Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167893.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_16, whole genome shotgun sequence
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: 22157061
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 74000 characters in sequence are not A, C, G, or T
File 29 of 113
Found at i:9635252 original size:35 final size:38
Alignment explanation
Indices: 9635201--9635281 Score: 125
Period size: 35 Copynumber: 2.2 Consensus size: 38
9635191 TATCAATTTA
*
9635201 TTTTAT-TTTATTTTCTTTTTCTTTTTC-TTT-T-TCT
1 TTTTATATTTATATTCTTTTTCTTTTTCATTTATCTCT
9635235 TTTTATATTTATATTCTTTTTCTTTTTCATTTATCTCT
1 TTTTATATTTATATTCTTTTTCTTTTTCATTTATCTCT
9635273 TTTTATATT
1 TTTTATATT
9635282 AAATAAATAT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
34 6 0.14
35 20 0.48
36 3 0.07
37 1 0.02
38 12 0.29
ACGTcount: A:0.12, C:0.11, G:0.00, T:0.77
Consensus pattern (38 bp):
TTTTATATTTATATTCTTTTTCTTTTTCATTTATCTCT
Found at i:9635380 original size:16 final size:17
Alignment explanation
Indices: 9635344--9635381 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
9635334 CATATTTTTT
*
9635344 AATAAATTTTTAAATAA
1 AATAAATTTGTAAATAA
9635361 AATAAATTTGTAAA-AA
1 AATAAATTTGTAAATAA
9635377 AATAA
1 AATAA
9635382 TATTAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (17 bp):
AATAAATTTGTAAATAA
Found at i:9635643 original size:20 final size:21
Alignment explanation
Indices: 9635617--9635657 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
9635607 ATCTCAAAAA
9635617 ATATATTCA-TTATTCTTTTTCT
1 ATAT-TTCATTTATT-TTTTTCT
9635639 ATATTTCATTTATTTTTTT
1 ATATTTCATTTATTTTTTT
9635658 TTAATAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.22, C:0.10, G:0.00, T:0.68
Consensus pattern (21 bp):
ATATTTCATTTATTTTTTTCT
Found at i:9635646 original size:21 final size:23
Alignment explanation
Indices: 9635617--9635658 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
9635607 ATCTCAAAAA
9635617 ATATATTCA-TTATTCTTTTTCT
1 ATATATTCATTTATTCTTTTTCT
*
9635639 ATAT-TTCATTTATTTTTTTT
1 ATATATTCATTTATTCTTTTT
9635659 TAATAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.21, C:0.10, G:0.00, T:0.69
Consensus pattern (23 bp):
ATATATTCATTTATTCTTTTTCT
Found at i:9639551 original size:31 final size:31
Alignment explanation
Indices: 9639491--9639550 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
9639481 TAATTATTTA
9639491 ATTATTTAATATATATTATATTAATAAAAAT
1 ATTATTTAATATATATTATATTAATAAAAAT
*
9639522 ATTATTTAATAT-TTTTA-ATTAAATAAAAA
1 ATTATTTAATATATATTATATT-AATAAAAA
9639551 AACTATATTC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 3 0.11
30 12 0.44
31 12 0.44
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (31 bp):
ATTATTTAATATATATTATATTAATAAAAAT
Found at i:9640249 original size:10 final size:9
Alignment explanation
Indices: 9640226--9640251 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
9640216 ATTTTTAATA
9640226 TAAAAAATT
1 TAAAAAATT
9640235 TAAAAAATT
1 TAAAAAATT
9640244 TAAAAAAT
1 TAAAAAAT
9640252 GATTTTGGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (9 bp):
TAAAAAATT
Found at i:9641114 original size:155 final size:157
Alignment explanation
Indices: 9640917--9641232 Score: 546
Period size: 156 Copynumber: 2.0 Consensus size: 157
9640907 GTTATATTCC
*
9640917 TTTCGGTTTGGTACCAATTAATAAATAGATATAACGAAATAAAT-AAAAAAATTATCAATAAACT
1 TTTCGGTTTGGTACCAATTAATAAATAGATAGAACGAAATAAATAAAAAAAATTATCAATAAACT
* * *
9640981 TAATTTAATTAAATTCTATAATTAATTTTAAATAATAATATTTAATAATTTTAAATTTTAAATTT
66 TAATTTAATTAAATTATATAATTAATTTTAAATAATAATACTTAATAATTTTAAATTTTAAAATT
*
9641046 CAATTCCCACAGCCTACTCATTAGAAT
131 CAATACCCACAGCCTACTCATTAGAAT
9641073 TTTCGG-TTGGTACCAATTAATAAATAGATAGAACGAAATAAATAAAAAAAATTATCAATAAACT
1 TTTCGGTTTGGTACCAATTAATAAATAGATAGAACGAAATAAATAAAAAAAATTATCAATAAACT
* *
9641137 TAATTTAATTAAATTATATAATTACTTTTAAATGATAATACTTAATAATTTTAAATTTTAAAATT
66 TAATTTAATTAAATTATATAATTAATTTTAAATAATAATACTTAATAATTTTAAATTTTAAAATT
*
9641202 CAATACCCACAGCCTACTCATTGGAAT
131 CAATACCCACAGCCTACTCATTAGAAT
9641229 TTTC
1 TTTC
9641233 TTCATGCCCC
Statistics
Matches: 151, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
155 36 0.24
156 115 0.76
ACGTcount: A:0.45, C:0.11, G:0.06, T:0.38
Consensus pattern (157 bp):
TTTCGGTTTGGTACCAATTAATAAATAGATAGAACGAAATAAATAAAAAAAATTATCAATAAACT
TAATTTAATTAAATTATATAATTAATTTTAAATAATAATACTTAATAATTTTAAATTTTAAAATT
CAATACCCACAGCCTACTCATTAGAAT
Found at i:9641744 original size:12 final size:14
Alignment explanation
Indices: 9641712--9641757 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
9641702 AGTTAAATTG
*
9641712 TTTAGATCAAATAA
1 TTTAAATCAAATAA
9641726 TTTAAATCAAA-AA
1 TTTAAATCAAATAA
**
9641739 -TTAAATTTAATAA
1 TTTAAATCAAATAA
9641752 TTTAAA
1 TTTAAA
9641758 ATATGATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
12 8 0.30
13 4 0.15
14 15 0.56
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.39
Consensus pattern (14 bp):
TTTAAATCAAATAA
Found at i:9645180 original size:16 final size:16
Alignment explanation
Indices: 9645162--9645191 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9645152 TATGCATGAA
9645162 AAAAAT-TATATACAC
1 AAAAATATATATACAC
9645177 AAAAATATATATACA
1 AAAAATATATATACA
9645192 TACATTTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.63, C:0.10, G:0.00, T:0.27
Consensus pattern (16 bp):
AAAAATATATATACAC
Found at i:9645624 original size:23 final size:22
Alignment explanation
Indices: 9645593--9645636 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
9645583 TATAAATTAA
9645593 AAATAAAAATTATATATTTTATT
1 AAATAAAAATTATAT-TTTTATT
* *
9645616 AAATTAAAATTTTATTTTTAT
1 AAATAAAAATTATATTTTTAT
9645637 ATAATTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
AAATAAAAATTATATTTTTATT
Found at i:9645642 original size:22 final size:22
Alignment explanation
Indices: 9645598--9645683 Score: 61
Period size: 23 Copynumber: 3.9 Consensus size: 22
9645588 ATTAAAAATA
*
9645598 AAAATTATATATTTTAT-TAAATT
1 AAAATTTTAT-TTTTATAT-AATT
9645621 AAAATTTTATTTTTATATAATTT
1 AAAATTTTATTTTTATATAA-TT
* * *
9645644 TAATTTTTAATTTTTACAT-A-T
1 AAAATTTT-ATTTTTATATAATT
* *
9645665 ATAATTTTAATTTTATATA
1 AAAATTTTATTTTTATATA
9645684 TATATATGTA
Statistics
Matches: 50, Mismatches: 9, Indels: 10
0.72 0.13 0.14
Matches are distributed among these distances:
20 8 0.16
21 6 0.12
22 8 0.16
23 19 0.38
24 9 0.18
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (22 bp):
AAAATTTTATTTTTATATAATT
Found at i:9645686 original size:22 final size:22
Alignment explanation
Indices: 9645623--9645689 Score: 75
Period size: 22 Copynumber: 3.0 Consensus size: 22
9645613 ATTAAATTAA
* *
9645623 AATTTTATTTTTATATA-ATTTT
1 AATTTTAATTTTATATATA-TAT
*
9645645 AATTTTTAATTTT-TACATATAT
1 AA-TTTTAATTTTATATATATAT
9645667 AATTTTAATTTTATATATATAT
1 AATTTTAATTTTATATATATAT
9645689 A
1 A
9645690 TGTAAATTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
21 10 0.26
22 18 0.47
23 10 0.26
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.61
Consensus pattern (22 bp):
AATTTTAATTTTATATATATAT
Found at i:9647032 original size:30 final size:30
Alignment explanation
Indices: 9646954--9647036 Score: 93
Period size: 30 Copynumber: 2.9 Consensus size: 30
9646944 AAGGTTTAGG
*
9646954 GTTT-AAGTTT-GGGGTTTT-GATTTAAGA
1 GTTTAAAGTTTAGGGATTTTGGATTTAAGA
* **
9646981 GTTTAAATTTTAGGGGGTTTGGATTTAAGA
1 GTTTAAAGTTTAGGGATTTTGGATTTAAGA
9647011 GTTTAAAGGTTTA-GGATTTTGGATTT
1 GTTTAAA-GTTTAGGGATTTTGGATTT
9647037 TGGGGTGTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
27 4 0.09
28 5 0.11
29 7 0.15
30 27 0.57
31 4 0.09
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.47
Consensus pattern (30 bp):
GTTTAAAGTTTAGGGATTTTGGATTTAAGA
Found at i:9647072 original size:17 final size:17
Alignment explanation
Indices: 9647027--9647097 Score: 65
Period size: 17 Copynumber: 4.2 Consensus size: 17
9647017 AGGTTTAGGA
*
9647027 TTTTGGATTT-TGGGGTG
1 TTTTGGATTTATAGGG-G
9647044 TTTTGGATTTTATAGGGG
1 TTTTGGA-TTTATAGGGG
* *
9647062 TTTTGGATTTA-AGAGA
1 TTTTGGATTTATAGGGG
* *
9647078 TTTTGGATTTTTAAGGG
1 TTTTGGATTTATAGGGG
9647095 TTT
1 TTT
9647098 CAGATTTTAG
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
16 13 0.30
17 16 0.36
18 11 0.25
19 4 0.09
ACGTcount: A:0.17, C:0.00, G:0.31, T:0.52
Consensus pattern (17 bp):
TTTTGGATTTATAGGGG
Found at i:9647104 original size:33 final size:33
Alignment explanation
Indices: 9647044--9647114 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
9647034 TTTTGGGGTG
* **
9647044 TTTTGGATTTTATAGGGGTTTTGGATTTAAGAGA
1 TTTTGGATTTTATAAGGGTTTCAGATTTAAG-GA
*
9647078 TTTTGGATTTT-TAAGGGTTTCAGATTTTAGGA
1 TTTTGGATTTTATAAGGGTTTCAGATTTAAGGA
9647110 TTTTG
1 TTTTG
9647115 AAAATTAAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
32 7 0.21
33 15 0.45
34 11 0.33
ACGTcount: A:0.21, C:0.01, G:0.27, T:0.51
Consensus pattern (33 bp):
TTTTGGATTTTATAAGGGTTTCAGATTTAAGGA
Found at i:9648134 original size:10 final size:9
Alignment explanation
Indices: 9648119--9648159 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
9648109 GGGTTCAAAG
9648119 TTTTTTGTTC
1 TTTTTT-TTC
9648129 TTTTTTTT-
1 TTTTTTTTC
9648137 TCTTTTTTTC
1 T-TTTTTTTC
9648147 TTTTTTTT-
1 TTTTTTTTC
9648155 TTTTT
1 TTTTT
9648160 AAAACTCAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
8 6 0.21
9 16 0.55
10 7 0.24
ACGTcount: A:0.00, C:0.07, G:0.02, T:0.90
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:9648142 original size:8 final size:8
Alignment explanation
Indices: 9648131--9648159 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
9648121 TTTTGTTCTT
9648131 TTTTTTTC
1 TTTTTTTC
9648139 TTTTTTTC
1 TTTTTTTC
9648147 TTTTTTT-
1 TTTTTTTC
9648154 TTTTTT
1 TTTTTT
9648160 AAAACTCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 6 0.29
8 15 0.71
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (8 bp):
TTTTTTTC
Found at i:9648145 original size:21 final size:21
Alignment explanation
Indices: 9648119--9648158 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
9648109 GGGTTCAAAG
*
9648119 TTTTTTGTTCTTTTTTTTTCT
1 TTTTTTCTTCTTTTTTTTTCT
*
9648140 TTTTTTCTTTTTTTTTTTT
1 TTTTTTCTTCTTTTTTTTT
9648159 TAAAACTCAA
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:0.00, C:0.07, G:0.03, T:0.90
Consensus pattern (21 bp):
TTTTTTCTTCTTTTTTTTTCT
Found at i:9648147 original size:18 final size:18
Alignment explanation
Indices: 9648119--9648159 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
9648109 GGGTTCAAAG
9648119 TTTTTTGTTCTTTTTTTT
1 TTTTTTGTTCTTTTTTTT
9648137 TCTTTTT-TTCTTTTTTTT
1 T-TTTTTGTTCTTTTTTTT
9648155 TTTTT
1 TTTTT
9648160 AAAACTCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.18
18 13 0.59
19 5 0.23
ACGTcount: A:0.00, C:0.07, G:0.02, T:0.90
Consensus pattern (18 bp):
TTTTTTGTTCTTTTTTTT
Found at i:9648673 original size:22 final size:21
Alignment explanation
Indices: 9648648--9648688 Score: 73
Period size: 22 Copynumber: 1.9 Consensus size: 21
9648638 CTAATATTAT
9648648 TATTATTATTATTTTAAAAAAA
1 TATTATTATTA-TTTAAAAAAA
9648670 TATTATTATTATTTAAAAA
1 TATTATTATTATTTAAAAA
9648689 TGTAGACCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TATTATTATTATTTAAAAAAA
Found at i:9648992 original size:22 final size:22
Alignment explanation
Indices: 9648960--9649033 Score: 76
Period size: 22 Copynumber: 3.3 Consensus size: 22
9648950 TTGTAAGTCA
*
9648960 AAAAATTATGCCTGAAGGTCTT
1 AAAAATCATGCCTGAAGGTCTT
* *
9648982 AGAAATCATGCCCGAAGGTCTT
1 AAAAATCATGCCTGAAGGTCTT
* *
9649004 ACAAAAATCATACCTGGAGGTCTT
1 --AAAAATCATGCCTGAAGGTCTT
*
9649028 ACAAAT
1 AAAAAT
9649034 TCGACTGAGA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
22 24 0.57
24 18 0.43
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.26
Consensus pattern (22 bp):
AAAAATCATGCCTGAAGGTCTT
Found at i:9649301 original size:87 final size:87
Alignment explanation
Indices: 9649070--9649379 Score: 390
Period size: 87 Copynumber: 3.6 Consensus size: 87
9649060 AAAAATATGA
* * * * *
9649070 AATCGATCGGGATAACACCGCGAATCAAAATTATGCCCGAAGATTTTACAGAATCGACTGAGACA
1 AATCGATCGGGATAACACCGCGAATCAAAATCATGCCCGAAGGTCTTACAGAATCGACTGGGATA
* *
9649135 ACATCGCAAGTCAAAATTAAAA
66 ACACCGCAAGTCAAAATTAAAG
* * * * * *
9649157 AATC-ATTCGGGGATAACACCGTGATTCGAAATTATGCCCGGACGTCTTACAGAATCGACTGGGA
1 AATCGA-TC-GGGATAACACCGCGAATCAAAATCATGCCCGAAGGTCTTACAGAATCGACTGGGA
* *
9649221 TACCACCGCAAGTCAAAACTAAAG
64 TAACACCGCAAGTCAAAATTAAAG
* *
9649245 AATCGATTGGGATAACACCGCGAATCAAAATCATGCTCGAAGGTCTTACAGAATCGACTGGGATA
1 AATCGATCGGGATAACACCGCGAATCAAAATCATGCCCGAAGGTCTTACAGAATCGACTGGGATA
9649310 ACACCGCAAGTCAAAATTAAAG
66 ACACCGCAAGTCAAAATTAAAG
* * **
9649332 AATCGATCGAGATAACACCGTGAATTGAAATCATGCCC-AGAGGTCTTA
1 AATCGATCGGGATAACACCGCGAATCAAAATCATGCCCGA-AGGTCTTA
9649380 GAAATCAAAA
Statistics
Matches: 190, Mismatches: 29, Indels: 8
0.84 0.13 0.04
Matches are distributed among these distances:
86 2 0.01
87 116 0.61
88 71 0.37
89 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (87 bp):
AATCGATCGGGATAACACCGCGAATCAAAATCATGCCCGAAGGTCTTACAGAATCGACTGGGATA
ACACCGCAAGTCAAAATTAAAG
Found at i:9649995 original size:33 final size:33
Alignment explanation
Indices: 9649958--9650225 Score: 296
Period size: 33 Copynumber: 8.2 Consensus size: 33
9649948 TTGGGACCAA
9649958 ATAAACTAGGCTTAAAACTTCATTGATGGCCAG
1 ATAAACTAGGCTTAAAACTTCATTGATGGCCAG
*
9649991 ATAAACTGGGCTT-AAA-TGTCATTGATGGCCAG
1 ATAAACTAGGCTTAAAACT-TCATTGATGGCCAG
** *
9650023 ATAAACTAGGCTTAAAGGTT-ATTGACGGCCAG
1 ATAAACTAGGCTTAAAACTTCATTGATGGCCAG
* * ** *
9650055 ATAAACTGGGCTTAAAATTTTGTTGATGGTCAG
1 ATAAACTAGGCTTAAAACTTCATTGATGGCCAG
* *
9650088 ATAAA-TCGGGCTTAAAACTTCATTGATGGTCAG
1 ATAAACT-AGGCTTAAAACTTCATTGATGGCCAG
* * *
9650121 ATAAAATAGGCTTAAAGCTTCATTAATGGCCAG
1 ATAAACTAGGCTTAAAACTTCATTGATGGCCAG
* ** *
9650154 ATAAATTAGGCTTAAATGTT-ATTGATGGCTAG
1 ATAAACTAGGCTTAAAACTTCATTGATGGCCAG
9650186 ATAAACTAGGCTTAAAACTTCATTTGA-GGCCAG
1 ATAAACTAGGCTTAAAACTTCA-TTGATGGCCAG
*
9650219 TTAAACT
1 ATAAACT
9650226 GGGTTTAGGA
Statistics
Matches: 200, Mismatches: 27, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
31 1 0.00
32 85 0.43
33 108 0.54
34 6 0.03
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.30
Consensus pattern (33 bp):
ATAAACTAGGCTTAAAACTTCATTGATGGCCAG
Found at i:9650207 original size:65 final size:66
Alignment explanation
Indices: 9649958--9650225 Score: 296
Period size: 65 Copynumber: 4.1 Consensus size: 66
9649948 TTGGGACCAA
*
9649958 ATAAACTAGGCTTAAAACTTCATTGATGGCCAGATAAACTGGGCTT-AAA-TGTCATTGATGGCC
1 ATAAACTAGGCTTAAAACTTCATTGATGGCCAGATAAACTAGGCTTAAAACT-TCATTGATGGCC
9650021 AG
65 AG
** * * * ** *
9650023 ATAAACTAGGCTTAAAGGTT-ATTGACGGCCAGATAAACTGGGCTTAAAATTTTGTTGATGGTCA
1 ATAAACTAGGCTTAAAACTTCATTGATGGCCAGATAAACTAGGCTTAAAACTTCATTGATGGCCA
9650087 G
66 G
* * * * *
9650088 ATAAA-TCGGGCTTAAAACTTCATTGATGGTCAGATAAAATAGGCTTAAAGCTTCATTAATGGCC
1 ATAAACT-AGGCTTAAAACTTCATTGATGGCCAGATAAACTAGGCTTAAAACTTCATTGATGGCC
9650152 AG
65 AG
* ** *
9650154 ATAAATTAGGCTTAAATGTT-ATTGATGGCTAGATAAACTAGGCTTAAAACTTCATTTGA-GGCC
1 ATAAACTAGGCTTAAAACTTCATTGATGGCCAGATAAACTAGGCTTAAAACTTCA-TTGATGGCC
9650217 AG
65 AG
*
9650219 TTAAACT
1 ATAAACT
9650226 GGGTTTAGGA
Statistics
Matches: 168, Mismatches: 29, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
64 25 0.15
65 88 0.52
66 54 0.32
67 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.30
Consensus pattern (66 bp):
ATAAACTAGGCTTAAAACTTCATTGATGGCCAGATAAACTAGGCTTAAAACTTCATTGATGGCCA
G
Found at i:9655546 original size:164 final size:164
Alignment explanation
Indices: 9655253--9655721 Score: 831
Period size: 161 Copynumber: 2.9 Consensus size: 164
9655243 TAGTTGTTGA
* *
9655253 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCTCTCACCTCAAGAG
1 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAG
* *
9655318 TATGCAAGAAAAACTACTG-TTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAAA
66 TATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGGATTAATTAAAG-AAAAAA
9655382 AAAAAATCAAAATCAGCCAAGTAATTAATTATCGG
130 AAAAAATCAAAATCAGCCAAGTAATTAATTATCGG
9655417 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAG
1 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAG
*
9655482 TATGTAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGGATTAATTAAAG---AAAA
66 TATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAAA
9655544 AAAAATCAAAATCAGCCAAGTAATTAATTATCGG
131 AAAAATCAAAATCAGCCAAGTAATTAATTATCGG
9655578 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAG
1 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAG
9655643 TATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAAG
66 TATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAA-
*
9655708 AAAAAA-AAAAATCA
130 AAAAAATCAAAATCA
9655722 AGATCAAAAT
Statistics
Matches: 293, Mismatches: 7, Indels: 10
0.95 0.02 0.03
Matches are distributed among these distances:
161 160 0.55
164 91 0.31
165 42 0.14
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.28
Consensus pattern (164 bp):
AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAG
TATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAAA
AAAAATCAAAATCAGCCAAGTAATTAATTATCGG
Found at i:9655749 original size:15 final size:13
Alignment explanation
Indices: 9655708--9655803 Score: 55
Period size: 11 Copynumber: 7.8 Consensus size: 13
9655698 AAGAAAAAAG
9655708 AAAAAAAAAAATC
1 AAAAAAAAAAATC
* **
9655721 -AAGATCAAAATC
1 AAAAAAAAAAATC
9655733 AAATAAAAAAAATTC
1 AAA-AAAAAAAA-TC
9655748 ---AAAAAAAA--
1 AAAAAAAAAAATC
**
9655756 AAAAAAAAATTTC
1 AAAAAAAAAAATC
**
9655769 AAAAAAAAATTTC
1 AAAAAAAAAAATC
9655782 AAAAAAAAAAA--
1 AAAAAAAAAAATC
9655793 AAAAAAAAAAA
1 AAAAAAAAAAA
9655804 AAAAAAACCT
Statistics
Matches: 65, Mismatches: 10, Indels: 18
0.70 0.11 0.19
Matches are distributed among these distances:
11 25 0.38
12 9 0.14
13 24 0.37
14 5 0.08
15 2 0.03
ACGTcount: A:0.80, C:0.06, G:0.01, T:0.12
Consensus pattern (13 bp):
AAAAAAAAAAATC
Found at i:9655751 original size:21 final size:21
Alignment explanation
Indices: 9655737--9655777 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
9655727 AAAATCAAAT
9655737 AAAAAAAA-TTCAAAAAAAAA
1 AAAAAAAATTTCAAAAAAAAA
9655757 AAAAAAAATTTCAAAAAAAAA
1 AAAAAAAATTTCAAAAAAAAA
9655778 TTTCAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.83, C:0.05, G:0.00, T:0.12
Consensus pattern (21 bp):
AAAAAAAATTTCAAAAAAAAA
Found at i:9655765 original size:34 final size:33
Alignment explanation
Indices: 9655727--9655810 Score: 109
Period size: 34 Copynumber: 2.5 Consensus size: 33
9655717 AATCAAGATC
9655727 AAAATCAAATAAAAAAAATTCAAAAAAAAAAAAA
1 AAAATCAAA-AAAAAAAATTCAAAAAAAAAAAAA
*
9655761 AAAATTTC-AAAAAAAAATTTCAAAAAAAAAAAAA
1 AAAA--TCAAAAAAAAAAATTCAAAAAAAAAAAAA
*
9655795 AAAA-AAAAAAAAAAAA
1 AAAATCAAAAAAAAAAA
9655811 CCTGGAGCGG
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
32 9 0.20
34 31 0.70
35 2 0.05
36 2 0.05
ACGTcount: A:0.83, C:0.05, G:0.00, T:0.12
Consensus pattern (33 bp):
AAAATCAAAAAAAAAAATTCAAAAAAAAAAAAA
Found at i:9655772 original size:13 final size:13
Alignment explanation
Indices: 9655756--9655790 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
9655746 TCAAAAAAAA
9655756 AAAAAAAAATTTC
1 AAAAAAAAATTTC
9655769 AAAAAAAAATTTC
1 AAAAAAAAATTTC
9655782 AAAAAAAAA
1 AAAAAAAAA
9655791 AAAAAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (13 bp):
AAAAAAAAATTTC
Found at i:9655786 original size:1 final size:1
Alignment explanation
Indices: 9655782--9655810 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
9655772 AAAAAATTTC
9655782 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
9655811 CCTGGAGCGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:9657100 original size:1 final size:1
Alignment explanation
Indices: 9657096--9657244 Score: 136
Period size: 1 Copynumber: 149.0 Consensus size: 1
9657086 GATTTTTTGA
* ** * ** ** ** *
9657096 TTTTTTTTATTTTTGATTTTTATTTTTTTTTGATTTTTTTGATTTTTTTTTTTTGATTTTTTTGT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * *
9657161 TTTTTTTTTTTTTTTTGTTTTTTTTTTTTTTTGTTTTTTTTTTTTGTTTTTGTGTTTTTTTGTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
9657226 TTTGTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTT
9657245 GCCGAACTCC
Statistics
Matches: 116, Mismatches: 32, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 116 1.00
ACGTcount: A:0.04, C:0.00, G:0.08, T:0.88
Consensus pattern (1 bp):
T
Found at i:9657127 original size:41 final size:37
Alignment explanation
Indices: 9657078--9657243 Score: 183
Period size: 42 Copynumber: 4.2 Consensus size: 37
9657068 ATTTTTTTGA
9657078 TTTTTTTTGATTTTTTGATTTTTTTTATTTTTGATTTTTAT
1 TTTTTTTTGATTTTTTG-TTTTTTTT-TTTTTG-TTTTT-T
*
9657119 TTTTTTTTGATTTTTTTGATTTTTTTTTTTTGATTTTTTTGT
1 TTTTTTTTGA-TTTTTTG-TTTTTTTTTTTT--TGTTTTT-T
**
9657161 TTTTTTTTTTTTTTTTGTTTTTTTTTTTTT-TTGTTTT
1 TTTTTTTTGATTTTTTGTTTTTTTTTTTTTGTT-TTTT
9657198 TTTTTTTTG-TTTTTGTGTTTTTTTGTTTTTTGTTTTTT
1 TTTTTTTTGATTTTT-TGTTTTTTT-TTTTTTGTTTTTT
9657236 TTTTTTTT
1 TTTTTTTT
9657244 TGCCGAACTC
Statistics
Matches: 113, Mismatches: 5, Indels: 17
0.84 0.04 0.13
Matches are distributed among these distances:
36 5 0.04
37 20 0.18
38 22 0.19
39 2 0.02
40 12 0.11
41 21 0.19
42 30 0.27
43 1 0.01
ACGTcount: A:0.05, C:0.00, G:0.08, T:0.87
Consensus pattern (37 bp):
TTTTTTTTGATTTTTTGTTTTTTTTTTTTTGTTTTTT
Found at i:9657244 original size:41 final size:40
Alignment explanation
Indices: 9657069--9657244 Score: 184
Period size: 41 Copynumber: 4.4 Consensus size: 40
9657059 CAACTCAACA
**
9657069 TTTTTTTGATTTTTTTTGATTTTTTGATTTTTTTTATTTTTG
1 TTTTTTTTTTTTTTTTTGATTTTTTG-TTTTTTTT-TTTTTG
* * *
9657111 -ATTTTTATTTTTTTTTGATTTTTTTGATTTTTTTTTTTTG
1 TTTTTTTTTTTTTTTTTGA-TTTTTTGTTTTTTTTTTTTTG
*
9657151 ATTTTTTTGTTTTTTTTTT--TTTTTT-TGTTTTTTTTTTT-
1 -TTTTTTT-TTTTTTTTTTGATTTTTTGTTTTTTTTTTTTTG
*
9657189 TTTTGTTTTTTTTTTTTG-TTTTTGTGTTTTTTTGTTTTTTG
1 TTTTTTTTTTTTTTTTTGATTTTT-TGTTTTTTT-TTTTTTG
9657230 TTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTT
9657245 GCCGAACTCC
Statistics
Matches: 114, Mismatches: 11, Indels: 19
0.79 0.08 0.13
Matches are distributed among these distances:
36 10 0.09
37 11 0.10
38 1 0.01
39 17 0.15
40 18 0.16
41 36 0.32
42 12 0.11
43 9 0.08
ACGTcount: A:0.05, C:0.00, G:0.09, T:0.86
Consensus pattern (40 bp):
TTTTTTTTTTTTTTTTTGATTTTTTGTTTTTTTTTTTTTG
Found at i:9657435 original size:41 final size:41
Alignment explanation
Indices: 9657251--9657869 Score: 905
Period size: 41 Copynumber: 15.1 Consensus size: 41
9657241 TTTTGCCGAA
* * * *
9657251 CTCCTCTAAACAGAGACTCAACGACTTTTG-AAAGTAAATTG
1 CTCCTCTCAACAGAGGCACCACGAC-TTTGAAAAGTAAATTG
* * * *
9657292 CTCCTCTAAACA-A-GCA-GACGA-TTGGGAAAGTAAATTG
1 CTCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATTG
9657329 CTCCTCTCAACAGAGGCACCACGACTTTTGGAAAA-TAAATTG
1 CTCCTCTCAACAGAGGCACCACGAC-TTT-GAAAAGTAAATTG
*
9657371 CTCCTCTCAACAGAGGCACCACGACTTTTGAAAAATAAATTG
1 CTCCTCTCAACAGAGGCACCACGAC-TTTGAAAAGTAAATTG
9657413 CTCCTCTCAACAGAGGCA-CACGACTTTGAAAAGTAAATTG
1 CTCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATTG
9657453 CTCCTCTCAACAGAGGCA--ACGACTTTGAAAAGTAAATTG
1 CTCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATTG
*
9657492 CTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTG
1 CTCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATTG
9657533 CTCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATTG
1 CTCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATTG
* * *
9657574 CTCCTCTAAACAGAGGTACCACGACTTTGAAAAAATAAATTG
1 CTCCTCTCAACAGAGGCACCACGACTTTG-AAAAGTAAATTG
*
9657616 CTCATCTCAACAGAGGCACCACGACTTTGAAAAGTAAATTG
1 CTCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATTG
* * *
9657657 CTCCTCTAAACAGAGGTACCACGACTTTGAAAAAATAAATTG
1 CTCCTCTCAACAGAGGCACCACGACTTTG-AAAAGTAAATTG
9657699 CTCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATTG
1 CTCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATTG
* * *
9657740 CTCCTCTAAACAGAGGTACCACGACTTTGAAAAAATAAATTG
1 CTCCTCTCAACAGAGGCACCACGACTTTG-AAAAGTAAATTG
9657782 CTCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATTG
1 CTCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATTG
* *
9657823 CTCCTCTCAACAGAGGCACCACGACTTTGGAAAAATAAATTA
1 CTCCTCTCAACAGAGGCACCACGACTTT-GAAAAGTAAATTG
9657865 CTCCT
1 CTCCT
9657870 TGACAATCAT
Statistics
Matches: 531, Mismatches: 33, Indels: 27
0.90 0.06 0.05
Matches are distributed among these distances:
36 3 0.01
37 22 0.04
38 5 0.01
39 42 0.08
40 38 0.07
41 225 0.42
42 192 0.36
43 4 0.01
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.23
Consensus pattern (41 bp):
CTCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATTG
Found at i:9657662 original size:83 final size:82
Alignment explanation
Indices: 9657251--9657869 Score: 939
Period size: 83 Copynumber: 7.6 Consensus size: 82
9657241 TTTTGCCGAA
* * * * * *
9657251 CTCCTCTAAACAGAGACTCAACGACTTTTG-AAAGTAAATTGCTCCTCTAAACA-A-GCA-GACG
1 CTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAATAAATTGCTCCTCTCAACAGAGGCACCACG
* *
9657312 A-TTGGGAAAGTAAATTG
65 ACTTTGAAAAGTAAATTG
* *
9657329 CTCCTCTCAACAGAGGCACCACGACTTTTGGAAAATAAATTGCTCCTCTCAACAGAGGCACCACG
1 CTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAATAAATTGCTCCTCTCAACAGAGGCACCACG
*
9657394 ACTTTTGAAAAATAAATTG
65 AC-TTTGAAAAGTAAATTG
* *
9657413 CTCCTCTCAACAGAGGCA-CACGACTTTGAAAAGTAAATTGCTCCTCTCAACAGAGGCA--ACGA
1 CTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTCTCAACAGAGGCACCACGA
9657475 CTTTGAAAAGTAAATTG
66 CTTTGAAAAGTAAATTG
*
9657492 CTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTCAACAGAGGCACCACGA
1 CTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTCTCAACAGAGGCACCACGA
9657557 CTTTGAAAAGTAAATTG
66 CTTTGAAAAGTAAATTG
* *
9657574 CTCCTCTAAACAGAGGTACCACGACTTTGAAAAAATAAATTGCTCATCTCAACAGAGGCACCACG
1 CTCCTCTAAACAGAGGCACCACGACTTTG-AAAAATAAATTGCTCCTCTCAACAGAGGCACCACG
9657639 ACTTTGAAAAGTAAATTG
65 ACTTTGAAAAGTAAATTG
*
9657657 CTCCTCTAAACAGAGGTACCACGACTTTGAAAAAATAAATTGCTCCTCTCAACAGAGGCACCACG
1 CTCCTCTAAACAGAGGCACCACGACTTTG-AAAAATAAATTGCTCCTCTCAACAGAGGCACCACG
9657722 ACTTTGAAAAGTAAATTG
65 ACTTTGAAAAGTAAATTG
*
9657740 CTCCTCTAAACAGAGGTACCACGACTTTGAAAAAATAAATTGCTCCTCTCAACAGAGGCACCACG
1 CTCCTCTAAACAGAGGCACCACGACTTTG-AAAAATAAATTGCTCCTCTCAACAGAGGCACCACG
9657805 ACTTTGAAAAGTAAATTG
65 ACTTTGAAAAGTAAATTG
* *
9657823 CTCCTCTCAACAGAGGCACCACGACTTTGGAAAAATAAATTACTCCT
1 CTCCTCTAAACAGAGGCACCACGACTTT-GAAAAATAAATTGCTCCT
9657870 TGACAATCAT
Statistics
Matches: 509, Mismatches: 21, Indels: 17
0.93 0.04 0.03
Matches are distributed among these distances:
78 26 0.05
79 53 0.10
80 46 0.09
81 3 0.01
82 85 0.17
83 264 0.52
84 32 0.06
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.23
Consensus pattern (82 bp):
CTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTCTCAACAGAGGCACCACGA
CTTTGAAAAGTAAATTG
Found at i:9659096 original size:10 final size:10
Alignment explanation
Indices: 9659083--9659120 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
9659073 CATTTTCTCA
9659083 TTTTTTTCTTT
1 TTTTTTTC-TT
9659094 TTTTTTTCTT
1 TTTTTTTCTT
*
9659104 TTTTTTTGTT
1 TTTTTTTCTT
9659114 TTTTTTT
1 TTTTTTT
9659121 TCATCATCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
10 18 0.69
11 8 0.31
ACGTcount: A:0.00, C:0.05, G:0.03, T:0.92
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:9659107 original size:21 final size:21
Alignment explanation
Indices: 9659083--9659122 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
9659073 CATTTTCTCA
9659083 TTTTTTTCTTTTTTTTTTCTT
1 TTTTTTTCTTTTTTTTTTCTT
*
9659104 TTTTTTTGTTTTTTTTTTC
1 TTTTTTTCTTTTTTTTTTC
9659123 ATCATCTTCT
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:0.00, C:0.07, G:0.03, T:0.90
Consensus pattern (21 bp):
TTTTTTTCTTTTTTTTTTCTT
Found at i:9659139 original size:1 final size:1
Alignment explanation
Indices: 9659083--9659121 Score: 51
Period size: 1 Copynumber: 39.0 Consensus size: 1
9659073 CATTTTCTCA
* * *
9659083 TTTTTTTCTTTTTTTTTTCTTTTTTTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
9659122 CATCATCTTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.00, C:0.05, G:0.03, T:0.92
Consensus pattern (1 bp):
T
Found at i:9663128 original size:165 final size:165
Alignment explanation
Indices: 9662834--9663304 Score: 828
Period size: 161 Copynumber: 2.9 Consensus size: 165
9662824 TAGTTGTTGA
* *
9662834 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCTCTCACCTCAAGAG
1 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAG
* *
9662899 TATGCAAGAAAAACTACTG-TTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAAA
66 TATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGGATTAATTAAAG-AAAAAA
9662963 AAAAAAATCAAAATCAGCCAAGTAATTAATTATCGG
130 AAAAAAATCAAAATCAGCCAAGTAATTAATTATCGG
9662999 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAG
1 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAG
*
9663064 TATGTAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGGATTAATTAAAG----AAA
66 TATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAAA
9663125 AAAAAATCAAAATCAGCCAAGTAATTAATTATCGG
131 AAAAAATCAAAATCAGCCAAGTAATTAATTATCGG
9663160 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAG
1 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAG
9663225 TATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAAG
66 TATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAA-
*
9663290 AAAAAAA-AAAAATCA
130 AAAAAAATCAAAATCA
9663305 AGATCAAAAT
Statistics
Matches: 293, Mismatches: 7, Indels: 12
0.94 0.02 0.04
Matches are distributed among these distances:
161 160 0.55
165 90 0.31
166 43 0.15
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.28
Consensus pattern (165 bp):
AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAG
TATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAAA
AAAAAATCAAAATCAGCCAAGTAATTAATTATCGG
Found at i:9663341 original size:1 final size:1
Alignment explanation
Indices: 9663337--9663402 Score: 69
Period size: 1 Copynumber: 66.0 Consensus size: 1
9663327 AAAAAAATTC
**** ***
9663337 AAAAAAAAAAAAAAAAATTTCAAAAAAAAATTCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
9663402 A
1 A
9663403 CCTGGAGCGG
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
1 59 1.00
ACGTcount: A:0.89, C:0.03, G:0.00, T:0.08
Consensus pattern (1 bp):
A
Found at i:9663341 original size:12 final size:12
Alignment explanation
Indices: 9663326--9663378 Score: 76
Period size: 12 Copynumber: 4.7 Consensus size: 12
9663316 AAAGTCAAAT
9663326 AAAAAAAATTCA
1 AAAAAAAATTCA
9663338 AAAAAAAA---A
1 AAAAAAAATTCA
*
9663347 AAAAAAATTTCA
1 AAAAAAAATTCA
9663359 AAAAAAAATTCA
1 AAAAAAAATTCA
9663371 AAAAAAAA
1 AAAAAAAA
9663379 AAAAAAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
9 8 0.22
12 28 0.78
ACGTcount: A:0.81, C:0.06, G:0.00, T:0.13
Consensus pattern (12 bp):
AAAAAAAATTCA
Found at i:9663360 original size:48 final size:48
Alignment explanation
Indices: 9663283--9663401 Score: 130
Period size: 48 Copynumber: 2.5 Consensus size: 48
9663273 TTAATTAAAG
* ** ** *
9663283 AAAAAAGAAAAAAAAAAAATCAAGATCAAAATCAAAGTCAAATAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAGATCAAAAAAAAAGTCAAAAAAAAA
*** ** *
9663331 AAATTCAAAAAAAAAAAAAAAAATTTCAAAAAAAAATTCAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAGATCAAAAAAAAAGTCAAAAAAAAA
9663379 AAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAA
9663402 ACCTGGAGCG
Statistics
Matches: 56, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
48 56 1.00
ACGTcount: A:0.82, C:0.06, G:0.03, T:0.10
Consensus pattern (48 bp):
AAAAAAAAAAAAAAAAAAAAAAAGATCAAAAAAAAAGTCAAAAAAAAA
Found at i:9663395 original size:33 final size:33
Alignment explanation
Indices: 9663326--9663399 Score: 112
Period size: 33 Copynumber: 2.2 Consensus size: 33
9663316 AAAGTCAAAT
****
9663326 AAAAAAAATTCAAAAAAAAAAAAAAAAATTTCA
1 AAAAAAAATTCAAAAAAAAAAAAAAAAAAAAAA
9663359 AAAAAAAATTCAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAATTCAAAAAAAAAAAAAAAAAAAAAA
9663392 AAAAAAAA
1 AAAAAAAA
9663400 AAACCTGGAG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.86, C:0.04, G:0.00, T:0.09
Consensus pattern (33 bp):
AAAAAAAATTCAAAAAAAAAAAAAAAAAAAAAA
Found at i:9664399 original size:3 final size:3
Alignment explanation
Indices: 9664391--9664419 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
9664381 ATCTTACAAA
9664391 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
9664420 AAAATATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:9665291 original size:60 final size:60
Alignment explanation
Indices: 9665099--9665319 Score: 313
Period size: 59 Copynumber: 3.7 Consensus size: 60
9665089 TTTTTTGTAG
* * *
9665099 GGAAAATTGATACTTTCAACTTTTTCCCAAAAATA-TTTTTTGGAAATTTCGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTGATTTTCAA
* * *** *
9665158 GGAAAATTGATACTTTCATCTTTTCCTCAAAAACCCTTTTTTTGAAAATTT-A-TTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTGATTTTC-AA
*
9665217 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTGATTTTCAA
*
9665277 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTT
9665320 TTTGAAAAAT
Statistics
Matches: 141, Mismatches: 17, Indels: 7
0.85 0.10 0.04
Matches are distributed among these distances:
58 4 0.03
59 77 0.55
60 56 0.40
61 4 0.03
ACGTcount: A:0.33, C:0.14, G:0.08, T:0.44
Consensus pattern (60 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTGATTTTCAA
Found at i:9665317 original size:119 final size:118
Alignment explanation
Indices: 9665101--9665319 Score: 350
Period size: 119 Copynumber: 1.8 Consensus size: 118
9665091 TTTTGTAGGG
*
9665101 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGGAAATTTCGATTTTCAAGGAAAATT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTCGATTTTCAAGGAAAATT
* *
9665166 GATACTTTCATCTTTTCCTCAAAAACCCTTTTTTTGAAAATTTATTTCTAAGA
66 GATACTTTCAACTTTTCCTCAAAAACACTTTTTTTGAAAATTTATTTCTAAGA
* *
9665219 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTGATTTTCAAGGAAAAT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGGAAATTTCGATTTTCAAGGAAAAT
* *
9665284 TGATACTTTCAACTTTTCC-CTAAAAATATTTTTTTT
65 TGATACTTTCAACTTTTCCTC-AAAAACACTTTTTTT
9665320 TTTGAAAAAT
Statistics
Matches: 92, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
118 33 0.36
119 59 0.64
ACGTcount: A:0.34, C:0.15, G:0.07, T:0.45
Consensus pattern (118 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTCGATTTTCAAGGAAAATT
GATACTTTCAACTTTTCCTCAAAAACACTTTTTTTGAAAATTTATTTCTAAGA
Found at i:9666359 original size:18 final size:19
Alignment explanation
Indices: 9666322--9666365 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
9666312 GAAAAGATAG
*
9666322 GATAAAAAAATAATAATCA
1 GATAAAAAAATAAGAATCA
*
9666341 GATAATAAAA-AAGAATCA
1 GATAAAAAAATAAGAATCA
9666359 GATAAAA
1 GATAAAA
9666366 TTAACAGATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.68, C:0.05, G:0.09, T:0.18
Consensus pattern (19 bp):
GATAAAAAAATAAGAATCA
Found at i:9666428 original size:3 final size:3
Alignment explanation
Indices: 9666422--9666460 Score: 53
Period size: 3 Copynumber: 12.7 Consensus size: 3
9666412 GTTAAAAAAA
9666422 AAT AAT AAT AAAT AAT AAT AAT AAT AAT -AT AAT ATAT AA
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT A-AT AA
9666461 CTATATACAT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 2 0.06
3 25 0.76
4 6 0.18
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:9666433 original size:16 final size:16
Alignment explanation
Indices: 9666414--9666448 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
9666404 AAAAATATGT
9666414 TAAAAAAAAATAATAA
1 TAAAAAAAAATAATAA
* *
9666430 TAAATAATAATAATAA
1 TAAAAAAAAATAATAA
9666446 TAA
1 TAA
9666449 TATAATATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
TAAAAAAAAATAATAA
Found at i:9666434 original size:10 final size:10
Alignment explanation
Indices: 9666421--9666499 Score: 63
Period size: 10 Copynumber: 7.6 Consensus size: 10
9666411 TGTTAAAAAA
9666421 AAATAATAAT
1 AAATAATAAT
9666431 AAATAATAAT
1 AAATAATAAT
9666441 -AATAATAAT
1 AAATAATAAT
9666450 ATAATATATAACT
1 A-AATA-ATAA-T
*
9666463 ATATACAT-AT
1 AAATA-ATAAT
**
9666473 AAATATATTCT
1 AAATA-ATAAT
*
9666484 AAATAAAAAT
1 AAATAATAAT
9666494 AAATAA
1 AAATAA
9666500 ATACAGATAT
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
9 9 0.16
10 25 0.45
11 11 0.20
12 9 0.16
13 2 0.04
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (10 bp):
AAATAATAAT
Found at i:9666764 original size:9 final size:9
Alignment explanation
Indices: 9666732--9666765 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
9666722 TGTATATATA
9666732 TTTTTTTGT
1 TTTTTTTGT
*
9666741 GTTTTTTGT
1 TTTTTTTGT
9666750 TTTTTTTGT
1 TTTTTTTGT
9666759 TTTTTTT
1 TTTTTTT
9666766 TTATCAAAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (9 bp):
TTTTTTTGT
Found at i:9666915 original size:84 final size:83
Alignment explanation
Indices: 9666774--9667187 Score: 567
Period size: 84 Copynumber: 5.0 Consensus size: 83
9666764 TTTTATCAAA
* * *
9666774 GCTCCTCTAAATAGAGGCTCAACGACTTTGAGAAACA-TAAATTGCTCCTCTAAACAGAGGCACC
1 GCTCCTCTAAACAGAGGCACCACGACTTTGA-AAA-AGTAAATTGCTCCTCTAAACAGAGGCACC
*
9666838 ACGACTTTGAAAAATAAATT
64 ACGACTTTGAAAAGTAAATT
* *
9666858 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAAGTAAATTGCTCCTCTAAACAGAAGTACCA
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCA
9666923 CGACTTTGGAAAAGTAAATT
65 CGACTTT-GAAAAGTAAATT
*
9666943 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTTCTCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
*
9667008 GACTTTGGAAAGTAAATT
66 GACTTTGAAAAGTAAATT
*
9667026 GCTCCTCTAAACAGAGGCA--ACGGAACTCTG--AAAGTAAATTGCTCCTCTAAACAGAGGCACC
1 GCTCCTCTAAACAGAGGCACCAC-G-ACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACC
* *
9667087 GA-AACTTTGGAAAGTAAATT
64 -ACGACTTTGAAAAGTAAATT
*
9667107 GCTCCTCTAAACAGAGGCACCACGACTTT-AGAAAGTAAATTGCTCCCTCTAAACAGAGGCA--A
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCT-CCTCTAAACAGAGGCACCA
*
9667169 CGAACTTGGAAAAGTAAAT
65 CG-ACTTTGAAAAGTAAAT
9667188 ACTCTTAGAC
Statistics
Matches: 300, Mismatches: 17, Indels: 28
0.87 0.05 0.08
Matches are distributed among these distances:
80 1 0.00
81 72 0.24
82 30 0.10
83 54 0.18
84 101 0.34
85 42 0.14
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.22
Consensus pattern (83 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
GACTTTGAAAAGTAAATT
Found at i:9666949 original size:42 final size:42
Alignment explanation
Indices: 9666774--9667187 Score: 557
Period size: 41 Copynumber: 10.0 Consensus size: 42
9666764 TTTTATCAAA
* * *
9666774 GCTCCTCTAAATAGAGGCTCAACGACTTTGAGAAACA-TAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-GAAA-AGTAAATT
*
9666817 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
*
9666858 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGGAAAAGTAAATT
* *
9666901 GCTCCTCTAAACAGAAGTACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
*
9666943 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
*
9666985 GCTTCTCTAAACAGAGGCACCACGACTTTGG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
*
9667026 GCTCCTCTAAACAGAGGCA--ACGGAACTCT-G-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCAC-G-ACTTTGGAAAAGTAAATT
*
9667066 GCTCCTCTAAACAGAGGCACCGA-AACTTTGG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCACC-ACGACTTTGGAAAAGTAAATT
*
9667107 GCTCCTCTAAACAGAGGCACCACGACTTTAG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
9667148 GCTCCCTCTAAACAGAGGCA--ACGAAC-TTGGAAAAGTAAAT
1 GCT-CCTCTAAACAGAGGCACCACG-ACTTTGGAAAAGTAAAT
9667188 ACTCTTAGAC
Statistics
Matches: 338, Mismatches: 20, Indels: 28
0.88 0.05 0.07
Matches are distributed among these distances:
39 2 0.01
40 43 0.13
41 130 0.38
42 102 0.30
43 61 0.18
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.22
Consensus pattern (42 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
Found at i:9668433 original size:32 final size:32
Alignment explanation
Indices: 9668397--9668457 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
9668387 TTGAATCTCC
9668397 TTTTTTATT-TTTTCATTTTCTCATTTTTCCCA
1 TTTTTT-TTCTTTTCATTTTCTCATTTTTCCCA
**
9668429 TTTTTTTTCTTTTTTTTTTCTCATTTTTC
1 TTTTTTTTCTTTTCATTTTCTCATTTTTC
9668458 ATCCATATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 2 0.08
32 24 0.92
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.75
Consensus pattern (32 bp):
TTTTTTTTCTTTTCATTTTCTCATTTTTCCCA
Found at i:9672443 original size:60 final size:59
Alignment explanation
Indices: 9672252--9672471 Score: 327
Period size: 59 Copynumber: 3.7 Consensus size: 59
9672242 TTTTTGTAGG
*
9672252 GAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGGAAATTTTGATTTTCAA
1 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTGATTTTCAA
* *** * *
9672310 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTGAAAATTT-ATTTCTGAA
1 -GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTGATTT-TCAA
9672370 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTGATTTTCAA
1 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTGATTTTCAA
*
9672429 GAAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTT
1 G-AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTT
9672472 TTTGAAAAAT
Statistics
Matches: 144, Mismatches: 13, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
59 84 0.58
60 60 0.42
ACGTcount: A:0.34, C:0.15, G:0.07, T:0.44
Consensus pattern (59 bp):
GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTGATTTTCAA
Found at i:9672469 original size:119 final size:118
Alignment explanation
Indices: 9672252--9672471 Score: 370
Period size: 119 Copynumber: 1.9 Consensus size: 118
9672242 TTTTTGTAGG
*
9672252 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTTGATTTTCAAGGAAAAT
1 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTTGATTTTCAAGAAAAAT
*
9672317 TGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTGAAAATTTATTTCTGAA
66 TGATACTTTCAACTTTTCCTCAAAAACACTTTTTTTGAAAATTTATTTCTGAA
*
9672370 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTGATTTTCAAGAAAAA
1 GAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGGAAATTTTGATTTTCAAGAAAAA
* *
9672435 TTGATACTTTCAACTTTTCC-CTAAAAATATTTTTTTT
65 TTGATACTTTCAACTTTTCCTC-AAAAACACTTTTTTT
9672472 TTTGAAAAAT
Statistics
Matches: 95, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
118 35 0.37
119 60 0.63
ACGTcount: A:0.34, C:0.15, G:0.07, T:0.44
Consensus pattern (118 bp):
GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTTGATTTTCAAGAAAAAT
TGATACTTTCAACTTTTCCTCAAAAACACTTTTTTTGAAAATTTATTTCTGAA
Found at i:9673079 original size:31 final size:31
Alignment explanation
Indices: 9673041--9673114 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
9673031 AAAACTGGGT
* *
9673041 TGGTCGTCGGAAACTTC-AATGTTGGCCGGAA
1 TGGTCGTCGGAAAATTCAAAT-TTCGCCGGAA
9673072 TGGTCGTCGGAAAATTCAAATTTCGCCGGAA
1 TGGTCGTCGGAAAATTCAAATTTCGCCGGAA
**
9673103 TTTTCGTCGGAA
1 TGGTCGTCGGAA
9673115 TCTGGAAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
31 35 0.92
32 3 0.08
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.28
Consensus pattern (31 bp):
TGGTCGTCGGAAAATTCAAATTTCGCCGGAA
Found at i:9673169 original size:25 final size:25
Alignment explanation
Indices: 9673123--9673176 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
9673113 AATCTGGAAA
*
9673123 TTTCCCAGAAATTTCCAGAAAAATT
1 TTTCCCAAAAATTTCCAGAAAAATT
* *
9673148 TTTCGCCAAAAATTTCTA-AAAATTT
1 TTTC-CCAAAAATTTCCAGAAAAATT
9673173 TTTC
1 TTTC
9673177 TCACTCCCAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.37, C:0.19, G:0.06, T:0.39
Consensus pattern (25 bp):
TTTCCCAAAAATTTCCAGAAAAATT
Found at i:9673586 original size:3 final size:3
Alignment explanation
Indices: 9673580--9673614 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
9673570 AAAAATAAAA
9673580 AAT AAT AAT AAT AAT AAT AAT -AT AAT AAT ATAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AA
9673615 CTATATACAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 25 0.83
4 3 0.10
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:9678566 original size:20 final size:21
Alignment explanation
Indices: 9678543--9678583 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
9678533 CAATATTATT
9678543 ATTATTATTATT-TTTAAAAA
1 ATTATTATTATTATTTAAAAA
9678563 ATTATTATTATTATTTAAAAA
1 ATTATTATTATTATTTAAAAA
9678584 TATAAATCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
ATTATTATTATTATTTAAAAA
Found at i:9680667 original size:198 final size:195
Alignment explanation
Indices: 9680317--9680695 Score: 476
Period size: 198 Copynumber: 1.9 Consensus size: 195
9680307 CTCTCATTAC
* * * *
9680317 AATTTTAAATTCCAGTCTTGTAATCATCTTGACGAAGAAAGAAGTATACTCAAATTTTAAAATTT
1 AATTTTAAATTCCAATCGTGTAATCATCTTGACGAAGAAAGAAGCATACTCAAAATTTAAAATTT
* * * * *
9680382 AATTTAATTGATTTATATAATTATTTTAAAAAAATTATATTCAATAAATTTAAAATTTAAATTTC
66 AATTTAATTAATTTATATAATTATTTTAAAAAAATAACATTCAATAAATATAAAATTCAAATTTC
* * * *
9680447 AATACTTATAATTTTTTTATTATTTTCAAATTACAACTTATTTTGTAAAAAGTATAAAAATATAT
131 AATACCTACAATTTTTTTATTATTTTCAAATTACAACCTATTTTATAAAAAGTATAAAAATATAT
* * *
9680512 AATTTTAAATTCCAATCGTGTAATCATCTTTAGCGGTA-AAAGAAGCGTACTCATAAAATTT-AA
1 AATTTTAAATTCCAATCGTGTAATCATCTTGA-C-GAAGAAAGAAGCATACTC--AAAATTTAAA
* * * * *
9680575 ATTTAAATTTAATTAATTTTTATGATTATTTT-TAAAAATAACATTTAATAAATATATAATTCAA
62 ATTT-AATTTAATTAATTTATATAATTATTTTAAAAAAATAACATTCAATAAATATAAAATTCAA
* *
9680639 ATTTTAATACCTACAATTTCTTTTATTATTTTCAAGTTACAACCTATTTTATAAAAA
126 ATTTCAATACCTACAATTT-TTTTATTATTTTCAAATTACAACCTATTTTATAAAAA
9680696 TAGGTAAAAA
Statistics
Matches: 155, Mismatches: 23, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
195 29 0.19
196 13 0.08
197 49 0.32
198 64 0.41
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.44
Consensus pattern (195 bp):
AATTTTAAATTCCAATCGTGTAATCATCTTGACGAAGAAAGAAGCATACTCAAAATTTAAAATTT
AATTTAATTAATTTATATAATTATTTTAAAAAAATAACATTCAATAAATATAAAATTCAAATTTC
AATACCTACAATTTTTTTATTATTTTCAAATTACAACCTATTTTATAAAAAGTATAAAAATATAT
Found at i:9681072 original size:28 final size:27
Alignment explanation
Indices: 9681007--9681074 Score: 66
Period size: 28 Copynumber: 2.4 Consensus size: 27
9680997 CTTCATTCAT
* *
9681007 TTTATTTTTAATTTTTTAATTTTTTATA
1 TTTATTTTTTA-TATTTAATTTTTTATA
**
9681035 TTTAACTTTTATATTTAGATTTTTTA-A
1 TTTATTTTTTATATTTA-ATTTTTTATA
9681062 CTTTATTTTTTAT
1 -TTTATTTTTTAT
9681075 TAGATGATTT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
27 6 0.19
28 26 0.81
ACGTcount: A:0.25, C:0.03, G:0.01, T:0.71
Consensus pattern (27 bp):
TTTATTTTTTATATTTAATTTTTTATA
Found at i:9681310 original size:25 final size:24
Alignment explanation
Indices: 9681281--9681330 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
9681271 ATTCTTTTTG
*
9681281 TTTTTATCATTTTATTTGTTTTTTAA
1 TTTTTA-CATTTT-TTTCTTTTTTAA
9681307 TTTTTACATTTTTTTCTTTTTTAA
1 TTTTTACATTTTTTTCTTTTTTAA
9681331 AAAAATTAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 11 0.48
25 6 0.26
26 6 0.26
ACGTcount: A:0.18, C:0.06, G:0.02, T:0.74
Consensus pattern (24 bp):
TTTTTACATTTTTTTCTTTTTTAA
Found at i:9681312 original size:18 final size:18
Alignment explanation
Indices: 9681277--9681310 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9681267 CCTCATTCTT
*
9681277 TTTGTTTTTATCATTTTA
1 TTTGTTTTTATAATTTTA
9681295 TTTGTTTTT-TAATTTT
1 TTTGTTTTTATAATTTT
9681311 TACATTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.15, C:0.03, G:0.06, T:0.76
Consensus pattern (18 bp):
TTTGTTTTTATAATTTTA
Found at i:9681666 original size:27 final size:23
Alignment explanation
Indices: 9681636--9681694 Score: 57
Period size: 23 Copynumber: 2.4 Consensus size: 23
9681626 ATTTTATAAA
9681636 AATTATATTTATAAATAATTAAATTAT
1 AATTATATTT-TAAA-AA-TAAA-TAT
*
9681663 AATT-TATATTAAAAATAAATAT
1 AATTATATTTTAAAAATAAATAT
*
9681685 ACTTATATTT
1 AATTATATTT
9681695 GTTTATACGT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
22 6 0.21
23 8 0.29
24 2 0.07
25 4 0.14
26 4 0.14
27 4 0.14
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
AATTATATTTTAAAAATAAATAT
Found at i:9684331 original size:3 final size:3
Alignment explanation
Indices: 9684323--9684348 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
9684313 GCGTAAAGTC
9684323 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
9684349 TCATAATATA
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:9686743 original size:98 final size:97
Alignment explanation
Indices: 9686574--9686769 Score: 329
Period size: 98 Copynumber: 2.0 Consensus size: 97
9686564 TAATAAATAC
* *
9686574 ATAAATTATTTCTTAATTAAATACAAAAATCATAGTCATTAAATGGTCAATGCTTTCAAAGCATA
1 ATAAATTATTTCTTAATTAAATAAAAAAATCATAGTCATTAAATAGTCAATGCTTTCAAAGCATA
*
9686639 TTTCTTATTTATAATATACGTGTTTGATGTTTA
66 TTTCTTATTTATAATATACGTG-TTGATATTTA
* *
9686672 ATAAATTATTTCTTAATTAAATAAAAAAATCATGGTCATTAAATAGTCAGTGCTTTCAAAGCATA
1 ATAAATTATTTCTTAATTAAATAAAAAAATCATAGTCATTAAATAGTCAATGCTTTCAAAGCATA
*
9686737 TTTCTTATTTATAGTATACGTGTTGATATTTA
66 TTTCTTATTTATAATATACGTGTTGATATTTA
9686769 A
1 A
9686770 AATTAAGAAT
Statistics
Matches: 92, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
97 10 0.11
98 82 0.89
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (97 bp):
ATAAATTATTTCTTAATTAAATAAAAAAATCATAGTCATTAAATAGTCAATGCTTTCAAAGCATA
TTTCTTATTTATAATATACGTGTTGATATTTA
Found at i:9688734 original size:12 final size:13
Alignment explanation
Indices: 9688701--9688759 Score: 60
Period size: 12 Copynumber: 5.0 Consensus size: 13
9688691 TATGTATAAA
9688701 AATTATT-T-TTT
1 AATTATTATATTT
9688712 AATTATT-TATTT
1 AATTATTATATTT
9688724 AATT-TTATATTT
1 AATTATTATATTT
9688736 --TTATATATATTT
1 AATTAT-TATATTT
9688748 AATT-TTATATTT
1 AATTATTATATTT
9688760 TTATTAAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
10 2 0.05
11 11 0.26
12 26 0.62
13 1 0.02
14 2 0.05
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
AATTATTATATTT
Found at i:9688788 original size:19 final size:20
Alignment explanation
Indices: 9688753--9688801 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
9688743 TATTTAATTT
9688753 TATATTTT-TATT-AAAAAA
1 TATATTTTATATTAAAAAAA
*
9688771 TATATTTTATATTTAAAAAA
1 TATATTTTATATTAAAAAAA
9688791 TAATATTTTAT
1 T-ATATTTTAT
9688802 TAATTTTGGG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.29
19 4 0.14
20 7 0.25
21 9 0.32
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TATATTTTATATTAAAAAAA
Found at i:9688807 original size:23 final size:20
Alignment explanation
Indices: 9688753--9688801 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
9688743 TATTTAATTT
9688753 TATATTTT-TA-TTAAAAAA
1 TATATTTTATATTTAAAAAA
9688771 TATATTTTATATTTAAAAAA
1 TATATTTTATATTTAAAAAA
9688791 TAATATTTTAT
1 T-ATATTTTAT
9688802 TAATTTTGGG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.29
19 2 0.07
20 9 0.32
21 9 0.32
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TATATTTTATATTTAAAAAA
Found at i:9689511 original size:36 final size:37
Alignment explanation
Indices: 9689471--9689545 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 37
9689461 TTATCTCAAG
*
9689471 TCGAATTTAAATTTAAAAAT-TAAATTTT-GATCAAAT
1 TCGAA-TTAAATTTAAAAATATAAATTTTAAATCAAAT
* *
9689507 TCGAATTAAATTTTAAACTATAAATTTTAAATCAAAT
1 TCGAATTAAATTTAAAAATATAAATTTTAAATCAAAT
9689544 TC
1 TC
9689546 AAACTTTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
35 12 0.35
36 13 0.38
37 9 0.26
ACGTcount: A:0.47, C:0.08, G:0.04, T:0.41
Consensus pattern (37 bp):
TCGAATTAAATTTAAAAATATAAATTTTAAATCAAAT
Found at i:9690048 original size:17 final size:16
Alignment explanation
Indices: 9690026--9690060 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
9690016 TATGTTTTTT
*
9690026 AAAGGGAAACAAATGAA
1 AAAGGGAAA-AAAGGAA
9690043 AAAGGGAAAAAAGGAA
1 AAAGGGAAAAAAGGAA
9690059 AA
1 AA
9690061 GTGAAAGTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.69, C:0.03, G:0.26, T:0.03
Consensus pattern (16 bp):
AAAGGGAAAAAAGGAA
Found at i:9692361 original size:16 final size:19
Alignment explanation
Indices: 9692340--9692388 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 19
9692330 TTTTATGTAT
9692340 TGTATTATTTATT-AT-TA
1 TGTATTATTTATTAATATA
*
9692357 T-TATTATGTATTAATATA
1 TGTATTATTTATTAATATA
9692375 TGTATATATTTATT
1 TGTAT-TATTTATT
9692389 TATTTATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 10 0.38
17 3 0.12
18 3 0.12
19 3 0.12
20 7 0.27
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (19 bp):
TGTATTATTTATTAATATA
Found at i:9692901 original size:25 final size:25
Alignment explanation
Indices: 9692848--9692901 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
9692838 CTGGGAGTGA
* *
9692848 GAAAAATTTTTTAGAGATTTTTGGT
1 GAAAAATTTTTTAGAAATTTCTGGT
*
9692873 GAAAAATTTTTCTGGAAATTTCTGG-
1 GAAAAATTTTT-TAGAAATTTCTGGT
9692898 GAAA
1 GAAA
9692902 TTTCCAGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 15 0.60
26 10 0.40
ACGTcount: A:0.35, C:0.04, G:0.20, T:0.41
Consensus pattern (25 bp):
GAAAAATTTTTTAGAAATTTCTGGT
Found at i:9693589 original size:59 final size:59
Alignment explanation
Indices: 9693465--9693589 Score: 173
Period size: 59 Copynumber: 2.1 Consensus size: 59
9693455 AAATAAAAAT
* * *
9693465 AAAAAA-TTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGA
1 AAAAAATTTCCAAAAAAAAGATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCCTACA
* * *
9693523 AAGAAATTTTCAAAAAAAAGGTTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCCTACA
1 AAAAAATTTCCAAAAAAAAGATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCCTACA
9693582 AAAAAATT
1 AAAAAATT
9693590 CATTCTTTCC
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
58 6 0.10
59 52 0.90
ACGTcount: A:0.48, C:0.09, G:0.13, T:0.30
Consensus pattern (59 bp):
AAAAAATTTCCAAAAAAAAGATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCCTACA
Found at i:9697448 original size:16 final size:17
Alignment explanation
Indices: 9697414--9697453 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
9697404 GAAGAATGAG
*
9697414 AAAAAAAAAGATGATGAA
1 AAAAAAAAAGA-GAAGAA
9697432 AAAAAAAAAGA-AAGAA
1 AAAAAAAAAGAGAAGAA
9697448 AAAAAA
1 AAAAAA
9697454 TGAAAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 10 0.48
18 11 0.52
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.05
Consensus pattern (17 bp):
AAAAAAAAAGAGAAGAA
Found at i:9697459 original size:9 final size:9
Alignment explanation
Indices: 9697427--9697486 Score: 60
Period size: 8 Copynumber: 7.1 Consensus size: 9
9697417 AAAAAAGATG
9697427 ATGAAAAAA
1 ATGAAAAAA
9697436 A--AAAAGAA
1 ATGAAAA-AA
9697444 A-GAAAAAAA
1 ATG-AAAAAA
9697453 ATGAAAAAA
1 ATGAAAAAA
9697462 ATG-AAAAA
1 ATGAAAAAA
9697470 ATG-AAAAA
1 ATGAAAAAA
9697478 AT-AAAAAA
1 ATGAAAAAA
9697486 A
1 A
9697487 GAGATTCAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 11
0.81 0.00 0.19
Matches are distributed among these distances:
7 4 0.09
8 24 0.52
9 13 0.28
10 5 0.11
ACGTcount: A:0.82, C:0.00, G:0.10, T:0.08
Consensus pattern (9 bp):
ATGAAAAAA
Found at i:9697485 original size:17 final size:16
Alignment explanation
Indices: 9697414--9697486 Score: 62
Period size: 17 Copynumber: 4.6 Consensus size: 16
9697404 GAAGAATGAG
* **
9697414 AAAAAAAAAGATGATG
1 AAAAAAAAAAATGAAA
9697430 AAAAAAAAAAA-G--A
1 AAAAAAAAAAATGAAA
*
9697443 AAGAAAAAAAATGAAA
1 AAAAAAAAAAATGAAA
*
9697459 AAAATGAAAAAATGAAA
1 AAAA-AAAAAAATGAAA
9697476 AAATAAAAAAA
1 AAA-AAAAAAA
9697487 GAGATTCAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
13 10 0.22
14 1 0.02
15 1 0.02
16 14 0.30
17 19 0.41
18 1 0.02
ACGTcount: A:0.81, C:0.00, G:0.11, T:0.08
Consensus pattern (16 bp):
AAAAAAAAAAATGAAA
Found at i:9698766 original size:40 final size:40
Alignment explanation
Indices: 9698722--9699294 Score: 813
Period size: 40 Copynumber: 14.0 Consensus size: 40
9698712 GTCTAGGAGT
9698722 ATTTACTTTTCAAAGTTCGT-TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCA
*
9698762 ATTTA-TTTTCCAAAGTTCGT-TGCCTCTGTTTAGAAGAGCA
1 ATTTACTTTT-CAAAG-TCGTGTGCCTCTGTTTAGAGGAGCA
9698802 ATTTACTTTTCCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTT--CAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
9698845 ATTTA-TTTTCCAAAGTTCGT-TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTT-CAAAG-TCGTGTGCCTCTGTTTAGAGGAGCA
*
9698885 ATTTACTTTTCCCAAAGTCGTGGTGCCTTTGTTTAGAGGAGCA
1 ATTTACTTTT--CAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
9698928 ATTTACTTTTCAAAGTTCGT-TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCA
9698968 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
9699009 ATTTACTTTTCAAAGTTCGT-TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCA
*
9699049 ATTTACTTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTAC-TTTTCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
9699091 ATTTACTTTTCAAAGTTCGT-TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCA
*
9699131 ATTTACTTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTAC-TTTTCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
9699173 ATTTACTTTTCAAAGTTCGT-TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCA
* *
9699213 ATTTACTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
*
9699254 ATTTACTTTCCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
1 ATTTACTTTTC-AAAGTCGT-GTGCCTCTGTTTAGAGGAGC
9699295 TTTGGTAAAA
Statistics
Matches: 497, Mismatches: 11, Indels: 48
0.89 0.02 0.09
Matches are distributed among these distances:
39 12 0.02
40 190 0.38
41 128 0.26
42 114 0.23
43 53 0.11
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (40 bp):
ATTTACTTTTCAAAGTCGTGTGCCTCTGTTTAGAGGAGCA
Found at i:9698873 original size:123 final size:121
Alignment explanation
Indices: 9698722--9699294 Score: 842
Period size: 123 Copynumber: 4.7 Consensus size: 121
9698712 GTCTAGGAGT
9698722 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTA-TTTTCCAAAGTTCGT-TGC
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAG-TCGTGTGC
*
9698785 CTCTGTTTAGAAGAGCAATTTACTTTTCCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
65 CTCTGTTTAGAGGAGCAATTTACTTTT--CAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
9698845 ATTTA-TTTTCCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCCAAAGTCGTGGT
1 ATTTACTTTT-CAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTT-CCAAAGTCGT-GT
*
9698909 GCCTTTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
63 GCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
9698968 ATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAGTTCGT-T
1 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAG-TCGTGT
*
9699030 GCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAG-TCGTGGTACCTCTGTTTAGAGGAGCA
63 GCCTCTGTTTAGAGGAGCAATTTAC-TTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
* *
9699091 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAGTCGTGGTAC
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGT-GTGC
9699156 CTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
65 CTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
* *
9699213 ATTTACTTTCCAAAG-TCGTGGTACCTCTGTTTAGAGGAGCAATTTAC-TTTCCAAAAGTCGTGG
1 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTACTTTTCC-AAAGTCGT-G
9699276 TGCCTCTGTTTAGAGGAGC
62 TGCCTCTGTTTAGAGGAGC
9699295 TTTGGTAAAA
Statistics
Matches: 419, Mismatches: 10, Indels: 42
0.89 0.02 0.09
Matches are distributed among these distances:
121 33 0.08
122 93 0.22
123 175 0.42
124 80 0.19
125 10 0.02
126 28 0.07
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (121 bp):
ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGTGCC
TCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
Found at i:9699111 original size:82 final size:82
Alignment explanation
Indices: 9698722--9699294 Score: 937
Period size: 82 Copynumber: 7.0 Consensus size: 82
9698712 GTCTAGGAGT
9698722 ATTTAC-TTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTA-TTTTCCAAAGTTCGTT
1 ATTTACTTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAGTTCGTT
*
9698783 GCCTCTGTTTAGAAGAGCA
64 GCCTCTGTTTAGAGGAGCA
*
9698802 ATTTACTTTTCCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTA-TTTTCCAAAGTTCGTT
1 ATTTACTTTT-TCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAGTTCGTT
9698866 GCCTCTGTTTAGAGGAGCA
64 GCCTCTGTTTAGAGGAGCA
* *
9698885 ATTTACTTTTCCCAAAGTCGTGGTGCCTTTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTG
1 ATTTACTTTT-TCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTG
9698950 CCTCTGTTTAGAGGAGCA
65 CCTCTGTTTAGAGGAGCA
9698968 ATTTAC-TTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGC
1 ATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGC
9699032 CTCTGTTTAGAGGAGCA
66 CTCTGTTTAGAGGAGCA
*
9699049 ATTTACTTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGC
1 ATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGC
9699114 CTCTGTTTAGAGGAGCA
66 CTCTGTTTAGAGGAGCA
*
9699131 ATTTACTTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGC
1 ATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGC
9699196 CTCTGTTTAGAGGAGCA
66 CTCTGTTTAGAGGAGCA
* * *
9699213 ATTTAC-TTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTCCAAAAG-TCGTGG
1 ATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTC-AAAGTTCGT--
9699276 TGCCTCTGTTTAGAGGAGC
63 TGCCTCTGTTTAGAGGAGC
9699295 TTTGGTAAAA
Statistics
Matches: 476, Mismatches: 8, Indels: 15
0.95 0.02 0.03
Matches are distributed among these distances:
80 6 0.01
81 131 0.28
82 174 0.37
83 161 0.34
84 4 0.01
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (82 bp):
ATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGC
CTCTGTTTAGAGGAGCA
Found at i:9699326 original size:16 final size:15
Alignment explanation
Indices: 9699302--9699415 Score: 131
Period size: 15 Copynumber: 7.4 Consensus size: 15
9699292 AGCTTTGGTA
9699302 AAAAAAAAAAAAAAC
1 AAAAAAAAAAAAAAC
9699317 AAAAACAAAAAAAATAC
1 AAAAA-AAAAAAAA-AC
* *
9699334 AAAAATACAAAAATAC
1 AAAAA-AAAAAAAAAC
*
9699350 AAAAAAACAAAAAAC
1 AAAAAAAAAAAAAAC
9699365 AAAAAAACAAAAAAAC
1 AAAAAAA-AAAAAAAC
*
9699381 AAAAAAAAAACAAA-
1 AAAAAAAAAAAAAAC
* *
9699395 AAAAACAAAAAAACC
1 AAAAAAAAAAAAAAC
9699410 AAAAAA
1 AAAAAA
9699416 TGTTGAGTTG
Statistics
Matches: 83, Mismatches: 12, Indels: 8
0.81 0.12 0.08
Matches are distributed among these distances:
14 11 0.13
15 30 0.36
16 29 0.35
17 13 0.16
ACGTcount: A:0.86, C:0.11, G:0.00, T:0.03
Consensus pattern (15 bp):
AAAAAAAAAAAAAAC
Found at i:9699412 original size:9 final size:8
Alignment explanation
Indices: 9699301--9699415 Score: 126
Period size: 8 Copynumber: 13.8 Consensus size: 8
9699291 GAGCTTTGGT
*
9699301 AAAAAAAA
1 AAAAAAAC
9699309 AAAAAAAC
1 AAAAAAAC
9699317 AAAAACAA-
1 AAAAA-AAC
9699325 AAAAAATAC
1 AAAAAA-AC
*
9699334 AAAAATAC
1 AAAAAAAC
*
9699342 AAAAATAC
1 AAAAAAAC
9699350 AAAAAAAC
1 AAAAAAAC
9699358 -AAAAAAC
1 AAAAAAAC
9699365 AAAAAAAC
1 AAAAAAAC
9699373 AAAAAAAC
1 AAAAAAAC
9699381 AAAAAAAAAAC
1 ---AAAAAAAC
9699392 AAAAAAAAC
1 -AAAAAAAC
9699401 AAAAAAACC
1 AAAAAAA-C
9699410 AAAAAA
1 AAAAAA
9699416 TGTTGAGTTG
Statistics
Matches: 96, Mismatches: 3, Indels: 15
0.84 0.03 0.13
Matches are distributed among these distances:
7 8 0.08
8 57 0.59
9 23 0.24
11 8 0.08
ACGTcount: A:0.86, C:0.11, G:0.00, T:0.03
Consensus pattern (8 bp):
AAAAAAAC
Found at i:9699415 original size:1 final size:1
Alignment explanation
Indices: 9699301--9699407 Score: 88
Period size: 1 Copynumber: 107.0 Consensus size: 1
9699291 GAGCTTTGGT
* * * * * * * * * *
9699301 AAAAAAAAAAAAAAACAAAAACAAAAAAAATACAAAAATACAAAAATACAAAAAAACAAAAAACA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * *
9699366 AAAAAACAAAAAAACAAAAAAAAAACAAAAAAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
9699408 CCAAAAAATG
Statistics
Matches: 78, Mismatches: 28, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 78 1.00
ACGTcount: A:0.87, C:0.10, G:0.00, T:0.03
Consensus pattern (1 bp):
A
Found at i:9699635 original size:16 final size:19
Alignment explanation
Indices: 9699614--9699662 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 19
9699604 TTTTATGTAT
9699614 TGTATTATTTATT-AT-TA
1 TGTATTATTTATTAATATA
*
9699631 T-TATTATGTATTAATATA
1 TGTATTATTTATTAATATA
9699649 TGTATATATTTATT
1 TGTAT-TATTTATT
9699663 TATTTATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 10 0.38
17 3 0.12
18 3 0.12
19 3 0.12
20 7 0.27
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (19 bp):
TGTATTATTTATTAATATA
Found at i:9699782 original size:53 final size:53
Alignment explanation
Indices: 9699689--9699794 Score: 119
Period size: 53 Copynumber: 2.0 Consensus size: 53
9699679 AATATTTATG
* * ** *
9699689 TGTATTTATTATTATGTAATATATATATTTTTTATCTTTTTATT-TTATTCATTT
1 TGTATTTATTATTATCTAATATATATATCTGATATATTTTT-TTATTATT-ATTT
9699743 TGTATTT-TTACTTATCTAAT-TATATATCTGATATATTTTTTTATTATTATTT
1 TGTATTTATTA-TTATCTAATATATATATCTGATATATTTTTTTATTATTATTT
9699795 ATCCTATAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
52 6 0.13
53 24 0.53
54 15 0.33
ACGTcount: A:0.26, C:0.05, G:0.04, T:0.65
Consensus pattern (53 bp):
TGTATTTATTATTATCTAATATATATATCTGATATATTTTTTTATTATTATTT
Found at i:9701411 original size:16 final size:16
Alignment explanation
Indices: 9701392--9701495 Score: 51
Period size: 16 Copynumber: 6.6 Consensus size: 16
9701382 TATTAGTAAT
9701392 AATACATAAATAATAA
1 AATACATAAATAATAA
* *
9701408 AATACATAGGATATTAA
1 AATACATA-AATAATAA
*
9701425 CAGA-AAATAAATAA-ATA
1 -A-ATACATAAATAATA-A
* * *
9701442 AATATATACAT-ATATT
1 AATACATAAATAATA-A
9701458 AATACAT-AATAAT--
1 AATACATAAATAATAA
*
9701471 AATA-ATAAATAATAC
1 AATACATAAATAATAA
9701486 AATACATAAA
1 AATACATAAA
9701496 ATACAAAAGA
Statistics
Matches: 67, Mismatches: 10, Indels: 22
0.68 0.10 0.22
Matches are distributed among these distances:
12 2 0.03
13 10 0.15
15 8 0.12
16 31 0.46
17 10 0.15
18 5 0.07
19 1 0.01
ACGTcount: A:0.62, C:0.07, G:0.03, T:0.28
Consensus pattern (16 bp):
AATACATAAATAATAA
Found at i:9701809 original size:41 final size:40
Alignment explanation
Indices: 9701720--9702496 Score: 986
Period size: 41 Copynumber: 19.0 Consensus size: 40
9701710 TTTTACCAAA
* * *
9701720 GCTCCTATAAACAGAGGCAACACGACTTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGG-ACCACGAC-TTTGAAAAGTAAATT
*
9701762 GCTCCTCTAAATAGAGGTACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGG-ACCACGACTTTGAAAAGTAAATT
* *
9701803 GCTCCTCTAAACAGAGG-CAACGAACTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGACCACG-ACTTTGAAAAGTAAATT
9701843 GCTCCTCTAAACAGAGGTACCACGACTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGG-ACCACGACTTTG-AAAAGTAAATT
* *
9701885 GCTCCTCTAAACAGAGG-CAACGAAC-TTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGACCACG-ACTTTGAAAAGTAAATT
*
9701924 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGG-ACCACGACTTTGAAAAGTAAATT
*
9701965 GCTCCTCTAAACAGAGG-CAACGAAC-TTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGACCACG-ACTTTG-AAAAGTAAATT
9702005 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGG-ACCACGACTTTG-AAAAGTAAATT
*
9702047 GCTCCTCTAAACAGAGG-CAACGAACTTTGAAAAAGTAAA-T
1 GCTCCTCTAAACAGAGGACCACG-ACTTTG-AAAAGTAAATT
* *
9702087 ACTCCTCTAAACAGAAGTACCACGACTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAG-AGGACCACGACTTTG-AAAAGTAAATT
*
9702129 GCTCCTCTAAACAGAGG-CAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGACCACG-ACTTTGAAAAGTAAATT
9702169 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGG-ACCACGACTTTG-AAAAGTAAATT
*
9702211 GCTCCTCTAAACAGAGG-CAACGAAACTTTG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGACCACG--ACTTTGAAAAGTAAATT
*
9702251 GCTCCTCTAAACAGAGG-CAACGAACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGACCACG-ACTTT-GAAAAGTAAATT
*
9702292 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGG-ACCACGACTTTGAAAAGTAAATT
9702333 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGG-ACCACGAC-TTTG-AAAAGTAAATT
* *
9702376 GCTCCTCTAAATAGAGG-CAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGACCACG-ACTTTGAAAAGTAAATT
*
9702416 GCTCCTCTAAACAGAGGTACCACGACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGG-ACCACGACTTTGAAAAGTAAATT
* *
9702457 GCTCCTCTAAACAGAGG-CAACGAACTTTTGAAAAATAAAT
1 GCTCCTCTAAACAGAGGACCACG-AC-TTTGAAAAGTAAAT
9702497 ACTCCTAGAC
Statistics
Matches: 666, Mismatches: 35, Indels: 69
0.86 0.05 0.09
Matches are distributed among these distances:
39 48 0.07
40 187 0.28
41 240 0.36
42 161 0.24
43 30 0.05
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (40 bp):
GCTCCTCTAAACAGAGGACCACGACTTTGAAAAGTAAATT
Found at i:9702502 original size:81 final size:82
Alignment explanation
Indices: 9701720--9702496 Score: 1225
Period size: 82 Copynumber: 9.5 Consensus size: 82
9701710 TTTTACCAAA
* * *
9701720 GCTCCTATAAACAGAGGCAAC-ACGACTTTTGGAAAGTAAATTGCTCCTCTAAATAGAGGTACCA
1 GCTCCTCTAAACAGAGGCAACGA--AC-TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCA
9701784 CGACTTTG-AAAAGTAAATT
63 CGACTTTGAAAAAGTAAATT
*
9701803 GCTCCTCTAAACAGAGGCAACGAACTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGA
1 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGA
9701868 CTTTGAAAAAGTAAATT
66 CTTTGAAAAAGTAAATT
*
9701885 GCTCCTCTAAACAGAGGCAACGAAC-TTGGAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGA
1 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGA
*
9701949 CTTTG-GAAAGTAAATT
66 CTTTGAAAAAGTAAATT
*
9701965 GCTCCTCTAAACAGAGGCAACGAAC-TTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCAACGAACTTTG-AAAAGTAAATTGCTCCTCTAAACAGAGGTACCACG
9702029 ACTTTGAAAAAGTAAATT
65 ACTTTGAAAAAGTAAATT
* *
9702047 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAAGTAAA-TACTCCTCTAAACAGAAGTACCACG
1 GCTCCTCTAAACAGAGGCAACGAACTTTG-AAAAGTAAATTGCTCCTCTAAACAGAGGTACCACG
9702111 ACTTTGAAAAAGTAAATT
65 ACTTTGAAAAAGTAAATT
*
9702129 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGA
1 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGA
9702194 CTTTGAAAAAGTAAATT
66 CTTTGAAAAAGTAAATT
*
9702211 GCTCCTCTAAACAGAGGCAACGAAACTTTG-AAAGTAAATTGCTCCTCTAAACAGAGG--CAACG
1 GCTCCTCTAAACAGAGGCAACG-AACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACG
*
9702273 AACTTTGGAAAAGTAAATT
65 -ACTTTGAAAAAGTAAATT
* * *
9702292 GCTCCTCTAAACAGAGGTACCACG-ACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGG--CAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCAC
9702356 GACTTTTGAAAAAGTAAATT
64 GAC-TTTGAAAAAGTAAATT
*
9702376 GCTCCTCTAAATAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGA
1 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGA
9702441 CTTTGAAAAA-TAAATT
66 CTTTGAAAAAGTAAATT
*
9702457 GCTCCTCTAAACAGAGGCAACGAACTTTTGAAAAATAAAT
1 GCTCCTCTAAACAGAGGCAACGAAC-TTTGAAAAGTAAAT
9702497 ACTCCTAGAC
Statistics
Matches: 651, Mismatches: 27, Indels: 33
0.92 0.04 0.05
Matches are distributed among these distances:
80 42 0.06
81 202 0.31
82 284 0.44
83 87 0.13
84 36 0.06
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (82 bp):
GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGA
CTTTGAAAAAGTAAATT
Found at i:9705683 original size:59 final size:59
Alignment explanation
Indices: 9705618--9706150 Score: 570
Period size: 59 Copynumber: 8.9 Consensus size: 59
9705608 GGAAAGAATG
* * ***
9705618 AATTTTTTTGTAGGGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTGAA
1 AATTTTTTTCTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAATTTTTTTTTGAA
9705677 AATTTTTTTCTAAGGAAAATTGATACTTTCAACTTTTCC-CTAAAAATATTTTTTTTTGAA
1 AATTTTTTTCTAAGGAAAATTGATACTTTCAACTTTTCCTC-AAAAA-ATTTTTTTTTGAA
* ***
9705737 ATTTTGATTTTC-AAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTGAA
1 AATTT--TTTTCTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAATTTTTTTTTGAA
* *
9705797 AATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTCC-CCAAAAATATTTTTTTTGAA
1 AATTTTTTTCTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAAT-TTTTTTTTGAA
* *
9705856 ATTTTGATTTTC-CAGGAAAATTGATACTTTCAACTTTTTCCT-AAAAATATTTTTTTTTG-A
1 AATTT--TTTTCTAAGGAAAATTGATACTTTCAAC-TTTTCCTCAAAAA-ATTTTTTTTTGAA
* * * * * *
9705916 AATTTATTTCTGAGGAAAATTGATACTTTCAACTCTTCC-CCAAAAA-TATTTTTTGGA
1 AATTTTTTTCTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAATTTTTTTTTGAA
* *
9705973 AATTTATTTCTAAGGAAAATTGATACTTTTAACTTTTCC-CTAAAAATATTTTTTTTTGGAA
1 AATTTTTTTCTAAGGAAAATTGATACTTTCAACTTTTCCTC-AAAAA-ATTTTTTTTT-GAA
* * * *
9706034 ATTTATTTTTCTTTTAAGAAAAATTGATACTTTCAACTTTTCC-CTAAAAA-TATTTTTTGAA
1 A---ATTTTT-TTCTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAATTTTTTTTTGAA
*
9706095 AA-TTTATTCTTAAGGAAAATTGATACTTTCAACTTTTTCCT-AAAAATATTTTTTTT
1 AATTTTTTTC-TAAGGAAAATTGATACTTTCAAC-TTTTCCTCAAAAA-ATTTTTTTT
9706151 GGAATTTTTT
Statistics
Matches: 404, Mismatches: 42, Indels: 55
0.81 0.08 0.11
Matches are distributed among these distances:
56 10 0.02
57 64 0.16
58 38 0.09
59 107 0.26
60 67 0.17
61 63 0.16
62 15 0.04
63 1 0.00
64 9 0.02
65 30 0.07
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (59 bp):
AATTTTTTTCTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAATTTTTTTTTGAA
Found at i:9705887 original size:119 final size:118
Alignment explanation
Indices: 9705631--9706151 Score: 668
Period size: 120 Copynumber: 4.4 Consensus size: 118
9705621 TTTTTTGTAG
* *
9705631 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA-CCCTTTTTTTGAAAATTTTTTTCTAAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATACCTTTTTTTGAAAATTTATTTCTAAGGAAA
*
9705695 ATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTTGATTTTCAA
66 ATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTTGAAATTTT-ATTTTCAA
*
9705751 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA-CCCTTTTTTTGAAAATTTATTTCTAAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATACCTTTTTTTGAAAATTTATTTCTAAGGAAA
*
9705815 ATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTGATTTTCCA
66 ATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGAAATTTT-ATTTTCAA
** *
9705870 GGAAAATTGATACTTTCAACTTTTTCCT-AAAAATATTTTTTTTTG-AAATTTATTTCTGAGGAA
1 GGAAAATTGATACTTTCAAC-TTTTCCTCAAAAATACCTTTTTTTGAAAATTTATTTCTAAGGAA
* *
9705933 AATTGATACTTTCAACTCTTCCCCAAAAATATTTTTTGGAAA-TTTA-TTTCTAA
65 AATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTTATTTTC-AA
* ** *
9705986 GGAAAATTGATACTTTTAACTTTTCC-CTAAAAATATTTTTTTTTGGAAATTTATTTTTCTTTTA
1 GGAAAATTGATACTTTCAACTTTTCCTC-AAAAATACCTTTTTTTGAAAATTTA--TTTC---TA
* * *
9706050 AGAAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTGAAAATTTATTCTT-AA
60 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTTATT-TTCAA
*
9706108 GGAAAATTGATACTTTCAACTTTTTCCT-AAAAATA-TTTTTTTTG
1 GGAAAATTGATACTTTCAAC-TTTTCCTCAAAAATACCTTTTTTTG
9706152 GAATTTTTTA
Statistics
Matches: 368, Mismatches: 17, Indels: 31
0.88 0.04 0.07
Matches are distributed among these distances:
115 10 0.03
116 38 0.10
117 10 0.03
118 10 0.03
119 100 0.27
120 107 0.29
121 18 0.05
122 66 0.18
123 7 0.02
124 2 0.01
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (118 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATACCTTTTTTTGAAAATTTATTTCTAAGGAAA
ATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTTATTTTCAA
Found at i:9706141 original size:27 final size:27
Alignment explanation
Indices: 9706052--9706141 Score: 67
Period size: 27 Copynumber: 3.2 Consensus size: 27
9706042 TTCTTTTAAG
*
9706052 AAAAATTGATACTTTCAACTTTTCCCT
1 AAAAATTGATACTTTCAACTTTTTCCT
** * * *
9706079 AAAAA-T-ATTTTTTGAAAATTTATTCTT
1 AAAAATTGATACTTT-CAACTTT-TTCCT
9706106 AAGGAAAATTGATACTTTCAACTTTTTCCT
1 -A--AAAATTGATACTTTCAACTTTTTCCT
9706136 AAAAAT
1 AAAAAT
9706142 ATTTTTTTTG
Statistics
Matches: 45, Mismatches: 11, Indels: 14
0.64 0.16 0.20
Matches are distributed among these distances:
25 5 0.11
26 6 0.13
27 13 0.29
28 1 0.02
29 1 0.02
30 8 0.18
31 6 0.13
32 5 0.11
ACGTcount: A:0.39, C:0.13, G:0.06, T:0.42
Consensus pattern (27 bp):
AAAAATTGATACTTTCAACTTTTTCCT
Found at i:9706179 original size:122 final size:118
Alignment explanation
Indices: 9705631--9706179 Score: 609
Period size: 119 Copynumber: 4.6 Consensus size: 118
9705621 TTTTTTGTAG
*** *
9705631 GGAAAATTGATACTTTCAAC-TTTTCCTCAAAAACCCTTTTTTT-GAAA---ATTTTTTTCTAAG
1 GGAAAATTGATACTTTCAACTTTTTCCT-AAAAATATTTTTTTTGGAAATTTATTTTTTT-TAAA
* *
9705691 GAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTTGATTTTCAA
64 GAAAATTGATACTTTCAACTTTTCCCCAAAAATA---TTTTTTGAAAATTT-ATTTT-AA
*** * * *
9705751 GGAAAATTGATACTTTCAAC-TTTTCCTCAAAAACCCTTTTTTTGAAAATTTA---TTTCTAAGG
1 GGAAAATTGATACTTTCAACTTTTTCCT-AAAAATATTTTTTTTGGAAATTTATTTTTTTTAAAG
* *
9705812 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTGATTTTCCA
65 AAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTGAAAATTT-ATTTT-AA
* * * *
9705870 GGAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTTTGAAATTTA---TTTCTGAGGA
1 GGAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTTGGAAATTTATTTTTTTTAAAGA
* *
9705932 AAATTGATACTTTCAACTCTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAA
66 AAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTATTT-TAA
* * *
9705986 GGAAAATTGATACTTTTAACTTTTCCCTAAAAATATTTTTTTTTGGAAATTTATTTTTCTTTTAA
1 GGAAAATTGATACTTTCAACTTTTTCCTAAAAATA-TTTTTTTTGGAAATTTATTTTT-TTTAAA
*
9706051 GAAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGAAAATTTATTCTTAA
64 G-AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTATT-TTAA
*
9706108 GGAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTTGGAATTTTTTATTTTTATTTAA
1 GGAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTTGGAA--ATTTATTTTT-TTTAA
9706173 AGAAAAT
63 AGAAAAT
9706180 AAAATAATAA
Statistics
Matches: 386, Mismatches: 28, Indels: 28
0.87 0.06 0.06
Matches are distributed among these distances:
116 38 0.10
117 29 0.08
119 103 0.27
120 89 0.23
121 22 0.06
122 88 0.23
123 16 0.04
124 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.46
Consensus pattern (118 bp):
GGAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTTGGAAATTTATTTTTTTTAAAGA
AAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTATTTTAA
Found at i:9706718 original size:19 final size:19
Alignment explanation
Indices: 9706676--9706723 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
9706666 TCTGGGATTC
* *
9706676 TTCGCCGGAAACTGGACTG
1 TTCGCCGGAAACTGCAATG
* *
9706695 GTCGCCGGAAACTTCAATG
1 TTCGCCGGAAACTGCAATG
9706714 TTCGCCGGAA
1 TTCGCCGGAA
9706724 TTGTTGCCGG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.23, C:0.27, G:0.29, T:0.21
Consensus pattern (19 bp):
TTCGCCGGAAACTGCAATG
Found at i:9706736 original size:31 final size:31
Alignment explanation
Indices: 9706696--9706766 Score: 92
Period size: 31 Copynumber: 2.3 Consensus size: 31
9706686 ACTGGACTGG
* *
9706696 TCGCCGGAAACTTC-AATGTTCGCCGGAATTGT
1 TCGCCGGAAAATTCAAAT-TTCGCCAGAATT-T
9706728 T-GCCGGAAAATTCAAATTTCGCCAGAATTT
1 TCGCCGGAAAATTCAAATTTCGCCAGAATTT
9706758 TCGCCGGAA
1 TCGCCGGAA
9706767 TCTGGAAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
30 2 0.06
31 29 0.83
32 4 0.11
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.27
Consensus pattern (31 bp):
TCGCCGGAAAATTCAAATTTCGCCAGAATTT
Found at i:9707244 original size:18 final size:19
Alignment explanation
Indices: 9707223--9707266 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
9707213 AATAAAAAAG
* *
9707223 ATAAATATAT-ATATATAC
1 ATAAATATATAAAATACAC
9707241 ATAAATA-ATAAAATACAC
1 ATAAATATATAAAATACAC
9707259 ATAAATAT
1 ATAAATAT
9707267 TAACAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (19 bp):
ATAAATATATAAAATACAC
Found at i:9708521 original size:23 final size:23
Alignment explanation
Indices: 9708469--9708534 Score: 79
Period size: 23 Copynumber: 3.0 Consensus size: 23
9708459 ATGCTTGAAT
9708469 TGATATTTTAA-ATTAAAATTT-A
1 TGAT-TTTTAATATTAAAATTTAA
9708491 --ATTTTTAATACTT-AAATTTAA
1 TGATTTTTAATA-TTAAAATTTAA
9708512 TGATTTTTAATATTAAAATTTAA
1 TGATTTTTAATATTAAAATTTAA
9708535 AAAATCATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
19 6 0.16
20 9 0.24
21 3 0.08
22 2 0.05
23 18 0.47
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.52
Consensus pattern (23 bp):
TGATTTTTAATATTAAAATTTAA
Found at i:9709537 original size:4 final size:4
Alignment explanation
Indices: 9709528--9709552 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
9709518 GTGTCAAATT
9709528 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
9709553 ATTTTTATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:9709632 original size:5 final size:6
Alignment explanation
Indices: 9709618--9709685 Score: 66
Period size: 6 Copynumber: 10.7 Consensus size: 6
9709608 TTTTATTTTA
* *
9709618 TTTTCT TTTTCT TTTTCT TTTTCT TTTT-T ATATTTAT ATTTCT TTTTCT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT -T-TTTCT TTTTCT TTTTCT
9709667 TTTTCAT TTATCTCT TTTT
1 TTTTC-T TT-T-TCT TTTT
9709686 TATATTAAAT
Statistics
Matches: 53, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
5 1 0.02
6 38 0.72
7 7 0.13
8 5 0.09
9 2 0.04
ACGTcount: A:0.09, C:0.13, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTCT
Found at i:9709660 original size:37 final size:39
Alignment explanation
Indices: 9709608--9709691 Score: 131
Period size: 37 Copynumber: 2.2 Consensus size: 39
9709598 TATCAATTTA
9709608 TTTTAT-TTTATTTTCTTTTTCTTTTTC-TTT-T-TCTT
1 TTTTATATTTATTTTCTTTTTCTTTTTCATTTATCTCTT
9709643 TTTTATATTTATATTTCTTTTTCTTTTTCATTTATCTCTT
1 TTTTATATTTAT-TTTCTTTTTCTTTTTCATTTATCTCTT
9709683 TTTTATATT
1 TTTTATATT
9709692 AAATAAATAT
Statistics
Matches: 44, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
35 6 0.14
36 5 0.11
37 16 0.36
38 3 0.07
39 1 0.02
40 13 0.30
ACGTcount: A:0.12, C:0.11, G:0.00, T:0.77
Consensus pattern (39 bp):
TTTTATATTTATTTTCTTTTTCTTTTTCATTTATCTCTT
Found at i:9709790 original size:16 final size:17
Alignment explanation
Indices: 9709754--9709791 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
9709744 CATATTTTTT
*
9709754 AATAAATTTTTAAATAA
1 AATAAATTTGTAAATAA
9709771 AATAAATTTGTAAA-AA
1 AATAAATTTGTAAATAA
9709787 AATAA
1 AATAA
9709792 TATTAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (17 bp):
AATAAATTTGTAAATAA
Found at i:9710053 original size:20 final size:21
Alignment explanation
Indices: 9710027--9710067 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
9710017 ATCTCAAAAA
9710027 ATATATTCA-TTATTCTTTTTCT
1 ATAT-TTCATTTATT-TTTTTCT
9710049 ATATTTCATTTATTTTTTT
1 ATATTTCATTTATTTTTTT
9710068 TTAATAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.22, C:0.10, G:0.00, T:0.68
Consensus pattern (21 bp):
ATATTTCATTTATTTTTTTCT
Found at i:9710056 original size:21 final size:23
Alignment explanation
Indices: 9710027--9710068 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
9710017 ATCTCAAAAA
9710027 ATATATTCA-TTATTCTTTTTCT
1 ATATATTCATTTATTCTTTTTCT
*
9710049 ATAT-TTCATTTATTTTTTTT
1 ATATATTCATTTATTCTTTTT
9710069 TAATAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.21, C:0.10, G:0.00, T:0.69
Consensus pattern (23 bp):
ATATATTCATTTATTCTTTTTCT
Found at i:9711398 original size:5 final size:5
Alignment explanation
Indices: 9711384--9711414 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
9711374 ATTCAAAACT
*
9711384 GAAAA AAAAA GAAAA GAAAA GAAAA GAAAA G
1 GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA G
9711415 GGCAACAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:9713062 original size:13 final size:13
Alignment explanation
Indices: 9713016--9713065 Score: 52
Period size: 13 Copynumber: 4.0 Consensus size: 13
9713006 TTCTTCCTTC
9713016 ATTTT-TTTTT-T
1 ATTTTATTTTTAT
* *
9713027 ATTTAACTTTTAT
1 ATTTTATTTTTAT
9713040 A-TTTAGTTTTTAT
1 ATTTTA-TTTTTAT
9713053 ATTTTATTTTTAT
1 ATTTTATTTTTAT
9713066 TCGATGATCA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
11 4 0.13
12 7 0.23
13 16 0.52
14 4 0.13
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (13 bp):
ATTTTATTTTTAT
Found at i:9713303 original size:16 final size:16
Alignment explanation
Indices: 9713275--9713320 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
9713265 TTCTTTTTCT
*
9713275 TTTTTTACTTTTTAAA
1 TTTTTTATTTTTTAAA
***
9713291 TTTTTTATTTTTTGGG
1 TTTTTTATTTTTTAAA
9713307 TTTTTTATTTTTTA
1 TTTTTTATTTTTTA
9713321 TTAAATAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.15, C:0.02, G:0.07, T:0.76
Consensus pattern (16 bp):
TTTTTTATTTTTTAAA
Found at i:9713922 original size:155 final size:156
Alignment explanation
Indices: 9713725--9714039 Score: 569
Period size: 155 Copynumber: 2.0 Consensus size: 156
9713715 GTTATATTCC
*
9713725 TTTCGGTTTGGTACCAATTAATAAATAGATATAACGAAATAAATAAAAAAATTATCAATAAACTT
1 TTTCGGTTTGGTACCAATTAATAAATAGATAGAACGAAATAAATAAAAAAATTATCAATAAACTT
* * *
9713790 AATTTAATTAAATTCTATAATTACTTTTAAATAATAATATTTAATAATTTTAAATTTTAAATTTC
66 AATTTAATTAAATTATATAATTACTTTTAAATAATAATACTTAATAATTTTAAATTTTAAAATTC
9713855 AATACCCACAGCCTACTCATTAGAAT
131 AATACCCACAGCCTACTCATTAGAAT
9713881 TTTCGG-TTGGTACCAATTAATAAATAGATAGAACGAAATAAATAAAAAAATTATCAATAAACTT
1 TTTCGGTTTGGTACCAATTAATAAATAGATAGAACGAAATAAATAAAAAAATTATCAATAAACTT
*
9713945 AATTTAATTAAATTATATAATTACTTTTAAATGATAATACTTAATAATTTTAAATTTTAAAATTC
66 AATTTAATTAAATTATATAATTACTTTTAAATAATAATACTTAATAATTTTAAATTTTAAAATTC
*
9714010 AATACCCACAGCCTACTCATTGGAAT
131 AATACCCACAGCCTACTCATTAGAAT
9714036 TTTC
1 TTTC
9714040 TTCATGCCCC
Statistics
Matches: 153, Mismatches: 6, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
155 147 0.96
156 6 0.04
ACGTcount: A:0.45, C:0.11, G:0.06, T:0.38
Consensus pattern (156 bp):
TTTCGGTTTGGTACCAATTAATAAATAGATAGAACGAAATAAATAAAAAAATTATCAATAAACTT
AATTTAATTAAATTATATAATTACTTTTAAATAATAATACTTAATAATTTTAAATTTTAAAATTC
AATACCCACAGCCTACTCATTAGAAT
Found at i:9714550 original size:12 final size:14
Alignment explanation
Indices: 9714518--9714563 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
9714508 AGTTAAATTG
*
9714518 TTTAGATCAAATAA
1 TTTAAATCAAATAA
9714532 TTTAAATCAAA-AA
1 TTTAAATCAAATAA
**
9714545 -TTAAATTTAATAA
1 TTTAAATCAAATAA
9714558 TTTAAA
1 TTTAAA
9714564 ATATGATACA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
12 8 0.30
13 4 0.15
14 15 0.56
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.39
Consensus pattern (14 bp):
TTTAAATCAAATAA
Found at i:9715213 original size:2 final size:2
Alignment explanation
Indices: 9715206--9715252 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
9715196 CTGTAAATTT
9715206 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
9715248 TC TC T
1 TC TC T
9715253 TTTTGATACA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:9716139 original size:18 final size:16
Alignment explanation
Indices: 9716116--9716166 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 16
9716106 TGTCTCATTT
9716116 TTTATTACTTATTCTTAA
1 TTTATTA-TTATT-TTAA
*
9716134 TTTATTAATTAGTTTTTA
1 TTTATT-ATTA-TTTTAA
9716152 TTTATTATTATTTTA
1 TTTATTATTATTTTA
9716167 TAATAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
16 4 0.14
17 4 0.14
18 18 0.62
19 3 0.10
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (16 bp):
TTTATTATTATTTTAA
Found at i:9717119 original size:14 final size:14
Alignment explanation
Indices: 9717086--9717118 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
9717076 GGGTTTGAAG
*
9717086 TATTTTGATTTTTC
1 TATTTTCATTTTTC
9717100 TATTTTCATTTTT-
1 TATTTTCATTTTTC
9717113 TATTTT
1 TATTTT
9717119 TGAAAACCCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.15, C:0.06, G:0.03, T:0.76
Consensus pattern (14 bp):
TATTTTCATTTTTC
Found at i:9719130 original size:4 final size:4
Alignment explanation
Indices: 9719123--9719152 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
9719113 AATTAAATAG
*
9719123 TTAT TTAT TTAT TTAT CTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
9719153 GTTTTTTAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (4 bp):
TTAT
Found at i:9719511 original size:20 final size:19
Alignment explanation
Indices: 9719486--9719524 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
9719476 GGCAGTTCTA
9719486 GAATTTTTAAGATTTTTTTT
1 GAATTTTT-AGATTTTTTTT
*
9719506 GAATTTTTAGCTTTTTTTT
1 GAATTTTTAGATTTTTTTT
9719525 TTTGAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.21, C:0.03, G:0.10, T:0.67
Consensus pattern (19 bp):
GAATTTTTAGATTTTTTTT
Found at i:9720145 original size:7 final size:8
Alignment explanation
Indices: 9720129--9720159 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
9720119 GATTTAATTT
9720129 AATAAAAA
1 AATAAAAA
9720137 AATAAAAAA
1 AAT-AAAAA
9720146 AATAAAAA
1 AATAAAAA
9720154 AATAAA
1 AATAAA
9720160 TTTTAGGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (8 bp):
AATAAAAA
Found at i:9720213 original size:25 final size:25
Alignment explanation
Indices: 9720185--9720233 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
9720175 TTAATTATCT
*
9720185 AATGATGAA-TTTTATAGAAATTTTA
1 AATGATAAATTTTTATA-AAATTTTA
*
9720210 AATGTTAAATTTTTATAAAATTTT
1 AATGATAAATTTTTATAAAATTTT
9720234 TAGGTGAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (25 bp):
AATGATAAATTTTTATAAAATTTTA
Found at i:9726060 original size:21 final size:20
Alignment explanation
Indices: 9726036--9726074 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
9726026 ATGCTTGAAA
9726036 AAAAAAATAAAAAATGAAATG
1 AAAAAAATAAAAAA-GAAATG
*
9726057 AAAAAAATGAAAAAGAAA
1 AAAAAAATAAAAAAGAAA
9726075 AAAATGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.79, C:0.00, G:0.10, T:0.10
Consensus pattern (20 bp):
AAAAAAATAAAAAAGAAATG
Found at i:9726074 original size:15 final size:14
Alignment explanation
Indices: 9726044--9726091 Score: 78
Period size: 14 Copynumber: 3.4 Consensus size: 14
9726034 AAAAAAAAAT
*
9726044 AAAAAATGAAATGA
1 AAAAAATGAAAAGA
9726058 AAAAAATGAAAAAGA
1 AAAAAATG-AAAAGA
9726073 AAAAAATGAAAAGA
1 AAAAAATGAAAAGA
9726087 AAAAA
1 AAAAA
9726092 GAAACAAGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
14 19 0.59
15 13 0.41
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.08
Consensus pattern (14 bp):
AAAAAATGAAAAGA
Found at i:9726102 original size:19 final size:21
Alignment explanation
Indices: 9726066--9726109 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 21
9726056 GAAAAAAATG
9726066 AAAAAGAAAAAAATGAAAAGA
1 AAAAAGAAAAAAATGAAAAGA
*
9726087 AAAAAG-AAACAA-GAAAAGA
1 AAAAAGAAAAAAATGAAAAGA
9726106 AAAA
1 AAAA
9726110 GTGAATGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.50
20 5 0.23
21 6 0.27
ACGTcount: A:0.82, C:0.02, G:0.14, T:0.02
Consensus pattern (21 bp):
AAAAAGAAAAAAATGAAAAGA
Found at i:9727149 original size:41 final size:41
Alignment explanation
Indices: 9727103--9727401 Score: 228
Period size: 42 Copynumber: 7.1 Consensus size: 41
9727093 GATTGTCAAT
*
9727103 GAGCAATTTATTTTTCAAATTTGTGATGCCTCTGTTTAGAG
1 GAGCAATTTATTTTTCAAAGTTGTGATGCCTCTGTTTAGAG
* ** **
9727144 AAGCAACCTATTTTTCAAAGTTGTGATGCCTCTAATTAGAG
1 GAGCAATTTATTTTTCAAAGTTGTGATGCCTCTGTTTAGAG
* *
9727185 GAGCAATTTACTTTTCAAAAGTCGTTGA-GCCTCTGTTTAGAG
1 GAGCAATTTATTTTTC-AAAGTTG-TGATGCCTCTGTTTAGAG
* *
9727227 GAGCAATTTATTTTTCAAAAGTTGTTGA-GCCTTTGATTAGAG
1 GAGCAATTTATTTTTC-AAAGTTG-TGATGCCTCTGTTTAGAG
** * * * * *
9727269 GAGCCTTTTATTTTTAAAAGTTATTAAGCCTTTGTTTAGAG
1 GAGCAATTTATTTTTCAAAGTTGTGATGCCTCTGTTTAGAG
* * *
9727310 GAGC-TTTACTATCTTTTCAAAAGTCGTTGA-GCCTCTATTTAGAG
1 GAGCAATT--TAT-TTTTC-AAAGTTG-TGATGCCTCTGTTTAGAG
* ** * * *
9727354 GAGCTTTATTTATTTTTTCAAAGTCATTAAGCCTCTGCTTAGAG
1 GAGC--AATTTA-TTTTTCAAAGTTGTGATGCCTCTGTTTAGAG
9727398 GAGC
1 GAGC
9727402 CTTCGTTTAT
Statistics
Matches: 211, Mismatches: 34, Indels: 23
0.79 0.13 0.09
Matches are distributed among these distances:
40 5 0.02
41 70 0.33
42 72 0.34
43 9 0.04
44 43 0.20
45 9 0.04
46 1 0.00
47 2 0.01
ACGTcount: A:0.27, C:0.14, G:0.19, T:0.40
Consensus pattern (41 bp):
GAGCAATTTATTTTTCAAAGTTGTGATGCCTCTGTTTAGAG
Found at i:9727225 original size:42 final size:42
Alignment explanation
Indices: 9727103--9727401 Score: 270
Period size: 41 Copynumber: 7.1 Consensus size: 42
9727093 GATTGTCAAT
*
9727103 GAGCAATTTATTTTTC-AAATTTG-TGATGCCTCTGTTTAGAG
1 GAGCAATTTATTTTTCAAAAGTTGTTGA-GCCTCTGTTTAGAG
* ** **
9727144 AAGCAACCTATTTTTC-AAAGTTG-TGATGCCTCTAATTAGAG
1 GAGCAATTTATTTTTCAAAAGTTGTTGA-GCCTCTGTTTAGAG
* *
9727185 GAGCAATTTACTTTTCAAAAGTCGTTGAGCCTCTGTTTAGAG
1 GAGCAATTTATTTTTCAAAAGTTGTTGAGCCTCTGTTTAGAG
* *
9727227 GAGCAATTTATTTTTCAAAAGTTGTTGAGCCTTTGATTAGAG
1 GAGCAATTTATTTTTCAAAAGTTGTTGAGCCTCTGTTTAGAG
** * * *
9727269 GAGCCTTTTATTTTT-AAAAGTTATTAAGCCTTTGTTTAGAG
1 GAGCAATTTATTTTTCAAAAGTTGTTGAGCCTCTGTTTAGAG
* * *
9727310 GAGC-TTTACTATCTTTTCAAAAGTCGTTGAGCCTCTATTTAGAG
1 GAGCAATT--TAT-TTTTCAAAAGTTGTTGAGCCTCTGTTTAGAG
* ** * *
9727354 GAGCTTTATTTATTTTTTC-AAAGTCATTAAGCCTCTGCTTAGAG
1 GAGC--AATTTA-TTTTTCAAAAGTTGTTGAGCCTCTGTTTAGAG
9727398 GAGC
1 GAGC
9727402 CTTCGTTTAT
Statistics
Matches: 216, Mismatches: 32, Indels: 17
0.82 0.12 0.06
Matches are distributed among these distances:
40 3 0.01
41 74 0.34
42 72 0.33
43 7 0.03
44 50 0.23
45 7 0.03
46 1 0.00
47 2 0.01
ACGTcount: A:0.27, C:0.14, G:0.19, T:0.40
Consensus pattern (42 bp):
GAGCAATTTATTTTTCAAAAGTTGTTGAGCCTCTGTTTAGAG
Done.