Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: 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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 349 of 373
Found at i:116292599 original size:77 final size:77
Alignment explanation
Indices: 116292504--116292664 Score: 259
Period size: 77 Copynumber: 2.1 Consensus size: 77
116292494 TTTCAAATAT
* * *
116292504 TTATAGTGTTCCAATAACTATAAATGAATGAGTGCAATTAATCAAAAGATTATACTACTTGATTT
1 TTATAATGTTCCAATAACTAAAAATCAATGAGTGCAATTAATCAAAAGATTATACTACTTGATTT
116292569 TTTGAAAAAGAA
66 TTTGAAAAAGAA
* * * *
116292581 TTATAATGTTCCACTAACTAAAAATCAATGGGTGTACTTAATCAAAAGATTATACTACTTGATTT
1 TTATAATGTTCCAATAACTAAAAATCAATGAGTGCAATTAATCAAAAGATTATACTACTTGATTT
116292646 TTTGAAAAAGAA
66 TTTGAAAAAGAA
116292658 TTATAAT
1 TTATAAT
116292665 TTTTTGATCA
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
77 77 1.00
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.36
Consensus pattern (77 bp):
TTATAATGTTCCAATAACTAAAAATCAATGAGTGCAATTAATCAAAAGATTATACTACTTGATTT
TTTGAAAAAGAA
Found at i:116300951 original size:17 final size:18
Alignment explanation
Indices: 116300912--116300951 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
116300902 GAGCCCAATT
116300912 AAACCCAATGACTAAACC
1 AAACCCAATGACTAAACC
* *
116300930 TAACCCAAT-ACTAACCC
1 AAACCCAATGACTAAACC
116300947 AAACC
1 AAACC
116300952 TACCCTCGGC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.47, C:0.38, G:0.03, T:0.12
Consensus pattern (18 bp):
AAACCCAATGACTAAACC
Found at i:116302080 original size:12 final size:12
Alignment explanation
Indices: 116302065--116302130 Score: 53
Period size: 12 Copynumber: 5.5 Consensus size: 12
116302055 TTTCGTTTTT
116302065 TTATTATTGTTA
1 TTATTATTGTTA
**
116302077 TTATTATTCCTA
1 TTATTATTGTTA
* * **
116302089 ATATTAGTAATA
1 TTATTATTGTTA
*
116302101 ATATTATT-TCTA
1 TTATTATTGT-TA
116302113 TTATTATTGTTA
1 TTATTATTGTTA
116302125 TTATTA
1 TTATTA
116302131 ATATTCTGGT
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
12 42 0.98
13 1 0.02
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.59
Consensus pattern (12 bp):
TTATTATTGTTA
Found at i:116302182 original size:25 final size:24
Alignment explanation
Indices: 116302140--116302195 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 24
116302130 AATATTCTGG
116302140 TTATTAACTAATTATTTTCAATGTATTA
1 TTATT-ACTAATTATTTT--A-GTATTA
116302168 TTATTACT-ATT-TTTTAGTATTA
1 TTATTACTAATTATTTTAGTATTA
116302190 TTATTA
1 TTATTA
116302196 TACGTAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
22 12 0.43
23 1 0.04
25 4 0.14
26 3 0.11
27 3 0.11
28 5 0.18
ACGTcount: A:0.32, C:0.05, G:0.04, T:0.59
Consensus pattern (24 bp):
TTATTACTAATTATTTTAGTATTA
Found at i:116305314 original size:18 final size:20
Alignment explanation
Indices: 116305277--116305316 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
116305267 ATAATTTAAA
*
116305277 ATATAATTTTATTAATATAT
1 ATATAAATTTATTAATATAT
116305297 ATATAAATTTATTAATATAT
1 ATATAAATTTATTAATATAT
116305317 GTAAAAACAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATATAAATTTATTAATATAT
Found at i:116305423 original size:19 final size:20
Alignment explanation
Indices: 116305399--116305443 Score: 83
Period size: 19 Copynumber: 2.3 Consensus size: 20
116305389 ATTCAAACGT
116305399 CAGAAAAGTAAATCA-TTTC
1 CAGAAAAGTAAATCATTTTC
116305418 CAGAAAAGTAAATCATTTTC
1 CAGAAAAGTAAATCATTTTC
116305438 CAGAAA
1 CAGAAA
116305444 TCATTTTTCG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.49, C:0.16, G:0.11, T:0.24
Consensus pattern (20 bp):
CAGAAAAGTAAATCATTTTC
Found at i:116308690 original size:2 final size:2
Alignment explanation
Indices: 116308683--116308709 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
116308673 TGCTTCAATG
116308683 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
116308710 GTTTCTCATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:116311117 original size:26 final size:26
Alignment explanation
Indices: 116311068--116311118 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
116311058 GACACACTGC
* *
116311068 AGCTCTTCATGAGCTTCTTGATTAAA
1 AGCTCTTCATGAGCTTCCTAATTAAA
**
116311094 AGCTCTTTGTGAGCTTCCTAATTAA
1 AGCTCTTCATGAGCTTCCTAATTAA
116311119 TGGTTCTCTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (26 bp):
AGCTCTTCATGAGCTTCCTAATTAAA
Found at i:116312493 original size:15 final size:16
Alignment explanation
Indices: 116312473--116312506 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
116312463 AATTTTTTAA
116312473 AAATTATAAAAAT-AT
1 AAATTATAAAAATGAT
*
116312488 AAATTATTAAAATGAT
1 AAATTATAAAAATGAT
116312504 AAA
1 AAA
116312507 AATAAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (16 bp):
AAATTATAAAAATGAT
Found at i:116312519 original size:25 final size:26
Alignment explanation
Indices: 116312463--116312521 Score: 72
Period size: 24 Copynumber: 2.4 Consensus size: 26
116312453 ATTTTAATTT
*
116312463 AATTTT-TTAAAAATTATAAAAATATA
1 AATTTTATT-AAAATGATAAAAATATA
116312489 AA--TTATTAAAATGATAAAAATA-A
1 AATTTTATTAAAATGATAAAAATATA
116312512 AATTTTATTA
1 AATTTTATTA
116312522 TCGTAAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 3 0.10
24 16 0.55
25 8 0.28
26 2 0.07
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.41
Consensus pattern (26 bp):
AATTTTATTAAAATGATAAAAATATA
Found at i:116315678 original size:5 final size:5
Alignment explanation
Indices: 116315668--116315692 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
116315658 AAATGTTTTG
116315668 TATTT TATTT TATTT TATTT TATTT
1 TATTT TATTT TATTT TATTT TATTT
116315693 GGTATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TATTT
Found at i:116326063 original size:46 final size:46
Alignment explanation
Indices: 116326007--116326182 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
116325997 TGGTTGAGCA
116326007 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
116326053 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
116326098 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
116326146 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
116326183 GCAGGTTACA
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
45 3 0.03
46 64 0.58
47 29 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:116326163 original size:93 final size:93
Alignment explanation
Indices: 116326004--116326174 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
116325994 GGATGGTTGA
* *
116326004 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
116326069 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
116326097 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
116326162 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
116326175 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:116329491 original size:54 final size:54
Alignment explanation
Indices: 116329409--116329517 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 54
116329399 AGGTAAAAAT
*
116329409 TAAATCCTTCTTGTTAAGAGTGAGTAGGCTCCTTTGGGAGAAGTCTTTGAAGTG
1 TAAATCCTTCTTGTTAAGAGTAAGTAGGCTCCTTTGGGAGAAGTCTTTGAAGTG
116329463 TAAATCCTTCTTGTTAAGAGTAAGTAGGCTCCTTTGGGAGAAGTCTTTGAAGTG
1 TAAATCCTTCTTGTTAAGAGTAAGTAGGCTCCTTTGGGAGAAGTCTTTGAAGTG
116329517 T
1 T
116329518 CGTTTGCTGG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.25, C:0.13, G:0.27, T:0.36
Consensus pattern (54 bp):
TAAATCCTTCTTGTTAAGAGTAAGTAGGCTCCTTTGGGAGAAGTCTTTGAAGTG
Found at i:116348421 original size:30 final size:32
Alignment explanation
Indices: 116348370--116348430 Score: 99
Period size: 30 Copynumber: 1.9 Consensus size: 32
116348360 TTATGCTATT
116348370 TTTTGAATTTTTATGATTTTTTTATAAATTTCC
1 TTTTGAATTTTTA-GATTTTTTTATAAATTTCC
116348403 TTTT-AATTTTTA-ATTTTTTTATAAATTT
1 TTTTGAATTTTTAGATTTTTTTATAAATTT
116348431 TAAATTATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
30 16 0.57
32 8 0.29
33 4 0.14
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.67
Consensus pattern (32 bp):
TTTTGAATTTTTAGATTTTTTTATAAATTTCC
Found at i:116351950 original size:23 final size:23
Alignment explanation
Indices: 116351924--116351967 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
116351914 ATTAACGAAT
* *
116351924 CAAATATTAAAATATAAATTTGC
1 CAAACATTAAAACATAAATTTGC
*
116351947 CAAACATTAAAGCATAAATTT
1 CAAACATTAAAACATAAATTT
116351968 TGTTGTATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.52, C:0.11, G:0.05, T:0.32
Consensus pattern (23 bp):
CAAACATTAAAACATAAATTTGC
Found at i:116355531 original size:7 final size:7
Alignment explanation
Indices: 116355519--116355548 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
116355509 GAACGATTGA
116355519 TTTATTT
1 TTTATTT
116355526 TTTATTT
1 TTTATTT
116355533 TTTATTT
1 TTTATTT
116355540 TTTATTT
1 TTTATTT
116355547 TT
1 TT
116355549 GCAAATTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTATTT
Found at i:116355939 original size:30 final size:33
Alignment explanation
Indices: 116355899--116355979 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 33
116355889 AGACTATATC
*
116355899 TTTATAATTTTTAAAAGA-TTAAA-T-TAATTT
1 TTTATTATTTTTAAAAGAGTTAAAGTATAATTT
*
116355929 TTTATTATTTTT-AGAGAGTTAAAGTATAATTT
1 TTTATTATTTTTAAAAGAGTTAAAGTATAATTT
116355961 TATTATTATTAATTTAAAA
1 T-TTATTATT--TTTAAAA
116355980 TTTTATAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
29 4 0.10
30 16 0.39
31 1 0.02
32 7 0.17
33 8 0.20
35 3 0.07
36 2 0.05
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (33 bp):
TTTATTATTTTTAAAAGAGTTAAAGTATAATTT
Found at i:116357096 original size:23 final size:23
Alignment explanation
Indices: 116357069--116357112 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
116357059 TTCTAAAATT
116357069 TTAAAATCTGAAAAATAAAAGAA
1 TTAAAATCTGAAAAATAAAAGAA
* *
116357092 TTAAATTCTTAAAAATAAAAG
1 TTAAAATCTGAAAAATAAAAG
116357113 TACAAGGATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.61, C:0.05, G:0.07, T:0.27
Consensus pattern (23 bp):
TTAAAATCTGAAAAATAAAAGAA
Found at i:116360084 original size:6 final size:6
Alignment explanation
Indices: 116360075--116360105 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
116360065 GGTTGAAATT
116360075 GATGCA GATGCA GATGCA GATGCA GATGCA G
1 GATGCA GATGCA GATGCA GATGCA GATGCA G
116360106 TCCTGAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.32, C:0.16, G:0.35, T:0.16
Consensus pattern (6 bp):
GATGCA
Found at i:116360768 original size:18 final size:17
Alignment explanation
Indices: 116360740--116360774 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
116360730 ATTATTAAAA
*
116360740 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
116360757 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
116360775 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:116361024 original size:45 final size:44
Alignment explanation
Indices: 116360934--116361028 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 44
116360924 TTACACCTCT
* *
116360934 ATTACATTCAACCAAACACAGGATTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACACAGGATTACTATTACACATCTATTCC
*** *
116360978 ATTACATTCAACCAAACAGTTGATTTGCTATTACACATCTATTCC
1 ATTACATTCAACCAAACACAGGA-TTACTATTACACATCTATTCC
116361023 ATTACA
1 ATTACA
116361029 CCTCTATTCC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 20 0.45
45 24 0.55
ACGTcount: A:0.35, C:0.26, G:0.06, T:0.33
Consensus pattern (44 bp):
ATTACATTCAACCAAACACAGGATTACTATTACACATCTATTCC
Found at i:116361028 original size:16 final size:16
Alignment explanation
Indices: 116361009--116361060 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
116360999 GATTTGCTAT
*
116361009 TACACATCTATTCCAT
1 TACACATCTATTCCAA
*
116361025 TACACCTCTATTCCAA
1 TACACATCTATTCCAA
* *
116361041 TACACTTCTAATCCAA
1 TACACATCTATTCCAA
116361057 TACA
1 TACA
116361061 GCGAACCAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.35, C:0.33, G:0.00, T:0.33
Consensus pattern (16 bp):
TACACATCTATTCCAA
Found at i:116363889 original size:15 final size:15
Alignment explanation
Indices: 116363871--116363899 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
116363861 TTTAGAATAA
116363871 AAATTTTATAAAATT
1 AAATTTTATAAAATT
116363886 AAATTTTATAAAAT
1 AAATTTTATAAAAT
116363900 AATACTAGTA
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:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AAATTTTATAAAATT
Found at i:116364465 original size:16 final size:16
Alignment explanation
Indices: 116364426--116364466 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
116364416 TATTTAAAAA
116364426 TATAATTTTATCATTT
1 TATAATTTTATCATTT
116364442 TA-ATATTTTAT-ATCTT
1 TATA-ATTTTATCAT-TT
116364458 TATAATTTT
1 TATAATTTT
116364467 TTAAAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 3 0.14
16 18 0.82
17 1 0.05
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (16 bp):
TATAATTTTATCATTT
Found at i:116366366 original size:28 final size:27
Alignment explanation
Indices: 116366325--116366397 Score: 87
Period size: 26 Copynumber: 2.7 Consensus size: 27
116366315 CAGGCGCGAC
*
116366325 TTTTTTATATTAAAATATATATTTTTTGT
1 TTTTTTATAATAAAATAT-TATTTTTT-T
116366354 TTTTTTA-AATAAAATATTATTTTTTT
1 TTTTTTATAATAAAATATTATTTTTTT
* *
116366380 ATTTTTATTA-AAAATATT
1 TTTTTTATAATAAAATATT
116366398 TAAATTTATA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
26 15 0.38
27 9 0.22
28 9 0.22
29 7 0.17
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (27 bp):
TTTTTTATAATAAAATATTATTTTTTT
Found at i:116367011 original size:21 final size:21
Alignment explanation
Indices: 116366974--116367013 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
116366964 TGACAAATGC
*
116366974 TTTTATTAAAATTATTTAAAA
1 TTTTATTAAAATAATTTAAAA
116366995 TTTTAATTAAAA-AATTTAA
1 TTTT-ATTAAAATAATTTAA
116367014 CACCCACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TTTTATTAAAATAATTTAAAA
Found at i:116367311 original size:27 final size:27
Alignment explanation
Indices: 116367249--116367311 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
116367239 AGATAGGCAC
* *
116367249 AGGCTCAACTAGTCGCGCCTATTAGAA
1 AGGCGCAACTAGTCGCGCCTATGAGAA
* *
116367276 AGGCTCAACTAGTCGCGCCTCTGAGATA
1 AGGCGCAACTAGTCGCGCCTATGAGA-A
116367304 A-GCGCAAC
1 AGGCGCAAC
116367312 CTGTATTCGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
27 30 0.94
28 2 0.06
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.19
Consensus pattern (27 bp):
AGGCGCAACTAGTCGCGCCTATGAGAA
Found at i:116367401 original size:27 final size:26
Alignment explanation
Indices: 116367348--116367404 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
116367338 TACTAATCTG
* *
116367348 AAAATAAAAAATAATATTTTATTTAA
1 AAAACAAAAAATAATATTTTATGTAA
116367374 AAAACAAAAAA-AATATTTTTAATGTAA
1 AAAACAAAAAATAATA-TTTT-ATGTAA
116367401 AAAA
1 AAAA
116367405 AAGAGTCGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 4 0.15
26 14 0.52
27 9 0.33
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (26 bp):
AAAACAAAAAATAATATTTTATGTAA
Found at i:116367600 original size:21 final size:21
Alignment explanation
Indices: 116367576--116367615 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
116367566 TTTATTAGGT
116367576 AAATAATAAACAACATTTTAC
1 AAATAATAAACAACATTTTAC
* *
116367597 AAATAATAAATATCATTTT
1 AAATAATAAACAACATTTT
116367616 GAGAGTGTTT
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:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (21 bp):
AAATAATAAACAACATTTTAC
Found at i:116367813 original size:3 final size:3
Alignment explanation
Indices: 116367805--116367841 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
116367795 CCAACCATCC
116367805 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
116367842 TATTCCCCTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:116369825 original size:107 final size:107
Alignment explanation
Indices: 116369639--116369840 Score: 377
Period size: 107 Copynumber: 1.9 Consensus size: 107
116369629 AAGCTTTAAG
*
116369639 AGGATATTTGGCTGTTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
116369704 TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTTAAAA
66 TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTTAAAA
* *
116369746 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
116369811 TTTTCCAAACGCGAAATATTGCCTTATTTA
66 TTTTCCAAACGCGAAATATTGCCTTATTTA
116369841 GAAAAATTTT
Statistics
Matches: 92, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
107 92 1.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.30
Consensus pattern (107 bp):
AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTTAAAA
Found at i:116370446 original size:3 final size:3
Alignment explanation
Indices: 116370438--116370464 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
116370428 AAGCATAAAC
116370438 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
116370465 CATTGGAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:116372448 original size:177 final size:177
Alignment explanation
Indices: 116372135--116372989 Score: 1467
Period size: 177 Copynumber: 4.8 Consensus size: 177
116372125 TGCCATCGTC
* * * *
116372135 GATCGGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCATCGTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
* * * * *
116372200 TTCCTACCAATATAGGAAGACAGGACCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGAT
66 TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
* * *
116372265 AAGATCTGCTTTCTGCGATCTACTTTGCCACCAATATGAGAAGACAA
131 AAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAA
* * *
116372312 GATCTGTTTTCTGCGATCTACTTTGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
116372377 TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
116372442 AAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAA
131 AAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAA
** * * *
116372489 GATCTATTTTCTGCGATCTATTTCGCCACCAATATGGGAAGACAAGATCTGCATCTCCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
*
116372554 TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAT
66 TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
*
116372619 AAGATCTGCTTTCTTCGATCTGCTTCGCCACCAATATGGGAAGACAA
131 AAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAA
*
116372666 GATCTGCTTTCTTCGACCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
116372731 TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
*
116372796 AAGATCTGCTTTCTTCGATCTGCTTCGCCACCAATATGGGAAGACAA
131 AAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAA
*
116372843 GATCTGCTTTCTTCGACCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
116372908 TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACAATGAAGA
66 TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATAC-ATGAAGA
*
116372973 CAAGATCTACTTTCTTC
130 CAAGATCTGCTTTCTTC
116372990 TTCAATCTAT
Statistics
Matches: 648, Mismatches: 29, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
177 625 0.96
178 23 0.04
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (177 bp):
GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
AAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAA
Found at i:116372989 original size:45 final size:43
Alignment explanation
Indices: 116372135--116372989 Score: 759
Period size: 45 Copynumber: 19.3 Consensus size: 43
116372125 TGCCATCGTC
* * *
116372135 GATCGGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAA
1 GATCTGCTTTCTTCGATCTACTT--CCACCAATATAGGAAGACAA
* * * *
116372180 GATCTGC-ATCGTCGATCCACTTCCTACCAATATAGGAAGACAG
1 GATCTGCTTTCTTCGATCTACTTCC-ACCAATATAGGAAGACAA
* * * * * * *
116372223 GACCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGATAA
1 GATCTGCTTTCTTCGATCTACTTC-CACCAATATAGGAAGACAA
*
116372267 GATCTGCTTTCTGCGATCTACTTTGCCACCAATAT-GAGAAGACAA
1 GATCTGCTTTCTTCGATCTAC-TT-CCACCAATATAG-GAAGACAA
* * *
116372312 GATCTGTTTTCTGCGATCTACTTTGCCACCAATATGGGAAGACAA
1 GATCTGCTTTCTTCGATCTAC-TT-CCACCAATATAGGAAGACAA
* * * *
116372357 GATCTGC-ATCTTCGATCCACTTCCTACCAATATAGGAAGATAG
1 GATCTGCTTTCTTCGATCTACTTCC-ACCAATATAGGAAGACAA
* * * * *
116372400 GATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGACAA
1 GATCTGCTTTCTTCGATCTACTTC-CACCAATATAGGAAGACAA
*
116372444 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAA
1 GATCTGCTTTCTTCGATCTACTT--CCACCAATATAGGAAGACAA
** * * *
116372489 GATCTATTTTCTGCGATCTATTTCGCCACCAATATGGGAAGACAA
1 GATCTGCTTTCTTCGATCTACTT--CCACCAATATAGGAAGACAA
* * * * *
116372534 GATCTGC-ATCTCCGATCCACTTCCTACCAATATAGGAAGATAG
1 GATCTGCTTTCTTCGATCTACTTCC-ACCAATATAGGAAGACAA
* * * * * *
116372577 GATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGATAA
1 GATCTGCTTTCTTCGATCTACTTC-CACCAATATAGGAAGACAA
* *
116372621 GATCTGCTTTCTTCGATCTGCTTCGCCACCAATATGGGAAGACAA
1 GATCTGCTTTCTTCGATCTACTT--CCACCAATATAGGAAGACAA
* *
116372666 GATCTGCTTTCTTCGACCTACTTCGCCACCAATATGGGAAGACAA
1 GATCTGCTTTCTTCGATCTACTT--CCACCAATATAGGAAGACAA
* * * *
116372711 GATCTGC-ATCTTCGATCCACTTCCTACCAATATAGGAAGATAG
1 GATCTGCTTTCTTCGATCTACTTCC-ACCAATATAGGAAGACAA
* * * * *
116372754 GATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGACAA
1 GATCTGCTTTCTTCGATCTACTTC-CACCAATATAGGAAGACAA
* *
116372798 GATCTGCTTTCTTCGATCTGCTTCGCCACCAATATGGGAAGACAA
1 GATCTGCTTTCTTCGATCTACTT--CCACCAATATAGGAAGACAA
* *
116372843 GATCTGCTTTCTTCGACCTACTTCGCCACCAATATGGGAAGACAA
1 GATCTGCTTTCTTCGATCTACTT--CCACCAATATAGGAAGACAA
* * * *
116372888 GATCTGC-ATCTTCGATCCACTTCCTACCAATATAGGAAGATAG
1 GATCTGCTTTCTTCGATCTACTTCC-ACCAATATAGGAAGACAA
* * * * *
116372931 GATCTGATATCTTCGATCTACTTCACGCCAATACAATGAAGACAA
1 GATCTGCTTTCTTCGATCTACTTC-CACCAATA-TAGGAAGACAA
*
116372976 GATCTACTTTCTTC
1 GATCTGCTTTCTTC
116372990 TTCAATCTAT
Statistics
Matches: 671, Mismatches: 113, Indels: 52
0.80 0.14 0.06
Matches are distributed among these distances:
42 10 0.01
43 107 0.16
44 266 0.40
45 283 0.42
46 5 0.01
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (43 bp):
GATCTGCTTTCTTCGATCTACTTCCACCAATATAGGAAGACAA
Found at i:116398397 original size:11 final size:11
Alignment explanation
Indices: 116398381--116398417 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
116398371 TGTTTGTCTA
116398381 AATTTTTTTAG
1 AATTTTTTTAG
*
116398392 AA-TTTTCTA-
1 AATTTTTTTAG
116398401 AATTTTTTTAG
1 AATTTTTTTAG
116398412 AATTTT
1 AATTTT
116398418 ACCTTGACCT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 2 0.09
10 12 0.55
11 8 0.36
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (11 bp):
AATTTTTTTAG
Found at i:116398402 original size:20 final size:20
Alignment explanation
Indices: 116398377--116398417 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
116398367 GCTTTGTTTG
116398377 TCTAAATTTTTTTAGAATTT
1 TCTAAATTTTTTTAGAATTT
116398397 TCTAAATTTTTTTAGAATTT
1 TCTAAATTTTTTTAGAATTT
116398417 T
1 T
116398418 ACCTTGACCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.61
Consensus pattern (20 bp):
TCTAAATTTTTTTAGAATTT
Found at i:116404524 original size:14 final size:14
Alignment explanation
Indices: 116404505--116404546 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
116404495 AAATTGTAGA
116404505 TATAATTTTTGTAT
1 TATAATTTTTGTAT
*
116404519 TATAA-TTTAGTCAT
1 TATAATTTTTGT-AT
*
116404533 TTTAATTTTTGTAT
1 TATAATTTTTGTAT
116404547 GTTTTTATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
13 5 0.22
14 13 0.57
15 5 0.22
ACGTcount: A:0.29, C:0.02, G:0.07, T:0.62
Consensus pattern (14 bp):
TATAATTTTTGTAT
Found at i:116405538 original size:22 final size:21
Alignment explanation
Indices: 116405508--116405563 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
116405498 CTAAAAATTT
* *
116405508 AATTTAATTTTTTAAAAATAA
1 AATTAAATTTTTAAAAAATAA
*
116405529 AATATAAATTATTAAAAAATAA
1 AAT-TAAATTTTTAAAAAATAA
*
116405551 AATTATATTTTTA
1 AATTAAATTTTTA
116405564 CTGTTATACA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
21 11 0.38
22 18 0.62
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
AATTAAATTTTTAAAAAATAA
Found at i:116406560 original size:22 final size:22
Alignment explanation
Indices: 116406530--116406578 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
116406520 AACGTATTAT
* *
116406530 AAAAGTTATGATAAATATAATC
1 AAAACTTATGATAAAAATAATC
*
116406552 AAAACTTATGATAAAAATACTC
1 AAAACTTATGATAAAAATAATC
116406574 AAAAC
1 AAAAC
116406579 AGAATTCATG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.57, C:0.10, G:0.06, T:0.27
Consensus pattern (22 bp):
AAAACTTATGATAAAAATAATC
Found at i:116406638 original size:22 final size:22
Alignment explanation
Indices: 116406611--116406689 Score: 68
Period size: 22 Copynumber: 3.3 Consensus size: 22
116406601 CAAAAACTAT
116406611 ATTTTAAATTATTATTTAAATG
1 ATTTTAAATTATTATTTAAATG
* ** *
116406633 ATTTTAATTTAGTTAGTGCAAAAATTAT
1 ATTTTAAATTA-TTA-T--TTAAA-T-G
116406661 ATTTTAAATTATTATTTAAATG
1 ATTTTAAATTATTATTTAAATG
116406683 ATTTTAA
1 ATTTTAA
116406690 TTTAGTTTGA
Statistics
Matches: 43, Mismatches: 8, Indels: 12
0.68 0.13 0.19
Matches are distributed among these distances:
22 17 0.40
23 4 0.09
24 4 0.09
26 4 0.09
27 4 0.09
28 10 0.23
ACGTcount: A:0.41, C:0.01, G:0.06, T:0.52
Consensus pattern (22 bp):
ATTTTAAATTATTATTTAAATG
Found at i:116406649 original size:50 final size:50
Alignment explanation
Indices: 116406595--116406696 Score: 195
Period size: 50 Copynumber: 2.0 Consensus size: 50
116406585 CATGATAAAA
116406595 TTAGTGCAAAAACTATATTTTAAATTATTATTTAAATGATTTTAATTTAG
1 TTAGTGCAAAAACTATATTTTAAATTATTATTTAAATGATTTTAATTTAG
*
116406645 TTAGTGCAAAAATTATATTTTAAATTATTATTTAAATGATTTTAATTTAG
1 TTAGTGCAAAAACTATATTTTAAATTATTATTTAAATGATTTTAATTTAG
116406695 TT
1 TT
116406697 TGATAAGATT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.39, C:0.03, G:0.08, T:0.50
Consensus pattern (50 bp):
TTAGTGCAAAAACTATATTTTAAATTATTATTTAAATGATTTTAATTTAG
Found at i:116410068 original size:16 final size:16
Alignment explanation
Indices: 116410047--116410078 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
116410037 ATTGTCAAAT
116410047 TGATGGTTAAAAACCG
1 TGATGGTTAAAAACCG
116410063 TGATGGTTAAAAACCG
1 TGATGGTTAAAAACCG
116410079 ATATAGCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (16 bp):
TGATGGTTAAAAACCG
Found at i:116410157 original size:20 final size:20
Alignment explanation
Indices: 116410129--116410206 Score: 93
Period size: 20 Copynumber: 3.8 Consensus size: 20
116410119 CATGTATATC
116410129 TAGTCTTTAATAGTAGTTAG
1 TAGTCTTTAATAGTAGTTAG
* **
116410149 TAGTTTTTAATAGTAGAAATG
1 TAGTCTTTAATAGTAGTTA-G
*
116410170 AAAGTCTTTAATAGTAGTTAG
1 -TAGTCTTTAATAGTAGTTAG
*
116410191 TAGTTTTTAATAGTAG
1 TAGTCTTTAATAGTAG
116410207 AAATGAAAGT
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
20 30 0.64
21 2 0.04
22 15 0.32
ACGTcount: A:0.35, C:0.03, G:0.19, T:0.44
Consensus pattern (20 bp):
TAGTCTTTAATAGTAGTTAG
Found at i:116410182 original size:22 final size:22
Alignment explanation
Indices: 116410154--116410217 Score: 78
Period size: 20 Copynumber: 3.0 Consensus size: 22
116410144 GTTAGTAGTT
116410154 TTTAATAGTAGAAATGAAAGTC
1 TTTAATAGTAGAAATGAAAGTC
** * *
116410176 TTTAATAGTAGTTA-G-TAGTT
1 TTTAATAGTAGAAATGAAAGTC
116410196 TTTAATAGTAGAAATGAAAGTC
1 TTTAATAGTAGAAATGAAAGTC
116410218 ATTTTTAATA
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
20 15 0.47
21 2 0.06
22 15 0.47
ACGTcount: A:0.41, C:0.03, G:0.19, T:0.38
Consensus pattern (22 bp):
TTTAATAGTAGAAATGAAAGTC
Found at i:116410189 original size:42 final size:42
Alignment explanation
Indices: 116410130--116410217 Score: 176
Period size: 42 Copynumber: 2.1 Consensus size: 42
116410120 ATGTATATCT
116410130 AGTCTTTAATAGTAGTTAGTAGTTTTTAATAGTAGAAATGAA
1 AGTCTTTAATAGTAGTTAGTAGTTTTTAATAGTAGAAATGAA
116410172 AGTCTTTAATAGTAGTTAGTAGTTTTTAATAGTAGAAATGAA
1 AGTCTTTAATAGTAGTTAGTAGTTTTTAATAGTAGAAATGAA
116410214 AGTC
1 AGTC
116410218 ATTTTTAATA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.38, C:0.03, G:0.19, T:0.40
Consensus pattern (42 bp):
AGTCTTTAATAGTAGTTAGTAGTTTTTAATAGTAGAAATGAA
Found at i:116410228 original size:25 final size:25
Alignment explanation
Indices: 116410152--116410228 Score: 73
Period size: 25 Copynumber: 3.4 Consensus size: 25
116410142 TAGTTAGTAG
116410152 TTTTTAATAGTAGAAATGAAAGTC-
1 TTTTTAATAGTAGAAATGAAAGTCA
*
116410176 --TTTAATAGTAG---T--TAGT-A
1 TTTTTAATAGTAGAAATGAAAGTCA
116410193 GTTTTTAATAGTAGAAATGAAAGTCA
1 -TTTTTAATAGTAGAAATGAAAGTCA
116410219 TTTTTAATAG
1 TTTTTAATAG
116410229 AATGACGAGT
Statistics
Matches: 41, Mismatches: 2, Indels: 19
0.66 0.03 0.31
Matches are distributed among these distances:
17 3 0.07
19 1 0.02
20 11 0.27
22 11 0.27
23 1 0.02
25 13 0.32
26 1 0.02
ACGTcount: A:0.39, C:0.03, G:0.17, T:0.42
Consensus pattern (25 bp):
TTTTTAATAGTAGAAATGAAAGTCA
Found at i:116419079 original size:31 final size:31
Alignment explanation
Indices: 116419044--116419119 Score: 75
Period size: 31 Copynumber: 2.4 Consensus size: 31
116419034 GTCAAGATTG
*
116419044 AAATTTTAAAATTT-TAAAAGTATAATAATTA
1 AAATTTTAAAATTTGGAAAAGTATAA-AATTA
* *
116419075 AAA-TTGACCAATTTGGAAAAGTATAAAATTA
1 AAATTTTA-AAATTTGGAAAAGTATAAAATTA
*
116419106 AAATTCTTCAAATT
1 AAATT-TTAAAATT
116419120 GAAGTATAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
30 3 0.09
31 16 0.46
32 15 0.43
33 1 0.03
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.37
Consensus pattern (31 bp):
AAATTTTAAAATTTGGAAAAGTATAAAATTA
Found at i:116440330 original size:107 final size:107
Alignment explanation
Indices: 116440144--116440345 Score: 359
Period size: 107 Copynumber: 1.9 Consensus size: 107
116440134 AAGCTTTAAG
* *
116440144 AGGATATTTGGTTGTTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
116440209 TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTTAAAA
66 TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTTAAAA
* * *
116440251 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTTGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
116440316 TTTTCCAAACGCGAAATATTGCCTTATTTA
66 TTTTCCAAACGCGAAATATTGCCTTATTTA
116440346 GAAAAATTTT
Statistics
Matches: 90, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
107 90 1.00
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.31
Consensus pattern (107 bp):
AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTTAAAA
Found at i:116440950 original size:3 final size:3
Alignment explanation
Indices: 116440942--116440980 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
116440932 AAGCATAAAC
116440942 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
116440981 CATTGGAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:116443320 original size:158 final size:160
Alignment explanation
Indices: 116443105--116443424 Score: 590
Period size: 158 Copynumber: 2.0 Consensus size: 160
116443095 ATATGATGGA
116443105 TTTGAAATTCATGTGTTTGAAAAAAATTGAAAGTTCATAAAATTCAAAAGAAAATAGCATGTAGT
1 TTTGAAATTCATGTGTTTGAAAAAAATTGAAAGTTCATAAAATTCAAAAGAAAATAGCATGTAGT
116443170 ATACGTGAATTGTCATGCGAGATATCATGCTTAAAAA-AT-TTTTTTTAGTCAATATTTCTATTA
66 ATACGTGAATTGTCATGCGAGATATCATGCTTAAAAATATGTTTTTTTAGTCAATATTTCTATTA
* *
116443233 AAAAATAATAATTTGGCTCTTTTTGAAAGG
131 AAAAACAATAATTCGGCTCTTTTTGAAAGG
116443263 TTTGAAATTCATGTGTTTGAAAAAAATTGAAAGTTCATAAAATTCAAAAGAAAATAGCATGTAGT
1 TTTGAAATTCATGTGTTTGAAAAAAATTGAAAGTTCATAAAATTCAAAAGAAAATAGCATGTAGT
* *
116443328 ATACGTGAATTGTCATGCGAGATATCATGCTTAAAAATTTGTTTTTTTGGTCAATATTTCTATTA
66 ATACGTGAATTGTCATGCGAGATATCATGCTTAAAAATATGTTTTTTTAGTCAATATTTCTATTA
116443393 AAAAACAATAATTCGGCTCTTTTTGAAAGG
131 AAAAACAATAATTCGGCTCTTTTTGAAAGG
116443423 TT
1 TT
116443425 GATAGTCAAA
Statistics
Matches: 156, Mismatches: 4, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
158 102 0.65
159 1 0.01
160 53 0.34
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.38
Consensus pattern (160 bp):
TTTGAAATTCATGTGTTTGAAAAAAATTGAAAGTTCATAAAATTCAAAAGAAAATAGCATGTAGT
ATACGTGAATTGTCATGCGAGATATCATGCTTAAAAATATGTTTTTTTAGTCAATATTTCTATTA
AAAAACAATAATTCGGCTCTTTTTGAAAGG
Found at i:116443640 original size:31 final size:31
Alignment explanation
Indices: 116443590--116443703 Score: 183
Period size: 31 Copynumber: 3.7 Consensus size: 31
116443580 AACTATGGGT
** * *
116443590 AAGTTTTCATTTTGGTCACTAAACTATTCGA
1 AAGTTTTCATTTAAGTCACTAAAATATTCAA
*
116443621 AAGTTTTCATTTAATTCACTAAAATATTCAA
1 AAGTTTTCATTTAAGTCACTAAAATATTCAA
116443652 AAGTTTTCATTTAAGTCACTAAAATATTCAA
1 AAGTTTTCATTTAAGTCACTAAAATATTCAA
116443683 AAGTTTTCATTTAAGTCACTA
1 AAGTTTTCATTTAAGTCACTA
116443704 GGTTGTTAAG
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 77 1.00
ACGTcount: A:0.37, C:0.14, G:0.08, T:0.41
Consensus pattern (31 bp):
AAGTTTTCATTTAAGTCACTAAAATATTCAA
Found at i:116447246 original size:21 final size:21
Alignment explanation
Indices: 116447198--116447262 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
116447188 ATAATGATGT
116447198 TAATACATAAATAGAAATAGAA
1 TAATA-ATAAATAGAAATAGAA
* *
116447220 -ATATAATACATAGAAATATAA
1 TA-ATAATAAATAGAAATAGAA
*
116447241 TAATAATGGAAATATAAATAGA
1 TAATAAT--AAATAGAAATAGA
116447263 TAAATAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
21 20 0.59
22 4 0.12
23 10 0.29
ACGTcount: A:0.62, C:0.03, G:0.09, T:0.26
Consensus pattern (21 bp):
TAATAATAAATAGAAATAGAA
Found at i:116447254 original size:17 final size:18
Alignment explanation
Indices: 116447222--116447257 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
116447212 AAATAGAAAT
116447222 ATAATACATAGAAATATA
1 ATAATACATAGAAATATA
*
116447240 ATAATA-ATGGAAATATA
1 ATAATACATAGAAATATA
116447257 A
1 A
116447258 ATAGATAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.28
Consensus pattern (18 bp):
ATAATACATAGAAATATA
Found at i:116447260 original size:18 final size:17
Alignment explanation
Indices: 116447213--116447257 Score: 58
Period size: 15 Copynumber: 2.8 Consensus size: 17
116447203 CATAAATAGA
116447213 AATAGAAATATAAT-A-
1 AATAGAAATATAATAAT
*
116447228 CATAGAAATATAATAAT
1 AATAGAAATATAATAAT
*
116447245 AATGGAAATATAA
1 AATAGAAATATAA
116447258 ATAGATAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 13 0.52
16 1 0.04
17 11 0.44
ACGTcount: A:0.62, C:0.02, G:0.09, T:0.27
Consensus pattern (17 bp):
AATAGAAATATAATAAT
Found at i:116447289 original size:29 final size:29
Alignment explanation
Indices: 116447198--116447290 Score: 70
Period size: 29 Copynumber: 3.2 Consensus size: 29
116447188 ATAATGATGT
* *
116447198 TAATACATAAATAGAAA-TAGA-AATATAA
1 TAATAGATAAATAAAAATTAGAGAA-ATAA
* *
116447226 TACATAGA-AATATAATAATAATG-GAAAT-A
1 TA-ATAGATAA-ATAAAAATTA-GAGAAATAA
116447255 TAAATAGATAAATAAAAATTAGAGAAATAA
1 T-AATAGATAAATAAAAATTAGAGAAATAA
116447285 TAATAG
1 TAATAG
116447291 TATTTGAATA
Statistics
Matches: 50, Mismatches: 6, Indels: 17
0.68 0.08 0.23
Matches are distributed among these distances:
28 5 0.10
29 34 0.68
30 8 0.16
31 3 0.06
ACGTcount: A:0.62, C:0.02, G:0.10, T:0.26
Consensus pattern (29 bp):
TAATAGATAAATAAAAATTAGAGAAATAA
Found at i:116454197 original size:17 final size:18
Alignment explanation
Indices: 116454156--116454200 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
116454146 AAATCTGACT
116454156 ATTCAATCAAACTAATCA
1 ATTCAATCAAACTAATCA
** *
116454174 AACCAAT-AACCTAATCA
1 ATTCAATCAAACTAATCA
116454191 ATTCAATCAA
1 ATTCAATCAA
116454201 TAAATTTATT
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.24
Consensus pattern (18 bp):
ATTCAATCAAACTAATCA
Found at i:116454897 original size:64 final size:64
Alignment explanation
Indices: 116454796--116454924 Score: 258
Period size: 64 Copynumber: 2.0 Consensus size: 64
116454786 CTGTAATGGA
116454796 TTACCTAATTTGATTGCTCCTAATAAATTCAAGAGGAAGTTTTGAAAGCATGACATCACATGAT
1 TTACCTAATTTGATTGCTCCTAATAAATTCAAGAGGAAGTTTTGAAAGCATGACATCACATGAT
116454860 TTACCTAATTTGATTGCTCCTAATAAATTCAAGAGGAAGTTTTGAAAGCATGACATCACATGAT
1 TTACCTAATTTGATTGCTCCTAATAAATTCAAGAGGAAGTTTTGAAAGCATGACATCACATGAT
116454924 T
1 T
116454925 AACTTATTTC
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.33
Consensus pattern (64 bp):
TTACCTAATTTGATTGCTCCTAATAAATTCAAGAGGAAGTTTTGAAAGCATGACATCACATGAT
Found at i:116455854 original size:29 final size:29
Alignment explanation
Indices: 116455790--116455856 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
116455780 ATTTGGCCTT
* * * *
116455790 ATTTGATTCTTTTTAATATTACATAGATTA
1 ATTTGA-TCTATTTAATAATACAGAGACTA
* *
116455820 AATTGATCTATTTAATAATAGAGAGACTA
1 ATTTGATCTATTTAATAATACAGAGACTA
116455849 ATTTGATC
1 ATTTGATC
116455857 AGATCCTTAT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
29 25 0.83
30 5 0.17
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.45
Consensus pattern (29 bp):
ATTTGATCTATTTAATAATACAGAGACTA
Found at i:116460084 original size:109 final size:108
Alignment explanation
Indices: 116459893--116460112 Score: 314
Period size: 109 Copynumber: 2.0 Consensus size: 108
116459883 AAAACCTCTT
* * **
116459893 GAAGGATCCATGAACGGGAGTGAAGATCTCAAGAGCAGCATATCAATGAGAATTGGAGATCGGTT
1 GAAGGATCCATGAACGGGAGTGAAGAGCTCAAGAGCAGCAGATCAATGAGAACCGGAGATCGGTT
* * * * *
116459958 CAAAGCATCGAAGCAGCTTCACTGATCGATACGATGAGTGAGA
66 CAAAGCATCGAAACAGCTTCACGGATCGATACAAAGAGTAAGA
* * * *
116460001 GAAGGATCCATTAACGGGATTGAAGAGCTCGAGAGCAGCAGATCGATTGAGAACCGGAGATCGGT
1 GAAGGATCCATGAACGGGAGTGAAGAGCTCAAGAGCAGCAGATC-AATGAGAACCGGAGATCGGT
116460066 TCAAAGCATCGAAACAGCTTCACGGATCGATACAAAGAGTAAGA
65 TCAAAGCATCGAAACAGCTTCACGGATCGATACAAAGAGTAAGA
116460110 GAA
1 GAA
116460113 CCATGAATAC
Statistics
Matches: 98, Mismatches: 13, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
108 39 0.40
109 59 0.60
ACGTcount: A:0.36, C:0.17, G:0.29, T:0.18
Consensus pattern (108 bp):
GAAGGATCCATGAACGGGAGTGAAGAGCTCAAGAGCAGCAGATCAATGAGAACCGGAGATCGGTT
CAAAGCATCGAAACAGCTTCACGGATCGATACAAAGAGTAAGA
Found at i:116460678 original size:17 final size:17
Alignment explanation
Indices: 116460651--116460692 Score: 75
Period size: 17 Copynumber: 2.4 Consensus size: 17
116460641 CATTTAATAC
116460651 ACACTGATTAAATTTTAA
1 ACAC-GATTAAATTTTAA
116460669 ACACGATTAAATTTTAA
1 ACACGATTAAATTTTAA
116460686 ACACGAT
1 ACACGAT
116460693 CTATATCCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 20 0.83
18 4 0.17
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.33
Consensus pattern (17 bp):
ACACGATTAAATTTTAA
Found at i:116462189 original size:28 final size:28
Alignment explanation
Indices: 116462158--116462214 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
116462148 TCTCCTGTTA
116462158 AAAATTTCAT-CAATTTCTACGGTCAGAC
1 AAAATTTCATAC-ATTTCTACGGTCAGAC
*
116462186 AAAATTTCATACATTTCTACTGTCAGAC
1 AAAATTTCATACATTTCTACGGTCAGAC
116462214 A
1 A
116462215 CTGATCCATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 26 0.96
29 1 0.04
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.33
Consensus pattern (28 bp):
AAAATTTCATACATTTCTACGGTCAGAC
Found at i:116467072 original size:17 final size:16
Alignment explanation
Indices: 116467024--116467081 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 16
116467014 GTGTAGGTTC
116467024 TTAATTTAAAGGTTTAAT
1 TTAA-TTAAA-GTTTAAT
* * *
116467042 TTGATTGAATTTTAGAT
1 TTAATTAAAGTTTA-AT
116467059 TTAATTAAAGTTTAAT
1 TTAATTAAAGTTTAAT
*
116467075 ATAATTA
1 TTAATTA
116467082 TTGAATACGG
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
16 12 0.38
17 17 0.53
18 3 0.09
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (16 bp):
TTAATTAAAGTTTAAT
Found at i:116467206 original size:19 final size:19
Alignment explanation
Indices: 116467184--116467221 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
116467174 TAAAAATAAA
*
116467184 ATATTGAATCTAGTTGACC
1 ATATTGAATCTAATTGACC
116467203 ATATTGAATCTAATTGACC
1 ATATTGAATCTAATTGACC
116467222 GTAATAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (19 bp):
ATATTGAATCTAATTGACC
Found at i:116468446 original size:14 final size:15
Alignment explanation
Indices: 116468427--116468456 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
116468417 TTTTTTCTTA
116468427 TTTATTTATT-TTAT
1 TTTATTTATTATTAT
116468441 TTTATTTATTATTAT
1 TTTATTTATTATTAT
116468456 T
1 T
116468457 AACTTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTATTTATTATTAT
Found at i:116468523 original size:22 final size:22
Alignment explanation
Indices: 116468464--116468535 Score: 92
Period size: 22 Copynumber: 3.1 Consensus size: 22
116468454 ATTAACTTTA
116468464 AAAATTTTGAAATATATA-TTTG
1 AAAATTTT-AAATATATATTTTG
*
116468486 AAATATTTTATTAATATATATTTTT
1 AAA-ATTTTA--AATATATATTTTG
116468511 AAAATTTTAAATATATATTTTG
1 AAAATTTTAAATATATATTTTG
116468533 AAA
1 AAA
116468536 TTACTTTTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
22 19 0.43
23 5 0.11
24 14 0.32
25 6 0.14
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (22 bp):
AAAATTTTAAATATATATTTTG
Found at i:116469070 original size:22 final size:21
Alignment explanation
Indices: 116469037--116469085 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
116469027 TAAAATATTT
*
116469037 AAATATTTAAAAATAATCTTTA
1 AAATATTTAAAAATAAT-TTCA
116469059 AAAT-TTTAAAAAGTAATTTCA
1 AAATATTTAAAAA-TAATTTCA
116469080 AAATAT
1 AAATAT
116469086 ATATTTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (21 bp):
AAATATTTAAAAATAATTTCA
Found at i:116469083 original size:33 final size:34
Alignment explanation
Indices: 116469041--116469128 Score: 94
Period size: 34 Copynumber: 2.6 Consensus size: 34
116469031 ATATTTAAAT
* *
116469041 ATTTAAAAATA-ATCTTTAAAATTTTAAAAAGTA
1 ATTTAAAAATATATATTTAAAATTTAAAAAAGTA
*
116469074 ATTTCAAAATATATATTTAAAATTTAAAAAA-TA
1 ATTTAAAAATATATATTTAAAATTTAAAAAAGTA
116469107 TATATTAATAAA-ATAT-TTTAAA
1 -AT-TTAA-AAATATATATTTAAA
116469129 TATATATTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
33 12 0.26
34 25 0.53
35 7 0.15
36 3 0.06
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (34 bp):
ATTTAAAAATATATATTTAAAATTTAAAAAAGTA
Found at i:116469094 original size:26 final size:23
Alignment explanation
Indices: 116469063--116469150 Score: 81
Period size: 24 Copynumber: 3.7 Consensus size: 23
116469053 TCTTTAAAAT
116469063 TTTAAAAAGTAATTTCAAAATATATA
1 TTTAAAAA-T-ATTT-AAAATATATA
*
116469089 TTT-AAAAT-TTAAAAAATATATA
1 TTTAAAAATATT-TAAAATATATA
* *
116469111 TTAATAAAATATTTTAAATATATA
1 TTTA-AAAATATTTAAAATATATA
*
116469135 TTTAAAAATTTTTAAA
1 TTTAAAAATATTTAAA
116469151 GTTAATAATA
Statistics
Matches: 51, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
22 14 0.27
23 10 0.20
24 18 0.35
25 6 0.12
26 3 0.06
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (23 bp):
TTTAAAAATATTTAAAATATATA
Found at i:116469095 original size:34 final size:33
Alignment explanation
Indices: 116469041--116469129 Score: 92
Period size: 33 Copynumber: 2.7 Consensus size: 33
116469031 ATATTTAAAT
* *
116469041 ATTTAAAAATAATCTTTAAAATTTTAAAAAGTA
1 ATTTAAAAATAATATTTAAAATTTAAAAAAGTA
*
116469074 ATTTCAAAATATATATTTAAAATTTAAAAAA-TA
1 ATTTAAAAATA-ATATTTAAAATTTAAAAAAGTA
* *
116469107 TATATTAATAA-AATATTTTAAAT
1 -AT-TTAAAAATAATATTTAAAAT
116469130 ATATATTTAA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
33 22 0.47
34 20 0.43
35 5 0.11
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (33 bp):
ATTTAAAAATAATATTTAAAATTTAAAAAAGTA
Found at i:116469107 original size:20 final size:22
Alignment explanation
Indices: 116469073--116469114 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
116469063 TTTAAAAAGT
*
116469073 AATTTCAAAATATATAT-TTAA
1 AATTTCAAAAAATATATATTAA
116469094 AATTT-AAAAAATATATATTAA
1 AATTTCAAAAAATATATATTAA
116469115 TAAAATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
AATTTCAAAAAATATATATTAA
Found at i:116469147 original size:22 final size:22
Alignment explanation
Indices: 116469080--116469150 Score: 81
Period size: 22 Copynumber: 3.1 Consensus size: 22
116469070 AGTAATTTCA
**
116469080 AAATATATATTT-AAAATTTAAA
1 AAATATATATTTAAAAATTT-TT
*
116469102 AAATATATATTAATAAAATATTTT
1 AAATATATATTTA-AAAAT-TTTT
116469126 AAATATATATTTAAAAATTTTT
1 AAATATATATTTAAAAATTTTT
116469148 AAA
1 AAA
116469151 GTTAATAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
22 18 0.43
23 5 0.12
24 17 0.40
25 2 0.05
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
AAATATATATTTAAAAATTTTT
Found at i:116472945 original size:26 final size:24
Alignment explanation
Indices: 116472909--116472990 Score: 85
Period size: 26 Copynumber: 3.2 Consensus size: 24
116472899 TTTTTCAACC
*
116472909 TAAATTGTTTTGTATATTAATTATTT
1 TAAATTGTTTT-TATAAT-ATTATTT
* *
116472935 TAAATTG-TTTTATACTATTCACTT
1 TAAATTGTTTTTATAATATT-ATTT
116472959 TAAATTGCTTTTTATAATATCTATTT
1 TAAATTG-TTTTTATAATAT-TATTT
116472985 TAAATT
1 TAAATT
116472991 TATTTTTTAT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
23 3 0.06
24 15 0.31
25 3 0.06
26 26 0.54
27 1 0.02
ACGTcount: A:0.32, C:0.06, G:0.05, T:0.57
Consensus pattern (24 bp):
TAAATTGTTTTTATAATATTATTT
Found at i:116473052 original size:23 final size:23
Alignment explanation
Indices: 116472992--116473058 Score: 66
Period size: 22 Copynumber: 2.9 Consensus size: 23
116472982 TTTTAAATTT
116472992 ATTTTTTATGTATTATTTATTTAAA
1 ATTTTTTATG--TTATTTATTTAAA
* * *
116473017 ATTGTCTCA--TTATTTATTTTAA
1 ATT-TTTTATGTTATTTATTTAAA
116473039 ATTTTTTATGTTATTTATTT
1 ATTTTTTATGTTATTTATTT
116473059 CATTATTTTG
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
21 3 0.09
22 15 0.44
23 10 0.29
25 3 0.09
26 3 0.09
ACGTcount: A:0.27, C:0.03, G:0.04, T:0.66
Consensus pattern (23 bp):
ATTTTTTATGTTATTTATTTAAA
Found at i:116473368 original size:12 final size:12
Alignment explanation
Indices: 116473345--116473379 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
116473335 CCCGACCCAA
*
116473345 TTTTAATATTAT
1 TTTTAATTTTAT
*
116473357 TTTTTATTTTAT
1 TTTTAATTTTAT
116473369 TTTTAATTTTA
1 TTTTAATTTTA
116473380 GTAACTTTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTAATTTTAT
Found at i:116474920 original size:14 final size:16
Alignment explanation
Indices: 116474868--116474922 Score: 51
Period size: 19 Copynumber: 3.4 Consensus size: 16
116474858 ACCAAATTGT
*
116474868 ATTTTTTATTTAATTA
1 ATTTTTTATATAATTA
*
116474884 GATGATTTTTATATAATTT
1 -AT--TTTTTATATAATTA
116474903 ATTTTTTAT-TAA-TA
1 ATTTTTTATATAATTA
116474917 ATTTTT
1 ATTTTT
116474923 ATTTTAAACA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
14 7 0.21
15 3 0.09
16 7 0.21
17 2 0.06
18 2 0.06
19 12 0.36
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (16 bp):
ATTTTTTATATAATTA
Found at i:116479080 original size:15 final size:15
Alignment explanation
Indices: 116479060--116479088 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
116479050 ATGTATAAGT
116479060 GTAACTTTAGTCATG
1 GTAACTTTAGTCATG
116479075 GTAACTTTAGTCAT
1 GTAACTTTAGTCAT
116479089 TACTTGAGAA
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:0.14, G:0.17, T:0.41
Consensus pattern (15 bp):
GTAACTTTAGTCATG
Found at i:116480627 original size:27 final size:27
Alignment explanation
Indices: 116480597--116480669 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 27
116480587 TGTCTTGATT
116480597 TTGTTAGATATTGATTATGTTTCAAGC
1 TTGTTAGATATTGATTATGTTTCAAGC
*
116480624 TTGTTAGATATTGAGTTTATTATGTTTTAAGC
1 TTGTTAGATATT--G---ATTATGTTTCAAGC
*
116480656 TTGTTGGATATTGA
1 TTGTTAGATATTGA
116480670 AATGATTGAC
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
27 13 0.33
29 1 0.03
30 1 0.03
32 24 0.62
ACGTcount: A:0.25, C:0.04, G:0.21, T:0.51
Consensus pattern (27 bp):
TTGTTAGATATTGATTATGTTTCAAGC
Found at i:116481687 original size:22 final size:22
Alignment explanation
Indices: 116481619--116481707 Score: 92
Period size: 22 Copynumber: 4.0 Consensus size: 22
116481609 GATACTTTTA
116481619 ATGTGGTGTAATATTAGTTATGC
1 ATGTGGTGTAATATTAGTTAT-C
** *
116481642 ACT-TGG-ACAATATTGTTGTTATC
1 A-TGTGGTGTAATA-T-TAGTTATC
116481665 ATGTGGTGTAATATTAGTTATC
1 ATGTGGTGTAATATTAGTTATC
*
116481687 ATATGGTGTAATATTAGTTAT
1 ATGTGGTGTAATATTAGTTAT
116481708 GCACTTGGAT
Statistics
Matches: 54, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
22 32 0.59
23 11 0.20
24 11 0.20
ACGTcount: A:0.28, C:0.06, G:0.21, T:0.45
Consensus pattern (22 bp):
ATGTGGTGTAATATTAGTTATC
Found at i:116481767 original size:68 final size:68
Alignment explanation
Indices: 116481622--116481770 Score: 210
Period size: 68 Copynumber: 2.2 Consensus size: 68
116481612 ACTTTTAATG
* * *
116481622 TGGTGTAATATTAGTTATGCACTTGGACAATATTGTTGTTATCATGTGGTGTAATATTAGTTATC
1 TGGTATAATATTAGTTATGCACTTGGACAATATTGTTGTTATCATGTGGTGTAATACTAATTATC
116481687 ATA
66 ATA
* * *
116481690 TGGTGTAATATTAGTTATGCACTTGGATAATGTTGTTGTTATCATGTGGTGTAATACTAATTATG
1 TGGTATAATATTAGTTATGCACTTGGACAATATTGTTGTTATCATGTGGTGTAATACTAATTAT-
* *
116481755 TATT
65 CATA
116481759 TGG-ATAATATTA
1 TGGTATAATATTA
116481771 TTAATTTCTA
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
68 68 0.93
69 5 0.07
ACGTcount: A:0.28, C:0.06, G:0.21, T:0.45
Consensus pattern (68 bp):
TGGTATAATATTAGTTATGCACTTGGACAATATTGTTGTTATCATGTGGTGTAATACTAATTATC
ATA
Found at i:116482196 original size:15 final size:14
Alignment explanation
Indices: 116482166--116482224 Score: 84
Period size: 14 Copynumber: 4.2 Consensus size: 14
116482156 ACAGAAAAGT
116482166 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
116482180 AAATCATTTTTCAAG
1 AAATCA-TTTTCCAG
*
116482195 AAATTATTTTCCAG
1 AAATCATTTTCCAG
116482209 AAATCATTTTCC-G
1 AAATCATTTTCCAG
116482222 AAA
1 AAA
116482225 AACATTTTAC
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
13 4 0.10
14 24 0.60
15 12 0.30
ACGTcount: A:0.39, C:0.17, G:0.07, T:0.37
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:116482230 original size:14 final size:14
Alignment explanation
Indices: 116482170--116482232 Score: 56
Period size: 14 Copynumber: 4.4 Consensus size: 14
116482160 AAAAGTAAAT
*
116482170 CATTTTCCAGAAAT
1 CATTTTCCAGAAAA
* *
116482184 CATTTTTCAAGAAAT
1 CA-TTTTCCAGAAAA
* *
116482199 TATTTTCCAGAAAT
1 CATTTTCCAGAAAA
116482213 CATTTTCC-GAAAAA
1 CATTTTCCAG-AAAA
116482227 CATTTT
1 CATTTT
116482233 ACCTGCAAAC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
13 1 0.02
14 29 0.69
15 12 0.29
ACGTcount: A:0.37, C:0.17, G:0.06, T:0.40
Consensus pattern (14 bp):
CATTTTCCAGAAAA
Found at i:116483164 original size:19 final size:19
Alignment explanation
Indices: 116483140--116483182 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
116483130 AGTACGTCAA
116483140 TTTTAAAACAAAATGAGGG
1 TTTTAAAACAAAATGAGGG
116483159 TTTTAAAACAAAATGAGGG
1 TTTTAAAACAAAATGAGGG
116483178 TTTTA
1 TTTTA
116483183 GGTAATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.44, C:0.05, G:0.19, T:0.33
Consensus pattern (19 bp):
TTTTAAAACAAAATGAGGG
Found at i:116483401 original size:13 final size:13
Alignment explanation
Indices: 116483369--116483402 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
116483359 AACATTTTTT
116483369 TAATTTTAATTAA
1 TAATTTTAATTAA
**
116483382 TGTTTTTAATTAA
1 TAATTTTAATTAA
116483395 TAATTTTA
1 TAATTTTA
116483403 TTTTTGTAAG
Statistics
Matches: 17, Mismatches: 4, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (13 bp):
TAATTTTAATTAA
Found at i:116483765 original size:14 final size:14
Alignment explanation
Indices: 116483746--116483773 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
116483736 ATATAAATAT
116483746 TATATATCAAAAAA
1 TATATATCAAAAAA
116483760 TATATATCAAAAAA
1 TATATATCAAAAAA
116483774 GTTAATTGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (14 bp):
TATATATCAAAAAA
Found at i:116484017 original size:13 final size:13
Alignment explanation
Indices: 116483999--116484026 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
116483989 AAAATATATT
116483999 TATTAATTAAAAA
1 TATTAATTAAAAA
116484012 TATTAATTAAAAA
1 TATTAATTAAAAA
116484025 TA
1 TA
116484027 AAAAAGAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
TATTAATTAAAAA
Found at i:116494135 original size:16 final size:16
Alignment explanation
Indices: 116494109--116494151 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
116494099 CCGATTGAAA
116494109 ACGAGAATTTTTAAAAC
1 ACGA-AATTTTTAAAAC
*
116494126 ACGAAATTTTGAAAAC
1 ACGAAATTTTTAAAAC
116494142 AC-AAATTTTT
1 ACGAAATTTTT
116494152 TTTTAAAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 7 0.29
16 13 0.54
17 4 0.17
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.33
Consensus pattern (16 bp):
ACGAAATTTTTAAAAC
Found at i:116494746 original size:18 final size:17
Alignment explanation
Indices: 116494720--116494773 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
116494710 AATAAGCATA
116494720 ATAATAAATATAATGATAT
1 ATAA-AAATATAAT-ATAT
*
116494739 ATAAAAATAATACTATAT
1 ATAAAAAT-ATAATATAT
*
116494757 ATAAAAGTAT-ATATAT
1 ATAAAAATATAATATAT
116494773 A
1 A
116494774 CGTACAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 6 0.19
17 2 0.06
18 15 0.48
19 8 0.26
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (17 bp):
ATAAAAATATAATATAT
Found at i:116494862 original size:3 final size:3
Alignment explanation
Indices: 116494854--116494884 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
116494844 AGATAGTGAA
*
116494854 AAT AAT AAT AAT AAC AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
116494885 TGTGAAGGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:116494975 original size:26 final size:26
Alignment explanation
Indices: 116494946--116495013 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 26
116494936 ATAAAGGGAT
*
116494946 ATAAATAAATGGTAAAACAAAGTAA-A-
1 ATAAATAAAT-GTAAAA-AAAGAAATAG
**
116494972 ATAAATGTATGTAAAAAAAGAAATAG
1 ATAAATAAATGTAAAAAAAGAAATAG
*
116494998 ATAAATAAATATAAAA
1 ATAAATAAATGTAAAA
116495014 GAAATATAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
24 6 0.18
25 7 0.21
26 21 0.62
ACGTcount: A:0.66, C:0.01, G:0.10, T:0.22
Consensus pattern (26 bp):
ATAAATAAATGTAAAAAAAGAAATAG
Found at i:116495209 original size:29 final size:30
Alignment explanation
Indices: 116495177--116495233 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
116495167 ATTAACAGCG
* *
116495177 TGAAAATGATAA-AATAACAAATATTTAAA
1 TGAAAATAATAAGAACAACAAATATTTAAA
* *
116495206 TGAAGATAATAAGAACAGCAAATATTTA
1 TGAAAATAATAAGAACAACAAATATTTA
116495234 GAAAGTAAGC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 10 0.43
30 13 0.57
ACGTcount: A:0.58, C:0.05, G:0.11, T:0.26
Consensus pattern (30 bp):
TGAAAATAATAAGAACAACAAATATTTAAA
Found at i:116495564 original size:13 final size:14
Alignment explanation
Indices: 116495546--116495575 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
116495536 TTCATCTTTG
116495546 TTATTTTTTATT-T
1 TTATTTTTTATTCT
116495559 TTATTTTTTATTCT
1 TTATTTTTTATTCT
116495573 TTA
1 TTA
116495576 CTTCATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (14 bp):
TTATTTTTTATTCT
Found at i:116503014 original size:21 final size:22
Alignment explanation
Indices: 116502966--116503015 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
116502956 AAATATTTCA
*
116502966 ATTTTCCTTAATTTTCCCTTCT
1 ATTTTCCTCAATTTTCCCTTCT
* *
116502988 -TCTTCCTCAATTTTCTCTT-T
1 ATTTTCCTCAATTTTCCCTTCT
116503008 ATTTTCCT
1 ATTTTCCT
116503016 TGTCATTTCC
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 1 0.04
21 22 0.96
ACGTcount: A:0.12, C:0.28, G:0.00, T:0.60
Consensus pattern (22 bp):
ATTTTCCTCAATTTTCCCTTCT
Found at i:116511110 original size:14 final size:15
Alignment explanation
Indices: 116511078--116511116 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
116511068 TATGATAAGT
*
116511078 ATAATAAATAATAGT
1 ATAATAAATAATAGC
116511093 ATAATAAA-AATAGC
1 ATAATAAATAATAGC
116511107 ATAATAAATA
1 ATAATAAATA
116511117 GTAGGAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (15 bp):
ATAATAAATAATAGC
Found at i:116512490 original size:45 final size:45
Alignment explanation
Indices: 116512422--116512534 Score: 131
Period size: 44 Copynumber: 2.5 Consensus size: 45
116512412 TACGATCTGT
* * * * *
116512422 TCCACTCTTGCTCA-TCGATGATAAAATCTGGTATGTTTAGCCTGC
1 TCCACTCCTGCTCAGT-GAAGATAAAAGCTGATATGTTTAACCTGC
*
116512467 TCCACTCCTGCTCAGTGAAGAT-AAGGCTGATATGTTTAACCTGC
1 TCCACTCCTGCTCAGTGAAGATAAAAGCTGATATGTTTAACCTGC
* *
116512511 TTCACTCCTGCTCAGTAAAGATAA
1 TCCACTCCTGCTCAGTGAAGATAA
116512535 GGTCAATGGT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
44 38 0.66
45 19 0.33
46 1 0.02
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.32
Consensus pattern (45 bp):
TCCACTCCTGCTCAGTGAAGATAAAAGCTGATATGTTTAACCTGC
Found at i:116512517 original size:44 final size:44
Alignment explanation
Indices: 116512453--116512721 Score: 163
Period size: 44 Copynumber: 6.0 Consensus size: 44
116512443 TAAAATCTGG
*
116512453 TATGTTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGA
1 TATGTTTAACCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGA
* * *
116512497 TATGTTTAACCTGCTTCACTCCTGCTCAGTAAAGATAAGG-TCA
1 TATGTTTAACCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGA
* * * * * * * *
116512540 -ATGGTTGGAATCTGCTCCATTGCAGATACA-TGGAGATAAGATTCGTTGAA
1 TAT-GTT-TAACCTGCTCCACTCCTGCT-CAGTGAAGATAAG----GCTG-A
* * * * * * * *
116512590 AACG--TGATCTGCTTCGCTCCTGCTCAGCGAAGATAAGATCT-A
1 TATGTTTAACCTGCTCCACTCCTGCTCAGTGAAGATAAG-GCTGA
* * * *
116512632 CTATGCTTAGCCTGCTCCACCCCTGCTCAGTGAAGATAAGGCTAA
1 -TATGTTTAACCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGA
* * *
116512677 TATGTTTAACCTGTTTCACTCCTGCTCAGTGAAGATAAGGTTGA
1 TATGTTTAACCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGA
116512721 T
1 T
116512722 GGTTGGAATC
Statistics
Matches: 165, Mismatches: 45, Indels: 30
0.69 0.19 0.12
Matches are distributed among these distances:
42 3 0.02
43 7 0.04
44 99 0.60
45 29 0.18
46 2 0.01
47 20 0.12
48 1 0.01
49 1 0.01
50 2 0.01
51 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (44 bp):
TATGTTTAACCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGA
Found at i:116512760 original size:180 final size:180
Alignment explanation
Indices: 116512430--116512852 Score: 625
Period size: 180 Copynumber: 2.4 Consensus size: 180
116512420 GTTCCACTCT
* * * *
116512430 TGCTCATCGATGATAAAATCTGGTATGTTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCT
1 TGCTCAGCGAAGATAAGATCTGCTATGTTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCT
*
116512495 GATATGTTTAACCTGCTTCACTCCTGCTCAGTAAAGATAAGGTCAATGGTTGGAATCTGCTCCAT
66 AATATGTTTAACCTGCTTCACTCCTGCTCAGTAAAGATAAGGTCAATGGTTGGAATCTGCTCCAT
*
116512560 TGCAGATACATGGAGATAAGATTCGTTGAAAACGTGATCTGCT-T-CGCTCC
131 TGCAGATACATGGAGATAAGATTCGTCGAAAACGTGATCTGCTCTGC-CT-C
* * *
116512610 TGCTCAGCGAAGATAAGATCTACTATGCTTAGCCTGCTCCACCCCTGCTCAGTGAAGATAAGGCT
1 TGCTCAGCGAAGATAAGATCTGCTATGTTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCT
* * **
116512675 AATATGTTTAACCTGTTTCACTCCTGCTCAGTGAAGATAAGGTTGATGGTTGGAATCTGCTCCAT
66 AATATGTTTAACCTGCTTCACTCCTGCTCAGTAAAGATAAGGTCAATGGTTGGAATCTGCTCCAT
* * *
116512740 TGCCGATACATGGAGATAAGATTCGTCGAAAATGTGATTTGCTCTGCCTC
131 TGCAGATACATGGAGATAAGATTCGTCGAAAACGTGATCTGCTCTGCCTC
* * ** *
116512790 TGCTCAGCGAAGATAAGATCTGCTGTGTTTAACCTGCTTTACTCCTACTCAGTGAAGATAAGG
1 TGCTCAGCGAAGATAAGATCTGCTATGTTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGG
116512853 TTGATGGTTG
Statistics
Matches: 217, Mismatches: 24, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
180 213 0.98
181 3 0.01
182 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (180 bp):
TGCTCAGCGAAGATAAGATCTGCTATGTTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCT
AATATGTTTAACCTGCTTCACTCCTGCTCAGTAAAGATAAGGTCAATGGTTGGAATCTGCTCCAT
TGCAGATACATGGAGATAAGATTCGTCGAAAACGTGATCTGCTCTGCCTC
Found at i:116512802 original size:135 final size:135
Alignment explanation
Indices: 116512651--116512992 Score: 537
Period size: 135 Copynumber: 2.5 Consensus size: 135
116512641 GCCTGCTCCA
* * *
116512651 CCCCTGCTCAGTGAAGATAAG-GCTAATATGTTTAACCTGTTTCACTCCTGCTCAGTGAAGATAA
1 CCCCTGCTCAGTGAAGATAAGATCTGATGTGTTTAACCTGTTTCACTCCTGCTCAGTGAAGATAA
*
116512715 GGTTGATGGTTGGAATCTGCTCCATTGCCGATACATGGAGATAAGATTCG-TCGAAAATGTGATT
66 GGTTGATGGTTGGAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCT-G-AAATGTGATC
116512779 TGCTCTG
129 TGCTCTG
* * * *
116512786 CCTCTGCTCAGCGAAGATAAGATCTGCTGTGTTTAACCTGCTTT-ACTCCTACTCAGTGAAGATA
1 CCCCTGCTCAGTGAAGATAAGATCTGATGTGTTTAACCTG-TTTCACTCCTGCTCAGTGAAGATA
*
116512850 AGGTTGATGGTTGGAATCTGCTCCATTGTCGATACATGGAGATAAGATTCGCTGAAATGTGATCT
65 AGGTTGATGGTTGGAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCTGAAATGTGATCT
116512915 GCTCTG
130 GCTCTG
*
116512921 CCCCTGCTCAGTGAAGATAAGATCTGATGTGTTTAACCTGCTTCACTCCTGCTCAGTGAAGATAA
1 CCCCTGCTCAGTGAAGATAAGATCTGATGTGTTTAACCTGTTTCACTCCTGCTCAGTGAAGATAA
*
116512986 GGATGAT
66 GGTTGAT
116512993 AAACTCTGTA
Statistics
Matches: 188, Mismatches: 15, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
134 2 0.01
135 98 0.52
136 84 0.45
137 4 0.02
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.31
Consensus pattern (135 bp):
CCCCTGCTCAGTGAAGATAAGATCTGATGTGTTTAACCTGTTTCACTCCTGCTCAGTGAAGATAA
GGTTGATGGTTGGAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCTGAAATGTGATCTG
CTCTG
Found at i:116521013 original size:5 final size:5
Alignment explanation
Indices: 116521003--116521033 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
116520993 ATATGATGTT
116521003 ATGCA ATGCA ATGCA ATGCA ATGCAA ATGCA
1 ATGCA ATGCA ATGCA ATGCA ATGC-A ATGCA
116521034 TGATATGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATGCA
Found at i:116525253 original size:13 final size:15
Alignment explanation
Indices: 116525245--116525286 Score: 68
Period size: 14 Copynumber: 2.9 Consensus size: 15
116525235 ATAATATATA
116525245 AGTATAATAAATAAT
1 AGTATAATAAATAAT
116525260 AGTATAATAAA-AAT
1 AGTATAATAAATAAT
*
116525274 AGCATAATAAATA
1 AGTATAATAAATA
116525287 GTAGGAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (15 bp):
AGTATAATAAATAAT
Found at i:116526873 original size:25 final size:25
Alignment explanation
Indices: 116526839--116526888 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
116526829 TCTGAAAGAA
116526839 GAAGAAGCTTCTATAGACGAATGTC
1 GAAGAAGCTTCTATAGACGAATGTC
116526864 GAAGAAGCTTCTATAGACGAATGTC
1 GAAGAAGCTTCTATAGACGAATGTC
116526889 AGCACAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (25 bp):
GAAGAAGCTTCTATAGACGAATGTC
Found at i:116529124 original size:3 final size:3
Alignment explanation
Indices: 116529116--116529335 Score: 88
Period size: 3 Copynumber: 76.7 Consensus size: 3
116529106 AAAACGATAG
* * * * * *
116529116 TAA TAA TAA TAG TAG TAA AAA TAA AAA TAA T-A TAG TAA TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
116529163 -AA -AA T-A TAA TAA TAA TAA TAA TAG TAA TAA T-A CAA TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
116529207 TAA TAA AAA GGT-A TAA TAA T-A TAT TAGA TAG TAA AAA TAA -AA -AA
1 TAA TAA TAA --TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
* * * * * * *
116529251 TAA AAA TAA -AA AAA TAA AAA TAG TAA TAA -AA -AA TGA TAA TAG TGA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * *
116529296 TAT TAA TAG TAA TAG TAA TAA -AG TAA TAG TAA TAA AAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
116529336 GTACAATGTT
Statistics
Matches: 155, Mismatches: 49, Indels: 26
0.67 0.21 0.11
Matches are distributed among these distances:
2 23 0.15
3 129 0.83
4 3 0.02
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:116529157 original size:26 final size:25
Alignment explanation
Indices: 116529117--116529272 Score: 85
Period size: 26 Copynumber: 6.2 Consensus size: 25
116529107 AAACGATAGT
*
116529117 AATAATA-ATAGTAGTAAAAATAAA
1 AATAATATATAATAGTAAAAATAAA
*
116529141 AATAATATAGTAATAGTAATAAAAAATA
1 AATAATATA-TAATAGTAA-AAATAA-A
* *
116529169 TAATAATAATAATAATAGTAATAAT-AC
1 -AATAAT-AT-ATAATAGTAAAAATAAA
* * *
116529196 AATAGTA-ATAATAATAAAAAGGT-AT
1 AATAATATATAATAGTAAAAA--TAAA
116529221 AATAATATATTAGATAGTAAAAAT-AA
1 AATAATATA-TA-ATAGTAAAAATAAA
* *
116529247 AA-AATA-AAAATA-AAAAAATAAA
1 AATAATATATAATAGTAAAAATAAA
116529269 AATA
1 AATA
116529273 GTAATAAAAA
Statistics
Matches: 104, Mismatches: 14, Indels: 29
0.71 0.10 0.20
Matches are distributed among these distances:
21 6 0.06
22 7 0.07
23 13 0.12
24 8 0.08
25 14 0.13
26 18 0.17
27 7 0.07
28 11 0.11
29 8 0.08
30 11 0.11
31 1 0.01
ACGTcount: A:0.66, C:0.01, G:0.06, T:0.27
Consensus pattern (25 bp):
AATAATATATAATAGTAAAAATAAA
Found at i:116529172 original size:50 final size:51
Alignment explanation
Indices: 116529118--116529227 Score: 134
Period size: 50 Copynumber: 2.2 Consensus size: 51
116529108 AACGATAGTA
* * *
116529118 ATAATAATAGTAGTAAAAATAAAAATA-ATATAGTAATAGTAATAAAAA-AT
1 ATAATAATAATAATAAAAATAAAAATACA-ATAGTAATAATAATAAAAAGAT
* * * *
116529168 ATAATAATAATAATAATAGTAATAATACAATAGTAATAATAATAAAAAGGT
1 ATAATAATAATAATAAAAATAAAAATACAATAGTAATAATAATAAAAAGAT
116529219 ATAATAATA
1 ATAATAATA
116529228 TATTAGATAG
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
50 40 0.78
51 11 0.22
ACGTcount: A:0.63, C:0.01, G:0.07, T:0.29
Consensus pattern (51 bp):
ATAATAATAATAATAAAAATAAAAATACAATAGTAATAATAATAAAAAGAT
Found at i:116529262 original size:14 final size:14
Alignment explanation
Indices: 116529238--116529272 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
116529228 TATTAGATAG
116529238 TAAAAAT-AAAAAA
1 TAAAAATAAAAAAA
116529251 TAAAAATAAAAAAA
1 TAAAAATAAAAAAA
116529265 TAAAAATA
1 TAAAAATA
116529273 GTAATAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 7 0.33
14 14 0.67
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (14 bp):
TAAAAATAAAAAAA
Found at i:116529269 original size:20 final size:21
Alignment explanation
Indices: 116529240--116529283 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
116529230 TTAGATAGTA
116529240 AAAATAAAAAATAAAAATAAA
1 AAAATAAAAAATAAAAATAAA
**
116529261 AAAAT-AAAAATAGTAATAAA
1 AAAATAAAAAATAAAAATAAA
116529281 AAA
1 AAA
116529284 TGATAATAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.82, C:0.00, G:0.02, T:0.16
Consensus pattern (21 bp):
AAAATAAAAAATAAAAATAAA
Found at i:116529322 original size:14 final size:14
Alignment explanation
Indices: 116529303--116529357 Score: 62
Period size: 14 Copynumber: 4.1 Consensus size: 14
116529293 TGATATTAAT
116529303 AGTAATAGTAATAA
1 AGTAATAGTAATAA
116529317 AGTAATAGTAATAA
1 AGTAATAGTAATAA
*
116529331 A--AATAGT-ACAA
1 AGTAATAGTAATAA
*
116529342 TGTTAATAGTAATAA
1 AG-TAATAGTAATAA
116529357 A
1 A
116529358 ATAAAGAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
11 3 0.09
12 6 0.18
14 21 0.64
15 3 0.09
ACGTcount: A:0.56, C:0.02, G:0.13, T:0.29
Consensus pattern (14 bp):
AGTAATAGTAATAA
Found at i:116529512 original size:3 final size:3
Alignment explanation
Indices: 116529501--116529578 Score: 54
Period size: 3 Copynumber: 26.7 Consensus size: 3
116529491 AAAATGGTGG
* * * *
116529501 TAA TGA TAA TAA TAA TAA TAA TAA TAA TGA TGA -AA TAA T-T TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
116529547 TAG TAA TAA TGA CAA TAG TAGA -AA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TA
116529579 GTATTTGAAT
Statistics
Matches: 57, Mismatches: 14, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
2 3 0.05
3 54 0.95
ACGTcount: A:0.58, C:0.01, G:0.09, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:116529579 original size:15 final size:15
Alignment explanation
Indices: 116529500--116529581 Score: 67
Period size: 15 Copynumber: 5.2 Consensus size: 15
116529490 AAAAATGGTG
*
116529500 GTAATGATAATAATA
1 GTAATAATAATAATA
*
116529515 ATAATAATAATAATGA
1 GTAATAATAATAAT-A
*
116529531 TGAAATAATTTAATAATA
1 -GTAATAA--TAATAATA
* *
116529549 GTAATAATGACAATA
1 GTAATAATAATAATA
116529564 GTAGA-AATAATAATA
1 GTA-ATAATAATAATA
116529579 GTA
1 GTA
116529582 TTTGAATAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
15 32 0.60
16 2 0.04
17 11 0.21
18 1 0.02
19 7 0.13
ACGTcount: A:0.56, C:0.01, G:0.11, T:0.32
Consensus pattern (15 bp):
GTAATAATAATAATA
Found at i:116532015 original size:35 final size:35
Alignment explanation
Indices: 116531975--116532045 Score: 99
Period size: 35 Copynumber: 2.0 Consensus size: 35
116531965 TCTAGGATCA
*
116531975 CATATCTTTGAAAATCCCCTTT-CATATTTGCCAAG
1 CATATCTTTGAAAAT-CACTTTCCATATTTGCCAAG
* *
116532010 CATATCTTTGAAGATTACTTTCCATATTTGCCAAG
1 CATATCTTTGAAAATCACTTTCCATATTTGCCAAG
116532045 C
1 C
116532046 TCCGAAGATG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
34 4 0.12
35 28 0.88
ACGTcount: A:0.28, C:0.24, G:0.10, T:0.38
Consensus pattern (35 bp):
CATATCTTTGAAAATCACTTTCCATATTTGCCAAG
Found at i:116544231 original size:19 final size:19
Alignment explanation
Indices: 116544207--116544255 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
116544197 ATATTTGCTA
*
116544207 ATAAAAATTATTAAAAGTC
1 ATAAAAATTATTAAAAATC
116544226 ATAAAAGATTA-TAAAAATC
1 ATAAAA-ATTATTAAAAATC
116544245 ATAAAAATTAT
1 ATAAAAATTAT
116544256 CGAATATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 4 0.15
19 19 0.70
20 4 0.15
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (19 bp):
ATAAAAATTATTAAAAATC
Found at i:116544330 original size:21 final size:21
Alignment explanation
Indices: 116544233--116544330 Score: 59
Period size: 21 Copynumber: 5.0 Consensus size: 21
116544223 GTCATAAAAG
* *
116544233 ATTATAAAAATCATAAAAATT
1 ATTATAAATATTATAAAAATT
**
116544254 A-T-CGAATATT-T-AAAA-T
1 ATTATAAATATTATAAAAATT
*
116544270 ATTA-AAATA-TATGAAAATT
1 ATTATAAATATTATAAAAATT
* *
116544289 AATATAAA-CTTATAAAAAATT
1 ATTATAAATATTAT-AAAAATT
*
116544310 ATTATAAATATTATAACAATT
1 ATTATAAATATTATAAAAATT
116544331 TTCAATAAAT
Statistics
Matches: 57, Mismatches: 11, Indels: 18
0.66 0.13 0.21
Matches are distributed among these distances:
16 3 0.05
17 10 0.18
18 5 0.09
19 8 0.14
20 7 0.12
21 20 0.35
22 4 0.07
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (21 bp):
ATTATAAATATTATAAAAATT
Found at i:116544379 original size:20 final size:21
Alignment explanation
Indices: 116544343--116544389 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
116544333 CAATAAATTC
116544343 TAAAATAATTTTAAAAATTAA
1 TAAAATAATTTTAAAAATTAA
* *
116544364 TAAAAT-ATATTTAAAATTTTA
1 TAAAATAAT-TTTAAAAATTAA
116544385 TAAAA
1 TAAAA
116544390 AAACATATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAAATAATTTTAAAAATTAA
Found at i:116544400 original size:23 final size:24
Alignment explanation
Indices: 116544365--116544413 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 24
116544355 AAAAATTAAT
* *
116544365 AAAATATATTTAAAATTTTATAAA
1 AAAACATATTTAAAATTCTATAAA
116544389 AAAACATA-TTAAAATTCTATAAA
1 AAAACATATTTAAAATTCTATAAA
116544412 AA
1 AA
116544414 TTATTAATAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (24 bp):
AAAACATATTTAAAATTCTATAAA
Found at i:116544457 original size:9 final size:9
Alignment explanation
Indices: 116544207--116544460 Score: 73
Period size: 10 Copynumber: 25.8 Consensus size: 9
116544197 ATATTTGCTA
116544207 ATAAAAATT
1 ATAAAAATT
* *
116544216 ATTAAAAGTC
1 A-TAAAAATT
116544226 ATAAAAGATT
1 ATAAAA-ATT
*
116544236 ATAAAAATC
1 ATAAAAATT
116544245 ATAAAAATT
1 ATAAAAATT
* *
116544254 ATCGAATATT
1 AT-AAAAATT
116544264 -T-AAAA-T
1 ATAAAAATT
*
116544270 ATTAAAATAT
1 ATAAAAAT-T
*
116544280 ATGAAAATT
1 ATAAAAATT
*
116544289 AATATAAACTT
1 -ATA-AAAATT
116544300 ATAAAAAATT
1 AT-AAAAATT
116544310 ATTATAAATATT
1 A-TA-AAA-ATT
*
116544322 ATAACAATT
1 ATAAAAATT
*
116544331 TTCAATAAATT
1 AT-AA-AAATT
*
116544342 CTAAAATAATT
1 AT-AAA-AATT
*
116544353 TTAAAAATT
1 ATAAAAATT
116544362 AATAAAATATAT
1 -ATAAAA-AT-T
* *
116544374 TTAAAATTTT
1 ATAAAA-ATT
*
116544384 ATAAAAAAACAT
1 AT--AAAAA-TT
*
116544396 ATTAAAATTCT
1 A-TAAAAAT-T
116544407 ATAAAAATT
1 ATAAAAATT
* * *
116544416 ATTAATAGT
1 ATAAAAATT
*
116544425 ATAAAAAATG
1 AT-AAAAATT
*
116544435 ATATAAACTT
1 ATA-AAAATT
116544445 ATAAAAATT
1 ATAAAAATT
116544454 ATAAAAA
1 ATAAAAA
116544461 AATCATAAAA
Statistics
Matches: 181, Mismatches: 38, Indels: 52
0.67 0.14 0.19
Matches are distributed among these distances:
6 1 0.01
7 4 0.02
8 4 0.02
9 50 0.28
10 71 0.39
11 39 0.22
12 11 0.06
13 1 0.01
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.35
Consensus pattern (9 bp):
ATAAAAATT
Found at i:116544470 original size:10 final size:10
Alignment explanation
Indices: 116544283--116544471 Score: 55
Period size: 11 Copynumber: 18.3 Consensus size: 10
116544273 AAAATATATG
*
116544283 AAAATTAATAT
1 AAAATT-ATAA
*
116544294 AAACTTATAA
1 AAAATTATAA
116544304 AAAATTATTATA
1 AAAATTA-TA-A
*
116544316 AATATTAT-A
1 AAAATTATAA
* *
116544325 ACAATTTTCAA
1 AAAATTAT-AA
* *
116544336 TAAATTCTAA
1 AAAATTATAA
*
116544346 AATAATT-TTA
1 AA-AATTATAA
116544356 AAAATTAATAA
1 AAAATT-ATAA
116544367 AATATATT-TAA
1 AA-A-ATTATAA
**
116544378 AATTTTATAA
1 AAAATTATAA
** *
116544388 AAAAACATATT
1 AAAATTATA-A
*
116544399 AAAATTCTATA
1 AAAATTATA-A
*
116544410 AAAATTAT-T
1 AAAATTATAA
* *
116544419 AATAGTATAA
1 AAAATTATAA
* *
116544429 AAAATGATAT
1 AAAATTATAA
*
116544439 AAACTTAT-A
1 AAAATTATAA
116544448 AAAATTATAAA
1 AAAATTAT-AA
*
116544459 AAAATCATAA
1 AAAATTATAA
116544469 AAA
1 AAA
116544472 CTTGAATTGG
Statistics
Matches: 126, Mismatches: 38, Indels: 29
0.65 0.20 0.15
Matches are distributed among these distances:
9 25 0.20
10 41 0.33
11 49 0.39
12 8 0.06
13 3 0.02
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.35
Consensus pattern (10 bp):
AAAATTATAA
Found at i:116544974 original size:14 final size:13
Alignment explanation
Indices: 116544952--116544991 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
116544942 TTAAGAATTC
116544952 TAATTTTTTTAAA
1 TAATTTTTTTAAA
* *
116544965 TAAGTTTTTTAATT
1 TAATTTTTTTAA-A
116544979 TAATTTTTTTAAA
1 TAATTTTTTTAAA
116544992 ATTTATTAGA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (13 bp):
TAATTTTTTTAAA
Found at i:116544994 original size:16 final size:15
Alignment explanation
Indices: 116544947--116544996 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 15
116544937 TATTTTTAAG
116544947 AATTCTAATTTTTTTA
1 AATT-TAATTTTTTTA
*
116544963 AA--TAAGTTTTTT-
1 AATTTAATTTTTTTA
116544975 AATTTAATTTTTTTAA
1 AATTTAATTTTTTT-A
116544991 AATTTA
1 AATTTA
116544997 TTAGATTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
12 2 0.07
13 9 0.32
14 9 0.32
16 8 0.29
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (15 bp):
AATTTAATTTTTTTA
Found at i:116545014 original size:27 final size:25
Alignment explanation
Indices: 116544984--116545043 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
116544974 TAATTTAATT
*
116544984 TTTTTAAAATTTATTAGATTTTTTATA
1 TTTTTAAAATTT-TTA-AATTTTTATA
*
116545011 TTTTATAATATTTTTAAATTTTTATA
1 TTTT-TAAAATTTTTAAATTTTTATA
*
116545037 ATTTTAA
1 TTTTTAA
116545044 TAGTTTAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 3 0.10
26 12 0.41
27 7 0.24
28 7 0.24
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (25 bp):
TTTTTAAAATTTTTAAATTTTTATA
Found at i:116545023 original size:19 final size:19
Alignment explanation
Indices: 116544979--116545038 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
116544969 TTTTTTAATT
*
116544979 TAAT-TTTTTTAAAATTTA
1 TAATATTTTTTAAATTTTA
* * *
116544997 TTAGATTTTTTATATTTTA
1 TAATATTTTTTAAATTTTA
116545016 TAATA-TTTTTAAATTTTTA
1 TAATATTTTTTAAA-TTTTA
116545035 TAAT
1 TAAT
116545039 TTTAATAGTT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
18 9 0.27
19 24 0.73
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (19 bp):
TAATATTTTTTAAATTTTA
Done.