Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 328 of 362
Found at i:109530756 original size:203 final size:202
Alignment explanation
Indices: 109530395--109531155 Score: 1089
Period size: 203 Copynumber: 3.7 Consensus size: 202
109530385 TAGGCAGCAG
* *
109530395 CATAACAGATCTGGCCTTCAGATGTTATACTGAAGCAGATCCAAGATAGTTTGGCATCCTTGTGT
1 CATAACAGATCTCGCCTTCAGATGTT-TACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGT
**
109530460 TTACAAGG-AGTAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATG-AAGCAAATCT
65 TTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGA-GAAAGC-AATCT
*
109530523 AAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGG
128 AAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGG
109530588 AGAGCAGACA
193 AGAGCAGACA
* *
109530598 CATAGCAGATCTCGCCTTCAGATGATTTCACTGAAGCGGATCCAAGATGGTTTGGCATCCTTGTG
1 CATAACAGATCTCGCCTTCAGATG-TTT-ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
* *
109530663 TTTACAAGGAACAAATCAAAGACATAGCTGGTTTGGCTTTCACGTGATTACGAGAAAGC-ATCTA
64 TTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGAGAAAGCAATCTA
109530727 AGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGA
129 AGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGA
*
109530792 GAGTAGACA
194 GAGCAGACA
* * *
109530801 CATAGCAGATCTCGCCTTCAGATGATTTCACTGAAGCAGATCCTAGATGGTTTGGCATCGTTGTG
1 CATAACAGATCTCGCCTTCAGATG-TTT-ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
**
109530866 TTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGAGAAAAAAAATCT
64 TTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGAG-AAAGCAATCT
*
109530931 AAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGGAGTTTGGCATCTTCACTTTGATGG
128 AAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGG
*
109530996 AGAGCAAACA
193 AGAGCAGACA
* ** * * *
109531006 CATAACAGATATTACCTTCGGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCTTATG
1 CATAACAGATCTCGCCTTCAGATGTTTA--CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
* * * * * * * **
109531071 CTCACAAAGAGCAAATCGAA-TCATAGTTGATTTGGCTTTCACGTGCTTACGTTAAAGCAAATCT
64 TTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGAGAAAGC-AATCT
* *
109531135 AAGATGATTTGGCATCTCTGT
128 AAGATGATTTGTCGTCTCTGT
109531156 TTTGTCAGGG
Statistics
Matches: 507, Mismatches: 42, Indels: 17
0.90 0.07 0.03
Matches are distributed among these distances:
203 218 0.43
204 104 0.21
205 185 0.36
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (202 bp):
CATAACAGATCTCGCCTTCAGATGTTTACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTT
TACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGAGAAAGCAATCTAAG
ATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAGA
GCAGACA
Found at i:109531369 original size:133 final size:133
Alignment explanation
Indices: 109531214--109531628 Score: 654
Period size: 133 Copynumber: 3.1 Consensus size: 133
109531204 ACGGGGGGCT
**
109531214 GATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTAAAGCAGATAAAAGATTTCAGCATGG
1 GATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTAAAGCAGATCGAAGATTTCAGCATGG
* * *
109531279 CATCCCAGTGCTTATAGGGAACAAGTTGAAAAACAGCAGATTTGACATCCTTGTGCTTATAGGGA
66 CATCCCTGTGCTTATAGGGAACAAGTTGAAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGA
109531344 ACA
131 ACA
* * *
109531347 GATCGAAGATAGTAGATCTGACATTCCTGTGCTTATAGTAAAGTAGATCGAAGATTTCAGCATGG
1 GATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTAAAGCAGATCGAAGATTTCAGCATGG
* *
109531412 CATCCCTGTGCTTATAGGGAACAAGTTGAAAAACAGCGGATTTGGCATCCCTGTGCTTATAAGGA
66 CATCCCTGTGCTTATAGGGAACAAGTTGAAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGA
109531477 ACA
131 ACA
*
109531480 GATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGG
1 GATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTAAAGCAGATCGAAGATTTCAGCATGG
* * * * * *
109531545 CATCCCTGTGTTTATAGGGAACAAGTTG-AAGATAGCAAATTTGGCATCCCTATGTTTATAGGGA
66 CATCCCTGTGCTTATAGGGAACAAGTTGAAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGA
109531609 ACA
131 ACA
*
109531612 GATCGAAGA-AGTAGATC
1 GATCGAAGATAGCAGATC
109531629 GAAGAACTCA
Statistics
Matches: 259, Mismatches: 23, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
131 7 0.03
132 41 0.16
133 211 0.81
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (133 bp):
GATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTAAAGCAGATCGAAGATTTCAGCATGG
CATCCCTGTGCTTATAGGGAACAAGTTGAAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGA
ACA
Found at i:109531383 original size:44 final size:44
Alignment explanation
Indices: 109531214--109531628 Score: 274
Period size: 44 Copynumber: 9.4 Consensus size: 44
109531204 ACGGGGGGCT
* * * **
109531214 GATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTAAAGCA
1 GATCGAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAA-CA
** ** *
109531259 GATAAAAGATTTCAG--CATGGCATCCCAGTGCTTATAGGGAACA
1 GATCGAAGATAGCAGATC-TGGCATCCCTGTGCTTATAGGGAACA
* * * * * *
109531302 -AGTTGAAAAACAGCAGATTTGACATCCTTGTGCTTATAGGGAACA
1 GA-TCG-AAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAACA
* * * ** *
109531347 GATCGAAGATAGTAGATCTGACATTCCTGTGCTTATAGTAAAGTA
1 GATCGAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAA-CA
**
109531392 GATCGAAGATTTCAG--CATGGCATCCCTGTGCTTATAGGGAACA
1 GATCGAAGATAGCAGATC-TGGCATCCCTGTGCTTATAGGGAACA
* * * * * *
109531435 -AGTTGAAAAACAGCGGATTTGGCATCCCTGTGCTTATAAGGAACA
1 GA-TCG-AAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAACA
* * * *
109531480 GATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCA
1 GATCGAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAA-CA
** *
109531525 GATCGAAGATTTCAG--CATGGCATCCCTGTGTTTATAGGGAACA
1 GATCGAAGATAGCAGATC-TGGCATCCCTGTGCTTATAGGGAACA
* * * * *
109531568 -AGTTGAAGATAGCAAATTTGGCATCCCTATGTTTATAGGGAACA
1 GA-TCGAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAACA
*
109531612 GATCGAAGA-AGTAGATC
1 GATCGAAGATAGCAGATC
109531629 GAAGAACTCA
Statistics
Matches: 278, Mismatches: 73, Indels: 40
0.71 0.19 0.10
Matches are distributed among these distances:
42 3 0.01
43 25 0.09
44 156 0.56
45 92 0.33
46 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (44 bp):
GATCGAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAACA
Found at i:109532777 original size:36 final size:37
Alignment explanation
Indices: 109532737--109532858 Score: 119
Period size: 38 Copynumber: 3.4 Consensus size: 37
109532727 GTATGGTTAA
*
109532737 TTAA-TAATAAAAAACAAAATAGTATGGGGAATGGTT
1 TTAATTAATAAAAAACAAAATAGTATGGGGAATAGTT
* * *
109532773 TTAATTTTATAATGAAAC-AAATAGTATGGAGAATAGTT
1 TTAA-TTAATAA-AAAACAAAATAGTATGGGGAATAGTT
* * *
109532811 TTAATTAATAGTAAAACAAAATA-T-GGGGGAGTAGTT
1 TTAATTAATA-AAAAACAAAATAGTATGGGGAATAGTT
109532847 TT-ATTAATAAAA
1 TTAATTAATAAAA
109532859 CAAGTAGCAT
Statistics
Matches: 70, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
34 2 0.03
35 7 0.10
36 15 0.21
37 10 0.14
38 32 0.46
39 4 0.06
ACGTcount: A:0.48, C:0.02, G:0.17, T:0.33
Consensus pattern (37 bp):
TTAATTAATAAAAAACAAAATAGTATGGGGAATAGTT
Found at i:109532833 original size:38 final size:38
Alignment explanation
Indices: 109532733--109532833 Score: 123
Period size: 38 Copynumber: 2.6 Consensus size: 38
109532723 TAAAGTATGG
* *
109532733 TTAATTAATAATAAAAAACAAAATAGTATGGGGAATGGTT
1 TTAATTAATAAT--AAAACAAAATAGTATGGAGAATAGTT
* *
109532773 TTAATTTTATAATGAAAC-AAATAGTATGGAGAATAGTT
1 TTAA-TTAATAATAAAACAAAATAGTATGGAGAATAGTT
*
109532811 TTAATTAATAGTAAAACAAAATA
1 TTAATTAATAATAAAACAAAATA
109532834 TGGGGGAGTA
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
37 10 0.19
38 27 0.52
39 4 0.08
40 4 0.08
41 7 0.13
ACGTcount: A:0.50, C:0.03, G:0.14, T:0.33
Consensus pattern (38 bp):
TTAATTAATAATAAAACAAAATAGTATGGAGAATAGTT
Found at i:109533582 original size:17 final size:17
Alignment explanation
Indices: 109533547--109533585 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 17
109533537 ATTTATGTGT
109533547 ATATTATGTTAGTTTCTA
1 ATATTATGTTAG-TTCTA
109533565 ATATTATGATTA-TTCTA
1 ATATTATG-TTAGTTCTA
109533582 ATAT
1 ATAT
109533586 GATATATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 9 0.45
18 8 0.40
19 3 0.15
ACGTcount: A:0.33, C:0.05, G:0.08, T:0.54
Consensus pattern (17 bp):
ATATTATGTTAGTTCTA
Found at i:109555477 original size:48 final size:48
Alignment explanation
Indices: 109555406--109555638 Score: 191
Period size: 48 Copynumber: 4.9 Consensus size: 48
109555396 TAATTTGCCA
** *
109555406 ATGCCATGTCTTAGACATGGTCTTACACTGGCTCACATGTCGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCCG
* * * **
109555454 ATGCCATGTCCCAGACATGGTCTTACACTAG-TGCACATATCAATGCAA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCT-CACATATCGAGGCCG
* * * * * * *
109555502 ATGCCATGTTCTAGATATGGACTTACACTGGCTCACACAAC-ATTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGA-GGCCG
* * * ** * * *
109555550 ATGCCATGTTCCAAACATGGTCTTACAGTGGCTTTCATATTGTGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCCG
* * * *
109555598 ACGCCATGTCCCAGGCATGGTCTTACACTAGCGCACATATC
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATC
109555639 ACCCAAATGT
Statistics
Matches: 141, Mismatches: 40, Indels: 8
0.75 0.21 0.04
Matches are distributed among these distances:
47 2 0.01
48 138 0.98
49 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCCG
Found at i:109557204 original size:54 final size:54
Alignment explanation
Indices: 109557117--109557230 Score: 156
Period size: 54 Copynumber: 2.1 Consensus size: 54
109557107 AGTCACACGA
* *
109557117 CCGTATCGTAGGCCATGTGCCAGACCGTGTTACATACTAACTTGAGACACATGG
1 CCGTGTCGTAGGCCATATGCCAGACCGTGTTACATACTAACTTGAGACACATGG
* * * ** *
109557171 TCGTGTCGTAGGCCGTATGCTAGACCGTGTTACATACTGGCTTGAGCCACATGG
1 CCGTGTCGTAGGCCATATGCCAGACCGTGTTACATACTAACTTGAGACACATGG
109557225 CCGTGT
1 CCGTGT
109557231 TTTAGACCGA
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.21, C:0.25, G:0.27, T:0.26
Consensus pattern (54 bp):
CCGTGTCGTAGGCCATATGCCAGACCGTGTTACATACTAACTTGAGACACATGG
Found at i:109562473 original size:56 final size:56
Alignment explanation
Indices: 109562407--109562517 Score: 213
Period size: 56 Copynumber: 2.0 Consensus size: 56
109562397 ATTTAATAGT
109562407 ACAGGTATAATAAAAAACAACCTAAGAATAACATAATCAAATTAACTATTATGTAC
1 ACAGGTATAATAAAAAACAACCTAAGAATAACATAATCAAATTAACTATTATGTAC
*
109562463 ACAGGTATAATAAAAAATAACCTAAGAATAACATAATCAAATTAACTATTATGTA
1 ACAGGTATAATAAAAAACAACCTAAGAATAACATAATCAAATTAACTATTATGTA
109562518 TGGTTGAAAT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.54, C:0.13, G:0.07, T:0.26
Consensus pattern (56 bp):
ACAGGTATAATAAAAAACAACCTAAGAATAACATAATCAAATTAACTATTATGTAC
Found at i:109568226 original size:21 final size:21
Alignment explanation
Indices: 109568202--109568242 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
109568192 ATCTGCTCAA
* *
109568202 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
109568223 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
109568243 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:109570100 original size:14 final size:14
Alignment explanation
Indices: 109570081--109570118 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
109570071 TTTTAACTGT
109570081 TTTTCTTCAAAAAA
1 TTTTCTTCAAAAAA
*
109570095 TTTTCTTCAAAAAT
1 TTTTCTTCAAAAAA
109570109 TTTTCTTCAA
1 TTTTCTTCAA
109570119 GTGCCACCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.34, C:0.16, G:0.00, T:0.50
Consensus pattern (14 bp):
TTTTCTTCAAAAAA
Found at i:109574093 original size:21 final size:22
Alignment explanation
Indices: 109574069--109574110 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
109574059 CTTAAAAATA
*
109574069 TAAAATTT-TAATTTAATTTTT
1 TAAAATTTACAATTTAATTTTT
109574090 TAAAATTTACAATTTAATTTT
1 TAAAATTTACAATTTAATTTT
109574111 CTCCCTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
TAAAATTTACAATTTAATTTTT
Found at i:109576626 original size:46 final size:46
Alignment explanation
Indices: 109576574--109576749 Score: 221
Period size: 46 Copynumber: 3.8 Consensus size: 46
109576564 TATTTGGGCA
*
109576574 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
* * * * *
109576620 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGAAATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATACGA-ACG
*
109576667 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATCGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
* * *
109576713 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
109576750 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
45 1 0.01
46 69 0.63
47 38 0.35
48 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
Found at i:109576729 original size:93 final size:93
Alignment explanation
Indices: 109576570--109576741 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
109576560 AGGATATTTG
* * *
109576570 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATCGATACGAACGCCCGAACTCGTTGAG
109576635 TTGAGTCCGAGTTCATGAAATGTAACTA
66 TTGAGTCCGAGTTCATGAAATGTAACTA
*
109576663 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATCGATACGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATCGATACGAACGCCCGAACTCGTTGAG
109576728 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
109576742 GCTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATCGATACGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCATGAAATGTAACTA
Found at i:109581111 original size:6 final size:6
Alignment explanation
Indices: 109581100--109581129 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
109581090 TTGTAGGAAC
*
109581100 TATGGA TATGGA TATGGA TATGGA TGTGGA
1 TATGGA TATGGA TATGGA TATGGA TATGGA
109581130 AAGAAAAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (6 bp):
TATGGA
Found at i:109582129 original size:23 final size:22
Alignment explanation
Indices: 109582058--109582125 Score: 66
Period size: 21 Copynumber: 3.0 Consensus size: 22
109582048 ATAATTTATA
* *
109582058 AAAAATAGAGAATCAAATATGT
1 AAAAATAGAAAATCAAATATGG
* *
109582080 AAAGAAAAGAAAAAAACAAATA-GG
1 AAA-AATAG--AAAATCAAATATGG
109582104 AAAAATAGAAAATCAAATATGG
1 AAAAATAGAAAATCAAATATGG
109582126 GAAAGGAAGG
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
21 10 0.28
22 5 0.14
23 8 0.22
24 4 0.11
25 9 0.25
ACGTcount: A:0.66, C:0.04, G:0.15, T:0.15
Consensus pattern (22 bp):
AAAAATAGAAAATCAAATATGG
Found at i:109592987 original size:39 final size:39
Alignment explanation
Indices: 109592937--109593013 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
109592927 TGTTCAAAAC
109592937 AAAGAAACCAACAAATTCAAAGAACAAATAACAAACAAT
1 AAAGAAACCAACAAATTCAAAGAACAAATAACAAACAAT
* *
109592976 AAAGAATCCAACACATTCAAAGAACAAATAACAAACAA
1 AAAGAAACCAACAAATTCAAAGAACAAATAACAAACAA
109593014 ACAACCCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.65, C:0.19, G:0.05, T:0.10
Consensus pattern (39 bp):
AAAGAAACCAACAAATTCAAAGAACAAATAACAAACAAT
Found at i:109593161 original size:19 final size:19
Alignment explanation
Indices: 109593134--109593182 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
109593124 AAAAAAAGTT
* *
109593134 AACAACCTAATATAATAGC
1 AACAACCTAAAATAAGAGC
* *
109593153 AAGAACCTAAAATGAGAGC
1 AACAACCTAAAATAAGAGC
109593172 AACAACCTAAA
1 AACAACCTAAA
109593183 GAATTACAAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.55, C:0.20, G:0.10, T:0.14
Consensus pattern (19 bp):
AACAACCTAAAATAAGAGC
Found at i:109598647 original size:50 final size:50
Alignment explanation
Indices: 109598572--109598748 Score: 255
Period size: 50 Copynumber: 3.5 Consensus size: 50
109598562 CCATGGCAAC
*
109598572 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTGA
1 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTGA
*
109598622 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTAA
1 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTGA
* * * *
109598672 AAGTGATAAGTAATAGCTTCGGTTACGCTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTGA
* ** *
109598722 CAAGTGAAAAGTGGTAGCTTTGGCTAC
1 -AAGTGATAAGTAATAGCTTCGGCTAC
109598749 CTGATCAGTG
Statistics
Matches: 114, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
50 93 0.82
51 21 0.18
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (50 bp):
AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTGA
Found at i:109598762 original size:31 final size:31
Alignment explanation
Indices: 109598724--109598903 Score: 243
Period size: 31 Copynumber: 5.8 Consensus size: 31
109598714 ACAAATGACA
*
109598724 AGTGAAAAGTGGTAGCTTTGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
109598755 AGTGAAAAGTGGTAGCTTCTGCTACCTGATA
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
109598786 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * * *
109598817 AGTGAAAAATGGTAGCTCCGACTACCTAATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * * *
109598848 AATGAAAAATAGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
109598879 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
109598904 AAGTGACAAG
Statistics
Matches: 131, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 131 1.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:109599097 original size:49 final size:48
Alignment explanation
Indices: 109598925--109599094 Score: 186
Period size: 47 Copynumber: 3.6 Consensus size: 48
109598915 GATTTCCGTA
* * * * *
109598925 TAAGACCATATCTGGGATATGGCATCG-GTGTGATATATG-CTACTGTA
1 TAAGACCATAGCTGGGATATGGCATCGAATGTGATATGTGATTAC-GTG
* * * *
109598972 TAAGACCATATCTGGGATATGGCATC-AGTGAGATATGTGATT-TGTG
1 TAAGACCATAGCTGGGATATGGCATCGAATGTGATATGTGATTACGTG
*
109599018 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGATATGGCATCGA-ATGTGATATGTGATTACGTG
* *
109599067 TAAGACCATAGCTGGGCTATGACATCGA
1 TAAGACCATAGCTGGGATATGGCATCGA
109599095 TATATGAAGA
Statistics
Matches: 107, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
46 26 0.24
47 37 0.35
48 14 0.13
49 30 0.28
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (48 bp):
TAAGACCATAGCTGGGATATGGCATCGAATGTGATATGTGATTACGTG
Found at i:109600532 original size:17 final size:16
Alignment explanation
Indices: 109600506--109600538 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
109600496 TTTTTATTTT
109600506 TAATAATTTAAAATAA
1 TAATAATTTAAAATAA
109600522 TAATAAATTTAAAATAA
1 TAAT-AATTTAAAATAA
109600539 ATTCCATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
TAATAATTTAAAATAA
Found at i:109601302 original size:21 final size:21
Alignment explanation
Indices: 109601278--109601317 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
109601268 AAGTACCTAA
109601278 AAATTAGGTATAAACTAAGAG
1 AAATTAGGTATAAACTAAGAG
*
109601299 AAATTAGGTATAAATTAAG
1 AAATTAGGTATAAACTAAG
109601318 TACTCCAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.53, C:0.03, G:0.17, T:0.28
Consensus pattern (21 bp):
AAATTAGGTATAAACTAAGAG
Found at i:109605729 original size:46 final size:45
Alignment explanation
Indices: 109605676--109605850 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 45
109605666 TGGTTGAGCA
109605676 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAA-G
* * * * *
109605722 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAGATGTAACTAGGCAG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATG-GA-TACGAAG
* *
109605770 -CCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAA-G
* * *
109605815 CCCGAGCTCGTTGAGTTGAGT-CGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
109605851 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 14, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
44 3 0.03
45 16 0.15
46 51 0.47
47 31 0.29
48 3 0.03
49 4 0.04
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAAG
Found at i:109612806 original size:46 final size:46
Alignment explanation
Indices: 109612756--109612931 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
109612746 TGGTTGAGCA
*
109612756 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
109612802 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
109612847 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
109612895 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
109612932 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:109612912 original size:93 final size:93
Alignment explanation
Indices: 109612753--109612924 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
109612743 GGATGGTTGA
* * *
109612753 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAGT
109612818 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
109612846 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAGT
109612911 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
109612925 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:109615428 original size:26 final size:26
Alignment explanation
Indices: 109615399--109615453 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
109615389 CAGTCCTTGT
109615399 ACTTAGTCAAAAGTACAATTTAATCC
1 ACTTAGTCAAAAGTACAATTTAATCC
109615425 ACTTAGTCAAAAGTACAATTTAATCC
1 ACTTAGTCAAAAGTACAATTTAATCC
109615451 ACT
1 ACT
109615454 ATATTACAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (26 bp):
ACTTAGTCAAAAGTACAATTTAATCC
Found at i:109619066 original size:23 final size:22
Alignment explanation
Indices: 109619047--109619109 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 22
109619037 TAAAAAATGC
109619047 TAATACAATTACATATAAAATTT
1 TAATACAATTACATATAAAA-TT
*
109619070 TAATA-AATATAAAT-TAAAAATT
1 TAATACAAT-TACATAT-AAAATT
109619092 TAAATACAATTACATATA
1 T-AATACAATTACATATA
109619110 TAGGATATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
22 7 0.21
23 22 0.67
24 4 0.12
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (22 bp):
TAATACAATTACATATAAAATT
Found at i:109619727 original size:21 final size:21
Alignment explanation
Indices: 109619701--109619785 Score: 89
Period size: 21 Copynumber: 3.9 Consensus size: 21
109619691 AGTCCTAAAC
*
109619701 CTTAAACCCTAAACCATATAT
1 CTTAAACCATAAACCATATAT
* *
109619722 CTTAAACCATAGGTAACTCAAAAAT
1 CTTAAACCATA---AAC-CATATAT
* *
109619747 CTTAAACCCTAAACTATATAT
1 CTTAAACCATAAACCATATAT
109619768 CTTAAACCATAAACCATA
1 CTTAAACCATAAACCATA
109619786 AACTATAACG
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
21 30 0.59
22 3 0.06
24 3 0.06
25 15 0.29
ACGTcount: A:0.46, C:0.25, G:0.02, T:0.27
Consensus pattern (21 bp):
CTTAAACCATAAACCATATAT
Found at i:109620006 original size:41 final size:41
Alignment explanation
Indices: 109619949--109620126 Score: 268
Period size: 41 Copynumber: 4.4 Consensus size: 41
109619939 GTTATATGAC
*
109619949 TTTTAGCGGCGTTTTGCCAAAAGCGCCGTTAATGCTCTAGT
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTAGT
* * *
109619990 TTTTAGCGGCGTTTTGCCAAAAGCGCAGCTAATGCTTTGGT
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTAGT
* *
109620031 TTTTAGCGGCGTTTTGCCAAAATCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTAGT
* *
109620072 TTTTAGCGACGTTTTGCCAAAAGCGCCGCTAATTCTCTA-T
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTAGT
*
109620112 TTTTCGCGGCGTTTT
1 TTTTAGCGGCGTTTT
109620127 TTACTAAAAC
Statistics
Matches: 124, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
40 14 0.11
41 110 0.89
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.36
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTAGT
Found at i:109620169 original size:82 final size:82
Alignment explanation
Indices: 109619949--109620167 Score: 255
Period size: 82 Copynumber: 2.7 Consensus size: 82
109619939 GTTATATGAC
* * *
109619949 TTTTAGCGGCGTTTTGCCAAAAGCGCCGTTAATGCTCTAGTTTTTAGCGGCGTTTTGCCAAAAGC
1 TTTTAGCGGCGTTTTACCAAAATCGCCGCTAATGCTCTAGTTTTTAGCGGCGTTTTGCCAAAAGC
* * *
109620014 GCAGCTAATGCTTTGGT
66 GCCGCTAATGCTCTGAT
* * *
109620031 TTTTAGCGGCGTTTTGCCAAAATCGCCGCTAATGCTCTGGTTTTTAGCGACGTTTTGCCAAAAGC
1 TTTTAGCGGCGTTTTACCAAAATCGCCGCTAATGCTCTAGTTTTTAGCGGCGTTTTGCCAAAAGC
*
109620096 GCCGCTAATTCTCT-AT
66 GCCGCTAATGCTCTGAT
* * ** * *
109620112 TTTTCGCGGCGTTTTTTACTAAAA-CGTTGCTATTGCTCT-GTTTTTAGTGGCGTTTT
1 TTTTAGCGGCG--TTTTACCAAAATCGCCGCTAATGCTCTAGTTTTTAGCGGCGTTTT
109620168 TGGTAAAACG
Statistics
Matches: 119, Mismatches: 16, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
81 26 0.22
82 84 0.71
83 9 0.08
ACGTcount: A:0.18, C:0.21, G:0.23, T:0.38
Consensus pattern (82 bp):
TTTTAGCGGCGTTTTACCAAAATCGCCGCTAATGCTCTAGTTTTTAGCGGCGTTTTGCCAAAAGC
GCCGCTAATGCTCTGAT
Found at i:109620169 original size:123 final size:123
Alignment explanation
Indices: 109619949--109620197 Score: 299
Period size: 123 Copynumber: 2.0 Consensus size: 123
109619939 GTTATATGAC
* * *
109619949 TTTTAGCGGCGTTTTGCCAAAAGCGCCGTTAATGCTCTAGTTTTTAGCGGCGTTTTGCCAAAAGC
1 TTTTAGCGACGTTTTGCCAAAAGCGCCGCTAATGCTCTAGTTTTTAGCGGCGTTTTACCAAAAGC
* *
109620014 GCAGCTAATGCTTTGGTTTTTAGCGGCGTTTTGCCAAAATCGCCGCTAATGCTCTG-GT
66 GCAGCTAATGCTCTGGTTTTTAGCGGCGTTTTGCCAAAA-CGCCGCTAATGCTATGTGT
* * *
109620072 TTTTAGCGACGTTTTGCCAAAAGCGCCGCTAATTCTCTA-TTTTTCGCGGCGTTTTTTACTAAAA
1 TTTTAGCGACGTTTTGCCAAAAGCGCCGCTAATGCTCTAGTTTTTAGCGGCG--TTTTACCAAAA
** * * ** *
109620136 -CGTTGCTATTGCTCT-GTTTTTAGTGGCGTTTTTGGTAAAACGCCGCTATTGCTATGTGT
64 GCGCAGCTAATGCTCTGGTTTTTAGCGGCG-TTTTGCCAAAACGCCGCTAATGCTATGTGT
109620195 TTT
1 TTT
109620198 ACAATTTTTA
Statistics
Matches: 107, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
122 37 0.35
123 61 0.57
124 9 0.08
ACGTcount: A:0.18, C:0.20, G:0.23, T:0.39
Consensus pattern (123 bp):
TTTTAGCGACGTTTTGCCAAAAGCGCCGCTAATGCTCTAGTTTTTAGCGGCGTTTTACCAAAAGC
GCAGCTAATGCTCTGGTTTTTAGCGGCGTTTTGCCAAAACGCCGCTAATGCTATGTGT
Found at i:109623369 original size:14 final size:14
Alignment explanation
Indices: 109623350--109623383 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
109623340 TGTTTAACTA
109623350 AAAATGATTT-TCGG
1 AAAATGATTTCT-GG
109623364 AAAATGATTTCTGG
1 AAAATGATTTCTGG
109623378 AAAATG
1 AAAATG
109623384 GCTTACTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 18 0.95
15 1 0.05
ACGTcount: A:0.41, C:0.06, G:0.21, T:0.32
Consensus pattern (14 bp):
AAAATGATTTCTGG
Found at i:109626385 original size:26 final size:26
Alignment explanation
Indices: 109626355--109626406 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
109626345 CACCACTGAA
109626355 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
109626381 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
109626407 CTTTTTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.35, G:0.23, T:0.12
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:109626553 original size:104 final size:102
Alignment explanation
Indices: 109626323--109626691 Score: 587
Period size: 104 Copynumber: 3.6 Consensus size: 102
109626313 TAGCCGTTAT
** *
109626323 TGGTGGATCCCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACATAGCAACCCCTCGGGGA
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACATAGCAACCCCTCGGGGA
*
109626388 ATCAGCACATAGCAACCCCCTTTTTATTTCAAAGATA
66 ATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
*
109626425 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACATAGCAACCCCTC-GGGG
109626490 AATCAGCACATAGCAACCCCCCTTTTCATTTCAAAGATA
65 AATCAGCACATAGCAA-CCCCCTTTTCATTTCAAAGATA
*
109626529 TGGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATG-AATCGGGGAATCAGCACATAGCAACCCCTCGGGG
*
109626594 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
65 AATCAGCACATAGCAACCCCCTTT-TCATTTCAAAGATA
* * * *
109626633 TGGTGGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACATAGCAACCCCT
109626692 TTTATATACA
Statistics
Matches: 251, Mismatches: 11, Indels: 9
0.93 0.04 0.03
Matches are distributed among these distances:
102 56 0.22
103 55 0.22
104 109 0.43
105 31 0.12
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.20
Consensus pattern (102 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACATAGCAACCCCTCGGGGA
ATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
Found at i:109626591 original size:26 final size:26
Alignment explanation
Indices: 109626562--109626613 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
109626552 ACCAATGAAA
*
109626562 TCGGGGAATCAGCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
109626588 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
109626614 CTTTCACATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.35, G:0.23, T:0.13
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:109627050 original size:29 final size:29
Alignment explanation
Indices: 109627017--109627080 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
109627007 TAATCCACCA
109627017 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
109627046 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
109627076 CCCAA
1 CCCAA
109627081 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:109627054 original size:30 final size:30
Alignment explanation
Indices: 109627024--109627080 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
109627014 CCACCCAACT
109627024 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
109627053 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
109627081 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:109631527 original size:20 final size:19
Alignment explanation
Indices: 109631492--109631537 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
109631482 AGGTTGAGGG
**
109631492 AGAAAGAAGATGAAGAGAAA
1 AGAAAGAAGAACAAGA-AAA
109631512 AGAAAGAAGAACAAGAAAA
1 AGAAAGAAGAACAAGAAAA
109631531 A-AAAGAA
1 AGAAAGAA
109631538 AGAGGTTGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 6 0.25
19 4 0.17
20 14 0.58
ACGTcount: A:0.72, C:0.02, G:0.24, T:0.02
Consensus pattern (19 bp):
AGAAAGAAGAACAAGAAAA
Found at i:109631558 original size:57 final size:57
Alignment explanation
Indices: 109631474--109631585 Score: 147
Period size: 57 Copynumber: 2.0 Consensus size: 57
109631464 AGGAGATGGT
* * * *
109631474 AAAAGACAAGGTTGAGGGAGAAAGAAGATGAAGAGAAAAGA-AAGAAGAACAAGAAAA
1 AAAAGAAAAGGTTGAAGGAGAAAGAAGATAAAGAG-AAAGATAAGAAGAAAAAGAAAA
*
109631531 AAAAGAAAGAGGTTGAAGGAG-AAGAAGATAAAGAGAAAGATGAGAAGAAAAAGAA
1 AAAAGAAA-AGGTTGAAGGAGAAAGAAGATAAAGAGAAAGATAAGAAGAAAAAGAA
109631586 GAAAGACACA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
56 5 0.10
57 32 0.67
58 11 0.23
ACGTcount: A:0.62, C:0.02, G:0.30, T:0.06
Consensus pattern (57 bp):
AAAAGAAAAGGTTGAAGGAGAAAGAAGATAAAGAGAAAGATAAGAAGAAAAAGAAAA
Found at i:109631578 original size:20 final size:21
Alignment explanation
Indices: 109631553--109631591 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
109631543 TTGAAGGAGA
*
109631553 AGAAGATAAAG-AGAAAGATG
1 AGAAGAAAAAGAAGAAAGATG
109631573 AGAAGAAAAAGAAGAAAGA
1 AGAAGAAAAAGAAGAAAGA
109631592 CACAGAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.67, C:0.00, G:0.28, T:0.05
Consensus pattern (21 bp):
AGAAGAAAAAGAAGAAAGATG
Found at i:109632285 original size:32 final size:32
Alignment explanation
Indices: 109632249--109632313 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
109632239 TATAAAATCC
109632249 TACTTAGATTACTTTCTTTTAAATTGATTTTT
1 TACTTAGATTACTTTCTTTTAAATTGATTTTT
109632281 TACTTAGATTACTTTCTTTTAAATTGATTTTT
1 TACTTAGATTACTTTCTTTTAAATTGATTTTT
109632313 T
1 T
109632314 TTGTCATACT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.25, C:0.09, G:0.06, T:0.60
Consensus pattern (32 bp):
TACTTAGATTACTTTCTTTTAAATTGATTTTT
Found at i:109640354 original size:19 final size:20
Alignment explanation
Indices: 109640330--109640375 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
109640320 CATCCAAACA
109640330 CCAGAAAAGAAAATCA-TTT
1 CCAGAAAAGAAAATCATTTT
109640349 CCAGAAAAGAAAATCATTTT
1 CCAGAAAAGAAAATCATTTT
109640369 CCAGAAA
1 CCAGAAA
109640376 TTATTTTTCG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.52, C:0.17, G:0.11, T:0.20
Consensus pattern (20 bp):
CCAGAAAAGAAAATCATTTT
Found at i:109640628 original size:25 final size:26
Alignment explanation
Indices: 109640574--109640630 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 26
109640564 TTTTTAAAGG
* *
109640574 TTTTAATTCAATTAAATTTGATTTGA
1 TTTTAATTCAATTAAATTTAATTTAA
* *
109640600 -TTTAATTC-TTTTAATTTAATTTAA
1 TTTTAATTCAATTAAATTTAATTTAA
109640624 TTTTAAT
1 TTTTAAT
109640631 ATACTTCTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 12 0.46
25 14 0.54
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.60
Consensus pattern (26 bp):
TTTTAATTCAATTAAATTTAATTTAA
Found at i:109641453 original size:22 final size:19
Alignment explanation
Indices: 109641428--109641508 Score: 62
Period size: 22 Copynumber: 4.3 Consensus size: 19
109641418 TTTTATATAA
109641428 TATATTTTTTAAAATTTATGAT
1 TATATTTTTTAAAATTT-T--T
* *
109641450 TATATATTTTAGAATTTTT
1 TATATTTTTTAAAATTTTT
109641469 TAT-TTTTTT-AAA-TTTT
1 TATATTTTTTAAAATTTTT
* * *
109641485 TACATTTTTT-GAATTATT
1 TATATTTTTTAAAATTTTT
109641503 TATATT
1 TATATT
109641509 ATATATGATA
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
16 6 0.12
17 10 0.20
18 13 0.27
19 4 0.08
21 1 0.02
22 15 0.31
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.64
Consensus pattern (19 bp):
TATATTTTTTAAAATTTTT
Found at i:109652622 original size:18 final size:18
Alignment explanation
Indices: 109652596--109652630 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
109652586 TAAATAAAGG
*
109652596 TACTGAATAATTGACTGC
1 TACTAAATAATTGACTGC
*
109652614 TACTAAATATTTGACTG
1 TACTAAATAATTGACTG
109652631 TTGCTGAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.37
Consensus pattern (18 bp):
TACTAAATAATTGACTGC
Found at i:109653714 original size:22 final size:20
Alignment explanation
Indices: 109653668--109653721 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
109653658 CACGGTGTGC
* *
109653668 CCACACGGGTGTGTTATGGA
1 CCACACGGGCGTGTTATAGA
*
109653688 ACACACGGGCGTGTTATCTAGA
1 CCACACGGGCGTGTTA--TAGA
109653710 CCACACGGGCGT
1 CCACACGGGCGT
109653722 ATGGTACTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 14 0.50
22 14 0.50
ACGTcount: A:0.22, C:0.26, G:0.31, T:0.20
Consensus pattern (20 bp):
CCACACGGGCGTGTTATAGA
Found at i:109659224 original size:104 final size:104
Alignment explanation
Indices: 109659044--109659251 Score: 416
Period size: 104 Copynumber: 2.0 Consensus size: 104
109659034 GAAAGAATGG
109659044 ATATCAAGATCCTGGCTTTTTATGATTAAATAAATATGTAGTTAACAAAAGAGAGAACATTCCAT
1 ATATCAAGATCCTGGCTTTTTATGATTAAATAAATATGTAGTTAACAAAAGAGAGAACATTCCAT
109659109 GTATATTAGAAAAACTCTACGTACTGGTAACTTAAATAC
66 GTATATTAGAAAAACTCTACGTACTGGTAACTTAAATAC
109659148 ATATCAAGATCCTGGCTTTTTATGATTAAATAAATATGTAGTTAACAAAAGAGAGAACATTCCAT
1 ATATCAAGATCCTGGCTTTTTATGATTAAATAAATATGTAGTTAACAAAAGAGAGAACATTCCAT
109659213 GTATATTAGAAAAACTCTACGTACTGGTAACTTAAATAC
66 GTATATTAGAAAAACTCTACGTACTGGTAACTTAAATAC
109659252 TAGCATCAAT
Statistics
Matches: 104, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
104 104 1.00
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.32
Consensus pattern (104 bp):
ATATCAAGATCCTGGCTTTTTATGATTAAATAAATATGTAGTTAACAAAAGAGAGAACATTCCAT
GTATATTAGAAAAACTCTACGTACTGGTAACTTAAATAC
Found at i:109661586 original size:6 final size:6
Alignment explanation
Indices: 109661526--109661566 Score: 75
Period size: 6 Copynumber: 7.0 Consensus size: 6
109661516 CAAAGGCGGC
109661526 AGGCAG A-GCAG AGGCAG AGGCAG AGGCAG AGGCAG AGGCAG
1 AGGCAG AGGCAG AGGCAG AGGCAG AGGCAG AGGCAG AGGCAG
109661567 CGGCTATGGC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 5 0.15
6 29 0.85
ACGTcount: A:0.34, C:0.17, G:0.49, T:0.00
Consensus pattern (6 bp):
AGGCAG
Found at i:109662707 original size:6 final size:6
Alignment explanation
Indices: 109662696--109662722 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
109662686 CAATGGCGAA
109662696 TTTTGT TTTTGT TTTTGT TTTTGT TTT
1 TTTTGT TTTTGT TTTTGT TTTTGT TTT
109662723 GCTTTATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (6 bp):
TTTTGT
Found at i:109662921 original size:20 final size:21
Alignment explanation
Indices: 109662895--109662949 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
109662885 AATTTTATTT
* *
109662895 TATTTTATTTTATTATTCTAA
1 TATTTTATTTTATTACTATAA
109662916 -ATTTTATTTTATTACTATAA
1 TATTTTATTTTATTACTATAA
*
109662936 TATTTTATATTATT
1 TATTTTATTTTATT
109662950 TTAATAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 18 0.60
21 12 0.40
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (21 bp):
TATTTTATTTTATTACTATAA
Found at i:109675704 original size:29 final size:28
Alignment explanation
Indices: 109675658--109675735 Score: 84
Period size: 29 Copynumber: 2.7 Consensus size: 28
109675648 ATCTTTTTGG
*
109675658 AATTGATTTAATCAATTTTAATATGAGAA
1 AATTGATTTAATCAATTTTAAT-TAAGAA
** *
109675687 AATTGATTTAATTGATTTTAGTTAAGAA
1 AATTGATTTAATCAATTTTAATTAAGAA
*
109675715 AATCGATTTAAAATCAATTTT
1 AATTGATTT--AATCAATTTT
109675736 GATTCGGTCG
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
28 13 0.32
29 19 0.47
30 8 0.20
ACGTcount: A:0.42, C:0.04, G:0.10, T:0.44
Consensus pattern (28 bp):
AATTGATTTAATCAATTTTAATTAAGAA
Found at i:109677410 original size:21 final size:22
Alignment explanation
Indices: 109677370--109677410 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
109677360 ATGTTGAATT
109677370 TTTTAAATTCTTGATTAATTTC
1 TTTTAAATTCTTGATTAATTTC
* *
109677392 TTTTAAGTT-TTGCTTAATT
1 TTTTAAATTCTTGATTAATT
109677411 ACAATTCAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.24, C:0.07, G:0.07, T:0.61
Consensus pattern (22 bp):
TTTTAAATTCTTGATTAATTTC
Found at i:109677688 original size:24 final size:24
Alignment explanation
Indices: 109677660--109677706 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
109677650 CTATTAAAAC
109677660 GTGATTGATAATTAATCATTAATG
1 GTGATTGATAATTAATCATTAATG
*
109677684 GTGATTGATTATTAATCATTAAT
1 GTGATTGATAATTAATCATTAAT
109677707 TTTTTTATGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.36, C:0.04, G:0.15, T:0.45
Consensus pattern (24 bp):
GTGATTGATAATTAATCATTAATG
Found at i:109680672 original size:43 final size:42
Alignment explanation
Indices: 109680613--109680695 Score: 123
Period size: 43 Copynumber: 2.0 Consensus size: 42
109680603 ACAATGCCAA
* *
109680613 TGTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCTC
1 TGTCCCAGACGTGGTCTTACACGAAATCAAATA-CGATGCCTC
109680656 TGTCCCAGACAG-GGTCTTACACGAAATCAAATACGATGCC
1 TGTCCCAGAC-GTGGTCTTACACGAAATCAAATACGATGCC
109680696 GATATCCCAA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
42 7 0.19
43 29 0.78
44 1 0.03
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (42 bp):
TGTCCCAGACGTGGTCTTACACGAAATCAAATACGATGCCTC
Found at i:109680726 original size:43 final size:44
Alignment explanation
Indices: 109680627--109680726 Score: 116
Period size: 42 Copynumber: 2.3 Consensus size: 44
109680617 CCAGACGTGG
* ** * * *
109680627 TCTTACATGT-AATCAAATATCGATGCCTCTGTCCCAGACAGGG
1 TCTTACACGTAAATCAAATATCGATGCCGATATCCCAAACAGGA
*
109680670 TCTTACACG-AAATCAAATA-CGATGCCGATATCCCAAACATGA
1 TCTTACACGTAAATCAAATATCGATGCCGATATCCCAAACAGGA
109680712 TCTTACACGTAAATC
1 TCTTACACGTAAATC
109680727 TCGAATCGAT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
42 26 0.54
43 22 0.46
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.26
Consensus pattern (44 bp):
TCTTACACGTAAATCAAATATCGATGCCGATATCCCAAACAGGA
Found at i:109693217 original size:24 final size:24
Alignment explanation
Indices: 109693171--109693218 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
109693161 TTTAGAGAAT
*
109693171 TTTGTGTTCACGTTTTGAGGGTTC
1 TTTGTGTTCACGTTTTGAAGGTTC
* * *
109693195 TTTGTTTTCAGGTTTTTAAGGTTC
1 TTTGTGTTCACGTTTTGAAGGTTC
109693219 AGTTTTTATC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.10, C:0.10, G:0.25, T:0.54
Consensus pattern (24 bp):
TTTGTGTTCACGTTTTGAAGGTTC
Found at i:109696326 original size:17 final size:18
Alignment explanation
Indices: 109696304--109696352 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
109696294 GGTTCTAGAA
109696304 TATTTGGATAGATTA-TT
1 TATTTGGATAGATTAGTT
*
109696321 TATTTGAGA-AAATTAGTT
1 TATTTG-GATAGATTAGTT
*
109696339 AATTT-GATAGATTA
1 TATTTGGATAGATTA
109696353 ACTAATTAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
16 2 0.08
17 16 0.62
18 8 0.31
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (18 bp):
TATTTGGATAGATTAGTT
Found at i:109698732 original size:14 final size:14
Alignment explanation
Indices: 109698713--109698741 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
109698703 ACTTACACCT
109698713 TAATTAATTAACCA
1 TAATTAATTAACCA
109698727 TAATTAATTAACCA
1 TAATTAATTAACCA
109698741 T
1 T
109698742 TAAATAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (14 bp):
TAATTAATTAACCA
Found at i:109701770 original size:22 final size:22
Alignment explanation
Indices: 109701745--109701787 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
109701735 TCTCTTCCCT
109701745 TTTCTTTTGGCTTTTCTTTTTC
1 TTTCTTTTGGCTTTTCTTTTTC
**
109701767 TTTCTTTTTTCTTTTCTTTTT
1 TTTCTTTTGGCTTTTCTTTTT
109701788 AAAAATGGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.05, T:0.79
Consensus pattern (22 bp):
TTTCTTTTGGCTTTTCTTTTTC
Found at i:109701775 original size:11 final size:12
Alignment explanation
Indices: 109701743--109701787 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
109701733 CTTCTCTTCC
**
109701743 CTTTTCTTTTGG
1 CTTTTCTTTTTT
109701755 CTTTTC-TTTTT
1 CTTTTCTTTTTT
109701766 C-TTTCTTTTTT
1 CTTTTCTTTTTT
109701777 CTTTTCTTTTT
1 CTTTTCTTTTT
109701788 AAAAATGGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 4 0.14
11 10 0.34
12 15 0.52
ACGTcount: A:0.00, C:0.18, G:0.04, T:0.78
Consensus pattern (12 bp):
CTTTTCTTTTTT
Found at i:109702531 original size:22 final size:22
Alignment explanation
Indices: 109702504--109702585 Score: 96
Period size: 22 Copynumber: 3.8 Consensus size: 22
109702494 CTGCCTCAAC
109702504 CACACGGGCGTGTGCCTCTCTT
1 CACACGGGCGTGTGCCTCTCTT
* * *
109702526 CACACGGGCATGTGCGTCAGC--
1 CACACGGGCGTGTGCCTC-TCTT
* *
109702547 CACATGGGTGTGTGCCTCTCTT
1 CACACGGGCGTGTGCCTCTCTT
109702569 CACACGGGCGTGTGCCT
1 CACACGGGCGTGTGCCT
109702586 TAGCCACACG
Statistics
Matches: 47, Mismatches: 10, Indels: 6
0.75 0.16 0.10
Matches are distributed among these distances:
20 1 0.02
21 14 0.30
22 31 0.66
23 1 0.02
ACGTcount: A:0.12, C:0.33, G:0.30, T:0.24
Consensus pattern (22 bp):
CACACGGGCGTGTGCCTCTCTT
Found at i:109702550 original size:43 final size:43
Alignment explanation
Indices: 109702481--109702622 Score: 158
Period size: 43 Copynumber: 3.3 Consensus size: 43
109702471 ATGTCCCTGG
** * *
109702481 TTCACACGACCATCTGCCTCAACCACACGGGCGTGTGCCTCTC
1 TTCACACGGGCATGTGCCTCAGCCACACGGGCGTGTGCCTCTC
* * *
109702524 TTCACACGGGCATGTGCGTCAGCCACATGGGTGTGTGCCTCTC
1 TTCACACGGGCATGTGCCTCAGCCACACGGGCGTGTGCCTCTC
* * ** * *
109702567 TTCACACGGGCGTGTGCCTTAGCCACACGACCGTGAGCCCCTC
1 TTCACACGGGCATGTGCCTCAGCCACACGGGCGTGTGCCTCTC
*
109702610 TTCACACAGGCAT
1 TTCACACGGGCAT
109702623 TTGACCTCCC
Statistics
Matches: 81, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 81 1.00
ACGTcount: A:0.18, C:0.37, G:0.24, T:0.22
Consensus pattern (43 bp):
TTCACACGGGCATGTGCCTCAGCCACACGGGCGTGTGCCTCTC
Found at i:109704965 original size:13 final size:13
Alignment explanation
Indices: 109704947--109704976 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
109704937 TATATTAAAA
109704947 AAATTAATTCAAT
1 AAATTAATTCAAT
*
109704960 AAATTAATTCATT
1 AAATTAATTCAAT
109704973 AAAT
1 AAAT
109704977 ATTAAGTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (13 bp):
AAATTAATTCAAT
Found at i:109708209 original size:13 final size:13
Alignment explanation
Indices: 109708191--109708215 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
109708181 TAATTTATAT
109708191 GTGTGAAAATTTC
1 GTGTGAAAATTTC
109708204 GTGTGAAAATTT
1 GTGTGAAAATTT
109708216 TATCGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:109709362 original size:43 final size:42
Alignment explanation
Indices: 109709310--109709437 Score: 141
Period size: 43 Copynumber: 3.0 Consensus size: 42
109709300 CATAGGGTTC
* *
109709310 CGATATGTGATTTCGTGTAATACCATGTCTGGGACGTTGGCAT
1 CGATATGTGATTT-GTGTAAGACCATGTTTGGGACGTTGGCAT
* *
109709353 CGATTTGTGATTTAAGTGTAAGACCCTGTTTGGGACAG-TGGCAT
1 CGATATGTGATTT--GTGTAAGACCATGTTTGGGAC-GTTGGCAT
* * *
109709397 CAATATGTGATTATATGTAAGACCACGTTTGGGACGTTGGC
1 CGATATGTGATT-TGTGTAAGACCATGTTTGGGACGTTGGC
109709438 GTTGTACGAG
Statistics
Matches: 71, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
42 1 0.01
43 34 0.48
44 34 0.48
45 2 0.03
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.34
Consensus pattern (42 bp):
CGATATGTGATTTGTGTAAGACCATGTTTGGGACGTTGGCAT
Found at i:109709894 original size:64 final size:65
Alignment explanation
Indices: 109709788--109709908 Score: 235
Period size: 64 Copynumber: 1.9 Consensus size: 65
109709778 AAATGCTTTA
109709788 TTTGCTTATGACTTACTAAGCTATTCAAGCTTACTCTGTGTGTGTGTGTGTGTGTGTGTATGTTC
1 TTTGCTTATGACTTACTAAGCTATTCAAGCTTACTCTGTGTGTGTGTGTGTGTGTGTGTATGTTC
109709853 TTTG-TTATGACTTACTAAGCTATTCAAGCTTACTCTGTGTGTGTGTGTGTGTGTGT
1 TTTGCTTATGACTTACTAAGCTATTCAAGCTTACTCTGTGTGTGTGTGTGTGTGTGT
109709909 TTTTTGTTTT
Statistics
Matches: 56, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
64 52 0.93
65 4 0.07
ACGTcount: A:0.16, C:0.13, G:0.25, T:0.46
Consensus pattern (65 bp):
TTTGCTTATGACTTACTAAGCTATTCAAGCTTACTCTGTGTGTGTGTGTGTGTGTGTGTATGTTC
Found at i:109714875 original size:24 final size:25
Alignment explanation
Indices: 109714835--109714883 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
109714825 GTCATTAGGG
* *
109714835 TTACCGATTTTTAGCTCTTATGAGC
1 TTACCGATTTATAGCTCGTATGAGC
109714860 TTACCG-TTTATAGCTCGTATGAGC
1 TTACCGATTTATAGCTCGTATGAGC
109714884 ATACATGTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 16 0.73
25 6 0.27
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.41
Consensus pattern (25 bp):
TTACCGATTTATAGCTCGTATGAGC
Found at i:109715399 original size:35 final size:35
Alignment explanation
Indices: 109715319--109715388 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
109715309 AGGACTGAAG
109715319 ATAGAATAAAAAGGGTTAAATAAATAAGTATTTAT
1 ATAGAATAAAAAGGGTTAAATAAATAAGTATTTAT
109715354 ATAGAATAAAAAGGGTTAAATAAATAAGTATTTAT
1 ATAGAATAAAAAGGGTTAAATAAATAAGTATTTAT
109715389 CTATTTTAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.54, C:0.00, G:0.14, T:0.31
Consensus pattern (35 bp):
ATAGAATAAAAAGGGTTAAATAAATAAGTATTTAT
Found at i:109716857 original size:16 final size:16
Alignment explanation
Indices: 109716836--109716866 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
109716826 TTTTTCACAA
109716836 ATTATTATTATTTTAC
1 ATTATTATTATTTTAC
*
109716852 ATTATTATTTTTTTA
1 ATTATTATTATTTTA
109716867 TAATTATTCT
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:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (16 bp):
ATTATTATTATTTTAC
Found at i:109717087 original size:32 final size:27
Alignment explanation
Indices: 109717062--109717113 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
109717052 TATGTATATC
109717062 ATATATTA-TCTATTATATTATTTATGT
1 ATATATTATTC-ATTATATTATTTATGT
*
109717089 TTATATTATTCATTATATTATTTAT
1 ATATATTATTCATTATATTATTTAT
109717114 AATTTTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 21 0.91
28 2 0.09
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.62
Consensus pattern (27 bp):
ATATATTATTCATTATATTATTTATGT
Found at i:109718522 original size:26 final size:27
Alignment explanation
Indices: 109718473--109718527 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 27
109718463 ATAAGCGTTT
109718473 TGTTGAGATTAGGCACATAAATGGCTTG
1 TGTTGAGATTAGGCACAT-AATGGCTTG
*
109718501 TGTTGAGATTAGGCACAT-ATGGTTTG
1 TGTTGAGATTAGGCACATAATGGCTTG
109718527 T
1 T
109718528 TAGAATGGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 8 0.31
28 18 0.69
ACGTcount: A:0.25, C:0.09, G:0.29, T:0.36
Consensus pattern (27 bp):
TGTTGAGATTAGGCACATAATGGCTTG
Found at i:109722855 original size:39 final size:38
Alignment explanation
Indices: 109722767--109722907 Score: 228
Period size: 39 Copynumber: 3.6 Consensus size: 38
109722757 ATAAAGTATG
*
109722767 GTTTTAATTAATAATAAAAACAAAATAGTATGGAGGAATG
1 GTTTTAATTAATAAT-AAAACAAAATAGTATGG-GGAATA
109722807 GTTTTAATTAATAATGAAAACAAAATAGTATGGGGAATA
1 GTTTTAATTAATAAT-AAAACAAAATAGTATGGGGAATA
*
109722846 GTTTTAATTAATAATAAAACAAAATAGTATGGGGGAGTA
1 GTTTTAATTAATAATAAAACAAAATAGTAT-GGGGAATA
109722885 GTTTTAATTAATAATAAAACAAA
1 GTTTTAATTAATAATAAAACAAA
109722908 GTAACATAGG
Statistics
Matches: 97, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
38 15 0.15
39 50 0.52
40 32 0.33
ACGTcount: A:0.50, C:0.03, G:0.16, T:0.31
Consensus pattern (38 bp):
GTTTTAATTAATAATAAAACAAAATAGTATGGGGAATA
Found at i:109727393 original size:13 final size:14
Alignment explanation
Indices: 109727375--109727404 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
109727365 TTTACTTTCC
109727375 AGAGA-GGTAGAAA
1 AGAGAGGGTAGAAA
109727388 AGAGAGGGTAGAAA
1 AGAGAGGGTAGAAA
109727402 AGA
1 AGA
109727405 AAATCTGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.53, C:0.00, G:0.40, T:0.07
Consensus pattern (14 bp):
AGAGAGGGTAGAAA
Found at i:109744724 original size:1 final size:1
Alignment explanation
Indices: 109744718--109744763 Score: 74
Period size: 1 Copynumber: 46.0 Consensus size: 1
109744708 GCAAAGTCCA
* *
109744718 GGGGGGGGGGGGGTGGGGGGGGGGCGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
109744764 TGGGTCGCGT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.00, C:0.02, G:0.96, T:0.02
Consensus pattern (1 bp):
G
Found at i:109745737 original size:38 final size:38
Alignment explanation
Indices: 109745680--109745805 Score: 191
Period size: 38 Copynumber: 3.3 Consensus size: 38
109745670 AGTATGGTTT
*
109745680 ATTAATAATAAAAACAAAATAGTATGGGGAATGGTTTTA
1 ATTAATAAT-AAAACAAAATAGTATGGGGAATAGTTTTA
* *
109745719 ATTAATAATGAAACAAAATAGTATGGAGAATAGTTTTA
1 ATTAATAATAAAACAAAATAGTATGGGGAATAGTTTTA
* *
109745757 ATTAATAGTAAAACAAAATAGTATGGGGAGTAGTTTTA
1 ATTAATAATAAAACAAAATAGTATGGGGAATAGTTTTA
109745795 A-TAATAATAAA
1 ATTAATAATAAA
109745806 CAAGTAGCAT
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
37 9 0.11
38 61 0.77
39 9 0.11
ACGTcount: A:0.50, C:0.02, G:0.17, T:0.31
Consensus pattern (38 bp):
ATTAATAATAAAACAAAATAGTATGGGGAATAGTTTTA
Found at i:109757111 original size:20 final size:19
Alignment explanation
Indices: 109757072--109757111 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
109757062 TCCCCTATTG
*
109757072 TTTGAAAAATTTTCTAAGT
1 TTTGAAAAATTTCCTAAGT
*
109757091 TTTGTAAAAATTTCCTGAGT
1 TTTG-AAAAATTTCCTAAGT
109757111 T
1 T
109757112 GTCGGTTTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.47
Consensus pattern (19 bp):
TTTGAAAAATTTCCTAAGT
Found at i:109758191 original size:25 final size:25
Alignment explanation
Indices: 109758130--109758192 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
109758120 AAGCTCATGC
* *
109758130 GAGCCA-ATAGCGGGTAGCTCCGAA
1 GAGCCATATATCGGGAAGCTCCGAA
109758154 GAGCCAT-TAATCGGGAAGCTCCGAA
1 GAGCCATAT-ATCGGGAAGCTCCGAA
*
109758179 TAGCCATATATCGG
1 GAGCCATATATCGG
109758193 AAAGTTCAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
24 7 0.21
25 25 0.76
26 1 0.03
ACGTcount: A:0.30, C:0.24, G:0.29, T:0.17
Consensus pattern (25 bp):
GAGCCATATATCGGGAAGCTCCGAA
Found at i:109758232 original size:25 final size:25
Alignment explanation
Indices: 109758152--109758233 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
109758142 GGTAGCTCCG
* * *
109758152 AAGAGCCATTAATCGGGAAGCTC-CG
1 AAGAGCCATT-ATCGGAAAGATCACA
* *
109758177 AATAGCCATATATCGGAAAGTTCA-A
1 AAGAGCCAT-TATCGGAAAGATCACA
**
109758202 GCGAGCCATTATCGGAAAGATCACA
1 AAGAGCCATTATCGGAAAGATCACA
109758227 AAGAGCC
1 AAGAGCC
109758234 TTGAATCGGG
Statistics
Matches: 44, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
24 13 0.30
25 30 0.68
26 1 0.02
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (25 bp):
AAGAGCCATTATCGGAAAGATCACA
Found at i:109760580 original size:21 final size:20
Alignment explanation
Indices: 109760551--109760590 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
109760541 ACAAAACTTG
109760551 CATAACTATCATCAAACATT
1 CATAACTATCATCAAACATT
*
109760571 CATAATCTATCATTAAACAT
1 CATAA-CTATCATCAAACAT
109760591 CAAAATACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.45, C:0.23, G:0.00, T:0.33
Consensus pattern (20 bp):
CATAACTATCATCAAACATT
Found at i:109761726 original size:21 final size:21
Alignment explanation
Indices: 109761685--109761726 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
109761675 GAATTTAACA
*
109761685 TCAATTTAATACAATTTACAT
1 TCAATTTAATACAATTCACAT
* *
109761706 TCAATTTAGTCCAATTCACAT
1 TCAATTTAATACAATTCACAT
109761727 CTTAGACAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.19, G:0.02, T:0.40
Consensus pattern (21 bp):
TCAATTTAATACAATTCACAT
Found at i:109763056 original size:17 final size:18
Alignment explanation
Indices: 109763036--109763074 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
109763026 TTAATACAAT
109763036 ATATAAAT-TATTTTTTA
1 ATATAAATATATTTTTTA
*
109763053 ATAT-TATATATTTTTTA
1 ATATAAATATATTTTTTA
109763070 ATATA
1 ATATA
109763075 TTATTTGTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 2 0.11
17 17 0.89
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
ATATAAATATATTTTTTA
Found at i:109766525 original size:2 final size:2
Alignment explanation
Indices: 109766518--109766548 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
109766508 TAAACATGTA
*
109766518 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
109766549 CCTAAACAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:109770781 original size:9 final size:9
Alignment explanation
Indices: 109770769--109770800 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
109770759 ACAAATATTA
109770769 AAAATAAAC
1 AAAATAAAC
109770778 AAAATAAAC
1 AAAATAAAC
109770787 AAAATAAAC
1 AAAATAAAC
109770796 AAAAT
1 AAAAT
109770801 GCACCAAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.78, C:0.09, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAATAAAC
Found at i:109773913 original size:86 final size:87
Alignment explanation
Indices: 109773758--109773930 Score: 339
Period size: 86 Copynumber: 2.0 Consensus size: 87
109773748 AACAGGCTCT
109773758 CATTTGATGCCATGTGATGTGAGCAGCCACTATCCACAAGCCAACTGCATTTGGATTTGCTTGTG
1 CATTTGATGCCATGTGATGTGAGCAGCCACTATCCACAAGCCAACTGCATTTGGATTTGCTTGTG
109773823 GTTGTAGAACATGAGGCAGTGA
66 GTTGTAGAACATGAGGCAGTGA
109773845 CATTTGATG-CATGTGATGTGAGCAGCCACTATCCACAAGCCAACTGCATTTGGATTTGCTTGTG
1 CATTTGATGCCATGTGATGTGAGCAGCCACTATCCACAAGCCAACTGCATTTGGATTTGCTTGTG
109773909 GTTGTAGAACATGAGGCAGTGA
66 GTTGTAGAACATGAGGCAGTGA
109773931 AGACATGCTC
Statistics
Matches: 86, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
86 77 0.90
87 9 0.10
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (87 bp):
CATTTGATGCCATGTGATGTGAGCAGCCACTATCCACAAGCCAACTGCATTTGGATTTGCTTGTG
GTTGTAGAACATGAGGCAGTGA
Found at i:109775269 original size:9 final size:9
Alignment explanation
Indices: 109775255--109775285 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
109775245 CTATCATTAC
109775255 AAATAAACA
1 AAATAAACA
109775264 AAATAAACA
1 AAATAAACA
109775273 AAATAAACA
1 AAATAAACA
109775282 AAAT
1 AAAT
109775286 GCACCAAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.77, C:0.10, G:0.00, T:0.13
Consensus pattern (9 bp):
AAATAAACA
Found at i:109780522 original size:93 final size:93
Alignment explanation
Indices: 109780409--109780580 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
109780399 CGCCCATAAG
* *
109780409 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
109780474 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
109780502 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
109780567 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
109780581 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:109780577 original size:46 final size:46
Alignment explanation
Indices: 109780402--109780577 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
109780392 TGTAACCCGC
* * *
109780402 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
109780448 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
109780498 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
109780541 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
109780578 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:109788056 original size:93 final size:93
Alignment explanation
Indices: 109787942--109788113 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
109787932 CGCCCATAAG
* * *
109787942 CGAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
109788007 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
109788035 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
109788100 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
109788114 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:109788110 original size:46 final size:46
Alignment explanation
Indices: 109787935--109788110 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
109787925 TGTAACCCGC
* * * *
109787935 CCATAAGCGAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
109787981 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
109788031 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
109788074 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
109788111 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.56
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:109788129 original size:46 final size:46
Alignment explanation
Indices: 109787984--109788122 Score: 144
Period size: 47 Copynumber: 3.0 Consensus size: 46
109787974 TTCGCATCCA
109787984 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATC
* * * * *
109788032 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA--
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATC
109788077 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
109788123 CTAGTGACAT
Statistics
Matches: 75, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
44 8 0.11
45 2 0.03
46 28 0.37
47 30 0.40
48 2 0.03
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
Found at i:109790420 original size:6 final size:6
Alignment explanation
Indices: 109790409--109790441 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
109790399 GTGAAAGGGG
109790409 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTT
109790442 TTCCCAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTCTT
Found at i:109797919 original size:22 final size:22
Alignment explanation
Indices: 109797889--109797931 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
109797879 CTTTAGCCAT
109797889 TTTTATTTTTA-TTGCAATTTAA
1 TTTTATTTTTATTTG-AATTTAA
*
109797911 TTTTGTTTTTATTTGAATTTA
1 TTTTATTTTTATTTGAATTTA
109797932 CTAACTTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.23, C:0.02, G:0.07, T:0.67
Consensus pattern (22 bp):
TTTTATTTTTATTTGAATTTAA
Found at i:109806552 original size:31 final size:30
Alignment explanation
Indices: 109806514--109806576 Score: 99
Period size: 31 Copynumber: 2.1 Consensus size: 30
109806504 ATTGAGTCTA
*
109806514 TTTATCTTTATGTTTATTTTTACTTTTTGTT
1 TTTATCTTTATGTTTATTTTTA-TTTTTATT
*
109806545 TTTATCTTTATTTTTATTTTTATTTTTATT
1 TTTATCTTTATGTTTATTTTTATTTTTATT
109806575 TT
1 TT
109806577 GTTTTGTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 9 0.30
31 21 0.70
ACGTcount: A:0.14, C:0.05, G:0.03, T:0.78
Consensus pattern (30 bp):
TTTATCTTTATGTTTATTTTTATTTTTATT
Found at i:109806587 original size:6 final size:6
Alignment explanation
Indices: 109806514--109806576 Score: 81
Period size: 6 Copynumber: 10.3 Consensus size: 6
109806504 ATTGAGTCTA
* * * *
109806514 TTTATC TTTATG TTTATT TTTACTT TTTGTT TTTATC TTTATT TTTATT
1 TTTATT TTTATT TTTATT TTTA-TT TTTATT TTTATT TTTATT TTTATT
109806563 TTTATT TTTATT TT
1 TTTATT TTTATT TT
109806577 GTTTTGTTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
6 45 0.90
7 5 0.10
ACGTcount: A:0.14, C:0.05, G:0.03, T:0.78
Consensus pattern (6 bp):
TTTATT
Found at i:109808797 original size:17 final size:17
Alignment explanation
Indices: 109808755--109808797 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
109808745 GTGGACATTA
109808755 TAATTTATGAAAATGTT
1 TAATTTATGAAAATGTT
*
109808772 AAATTTATGAAAATGTT
1 TAATTTATGAAAATGTT
*
109808789 TAATATATG
1 TAATTTATG
109808798 TTTATTCAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (17 bp):
TAATTTATGAAAATGTT
Found at i:109810909 original size:8 final size:8
Alignment explanation
Indices: 109810896--109810935 Score: 53
Period size: 8 Copynumber: 4.6 Consensus size: 8
109810886 TTATGTTTAG
109810896 TATATTAT
1 TATATTAT
109810904 TATATTAT
1 TATATTAT
109810912 TATATTATAT
1 TATA-T-TAT
109810922 TATATTAT
1 TATATTAT
109810930 ATATAT
1 -TATAT
109810936 AAACTAAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
8 15 0.52
9 7 0.24
10 7 0.24
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
TATATTAT
Found at i:109812199 original size:15 final size:15
Alignment explanation
Indices: 109812179--109812235 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
109812169 CGATGAATTT
109812179 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
109812194 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
109812209 ATTGAATTTATATTG
1 ATTGAATTTATATTG
109812224 ATTGAA-TTATAT
1 ATTGAATTTATAT
109812236 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:109812646 original size:23 final size:22
Alignment explanation
Indices: 109812620--109812672 Score: 72
Period size: 21 Copynumber: 2.4 Consensus size: 22
109812610 AGGCACTTTA
*
109812620 TGTGTCGTATATCAGATACCTCG
1 TGTGTCGT-TATCAGACACCTCG
*
109812643 TGTGTCG-TATCAGGCACCTCG
1 TGTGTCGTTATCAGACACCTCG
109812664 TGTGTCGTT
1 TGTGTCGTT
109812673 TTAGGCACTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 19 0.70
22 1 0.04
23 7 0.26
ACGTcount: A:0.15, C:0.23, G:0.26, T:0.36
Consensus pattern (22 bp):
TGTGTCGTTATCAGACACCTCG
Found at i:109812678 original size:21 final size:21
Alignment explanation
Indices: 109812637--109812694 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
109812627 TATATCAGAT
109812637 ACCTCGTGTGTCGTATCAGGC
1 ACCTCGTGTGTCGTATCAGGC
* *
109812658 ACCTCGTGTGTCGTTTTAGGC
1 ACCTCGTGTGTCGTATCAGGC
* **
109812679 ACTTTATGTGTCGTAT
1 ACCTCGTGTGTCGTAT
109812695 ACTGATCAGG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.14, C:0.22, G:0.26, T:0.38
Consensus pattern (21 bp):
ACCTCGTGTGTCGTATCAGGC
Found at i:109812877 original size:18 final size:19
Alignment explanation
Indices: 109812856--109812900 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
109812846 ATGAAACGAG
109812856 AAATTGAAT-TGAAATTGA
1 AAATTGAATATGAAATTGA
*
109812874 AAATT-TATATGAAATTGA
1 AAATTGAATATGAAATTGA
109812892 AAATATGAA
1 AAAT-TGAA
109812901 CCAAAGGTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 2 0.09
18 18 0.82
19 1 0.05
20 1 0.05
ACGTcount: A:0.53, C:0.00, G:0.13, T:0.33
Consensus pattern (19 bp):
AAATTGAATATGAAATTGA
Found at i:109817247 original size:8 final size:8
Alignment explanation
Indices: 109817234--109817273 Score: 53
Period size: 8 Copynumber: 4.6 Consensus size: 8
109817224 TTATGTTTAG
109817234 TATATTAT
1 TATATTAT
109817242 TATATTAT
1 TATATTAT
109817250 TATATTATAT
1 TATA-T-TAT
109817260 TATATTAT
1 TATATTAT
109817268 ATATAT
1 -TATAT
109817274 AAACTAAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
8 15 0.52
9 7 0.24
10 7 0.24
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
TATATTAT
Found at i:109818062 original size:16 final size:17
Alignment explanation
Indices: 109818041--109818076 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
109818031 ATAAAATAAT
*
109818041 AATATTTT-ATTTAAAA
1 AATATTTTAATATAAAA
109818057 AATATTTTAATATAAAA
1 AATATTTTAATATAAAA
109818074 AAT
1 AAT
109818077 GTATTGTACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AATATTTTAATATAAAA
Found at i:109830095 original size:6 final size:6
Alignment explanation
Indices: 109830052--109830172 Score: 58
Period size: 6 Copynumber: 20.0 Consensus size: 6
109830042 TAATTAATTA
* * * * *
109830052 ATTTATT ATTCTT ATTCTT ATTCTT ATTCTT ATATTTT ATTTTT -TTATAT
1 ATTT-TT ATTTTT ATTTTT ATTTTT ATTTTT AT-TTTT ATTTTT ATT-TTT
*
109830102 ATTTTT -TTATATT -TTTTT ATATTTT -TTTAT ATTTTT A---TT ATTTTT
1 ATTTTT ATT-T-TT ATTTTT AT-TTTT ATTTTT ATTTTT ATTTTT ATTTTT
*
109830147 ATTTTACT ATTTTT ATTTCT ATTTTT
1 ATTTT--T ATTTTT ATTTTT ATTTTT
109830173 TTAATTTTTT
Statistics
Matches: 93, Mismatches: 8, Indels: 27
0.73 0.06 0.21
Matches are distributed among these distances:
3 3 0.03
5 9 0.10
6 57 0.61
7 18 0.19
8 6 0.06
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (6 bp):
ATTTTT
Found at i:109830097 original size:8 final size:8
Alignment explanation
Indices: 109830086--109830183 Score: 58
Period size: 8 Copynumber: 11.6 Consensus size: 8
109830076 TATTCTTATA
109830086 TTTTATTT
1 TTTTATTT
109830094 TTTTATATAT
1 TTTTAT-T-T
*
109830104 TTTT-TTA
1 TTTTATTT
*
109830111 TATT-TTT
1 TTTTATTT
*
109830118 TTATATTT
1 TTTTATTT
*
109830126 TTTTATAT
1 TTTTATTT
109830134 TTTTATTAT
1 TTTTATT-T
109830143 TTTTATTT
1 TTTTATTT
109830151 TACTATT-TTT
1 T--T-TTATTT
109830161 ATTTCTATTT
1 -TTT-TATTT
*
109830171 TTTTAATT
1 TTTTATTT
109830179 TTTTA
1 TTTTA
109830184 CTATTATCAT
Statistics
Matches: 71, Mismatches: 9, Indels: 20
0.71 0.09 0.20
Matches are distributed among these distances:
7 7 0.10
8 34 0.48
9 15 0.21
10 12 0.17
11 3 0.04
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTATTT
Found at i:109830106 original size:12 final size:12
Alignment explanation
Indices: 109830089--109830175 Score: 66
Period size: 11 Copynumber: 7.8 Consensus size: 12
109830079 TCTTATATTT
109830089 TATTTTTTTATA
1 TATTTTTTTATA
109830101 TA-TTTTTT-TA
1 TATTTTTTTATA
109830111 TA-TTTTTT-TA
1 TATTTTTTTATA
109830121 TATTTTTTTATA
1 TATTTTTTTATA
*
109830133 T-TTTTATTAT-
1 TATTTTTTTATA
109830143 T-TTTATTTTACTA
1 TATTT-TTTTA-TA
* *
109830156 T-TTTTATT-TC
1 TATTTTTTTATA
109830166 TATTTTTTTA
1 TATTTTTTTA
109830176 ATTTTTTACT
Statistics
Matches: 63, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
10 20 0.32
11 30 0.48
12 9 0.14
13 4 0.06
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (12 bp):
TATTTTTTTATA
Found at i:109830157 original size:14 final size:14
Alignment explanation
Indices: 109830134--109830172 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
109830124 TTTTTTATAT
*
109830134 TTTTATTATTTTTA
1 TTTTACTATTTTTA
109830148 TTTTACTATTTTTA
1 TTTTACTATTTTTA
109830162 -TTT-CTATTTTT
1 TTTTACTATTTTT
109830173 TTAATTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 8 0.33
13 3 0.12
14 13 0.54
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTACTATTTTTA
Found at i:109830157 original size:17 final size:15
Alignment explanation
Indices: 109830075--109830182 Score: 59
Period size: 15 Copynumber: 7.1 Consensus size: 15
109830065 ATTCTTATTC
109830075 TTATTCTTATATTTTAT
1 TTATT-TTATATTTT-T
*
109830092 TTTTTTATATATTTTT
1 TTATTT-TATATTTTT
109830108 TTATATTT-T-TTTATAT
1 TTAT-TTTATATTT-T-T
109830124 TT-TTTTATATTTTT
1 TTATTTTATATTTTT
*
109830138 ATTATTTT-TATTTTA
1 -TTATTTTATATTTTT
*
109830153 CTATTTT-TATTTCTAT
1 TTATTTTATATTT-T-T
109830169 TT-TTTTA-ATTTTT
1 TTATTTTATATTTTT
109830182 T
1 T
109830183 ACTATTATCA
Statistics
Matches: 74, Mismatches: 6, Indels: 26
0.70 0.06 0.25
Matches are distributed among these distances:
13 2 0.03
14 19 0.26
15 22 0.30
16 17 0.23
17 14 0.19
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (15 bp):
TTATTTTATATTTTT
Found at i:109830161 original size:9 final size:8
Alignment explanation
Indices: 109830076--109830148 Score: 53
Period size: 8 Copynumber: 9.1 Consensus size: 8
109830066 TTCTTATTCT
*
109830076 TATTCTTA
1 TATTTTTA
109830084 TA-TTTTA
1 TATTTTTA
*
109830091 TTTTTTTA
1 TATTTTTA
*
109830099 TATATTT-
1 TATTTTTA
*
109830106 T-TTTATA
1 TATTTTTA
*
109830113 TTTTTTTA
1 TATTTTTA
109830121 TATTTTTTTA
1 TA--TTTTTA
109830131 TATTTTTA
1 TATTTTTA
109830139 TTATTTTTA
1 -TATTTTTA
109830148 T
1 T
109830149 TTTACTATTT
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
6 3 0.06
7 7 0.14
8 25 0.49
9 8 0.16
10 8 0.16
ACGTcount: A:0.22, C:0.01, G:0.00, T:0.77
Consensus pattern (8 bp):
TATTTTTA
Found at i:109830170 original size:35 final size:31
Alignment explanation
Indices: 109830086--109830182 Score: 73
Period size: 29 Copynumber: 3.4 Consensus size: 31
109830076 TATTCTTATA
*
109830086 TTTTATTTTTTTATATAT-TTTTTTATATTT
1 TTTTATTTTTTTATATATATTTTCTATATTT
* *
109830116 TTTTATATTTTT-T-TATATTTT-TAT-TAT
1 TTTTATTTTTTTATATATATTTTCTATATTT
** * *
109830143 TTTTATTTTACTATTTTTA-TTTCTAT-TTT
1 TTTTATTTTTTTATATATATTTTCTATATTT
*
109830172 TTTAATTTTTT
1 TTTTATTTTTT
109830183 ACTATTATCA
Statistics
Matches: 53, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
27 11 0.21
28 10 0.19
29 21 0.40
30 11 0.21
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (31 bp):
TTTTATTTTTTTATATATATTTTCTATATTT
Found at i:109830180 original size:20 final size:21
Alignment explanation
Indices: 109830086--109830181 Score: 101
Period size: 20 Copynumber: 4.6 Consensus size: 21
109830076 TATTCTTATA
* *
109830086 TTTTATTTTTTTA-TATATTT
1 TTTTATATTTTTATTTTATTT
*
109830106 TTTTATATTTTT-TTATATTT
1 TTTTATATTTTTATTTTATTT
109830126 TTTTATATTTTTATTATT-TTT
1 TTTTATATTTTTATT-TTATTT
109830147 ATTTTACTATTTTTATTTCTATTT
1 -TTTTA-TATTTTTATTT-TATTT
109830171 TTTTA-ATTTTT
1 TTTTATATTTTT
109830182 TACTATTATC
Statistics
Matches: 67, Mismatches: 2, Indels: 13
0.82 0.02 0.16
Matches are distributed among these distances:
20 30 0.45
21 11 0.16
22 7 0.10
23 16 0.24
24 3 0.04
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTATATTTTTATTTTATTT
Found at i:109830237 original size:3 final size:3
Alignment explanation
Indices: 109830229--109830254 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
109830219 ATCATTGAGT
109830229 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
109830255 TATCTTTCTT
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:109831273 original size:11 final size:11
Alignment explanation
Indices: 109831257--109831286 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
109831247 CCATTGTTCT
109831257 AAAAAAAATGA
1 AAAAAAAATGA
*
109831268 AAAAAAAGTGA
1 AAAAAAAATGA
109831279 AAAAAAAA
1 AAAAAAAA
109831287 ATTATGTTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (11 bp):
AAAAAAAATGA
Found at i:109834646 original size:44 final size:43
Alignment explanation
Indices: 109834495--109834657 Score: 181
Period size: 43 Copynumber: 3.8 Consensus size: 43
109834485 AGCTCGTACA
* ** **
109834495 ATGCCAACGTCCTAGATGTGGTCTTACATGT-AATCAAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACATAAATCAAATAT-G
*
109834538 ATGCC-ACTGTCCCAGACATGGTCTTACAC-GAAATCAAATATG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACATAAATCAAATATG
*
109834580 ATGCCAACGTCCTAGACATGGTCTTACACATAAATCATAAGT-TG
1 ATGCCAACGTCCCAGACATGGTCTTACACATAAATCA-AA-TATG
*
109834624 ATGCCAACGTCCCAGACGTGGTCTTACACGATAA
1 ATGCCAACGTCCCAGACATGGTCTTACAC-ATAA
109834658 CACATATCGG
Statistics
Matches: 104, Mismatches: 9, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
42 28 0.27
43 40 0.38
44 31 0.30
45 5 0.05
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.26
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACATAAATCAAATATG
Found at i:109834646 original size:86 final size:85
Alignment explanation
Indices: 109834495--109834654 Score: 218
Period size: 86 Copynumber: 1.9 Consensus size: 85
109834485 AGCTCGTACA
** **
109834495 ATGCCAACGTCCTAGATGTGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGACATGGT
1 ATGCCAACGTCCTAGACATGGTCTTACACATAATCAAATATCGATGCCACTGTCCCAGACATGGT
109834560 CTTACACGAAATCAAATATG
66 CTTACACGAAATCAAATATG
*
109834580 ATGCCAACGTCCTAGACATGGTCTTACACATAAATCATAAGT-T-GATGCCAAC-GTCCCAGACG
1 ATGCCAACGTCCTAGACATGGTCTTACACAT-AATCA-AA-TATCGATGCC-ACTGTCCCAGACA
109834642 TGGTCTTACACGA
62 TGGTCTTACACGA
109834655 TAACACATAT
Statistics
Matches: 66, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
85 27 0.41
86 33 0.50
87 5 0.08
88 1 0.02
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (85 bp):
ATGCCAACGTCCTAGACATGGTCTTACACATAATCAAATATCGATGCCACTGTCCCAGACATGGT
CTTACACGAAATCAAATATG
Found at i:109835909 original size:12 final size:12
Alignment explanation
Indices: 109835892--109835937 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
109835882 TACAGTGCAC
109835892 CTATTCTTTCTT
1 CTATTCTTTCTT
109835904 CTATTCTTTCTT
1 CTATTCTTTCTT
* *
109835916 TTTTTCTTTCTT
1 CTATTCTTTCTT
109835928 -T-TTCTTTCTT
1 CTATTCTTTCTT
109835938 AATTTTGATT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
10 9 0.28
11 1 0.03
12 22 0.69
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.74
Consensus pattern (12 bp):
CTATTCTTTCTT
Found at i:109846493 original size:24 final size:25
Alignment explanation
Indices: 109846457--109846504 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
109846447 TTTAAAGACT
* *
109846457 TTTTATTTATTATTTATATTTTTAC
1 TTTTATCTATTATTTATATATTTAC
109846482 TTTTATCT-TTATTTATATATTTA
1 TTTTATCTATTATTTATATATTTA
109846505 AAGTACTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (25 bp):
TTTTATCTATTATTTATATATTTAC
Found at i:109848644 original size:61 final size:61
Alignment explanation
Indices: 109848465--109848654 Score: 256
Period size: 61 Copynumber: 3.1 Consensus size: 61
109848455 GTGGGAAATC
* * * * * ** *
109848465 AACACGGCCTGGGCTCCCTCACATGGGTAGTTCACACGCCCGTGTAGTTTTAGCAAACTCT
1 AACACGGCCTAGACTTCCTTACACGGGTAGACCACACGCCCGTGTAGTTTTAGCAGACTCT
*
109848526 AACACGGCCTAGACTTCCTTACACGAGTAGACCACACGCCCGTGTAGTTTTAGCAGACTCT
1 AACACGGCCTAGACTTCCTTACACGGGTAGACCACACGCCCGTGTAGTTTTAGCAGACTCT
* * *
109848587 AACACGGCCTAGACTTCCTTACACGGGTAGACCACACGCCCGTGT-CTATTTAACAGACTCG
1 AACACGGCCTAGACTTCCTTACACGGGTAGACCACACGCCCGTGTAGT-TTTAGCAGACTCT
109848648 AACACGG
1 AACACGG
109848655 GTTGAAGCAC
Statistics
Matches: 115, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
60 1 0.01
61 114 0.99
ACGTcount: A:0.25, C:0.32, G:0.21, T:0.22
Consensus pattern (61 bp):
AACACGGCCTAGACTTCCTTACACGGGTAGACCACACGCCCGTGTAGTTTTAGCAGACTCT
Found at i:109871332 original size:24 final size:24
Alignment explanation
Indices: 109871273--109871334 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 24
109871263 ACCTATTAAA
109871273 AATATTATTTTTTTCTCCACCTTG
1 AATATTATTTTTTTCTCCACCTTG
109871297 AATATCTGTATTTTTTTCTCCACCTTG
1 AATA--T-TATTTTTTTCTCCACCTTG
109871324 AATATTATTTT
1 AATATTATTTT
109871335 AAAAAATACA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
24 10 0.29
25 1 0.03
26 1 0.03
27 23 0.66
ACGTcount: A:0.23, C:0.18, G:0.05, T:0.55
Consensus pattern (24 bp):
AATATTATTTTTTTCTCCACCTTG
Found at i:109876310 original size:26 final size:26
Alignment explanation
Indices: 109876281--109876388 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
109876271 TGGTACAAAT
*
109876281 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
109876307 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
109876333 TGATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
109876359 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
109876385 TGAT
1 TGAT
109876389 GGGCATTTCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Done.