAGATAAGATCTGTAATTTTT-AACCTTCTCCACTGCTACTCAG-
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTTCAACCTACTCCACTGCTGCTCAGA
* * *
12417700 GAAGACAAGGCTGGGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTT
66 G-AGACAAGGTTGGGGTCTTCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGTAATTTTC
*
12417765 AACCTTCTCCACTGCTGCTCAGGAAGATAAGGCTGGGGTCTTCGATCTGCTCCACTACTGCTTAG
130 AACCTACTCCACTGCTGCTCAGGAAGATAAGGCTGGGGTCTTCGATCTGCTCCACTACTGCTTAG
* * * * * *
12417830 GGAGATAAGATCTGTAATTTTCAACCTATTCCACTGCTACTCAGGGAAACAAGGCTAGGGTCTTC
195 GGAGATAAGATCTATAATTTTCAACCTACTCCACTGCTACTCAGGGAGACAAGGTTGGGGTCTTT
* * * *
12417895 GATTTGCTCCACTACTACTTAGGGAGATAATATCTGTAATTTTTAACCTACTCCACTACTGCT-A
260 GATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCA
*
12417959 GGGAGACAAGGCTGGGGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAA-TTT
325 GGGAGACAAGGCTGGGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTT
** * * *
12418023 TCAATCTACTCCACTACTGCCCAGGAAGACAAGGCTGGGGTCTTCGAT
390 TCAGCCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGGGTCTTCGAT
12418071 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTTCAACCTACTCCACTGCTGCTCAGA
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTTCAACCTACTCCACTGCTGCTCAGA
12418136 GAGACAAGGTTGGGGTCTTCGATCTGCTCCACTACTGCTTAAGGAGATAAGAT-TGTAATTTTCA
66 GAGACAAGGTTGGGGTCTTCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGTAATTTTCA
*
12418200 ACCTACTCCACTGCTGCTCAGGAAGACAAGGCTGGGGTCTTCGATCTGCTCCACTACTGCTTAGG
131 ACCTACTCCACTGCTGCTCAGGAAGATAAGGCTGGGGTCTTCGATCTGCTCCACTACTGCTTAGG
12418265 GAGATAAGATCTATAATTTTCAACCTACTCCACTGCTACTCAGGGAGACAAGGTTGGGGTCTTTG
196 GAGATAAGATCTATAATTTTCAACCTACTCCACTGCTACTCAGGGAGACAAGGTTGGGGTCTTTG
*
12418330 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAG
261 ATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAG
*
12418395 GGAGACAAGGCTGGGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATTTTT
326 GGAGACAAGGCTGGGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTT
*
12418460 CAGCCTACTCCACTGCTGCTCAAGGAGACAAGGCTGGGGTCTTCGAT
391 CAGCCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGGGTCTTCGAT
12418507 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTTCAACCTACTCCACTGCTGCTCAGA
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTTCAACCTACTCCACTGCTGCTCAGA
*
12418572 GAGACAAGGTTGGGGTCTTCGATCTGCTCCACTACTGCTTAAGGAGATAAGATTTGTAATTTTCA
66 GAGACAAGGTTGGGGTCTTCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGTAATTTTCA
* *
12418637 ACCTACTCCACTGCTGCTTAGGGAGATAAGGCTGGGGTCTTCGATCTGCTCCACTACTGCTTAGG
131 ACCTACTCCACTGCTGCTCAGGAAGATAAGGCTGGGGTCTTCGATCTGCTCCACTACTGCTTAGG
*
12418702 GAGATAAGATCTATAATTTTCAACCTACTCCACTGCTATTCAGGGAGACAAGGTTGGGGTCTTTG
196 GAGATAAGATCTATAATTTTCAACCTACTCCACTGCTACTCAGGGAGACAAGGTTGGGGTCTTTG
12418767 ATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAG
261 ATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAG
*
12418832 GGAGACAAGGCTAGGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTT
326 GGAGACAAGGCTGGGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTT
*
12418897 CAGCCTACTCCATTGCTGCTCAGGGAGACAAGGCTGGGGTCTTCGAT
391 CAGCCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGGGTCTTCGAT
*
12418944 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAA-TTTTCAACCTATTCCACT
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTTCAACCTACTCCACT
12418998 ACTGTCCAGG
Statistics
Matches: 884, Mismatches: 38, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
434 228 0.26
435 130 0.15
436 181 0.20
437 345 0.39
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.30
Consensus pattern (437 bp):
CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTTCAACCTACTCCACTGCTGCTCAGA
GAGACAAGGTTGGGGTCTTCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGTAATTTTCA
ACCTACTCCACTGCTGCTCAGGAAGATAAGGCTGGGGTCTTCGATCTGCTCCACTACTGCTTAGG
GAGATAAGATCTATAATTTTCAACCTACTCCACTGCTACTCAGGGAGACAAGGTTGGGGTCTTTG
ATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAG
GGAGACAAGGCTGGGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTT
CAGCCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGGGTCTTCGAT
Found at i:12419102 original size:44 final size:44
Alignment explanation
Indices: 12418985--12419150 Score: 242
Period size: 44 Copynumber: 3.8 Consensus size: 44
12418975 TGTAATTTTC
* * * *
12418985 AACCTATTCCACTACTGTCCAGGGAGATAGGACTTATAATTTTT
1 AACCTATTCCACTGCTGTCCAGGGAGATAGGACTCAGAATCTTT
12419029 AACCTATTCCACTGCTGTCCAGGGAGATAGGACTCAGAATCTTT
1 AACCTATTCCACTGCTGTCCAGGGAGATAGGACTCAGAATCTTT
* * * *
12419073 AACCTATTCCACTGCTGTCTAGGGAGATAGGACTTACAATCTTC
1 AACCTATTCCACTGCTGTCCAGGGAGATAGGACTCAGAATCTTT
* *
12419117 AACCTATTCCACTGTTGTCCAGGGAGATAAGACT
1 AACCTATTCCACTGCTGTCCAGGGAGATAGGACT
12419151 AGTATTTTTG
Statistics
Matches: 111, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 111 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (44 bp):
AACCTATTCCACTGCTGTCCAGGGAGATAGGACTCAGAATCTTT
Found at i:12419130 original size:88 final size:88
Alignment explanation
Indices: 12418961--12419150 Score: 276
Period size: 88 Copynumber: 2.2 Consensus size: 88
12418951 ACTACTGCTT
* *
12418961 AGGGAGATAAGA-TCTGTAAT-TTTCAACCTATTCCACTACTGTCCAGGGAGATAGGACTTATAA
1 AGGGAGATAAGACTCAG-AATCTTT-AACCTATTCCACTACTGTCCAGGGAGATAGGACTTACAA
* *
12419024 TTTTTAACCTATTCCACTGCTGTCC
64 TCTTCAACCTATTCCACTGCTGTCC
* * *
12419049 AGGGAGATAGGACTCAGAATCTTTAACCTATTCCACTGCTGTCTAGGGAGATAGGACTTACAATC
1 AGGGAGATAAGACTCAGAATCTTTAACCTATTCCACTACTGTCCAGGGAGATAGGACTTACAATC
*
12419114 TTCAACCTATTCCACTGTTGTCC
66 TTCAACCTATTCCACTGCTGTCC
12419137 AGGGAGATAAGACT
1 AGGGAGATAAGACT
12419151 AGTATTTTTG
Statistics
Matches: 91, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
88 85 0.93
89 6 0.07
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (88 bp):
AGGGAGATAAGACTCAGAATCTTTAACCTATTCCACTACTGTCCAGGGAGATAGGACTTACAATC
TTCAACCTATTCCACTGCTGTCC
Found at i:12421492 original size:16 final size:16
Alignment explanation
Indices: 12421451--12421501 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
12421441 TGACTTTGAT
12421451 TTTTCTTT-TTTATTTC
1 TTTTCTTTCTTT-TTTC
*
12421467 GTTTT-GTTCTTTTTTC
1 -TTTTCTTTCTTTTTTC
12421483 TTTTCTTTCTTTTTT-
1 TTTTCTTTCTTTTTTC
12421498 TTTT
1 TTTT
12421502 GTGAAATTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
15 8 0.27
16 15 0.50
17 7 0.23
ACGTcount: A:0.02, C:0.12, G:0.04, T:0.82
Consensus pattern (16 bp):
TTTTCTTTCTTTTTTC
Found at i:12422612 original size:24 final size:25
Alignment explanation
Indices: 12422575--12422639 Score: 78
Period size: 24 Copynumber: 2.6 Consensus size: 25
12422565 AAGAAAGTCC
*
12422575 AAAAGAATGAAAGAATAATTATTCA
1 AAAAGAATGAAAGAATAATTACTCA
* *
12422600 AAAAGAATG-AAGAATATTTGCTCA
1 AAAAGAATGAAAGAATAATTACTCA
12422624 AAAATGAATGCAAAGA
1 AAAA-GAATG-AAAGA
12422640 TGTATTTTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 16 0.47
25 14 0.41
27 4 0.12
ACGTcount: A:0.57, C:0.06, G:0.15, T:0.22
Consensus pattern (25 bp):
AAAAGAATGAAAGAATAATTACTCA
Found at i:12425720 original size:17 final size:18
Alignment explanation
Indices: 12425698--12425731 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
12425688 TAATGAAAGT
12425698 TATATAT-GTATAAAATA
1 TATATATAGTATAAAATA
*
12425715 TATATATAGTTTAAAAT
1 TATATATAGTATAAAAT
12425732 TAAATAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (18 bp):
TATATATAGTATAAAATA
Found at i:12425863 original size:13 final size:13
Alignment explanation
Indices: 12425847--12425882 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
12425837 CAAATATAAT
*
12425847 AATAACAATAAAA
1 AATAATAATAAAA
*
12425860 AATAGTAATAAAA
1 AATAATAATAAAA
12425873 AATAATAATA
1 AATAATAATA
12425883 GTAAATTAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.22
Consensus pattern (13 bp):
AATAATAATAAAA
Found at i:12426788 original size:41 final size:41
Alignment explanation
Indices: 12426724--12426808 Score: 134
Period size: 41 Copynumber: 2.1 Consensus size: 41
12426714 GTGTAAACAA
* *
12426724 GGGCACGTATGTGCTATTCAGGGGTACCGAAGTACAAATAG
1 GGGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAATAG
* *
12426765 GGGCACGTATGTGCAATTTAGGGGTATCAAAGTACAAATAG
1 GGGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAATAG
12426806 GGG
1 GGG
12426809 ATAATTCAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.31, C:0.14, G:0.33, T:0.22
Consensus pattern (41 bp):
GGGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAATAG
Found at i:12428964 original size:37 final size:39
Alignment explanation
Indices: 12428881--12428973 Score: 118
Period size: 37 Copynumber: 2.4 Consensus size: 39
12428871 TACTTTCATG
*
12428881 TTATTTAAAAAACAATTAAAAAATTAGTACAACTATTTTTA
1 TTATTTAAAAAA-AATAAAAAAATTAGTA-AACTATTTTTA
**
12428922 TTATTTAAAAAAAATAAAAAAATTA-T-ATTTATTTTTA
1 TTATTTAAAAAAAATAAAAAAATTAGTAAACTATTTTTA
*
12428959 TTATTTTAAAAAAAT
1 TTATTTAAAAAAAAT
12428974 TTCACACAGT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
37 23 0.48
39 1 0.02
40 12 0.25
41 12 0.25
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (39 bp):
TTATTTAAAAAAAATAAAAAAATTAGTAAACTATTTTTA
Found at i:12430066 original size:15 final size:15
Alignment explanation
Indices: 12430048--12430092 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
12430038 ATCTTTTATT
*
12430048 TTATTATTTTATTTA
1 TTATTATTTGATTTA
*
12430063 TTATTATTTGGTTTA
1 TTATTATTTGATTTA
*
12430078 TTATTATTAGATTTA
1 TTATTATTTGATTTA
12430093 GTTTATTATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (15 bp):
TTATTATTTGATTTA
Found at i:12430096 original size:20 final size:19
Alignment explanation
Indices: 12430055--12430105 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
12430045 ATTTTATTAT
*
12430055 TTTATTTATTATT-ATTTGG
1 TTTA-TTATTATTAATTTAG
12430074 TTTATTATTATTAGATTTAG
1 TTTATTATTATTA-ATTTAG
12430094 TTTATTA-TATTA
1 TTTATTATTATTA
12430106 TTGTTACTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 8 0.28
19 9 0.31
20 12 0.41
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (19 bp):
TTTATTATTATTAATTTAG
Found at i:12430929 original size:6 final size:7
Alignment explanation
Indices: 12430898--12430928 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
12430888 TAGAGATTTA
12430898 TTTTAAT
1 TTTTAAT
12430905 TTTTAAT
1 TTTTAAT
12430912 TTTTAAT
1 TTTTAAT
12430919 TTTTAAT
1 TTTTAAT
12430926 TTT
1 TTT
12430929 ATAAATTAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTTAAT
Found at i:12436548 original size:60 final size:60
Alignment explanation
Indices: 12436439--12436551 Score: 154
Period size: 60 Copynumber: 1.9 Consensus size: 60
12436429 TTTACTAGTA
* ** * *
12436439 GTCATCCAACTATTAGTGAATTTCTTTTTTGATTACACAACTATAAAAAGTTAGTAAAAG
1 GTCACCCAACTATTAGAAAATTTCTTTTTTAATCACACAACTATAAAAAGTTAGTAAAAG
* * *
12436499 GTCACCCAACTATTAGAAAATTTCTTTTTTAATCACCCAAGTATGAAAAGTTA
1 GTCACCCAACTATTAGAAAATTTCTTTTTTAATCACACAACTATAAAAAGTTA
12436552 CAAATGGTCA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
60 45 1.00
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (60 bp):
GTCACCCAACTATTAGAAAATTTCTTTTTTAATCACACAACTATAAAAAGTTAGTAAAAG
Found at i:12437224 original size:114 final size:111
Alignment explanation
Indices: 12436921--12437268 Score: 435
Period size: 113 Copynumber: 3.1 Consensus size: 111
12436911 AGCATTAACA
* *
12436921 GCGTTTTACAAAAAGCGCCGCAATAGAGTCACACAGAACGACGCCGTTTTCATATAGTTGGGAAC
1 GCGTTTTACAAAAA-CGCCGCAATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAAC
* *
12436986 ATTAGTGGCGGTTATTTCCAAGCGCCGCTAAAACTCCGTTCTACAGCG
65 ATTAGTGGCGGTT-TTCCCAAGCGCCGCTAATACTCCGTTCTACAGCG
* * * * *
12437034 GCGTTTTATACAAAGCGCCGCAATGGAGTAATACAGAACGACGCCGTTTTCATATATCTGGGAAC
1 GCGTTTTACA-AAAACGCCGCAATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAAC
* *
12437099 ATTAGTGGCGGTTTTGCCCAAGCGCCGCTAATACTCCATTCTTCAGCG
65 ATTAGTGGCGGTTTT-CCCAAGCGCCGCTAATACTCCGTTCTACAGCG
* * * * * *
12437147 ACGTTTTACAAAATACGTCGCAAATACAGTAACACAGAACGACGCTGTTTTCGTATATTTTGGAA
1 GCGTTTTACAAAA-ACGCCGC-AATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAA
* * * *
12437212 CACTAGTGGCGGTATTTTCCCAAACACCGCTAATAATCCGTTCTACAGCG
64 CATTAGTGGCGG--TTTTCCCAAGCGCCGCTAATACTCCGTTCTACAGCG
12437262 GCGTTTT
1 GCGTTTT
12437269 GCGTTAAGCG
Statistics
Matches: 200, Mismatches: 29, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
112 5 0.03
113 108 0.54
114 50 0.25
115 33 0.17
116 4 0.02
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (111 bp):
GCGTTTTACAAAAACGCCGCAATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAACA
TTAGTGGCGGTTTTCCCAAGCGCCGCTAATACTCCGTTCTACAGCG
Found at i:12437427 original size:41 final size:40
Alignment explanation
Indices: 12437377--12437491 Score: 122
Period size: 41 Copynumber: 2.8 Consensus size: 40
12437367 GATGCTCCGC
* *
12437377 TCTAAAGCGGCGTTTATGGAGAATCGCCGCTAAATTTTCGG
1 TCTATAGCGGCGTTTATGGAGAA-CGCCGCTAAATCTTCGG
** * *
12437418 TCTATAGCGGCGTTCCTGGAGAAGCGCCGGTAAATCTTGGG
1 TCTATAGCGGCGTTTATGGAGAA-CGCCGCTAAATCTTCGG
* * *
12437459 TCGATAGCGGCGTTTGTGTAAGAACGCCGCTAA
1 TCTATAGCGGCGTTTATG-GAGAACGCCGCTAA
12437492 TTAGGAATAG
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
41 57 0.93
42 4 0.07
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (40 bp):
TCTATAGCGGCGTTTATGGAGAACGCCGCTAAATCTTCGG
Found at i:12439555 original size:16 final size:16
Alignment explanation
Indices: 12439531--12439561 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12439521 ATTTTCCCTA
12439531 TTCTAAAATCCCTAAG
1 TTCTAAAATCCCTAAG
*
12439547 TTCTGAAATCCCTAA
1 TTCTAAAATCCCTAA
12439562 CTCATAAACG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.26, G:0.06, T:0.32
Consensus pattern (16 bp):
TTCTAAAATCCCTAAG
Found at i:12441916 original size:50 final size:50
Alignment explanation
Indices: 12441858--12441956 Score: 189
Period size: 50 Copynumber: 2.0 Consensus size: 50
12441848 AATGTATTCA
*
12441858 AGGTTATATTTTAAAACATCTTTGATATATATTTTTTATATTAAAAAAAT
1 AGGTTATATTTTAAAACATCTTTGATATATATATTTTATATTAAAAAAAT
12441908 AGGTTATATTTTAAAACATCTTTGATATATATATTTTATATTAAAAAAA
1 AGGTTATATTTTAAAACATCTTTGATATATATATTTTATATTAAAAAAA
12441957 ATATACTTTT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.46
Consensus pattern (50 bp):
AGGTTATATTTTAAAACATCTTTGATATATATATTTTATATTAAAAAAAT
Found at i:12442195 original size:35 final size:37
Alignment explanation
Indices: 12442155--12442240 Score: 140
Period size: 35 Copynumber: 2.4 Consensus size: 37
12442145 ATACACAGTT
12442155 TTAATAACTTACAACTTACATAACATACATAA-TACA
1 TTAATAACTTACAACTTACATAACATACATAACTACA
12442191 -TAATAACTTACAACTTACATAACATACATAACTTACA
1 TTAATAACTTACAACTTACATAACATACATAAC-TACA
*
12442228 TTCATAACTTACA
1 TTAATAACTTACA
12442241 TAAACTTATA
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
35 31 0.67
37 4 0.09
38 11 0.24
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (37 bp):
TTAATAACTTACAACTTACATAACATACATAACTACA
Found at i:12442233 original size:13 final size:13
Alignment explanation
Indices: 12442177--12442242 Score: 61
Period size: 13 Copynumber: 5.4 Consensus size: 13
12442167 AACTTACATA
12442177 ACATACATAA--T
1 ACATACATAACTT
12442188 ACATA-ATAACTT
1 ACATACATAACTT
* *
12442200 ACA-AC-TTACATA
1 ACATACATAAC-TT
12442212 ACATACATAACTT
1 ACATACATAACTT
*
12442225 ACATTCATAACTT
1 ACATACATAACTT
12442238 ACATA
1 ACATA
12442243 AACTTATATG
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
10 4 0.09
11 9 0.21
12 8 0.19
13 19 0.44
14 3 0.07
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.30
Consensus pattern (13 bp):
ACATACATAACTT
Found at i:12442243 original size:9 final size:9
Alignment explanation
Indices: 12442158--12442228 Score: 62
Period size: 9 Copynumber: 8.2 Consensus size: 9
12442148 CACAGTTTTA
12442158 ATAACTTAC
1 ATAACTTAC
12442167 --AACTTAC
1 ATAACTTAC
*
12442174 ATAACATAC
1 ATAACTTAC
*
12442183 ATAATACATA-
1 AT-A-ACTTAC
12442193 ATAACTTAC
1 ATAACTTAC
12442202 --AACTTAC
1 ATAACTTAC
*
12442209 ATAACATAC
1 ATAACTTAC
12442218 ATAACTTAC
1 ATAACTTAC
12442227 AT
1 AT
12442229 TCATAACTTA
Statistics
Matches: 51, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
7 14 0.27
8 4 0.08
9 25 0.49
10 3 0.06
11 5 0.10
ACGTcount: A:0.49, C:0.21, G:0.00, T:0.30
Consensus pattern (9 bp):
ATAACTTAC
Found at i:12442413 original size:60 final size:59
Alignment explanation
Indices: 12442325--12442466 Score: 194
Period size: 60 Copynumber: 2.3 Consensus size: 59
12442315 ATACATTTAC
* ** * *
12442325 TTACATAATACATAATAACTTACAACTTACATAACATACATTAATTTTTTAAACTTATAGAAG
1 TTACATAATAC---ATAACTTACAACTTACATAACATACATTAATATGAT-AACCTACAGAAG
*
12442388 TTACATAATACATAACTTACAACTTACATAACATACATTAATATGATAACCTACATAAG
1 TTACATAATACATAACTTACAACTTACATAACATACATTAATATGATAACCTACAGAAG
12442447 TTACATAATACATAACTTAC
1 TTACATAATACATAACTTAC
12442467 CACTGAACAA
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
59 29 0.40
60 33 0.45
63 11 0.15
ACGTcount: A:0.46, C:0.17, G:0.03, T:0.34
Consensus pattern (59 bp):
TTACATAATACATAACTTACAACTTACATAACATACATTAATATGATAACCTACAGAAG
Found at i:12448011 original size:21 final size:21
Alignment explanation
Indices: 12447995--12448034 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
12447985 AACAGATGCG
12447995 GCAACGAGAGAAGCAGAGGCA
1 GCAACGAGAGAAGCAGAGGCA
* *
12448016 GCAGCGAGAGAAGCTGAGG
1 GCAACGAGAGAAGCAGAGG
12448035 TTCAACGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.17, G:0.42, T:0.03
Consensus pattern (21 bp):
GCAACGAGAGAAGCAGAGGCA
Found at i:12448087 original size:21 final size:21
Alignment explanation
Indices: 12448063--12448104 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
12448053 AACTCCAGCA
12448063 GCAGCGAGAGAATCAGAGGCT
1 GCAGCGAGAGAATCAGAGGCT
* *
12448084 GCAGCGAGGGAATTAGAGGCT
1 GCAGCGAGAGAATCAGAGGCT
12448105 AAAATGAGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.31, C:0.17, G:0.40, T:0.12
Consensus pattern (21 bp):
GCAGCGAGAGAATCAGAGGCT
Found at i:12448509 original size:43 final size:42
Alignment explanation
Indices: 12448426--12448835 Score: 299
Period size: 42 Copynumber: 9.7 Consensus size: 42
12448416 CCAAATTAGC
* * * *** *
12448426 GGCGTTTATTGGATAAGCGCCACTAAAGAACCCGCCTCTAGT
1 GGCGTTTTTTGTATAAGCGCCGCTAAAGAACCAATCTATAGT
* * * * *
12448468 GGTGTTTTATGCATAAGCGCCGCTAAAGCCACCAATCTCTAGT
1 GGCGTTTTTTGTATAAGCGCCGCTAAAG-AACCAATCTATAGT
* * *
12448511 GGCGTTTTGTGTATAAGTGCCGC-AAAAAACTCCAATCTATAGT
1 GGCGTTTTTTGTATAAGCGCCGCTAAAGAA--CCAATCTATAGT
* * *
12448554 GGCGTTTCTT-TATAAGCGCCGGTAAAGAAACATATCTATAGT
1 GGCGTTTTTTGTATAAGCGCCGCTAAAGAACCA-ATCTATAGT
* * *
12448596 GGCGTTTTTTGTATAAGCGCCGCTATAGAACCGAGCTATAGT
1 GGCGTTTTTTGTATAAGCGCCGCTAAAGAACCAATCTATAGT
* * * *
12448638 GGCGTTTTTTGTATAAGCGCCGCTATAGACCCGAGCTATAGT
1 GGCGTTTTTTGTATAAGCGCCGCTAAAGAACCAATCTATAGT
* * * *** *
12448680 GGCATTTTTTGTATAAGCGCCGGTAGAG-TGGATATCTATTGT
1 GGCGTTTTTTGTATAAGCGCCGCTAAAGAACCA-ATCTATAGT
* * * * * *
12448722 GGCGTTTTCTGTA-AAACGCTGGTAAAGAAACCCGATCTGTAGT
1 GGCGTTTTTTGTATAAGCGCCGCTAAAG-AA-CCAATCTATAGT
* * * * *
12448765 GGCGTTTTTTGCATAAGCGCCGCGAAAGACTCCCACCTATAGT
1 GGCGTTTTTTGTATAAGCGCCGCTAAAGA-ACCAATCTATAGT
* * *
12448808 GGCG-TTTCTGTGTAAGCGCCACTAAAGA
1 GGCGTTTTTTGTATAAGCGCCGCTAAAGA
12448836 CGGTATTCTA
Statistics
Matches: 292, Mismatches: 64, Indels: 24
0.77 0.17 0.06
Matches are distributed among these distances:
41 14 0.05
42 165 0.57
43 103 0.35
44 10 0.03
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (42 bp):
GGCGTTTTTTGTATAAGCGCCGCTAAAGAACCAATCTATAGT
Found at i:12448816 original size:85 final size:87
Alignment explanation
Indices: 12448464--12448827 Score: 316
Period size: 85 Copynumber: 4.3 Consensus size: 87
12448454 AACCCGCCTC
* * * * ** * * *
12448464 TAGTGGTGTTTTATGCATAAGCGCCGCTAAAGCCA-CCAATCTCTAGTGGCGTTTTGTGTATAAG
1 TAGTGGCGTTTTCTGTATAAGCGCCGGTAAAGAAACCCGATCTATAGTGGCGTTTTTTGTATAAG
* * *
12448528 TGCCGCAAAAAACTCCAATCTA
66 CGCCGCGAAAGACTCCAATCTA
* **
12448550 TAGTGGCG-TTTCTTTATAAGCGCCGGTAAAGAAA-CATATCTATAGTGGCGTTTTTTGTATAAG
1 TAGTGGCGTTTTCTGTATAAGCGCCGGTAAAGAAACCCGATCTATAGTGGCGTTTTTTGTATAAG
* * * * *
12448613 CGCCGCTATAGA-ACCGAGCTA
66 CGCCGCGAAAGACTCCAATCTA
* * * * *
12448634 TAGTGGCGTTTTTTGTATAAGCGCCGCTATAG--ACCCGAGCTATAGTGGCATTTTTTGTATAAG
1 TAGTGGCGTTTTCTGTATAAGCGCCGGTAAAGAAACCCGATCTATAGTGGCGTTTTTTGTATAAG
* * **
12448697 CGCCG-G-TAGAGTGGATATCTA
66 CGCCGCGAAAGACTCCA-ATCTA
* * * * *
12448718 TTGTGGCGTTTTCTGTA-AAACGCTGGTAAAGAAACCCGATCTGTAGTGGCGTTTTTTGCATAAG
1 TAGTGGCGTTTTCTGTATAAGCGCCGGTAAAGAAACCCGATCTATAGTGGCGTTTTTTGTATAAG
* *
12448782 CGCCGCGAAAGACTCCCACCTA
66 CGCCGCGAAAGACTCCAATCTA
*
12448804 TAGTGGCG-TTTCTGTGTAAGCGCC
1 TAGTGGCGTTTTCTGTATAAGCGCC
12448828 ACTAAAGACG
Statistics
Matches: 217, Mismatches: 52, Indels: 18
0.76 0.18 0.06
Matches are distributed among these distances:
82 4 0.02
83 11 0.05
84 63 0.29
85 111 0.51
86 24 0.11
87 4 0.02
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (87 bp):
TAGTGGCGTTTTCTGTATAAGCGCCGGTAAAGAAACCCGATCTATAGTGGCGTTTTTTGTATAAG
CGCCGCGAAAGACTCCAATCTA
Found at i:12458044 original size:28 final size:27
Alignment explanation
Indices: 12458011--12458109 Score: 101
Period size: 28 Copynumber: 3.6 Consensus size: 27
12458001 TAATGAGATT
12458011 AGCACTAAGTGTGCGAGTTTAATTGAA
1 AGCACTAAGTGTGCGAGTTTAATTGAA
* * **
12458038 ATGCACTAAGTGTGTGAGTATAAGGGTAA
1 A-GCACTAAGTGTGCGAGTTTAATTG-AA
* *
12458067 AACACTAAGTGTGCGAGTTTGATT-ATTA
1 AGCACTAAGTGTGCGAGTTTAATTGA--A
12458095 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
12458110 TACTTATTAA
Statistics
Matches: 57, Mismatches: 11, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
26 1 0.02
27 1 0.02
28 52 0.91
29 3 0.05
ACGTcount: A:0.32, C:0.11, G:0.27, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTTAATTGAA
Found at i:12459087 original size:25 final size:24
Alignment explanation
Indices: 12459058--12459190 Score: 98
Period size: 25 Copynumber: 5.6 Consensus size: 24
12459048 TTGATATATA
12459058 ATGCTGTCCAATTTTAAGTAAATTG
1 ATGCTGTCCAATTTTAAGT-AATTG
* *
12459083 ATGCTGT-CTATTTTAATGT-A-TA
1 ATGCTGTCCAATTTTAA-GTAATTG
*
12459105 ATGCTGTCCAATTTTGAGTATATTG
1 ATGCTGTCCAATTTTAAGTA-ATTG
*
12459130 ATGCTGTCC-ATTTTAATGT-A-TA
1 ATGCTGTCCAATTTTAA-GTAATTG
* * *
12459152 ATGCTATCCAATTTTGAGTATATTT
1 ATGCTGTCCAATTTTAAGTA-ATTG
* *
12459177 AAGCTGTCTAATTT
1 ATGCTGTCCAATTT
12459191 GATGTATAAT
Statistics
Matches: 85, Mismatches: 13, Indels: 20
0.72 0.11 0.17
Matches are distributed among these distances:
22 21 0.25
23 15 0.18
24 16 0.19
25 33 0.39
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (24 bp):
ATGCTGTCCAATTTTAAGTAATTG
Found at i:12459111 original size:22 final size:22
Alignment explanation
Indices: 12459047--12459214 Score: 101
Period size: 22 Copynumber: 7.2 Consensus size: 22
12459037 TGTGTTATAA
*
12459047 TTTGATATATAATGCTGTCCAAT
1 TTTGATGTATAATGCTGT-CAAT
* * *
12459070 TTT-AAGTAAATTGATGCTGTCTAT
1 TTTGATGT--A-TAATGCTGTCAAT
*
12459094 TTTAATGTATAATGCTGTCCAAT
1 TTTGATGTATAATGCTGT-CAAT
*
12459117 TTTGA-GTATATTGATGCTGTCCAT
1 TTTGATGTATA---ATGCTGTCAAT
* *
12459141 TTTAATGTATAATGCTATCCAAT
1 TTTGATGTATAATGCTGT-CAAT
*
12459164 TTTGA-GTATATTTAAGCTGTCTAA-
1 TTTGATGTATA---ATGCTGTC-AAT
*
12459188 TTTGATGTATAATGCTGTCCAT
1 TTTGATGTATAATGCTGTCAAT
12459210 TTTGA
1 TTTGA
12459215 GCATATTATT
Statistics
Matches: 112, Mismatches: 17, Indels: 33
0.69 0.10 0.20
Matches are distributed among these distances:
21 1 0.01
22 38 0.34
23 18 0.16
24 20 0.18
25 35 0.31
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.45
Consensus pattern (22 bp):
TTTGATGTATAATGCTGTCAAT
Found at i:12459130 original size:47 final size:47
Alignment explanation
Indices: 12459045--12459256 Score: 248
Period size: 47 Copynumber: 4.5 Consensus size: 47
12459035 TTTGTGTTAT
* * * * *
12459045 AATTTGATATATAATGCTGTCCAATTTTAAGTAAATTGATGCTGTCT
1 AATTTAATGTATAATGCTGTCCAATTTTGAGTATATTGATGCTGTCC
*
12459092 ATTTTAATGTATAATGCTGTCCAATTTTGAGTATATTGATGCTGTCC
1 AATTTAATGTATAATGCTGTCCAATTTTGAGTATATTGATGCTGTCC
* * * * *
12459139 ATTTTAATGTATAATGCTATCCAATTTTGAGTATATTTAAGCTGTCT
1 AATTTAATGTATAATGCTGTCCAATTTTGAGTATATTGATGCTGTCC
* * *
12459186 AATTTGATGTATAATGCTGTCC-ATTTTGAGCATATT-ATTGTTGTCC
1 AATTTAATGTATAATGCTGTCCAATTTTGAGTATATTGA-TGCTGTCC
* *
12459232 AATTTGATGAATAATTGCTGTCCAA
1 AATTTAATGTATAA-TGCTGTCCAA
12459257 AATAGGGTTG
Statistics
Matches: 144, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
45 1 0.01
46 31 0.22
47 111 0.77
48 1 0.01
ACGTcount: A:0.29, C:0.12, G:0.16, T:0.44
Consensus pattern (47 bp):
AATTTAATGTATAATGCTGTCCAATTTTGAGTATATTGATGCTGTCC
Found at i:12465252 original size:10 final size:10
Alignment explanation
Indices: 12465239--12465263 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
12465229 TATTTTTTAT
12465239 TTTTTTTACC
1 TTTTTTTACC
12465249 TTTTTTTACC
1 TTTTTTTACC
12465259 TTTTT
1 TTTTT
12465264 AACTTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTTTTTACC
Found at i:12466421 original size:26 final size:27
Alignment explanation
Indices: 12466392--12466477 Score: 86
Period size: 27 Copynumber: 3.1 Consensus size: 27
12466382 ATATAAATGA
*
12466392 TATATTATA-A-TATATAATTAATAATT
1 TATATTATATATTATAT-ATAAATAATT
12466418 TATATTATATATTATATATAAATAATT
1 TATATTATATATTATATATAAATAATT
* * * *
12466445 TATATGACTATATATAAATAAAAATAATA
1 TATATTA-TATAT-TATATATAAATAATT
12466474 TATA
1 TATA
12466478 AATAATTTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
26 9 0.18
27 16 0.31
28 10 0.20
29 16 0.31
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (27 bp):
TATATTATATATTATATATAAATAATT
Found at i:12466438 original size:23 final size:23
Alignment explanation
Indices: 12466395--12466463 Score: 63
Period size: 23 Copynumber: 3.1 Consensus size: 23
12466385 TAAATGATAT
*
12466395 ATTATAATATATAAT-TA-ATAA
1 ATTATATTATATAATATATATAA
* *
12466416 TTTATATTATATATTATATATAA
1 ATTATATTATATAATATATATAA
* *
12466439 ATAAT-TTATATGACTATATATAA
1 ATTATATTATAT-AATATATATAA
12466462 AT
1 AT
12466464 AAAAATAATA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
21 12 0.31
22 8 0.21
23 19 0.49
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (23 bp):
ATTATATTATATAATATATATAA
Found at i:12466464 original size:23 final size:22
Alignment explanation
Indices: 12466422--12466465 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
12466412 ATAATTTATA
*
12466422 TTATATATTATATATAAATAAT
1 TTATATACTATATATAAATAAT
12466444 TTATATGACTATATATAAATAA
1 TTATAT-ACTATATATAAATAA
12466466 AAATAATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (22 bp):
TTATATACTATATATAAATAAT
Found at i:12472020 original size:23 final size:23
Alignment explanation
Indices: 12471994--12472092 Score: 171
Period size: 23 Copynumber: 4.3 Consensus size: 23
12471984 AGTGTTATTG
*
12471994 ATCAGTGGTAGCTCCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
12472017 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
12472040 TTCAATGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
12472063 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
12472086 ATCAGTG
1 ATCAGTG
12472093 TGGCACTTAT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 71 1.00
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:12473880 original size:27 final size:27
Alignment explanation
Indices: 12473846--12474121 Score: 255
Period size: 27 Copynumber: 10.3 Consensus size: 27
12473836 AGGGTAACAA
12473846 TCATTTTACCCTATGAGGGTATTTCAG
1 TCATTTTACCCTATGAGGGTATTTCAG
* * *
12473873 TAATTTTACCTTAT-AGGGTTATTTCGG
1 TCATTTTACCCTATGAGGG-TATTTCAG
* *
12473900 TCATTCTACCCTATG-GAGATATTTC-G
1 TCATTTTACCCTATGAG-GGTATTTCAG
12473926 ATCATTTTACCCTATG-GGGTATTTCAG
1 -TCATTTTACCCTATGAGGGTATTTCAG
* *
12473953 TTATTTTACCCTATGAGGATATTTCAG
1 TCATTTTACCCTATGAGGGTATTTCAG
12473980 TCATTTTACCCTATG-GGGATATTTC-G
1 TCATTTTACCCTATGAGGG-TATTTCAG
12474006 ATCATTTTACCCTAT-AGGGGTATTTCAG
1 -TCATTTTACCCTATGA-GGGTATTTCAG
* * *
12474034 TTATTTTATCCTAT-AGGGGTGTTTC-G
1 TCATTTTACCCTATGA-GGGTATTTCAG
** * **
12474060 TTCATTTTACATTATGGGGGTATTTTGG
1 -TCATTTTACCCTATGAGGGTATTTCAG
* * *
12474088 TTATTTTACCCTATGGGGGTATTTCAA
1 TCATTTTACCCTATGAGGGTATTTCAG
12474115 TCATTTT
1 TCATTTT
12474122 TCCTATTTTG
Statistics
Matches: 205, Mismatches: 30, Indels: 28
0.78 0.11 0.11
Matches are distributed among these distances:
26 30 0.15
27 169 0.82
28 6 0.03
ACGTcount: A:0.21, C:0.16, G:0.18, T:0.45
Consensus pattern (27 bp):
TCATTTTACCCTATGAGGGTATTTCAG
Found at i:12474069 original size:81 final size:79
Alignment explanation
Indices: 12473845--12474127 Score: 338
Period size: 81 Copynumber: 3.5 Consensus size: 79
12473835 AAGGGTAACA
* * *
12473845 ATCATTTTACCCTATGAGGGTATTTCAGTAATTTTA-CCTTATAGGGTTATTTCGGTCATTCTAC
1 ATCATTTTACCCTATG-GGGTATTTCAGTTATTTTATCC-TATAGGGATATTTC-GTCATTTTAC
*
12473909 CCTATGGAGATATTTCG
63 CCTATGGGGATATTTCG
*
12473926 ATCATTTTACCCTATGGGGTATTTCAGTTATTTTACCCTAT-GAGGATATTTCAGTCATTTTACC
1 ATCATTTTACCCTATGGGGTATTTCAGTTATTTTATCCTATAG-GGATATTTC-GTCATTTTACC
12473990 CTATGGGGATATTTCG
64 CTATGGGGATATTTCG
* * *
12474006 ATCATTTTACCCTATAGGGGTATTTCAGTTATTTTATCCTATAGGGGTGTTTCGTTCATTTTACA
1 ATCATTTTACCCTAT-GGGGTATTTCAGTTATTTTATCCTATAGGGATATTTCG-TCATTTTACC
* * *
12474071 TTATGGGGGTATTTTG
64 CTATGGGGATATTTCG
* * * *
12474087 GTTATTTTACCCTATGGGGGTATTTCAATCATTTT-TCCTAT
1 ATCATTTTACCCTAT-GGGGTATTTCAGTTATTTTATCCTAT
12474128 TTTGGGGTCT
Statistics
Matches: 180, Mismatches: 17, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
79 1 0.01
80 76 0.42
81 102 0.57
82 1 0.01
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.45
Consensus pattern (79 bp):
ATCATTTTACCCTATGGGGTATTTCAGTTATTTTATCCTATAGGGATATTTCGTCATTTTACCCT
ATGGGGATATTTCG
Found at i:12476739 original size:14 final size:14
Alignment explanation
Indices: 12476722--12476783 Score: 54
Period size: 14 Copynumber: 4.4 Consensus size: 14
12476712 TTTTTTATAT
*
12476722 TTTTATTTTAAAGA
1 TTTTATTTTAAAAA
* * * *
12476736 TTTTTTTGTTCATAT
1 TTTTATT-TTAAAAA
*
12476751 TTTTATTTAAAAAA
1 TTTTATTTTAAAAA
12476765 TTTTA-TTTAAAAA
1 TTTTATTTTAAAAA
12476778 TTTTAT
1 TTTTAT
12476784 GTTTTTGAAA
Statistics
Matches: 35, Mismatches: 11, Indels: 4
0.70 0.22 0.08
Matches are distributed among these distances:
13 12 0.34
14 14 0.40
15 9 0.26
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (14 bp):
TTTTATTTTAAAAA
Found at i:12476778 original size:13 final size:14
Alignment explanation
Indices: 12476751--12476783 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
12476741 TTGTTCATAT
12476751 TTTTATTTAAAAAA
1 TTTTATTTAAAAAA
12476765 TTTTATTT-AAAAA
1 TTTTATTTAAAAAA
12476778 TTTTAT
1 TTTTAT
12476784 GTTTTTGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
TTTTATTTAAAAAA
Found at i:12478330 original size:50 final size:50
Alignment explanation
Indices: 12478227--12478330 Score: 111
Period size: 50 Copynumber: 2.1 Consensus size: 50
12478217 GTGCCAGGCT
* * * * ** * *
12478227 GTGTAACTCACTGTTTGTGAACTAGGGTTATATGGGCGTGTGTCCAAGTC
1 GTGTAACTCACAGTTTGTGAACTAAGGTCATACGGGCCAGGGACCAAGTC
*
12478277 GTGTAACTCACAGTTTGTGAATTAAGGTCATACGGGCCAGGGACACAAG-C
1 GTGTAACTCACAGTTTGTGAACTAAGGTCATACGGGCCAGGGAC-CAAGTC
12478327 GTGT
1 GTGT
12478331 GTCCAGGCCG
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
50 40 0.91
51 4 0.09
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (50 bp):
GTGTAACTCACAGTTTGTGAACTAAGGTCATACGGGCCAGGGACCAAGTC
Found at i:12479011 original size:21 final size:21
Alignment explanation
Indices: 12478985--12479045 Score: 79
Period size: 22 Copynumber: 2.9 Consensus size: 21
12478975 TAGGAAACTA
12478985 CATTTGATCTGATCTGTTCTG
1 CATTTGATCTGATCTGTTCTG
*
12479006 CATTTGTATCTAATCTGTTCTG
1 CATTTG-ATCTGATCTGTTCTG
*
12479028 CATCTT-ATCTGAACTGTT
1 CAT-TTGATCTGATCTGTT
12479046 ACGATAATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
21 16 0.46
22 17 0.49
23 2 0.06
ACGTcount: A:0.18, C:0.20, G:0.15, T:0.48
Consensus pattern (21 bp):
CATTTGATCTGATCTGTTCTG
Done.