Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, 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: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 105 of 129
Found at i:18978704 original size:12 final size:12
Alignment explanation
Indices: 18978687--18978711 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18978677 GAATTATCAG
18978687 ATCTACCATTTT
1 ATCTACCATTTT
18978699 ATCTACCATTTT
1 ATCTACCATTTT
18978711 A
1 A
18978712 CTATGATCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.24, G:0.00, T:0.48
Consensus pattern (12 bp):
ATCTACCATTTT
Found at i:18980703 original size:16 final size:16
Alignment explanation
Indices: 18980682--18980747 Score: 57
Period size: 16 Copynumber: 4.1 Consensus size: 16
18980672 TGATATTATT
18980682 TATTATTTAATAAATA
1 TATTATTTAATAAATA
18980698 TATTATTTGATATATAA-A
1 TATTATTT-A-ATA-AATA
*
18980716 TATT-TTTAAT-AATT
1 TATTATTTAATAAATA
*
18980730 TATTATTTTTATAAATA
1 TATTA-TTTAATAAATA
18980747 T
1 T
18980748 TAAATAAATT
Statistics
Matches: 40, Mismatches: 3, Indels: 13
0.71 0.05 0.23
Matches are distributed among these distances:
13 2 0.05
14 4 0.10
15 2 0.05
16 14 0.35
17 8 0.20
18 8 0.20
19 2 0.05
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (16 bp):
TATTATTTAATAAATA
Found at i:18980704 original size:33 final size:32
Alignment explanation
Indices: 18980667--18980748 Score: 91
Period size: 33 Copynumber: 2.6 Consensus size: 32
18980657 TTCTAACAAG
**
18980667 TTATTTGATAT-TATTTATTATTTAATAAATATA
1 TTATTTGATATATAAATATT-TTTAAT-AATATA
*
18980700 TTATTTGATATATAAATATTTTTAATAATTTA
1 TTATTTGATATATAAATATTTTTAATAATATA
18980732 TTATTT--T-TATAAATATT
1 TTATTTGATATATAAATATT
18980749 AAATAAATTA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
29 10 0.22
30 1 0.02
32 11 0.24
33 17 0.38
34 6 0.13
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (32 bp):
TTATTTGATATATAAATATTTTTAATAATATA
Found at i:18980742 original size:29 final size:33
Alignment explanation
Indices: 18980682--18980749 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 33
18980672 TGATATTATT
18980682 TATTATTTAATAAATATATTATTTGATATATAAA
1 TATTATTTAATAAATATATTATTT-ATATATAAA
*
18980716 TATT-TTTAAT-AATTTATTATTT-T-TATAAA
1 TATTATTTAATAAATATATTATTTATATATAAA
18980745 TATTA
1 TATTA
18980750 AATAAATTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
29 10 0.31
30 1 0.03
32 11 0.34
33 6 0.19
34 4 0.12
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (33 bp):
TATTATTTAATAAATATATTATTTATATATAAA
Found at i:18983041 original size:24 final size:24
Alignment explanation
Indices: 18983014--18983082 Score: 79
Period size: 24 Copynumber: 2.9 Consensus size: 24
18983004 GGCATTAATC
*
18983014 ATTATATTAAAAAATAATATTTGT
1 ATTATATTAAAAAATAATATTTAT
* *
18983038 ATTATATTAATAAAT-ATAATTAT
1 ATTATATTAAAAAATAATATTTAT
18983061 ATT-TATTACATAAAATAATATT
1 ATTATATTA-A-AAAATAATATT
18983083 AATAAATAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
22 5 0.14
23 10 0.27
24 18 0.49
25 4 0.11
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (24 bp):
ATTATATTAAAAAATAATATTTAT
Found at i:18983061 original size:18 final size:18
Alignment explanation
Indices: 18983038--18983182 Score: 80
Period size: 18 Copynumber: 7.7 Consensus size: 18
18983028 TAATATTTGT
18983038 ATTATATTAATAAATATA
1 ATTATATTAATAAATATA
* * *
18983056 ATTATATTTATTACATAAA
1 ATTATA-TTAATAAATATA
*
18983075 ATAATATTAATAAATAATA
1 ATTATATTAATAAAT-ATA
*
18983094 TAATATATTAATAATATATTA
1 -ATTATATTAATAA-ATA-TA
* *
18983115 TATTATTTATTATTATAATATT
1 -ATTA--TATTAATA-AATATA
* *
18983137 ATT-TATTTATTAATAT-
1 ATTATATTAATAAATATA
* *
18983153 ATTATTTTTAATATAT-TA
1 ATTA-TATTAATAAATATA
18983171 ATTATATTAATA
1 ATTATATTAATA
18983183 CTATTATATT
Statistics
Matches: 96, Mismatches: 20, Indels: 23
0.69 0.14 0.17
Matches are distributed among these distances:
16 3 0.03
17 13 0.14
18 29 0.30
19 16 0.17
20 12 0.12
21 11 0.11
22 1 0.01
23 10 0.10
24 1 0.01
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.52
Consensus pattern (18 bp):
ATTATATTAATAAATATA
Found at i:18983078 original size:22 final size:23
Alignment explanation
Indices: 18983014--18983193 Score: 74
Period size: 23 Copynumber: 8.4 Consensus size: 23
18983004 GGCATTAATC
* * *
18983014 ATTATATTAAAAAATAATATTTGT
1 ATTATATTAATAAAT-ATAATTAT
18983038 ATTATATTAATAAATATAATTAT
1 ATTATATTAATAAATATAATTAT
18983061 ATT-TATTACATAAA-AT-A--AT
1 ATTATATTA-ATAAATATAATTAT
*
18983080 ATTA-ATAAAT-AATATAA-TAT
1 ATTATATTAATAAATATAATTAT
*
18983100 ATTA-A-TAATATAT-TATATTAT
1 ATTATATTAATAAATATA-ATTAT
*
18983121 -TTATTATT-AT-AATATTATT-T
1 ATTA-TATTAATAAATATAATTAT
* * *
18983141 ATT-TATTAATATAT-TATTTTT
1 ATTATATTAATAAATATAATTAT
* *
18983162 AATATATTAAT-TATATTAA-TACT
1 ATTATATTAATAAATA-TAATTA-T
18983185 ATTATATTA
1 ATTATATTA
18983194 TTAATAACAA
Statistics
Matches: 121, Mismatches: 15, Indels: 41
0.68 0.08 0.23
Matches are distributed among these distances:
17 2 0.02
18 4 0.03
19 18 0.15
20 19 0.16
21 19 0.16
22 19 0.16
23 26 0.21
24 14 0.12
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (23 bp):
ATTATATTAATAAATATAATTAT
Found at i:18983083 original size:24 final size:24
Alignment explanation
Indices: 18983014--18983119 Score: 78
Period size: 24 Copynumber: 4.4 Consensus size: 24
18983004 GGCATTAATC
*
18983014 ATTATATTAA-AAAATAATATTTGT
1 ATTATATTAATAAAATAATA-TTAT
18983038 ATTATATTAAT-AAAT-ATAATTAT
1 ATTATATTAATAAAATAAT-ATTAT
18983061 ATT-TATTACATAAAATAATATTA-
1 ATTATATTA-ATAAAATAATATTAT
* * * *
18983084 ATAAATAATATAATATATTAATAATAT
1 AT-TAT-AT-TAATAAAATAATATTAT
18983111 ATTATATTA
1 ATTATATTA
18983120 TTTATTATTA
Statistics
Matches: 66, Mismatches: 6, Indels: 20
0.72 0.07 0.22
Matches are distributed among these distances:
22 5 0.08
23 12 0.18
24 25 0.38
25 5 0.08
26 15 0.23
27 4 0.06
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (24 bp):
ATTATATTAATAAAATAATATTAT
Found at i:18983096 original size:23 final size:22
Alignment explanation
Indices: 18983073--18983116 Score: 56
Period size: 20 Copynumber: 2.0 Consensus size: 22
18983063 TTATTACATA
18983073 AAATAATATTAATAA-ATAATAT
1 AAAT-ATATTAATAATATAATAT
*
18983095 -AATATATTAATAATATATTAT
1 AAATATATTAATAATATAATAT
18983116 A
1 A
18983117 TTATTTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
AAATATATTAATAATATAATAT
Found at i:18983106 original size:16 final size:16
Alignment explanation
Indices: 18983064--18983119 Score: 58
Period size: 16 Copynumber: 3.3 Consensus size: 16
18983054 TAATTATATT
*
18983064 TATTACATAAAATAATA
1 TATTA-ATAATATAATA
*
18983081 TTAATAAATAATATAATA
1 -T-ATTAATAATATAATA
*
18983099 TATTAATAATATATTA
1 TATTAATAATATAATA
18983115 TATTA
1 TATTA
18983120 TTTATTATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 18 0.55
17 1 0.03
18 11 0.33
19 3 0.09
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (16 bp):
TATTAATAATATAATA
Found at i:18983117 original size:23 final size:23
Alignment explanation
Indices: 18983078--18983199 Score: 73
Period size: 22 Copynumber: 5.5 Consensus size: 23
18983068 ACATAAAATA
18983078 ATATTAATAA-ATA--ATATAAT
1 ATATTAATAATATATTATATAAT
*
18983098 ATATTAATAATATATTATATTAT
1 ATATTAATAATATATTATATAAT
* * *
18983121 TTATT-ATTATAATATTAT-TTAT
1 ATATTAATAAT-ATATTATATAAT
* *
18983143 TTATTAAT-ATATTATT-TTTAAT
1 ATATTAATAATA-TATTATATAAT
*
18983165 ATATTAAT--TATATTAATACTATT
1 ATATTAATAATATATT-ATA-TAAT
*
18983188 ATATTATTAATA
1 ATATTAATAATA
18983200 ACAAATGAAG
Statistics
Matches: 82, Mismatches: 8, Indels: 19
0.75 0.07 0.17
Matches are distributed among these distances:
20 14 0.17
21 7 0.09
22 30 0.37
23 29 0.35
25 2 0.02
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (23 bp):
ATATTAATAATATATTATATAAT
Found at i:18983165 original size:14 final size:15
Alignment explanation
Indices: 18983089--18983199 Score: 90
Period size: 17 Copynumber: 7.3 Consensus size: 15
18983079 TATTAATAAA
* *
18983089 TAATATAATATATTAA
1 TAATATATTAT-TTAT
18983105 TAATATATTA--TAT
1 TAATATATTATTTAT
*
18983118 T-ATTTATTA-TTA-
1 TAATATATTATTTAT
18983130 TAATATTATTTATTTAT
1 TAATA-TA-TTATTTAT
18983147 TAATATATTATTT-T
1 TAATATATTATTTAT
18983161 TAATATATTAATTATAT
1 TAATATATT-ATT-TAT
18983178 TAATACTATTATATTAT
1 TAATA-TATTAT-TTAT
18983195 TAATA
1 TAATA
18983200 ACAAATGAAG
Statistics
Matches: 80, Mismatches: 4, Indels: 21
0.76 0.04 0.20
Matches are distributed among these distances:
12 8 0.10
13 7 0.09
14 12 0.15
15 12 0.15
16 15 0.19
17 21 0.26
18 5 0.06
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (15 bp):
TAATATATTATTTAT
Found at i:18984361 original size:14 final size:15
Alignment explanation
Indices: 18984332--18984369 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
18984322 TCTTTACAAG
*
18984332 TTTTCTTTTTTCATT
1 TTTTCTTATTTCATT
18984347 TTTTCTTATTT-ATT
1 TTTTCTTATTTCATT
18984361 TTTTACTTA
1 TTTT-CTTA
18984370 ATAATTATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.13, C:0.11, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTCTTATTTCATT
Found at i:18984483 original size:19 final size:19
Alignment explanation
Indices: 18984461--18984516 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 19
18984451 TTATTTGATC
18984461 ATTTTAAAATTATTTATTA
1 ATTTTAAAATTATTTATTA
*
18984480 ATTTTATAAA--ATTTAAATA
1 ATTTTA-AAATTATTT-ATTA
*
18984499 A-TTTAAAATTTTTTATTA
1 ATTTTAAAATTATTTATTA
18984517 TATATATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 9
0.71 0.07 0.21
Matches are distributed among these distances:
17 3 0.10
18 11 0.37
19 13 0.43
20 3 0.10
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
ATTTTAAAATTATTTATTA
Found at i:18985418 original size:24 final size:26
Alignment explanation
Indices: 18985369--18985418 Score: 61
Period size: 24 Copynumber: 2.0 Consensus size: 26
18985359 CTCGACCTAA
*
18985369 TATATATATAAATTTATTTTTATATT
1 TATATATATAAATTTATATTTATATT
18985395 TATAT-TA-AAATTTAATATTT-TATT
1 TATATATATAAATTT-ATATTTATATT
18985419 AATTTCGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
24 10 0.45
25 7 0.32
26 5 0.23
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (26 bp):
TATATATATAAATTTATATTTATATT
Found at i:18985529 original size:34 final size:34
Alignment explanation
Indices: 18985463--18985529 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
18985453 ATAATATTTG
* *
18985463 ATCAAATTAAATTTAAATATAAAAAATTTAAAAA
1 ATCAAATCAAATTTAAATATAAAAAATATAAAAA
* *
18985497 ATCAAATCAAATTTAAATATTATAAATATAAAA
1 ATCAAATCAAATTTAAATATAAAAAATATAAAA
18985530 TTAAATCGAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (34 bp):
ATCAAATCAAATTTAAATATAAAAAATATAAAAA
Found at i:18986535 original size:18 final size:19
Alignment explanation
Indices: 18986501--18986536 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
18986491 AGAAGACGGA
18986501 AAACAAGAAAAGAAAAAGG
1 AAACAAGAAAAGAAAAAGG
*
18986520 AAACAA-AAATGAAAAAG
1 AAACAAGAAAAGAAAAAG
18986537 TTAAATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.75, C:0.06, G:0.17, T:0.03
Consensus pattern (19 bp):
AAACAAGAAAAGAAAAAGG
Found at i:18986851 original size:22 final size:21
Alignment explanation
Indices: 18986820--18986864 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
18986810 TTTTTAATTC
*
18986820 AAAATTAAAAAAATAAAAGAAA
1 AAAATGAAAAAAATAAAA-AAA
**
18986842 AAAATGAAAAGTATAAAAAAA
1 AAAATGAAAAAAATAAAAAAA
18986863 AA
1 AA
18986865 TTATTTTACT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.13
Consensus pattern (21 bp):
AAAATGAAAAAAATAAAAAAA
Found at i:18987011 original size:25 final size:25
Alignment explanation
Indices: 18986957--18987013 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
18986947 AATTAACAGT
* **
18986957 AATAATATAAAATATTAAAATATTT
1 AATAAAATAAAATATTAAAATATAA
*
18986982 GATAAAATAAAA-ATTAAAATATCAA
1 AATAAAATAAAATATTAAAATAT-AA
18987007 AATAAAA
1 AATAAAA
18987014 ATTTTATTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 10 0.38
25 16 0.62
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (25 bp):
AATAAAATAAAATATTAAAATATAA
Found at i:18988184 original size:2 final size:2
Alignment explanation
Indices: 18988171--18988202 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
18988161 CACCTTTCTG
*
18988171 TC TC TA 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
18988203 AGTGACTCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.03, C:0.47, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:18992599 original size:24 final size:22
Alignment explanation
Indices: 18992551--18992603 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
18992541 TCCTATTCAT
*
18992551 ATATATTTTAATTAAATAATAA
1 ATATATTTTAAATAAATAATAA
* *
18992573 ATATATTTATAAATATATAATCCA
1 ATATATTT-TAAATAAATAAT-AA
18992597 ATATATT
1 ATATATT
18992604 CATGTACAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 8 0.31
23 10 0.38
24 8 0.31
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (22 bp):
ATATATTTTAAATAAATAATAA
Found at i:18999845 original size:253 final size:253
Alignment explanation
Indices: 18999397--18999893 Score: 931
Period size: 253 Copynumber: 2.0 Consensus size: 253
18999387 GGAGTATCCC
* *
18999397 AACACGGACAAAAGAACCATCAGAAGGAGATTGTTGCAGTGATAGGTTAAAATTAGCATTTCATT
1 AACACGGACAAAAGAACCATCAGAAGGAGATTGTAGCAGAGATAGGTTAAAATTAGCATTTCATT
18999462 TACTTAGTGATACCATATTTGAAATTGGAAAATCTTGTCTTTGCCCTCTATACAGGTGTTACAGA
66 TACTTAGTGATACCATATTTGAAATTGGAAAATCTTGTCTTTGCCCTCTATACAGGTGTTACAGA
18999527 CTAAAAAAGCACAATCTCCAAAAGATTTCATAGGAAGTCACCAGCAGTTACTGTTCAACCATCAT
131 CTAAAAAAGCACAATCTCCAAAAGATTTCATAGGAAGTCACCAGCAGTTACTGTTCAACCATCAT
* *
18999592 TTTCATACTCACTTTGACCTTTGATTATCATCAAATGCGTGTTAAATATTTAGCATTT
196 TTTCATACTCACTTTGACCTTCGATTATCATCAAATACGTGTTAAATATTTAGCATTT
18999650 AACACGGACAAAAGAACCATCAGAAGGAGATTGTAGCAGAGATAGGTTAAAATTAGCATTTCATT
1 AACACGGACAAAAGAACCATCAGAAGGAGATTGTAGCAGAGATAGGTTAAAATTAGCATTTCATT
*
18999715 TACTTAGTGATACCATATTTGAAATTGGAAAATCTTGTCTTTGTCCTCTATACAGGTGTTACAGA
66 TACTTAGTGATACCATATTTGAAATTGGAAAATCTTGTCTTTGCCCTCTATACAGGTGTTACAGA
18999780 CTAAAAAAGCACAATCTCCAAAAGATTTCATAGGAAGTCACCAGCAGTTACTGTTCAACCATCAT
131 CTAAAAAAGCACAATCTCCAAAAGATTTCATAGGAAGTCACCAGCAGTTACTGTTCAACCATCAT
* *
18999845 TTTCATACTCATTTTGACCTTCGATTATCATCAAATACGTGTTACATAT
196 TTTCATACTCACTTTGACCTTCGATTATCATCAAATACGTGTTAAATAT
18999894 GCTCTAAAGT
Statistics
Matches: 237, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
253 237 1.00
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.31
Consensus pattern (253 bp):
AACACGGACAAAAGAACCATCAGAAGGAGATTGTAGCAGAGATAGGTTAAAATTAGCATTTCATT
TACTTAGTGATACCATATTTGAAATTGGAAAATCTTGTCTTTGCCCTCTATACAGGTGTTACAGA
CTAAAAAAGCACAATCTCCAAAAGATTTCATAGGAAGTCACCAGCAGTTACTGTTCAACCATCAT
TTTCATACTCACTTTGACCTTCGATTATCATCAAATACGTGTTAAATATTTAGCATTT
Found at i:19002595 original size:15 final size:16
Alignment explanation
Indices: 19002562--19002595 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
19002552 AATTGTAATT
19002562 ATTTTATATATTGTAA
1 ATTTTATATATTGTAA
*
19002578 ATTTTATAT-TTTTAA
1 ATTTTATATATTGTAA
19002593 ATT
1 ATT
19002596 AATATTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (16 bp):
ATTTTATATATTGTAA
Found at i:19002689 original size:18 final size:19
Alignment explanation
Indices: 19002666--19002703 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
19002656 AATTTATATA
19002666 TAATAAATT-TATTTATTT
1 TAATAAATTATATTTATTT
*
19002684 TAATAAATTATTTTTATTT
1 TAATAAATTATATTTATTT
19002703 T
1 T
19002704 TTAATTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TAATAAATTATATTTATTT
Found at i:19017968 original size:15 final size:15
Alignment explanation
Indices: 19017948--19017977 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
19017938 CATCCTCATA
*
19017948 TGGCTTGTGACATTG
1 TGGCTTGTGAAATTG
19017963 TGGCTTGTGAAATTG
1 TGGCTTGTGAAATTG
19017978 ATATCTTATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.10, G:0.33, T:0.40
Consensus pattern (15 bp):
TGGCTTGTGAAATTG
Found at i:19018154 original size:18 final size:18
Alignment explanation
Indices: 19018118--19018156 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
19018108 AATTGCTTTA
*
19018118 ATGATCTTGATGGTATTG
1 ATGATCTTGATGATATTG
*
19018136 ATGATCTTGATGATTTTG
1 ATGATCTTGATGATATTG
19018154 ATG
1 ATG
19018157 GTACAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.23, C:0.05, G:0.26, T:0.46
Consensus pattern (18 bp):
ATGATCTTGATGATATTG
Found at i:19018543 original size:21 final size:21
Alignment explanation
Indices: 19018517--19018575 Score: 100
Period size: 21 Copynumber: 2.8 Consensus size: 21
19018507 TGTTTTGATA
* *
19018517 GAAGGGATCGATCCTCTAAGG
1 GAAGGGATCAATCCCCTAAGG
19018538 GAAGGGATCAATCCCCTAAGG
1 GAAGGGATCAATCCCCTAAGG
19018559 GAAGGGATCAATCCCCT
1 GAAGGGATCAATCCCCT
19018576 CCCTTACTAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.31, C:0.24, G:0.29, T:0.17
Consensus pattern (21 bp):
GAAGGGATCAATCCCCTAAGG
Found at i:19022060 original size:3 final size:3
Alignment explanation
Indices: 19022052--19022095 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
19022042 TATTTGTGAT
19022052 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
19022096 TATTGTTGTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:19022161 original size:18 final size:18
Alignment explanation
Indices: 19022140--19022188 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
19022130 CATAAAAATT
19022140 TTTATTTTCA-TTATTTAA
1 TTTATTTTCATTTA-TTAA
* *
19022158 TTTAATTTCATTTATTCA
1 TTTATTTTCATTTATTAA
19022176 TTTATTTT-ATTTA
1 TTTATTTTCATTTA
19022189 AAATTATTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 5 0.19
18 19 0.70
19 3 0.11
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTATTTTCATTTATTAA
Found at i:19022197 original size:27 final size:26
Alignment explanation
Indices: 19022146--19022198 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
19022136 AATTTTTATT
*
19022146 TTCATTATTTAATTTAATTTCATTTA
1 TTCATTATTTAATTTAAATTCATTTA
*
19022172 TTCATTTATTTTATTTAAAATT-ATTTA
1 TTCA-TTATTTAATTT-AAATTCATTTA
19022199 AGAGAAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 4 0.17
27 15 0.65
28 4 0.17
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (26 bp):
TTCATTATTTAATTTAAATTCATTTA
Found at i:19024707 original size:168 final size:168
Alignment explanation
Indices: 19024429--19024735 Score: 542
Period size: 168 Copynumber: 1.8 Consensus size: 168
19024419 CATATGGGAC
* * *
19024429 AATTGATTATAAAGATTAAGCTTAATTTTAGCCATAATGGCCAATTTAGATTAGGAGTTATATCA
1 AATTGATTATAAAGATTAAGCTTAATTTTAGCCAAAATCGCCAATTTAGATTAGGAGTTACATCA
*
19024494 AATGAATGTAAAAACTGCCTTTCTAAATGAATGACTAGAAAAGGAAATCTATATGGAACAGCTTA
66 AATGAAGGTAAAAACTGCCTTTCTAAATGAATGACTAGAAAAGGAAATCTATATGGAACAGCTTA
19024559 TGGGTTTCGATAACGAAAAGGTATATTTAACAAGAGGG
131 TGGGTTTCGATAACGAAAAGGTATATTTAACAAGAGGG
* *
19024597 AATTGATTATGAAGATTAAGCTTAATTTTAGCCAAAATCGCCAATTTAGATTATGAGTTACATCA
1 AATTGATTATAAAGATTAAGCTTAATTTTAGCCAAAATCGCCAATTTAGATTAGGAGTTACATCA
**
19024662 AATGAAGGTAAAAACTGCCTTTCTAAATGAATGACTAGAAAAGGAAATCTATATGGAACATTTTA
66 AATGAAGGTAAAAACTGCCTTTCTAAATGAATGACTAGAAAAGGAAATCTATATGGAACAGCTTA
19024727 TGGGTTTCG
131 TGGGTTTCG
19024736 TTGACAAAGG
Statistics
Matches: 131, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
168 131 1.00
ACGTcount: A:0.40, C:0.11, G:0.18, T:0.31
Consensus pattern (168 bp):
AATTGATTATAAAGATTAAGCTTAATTTTAGCCAAAATCGCCAATTTAGATTAGGAGTTACATCA
AATGAAGGTAAAAACTGCCTTTCTAAATGAATGACTAGAAAAGGAAATCTATATGGAACAGCTTA
TGGGTTTCGATAACGAAAAGGTATATTTAACAAGAGGG
Found at i:19029433 original size:6 final size:7
Alignment explanation
Indices: 19029416--19029441 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
19029406 ATCAGAGAGG
19029416 AAAAACC
1 AAAAACC
19029423 AAAAACC
1 AAAAACC
19029430 AAAAACC
1 AAAAACC
19029437 AAAAA
1 AAAAA
19029442 GAAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.77, C:0.23, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAAACC
Found at i:19032952 original size:22 final size:21
Alignment explanation
Indices: 19032913--19032953 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
19032903 TTTGAACCCT
*
19032913 AAAAAAAAATAAATAAATAAG
1 AAAAAAAAAGAAATAAATAAG
*
19032934 AAAAAAATAGAAATCAAATA
1 AAAAAAAAAGAAAT-AAATA
19032954 TTTGAAAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.15
Consensus pattern (21 bp):
AAAAAAAAAGAAATAAATAAG
Found at i:19033958 original size:26 final size:26
Alignment explanation
Indices: 19033922--19033974 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
19033912 CATTTAGTTC
19033922 ACTTTTGAAAA-TAAAAAATACCAAAA
1 ACTTTTGAAAATTAAAAAAT-CCAAAA
*
19033948 ACTTTTGAAAATTAATAAATCCAAAA
1 ACTTTTGAAAATTAAAAAATCCAAAA
19033974 A
1 A
19033975 GATTGCATGC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 18 0.72
27 7 0.28
ACGTcount: A:0.58, C:0.11, G:0.04, T:0.26
Consensus pattern (26 bp):
ACTTTTGAAAATTAAAAAATCCAAAA
Found at i:19034515 original size:5 final size:5
Alignment explanation
Indices: 19034494--19034552 Score: 54
Period size: 5 Copynumber: 12.2 Consensus size: 5
19034484 TTTGACTAGC
* *
19034494 AAAA- AAAA- AAAA- AAAAG AAAAG AGAAG AAAA- AGAAG AAAAG AGAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG A-AAAG
19034541 AAAAAG AAAAG A
1 -AAAAG AAAAG A
19034553 GATGTGGTGA
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
4 15 0.32
5 23 0.49
6 8 0.17
7 1 0.02
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:19034521 original size:10 final size:9
Alignment explanation
Indices: 19034502--19034548 Score: 58
Period size: 9 Copynumber: 4.9 Consensus size: 9
19034492 GCAAAAAAAA
*
19034502 AAAAAAAAG
1 AAAAAGAAG
19034511 AAAAGAGAAG
1 AAAA-AGAAG
19034521 AAAAAGAAG
1 AAAAAGAAG
19034530 AAAAGAGAAAG
1 AAAA-AG-AAG
19034541 AAAAAGAA
1 AAAAAGAA
19034549 AAGAGATGTG
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
9 15 0.44
10 12 0.35
11 7 0.21
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (9 bp):
AAAAAGAAG
Found at i:19034524 original size:17 final size:17
Alignment explanation
Indices: 19034501--19034554 Score: 81
Period size: 17 Copynumber: 3.1 Consensus size: 17
19034491 AGCAAAAAAA
19034501 AAAAAAAAAGAAAAGAG
1 AAAAAAAAAGAAAAGAG
19034518 AAGAAAAAGAAGAAAAGAG
1 AA-AAAAA-AAGAAAAGAG
*
19034537 AAAGAAAAAGAAAAGAG
1 AAAAAAAAAGAAAAGAG
19034554 A
1 A
19034555 TGTGGTGACT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
17 13 0.38
18 9 0.26
19 12 0.35
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAGAAAAGAG
Found at i:19034530 original size:19 final size:20
Alignment explanation
Indices: 19034502--19034548 Score: 78
Period size: 19 Copynumber: 2.4 Consensus size: 20
19034492 GCAAAAAAAA
*
19034502 AAAAAAAAGAAAAGAG-AAG
1 AAAAAGAAGAAAAGAGAAAG
19034521 AAAAAGAAGAAAAGAGAAAG
1 AAAAAGAAGAAAAGAGAAAG
19034541 AAAAAGAA
1 AAAAAGAA
19034549 AAGAGATGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 15 0.58
20 11 0.42
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (20 bp):
AAAAAGAAGAAAAGAGAAAG
Found at i:19034549 original size:10 final size:10
Alignment explanation
Indices: 19034494--19034549 Score: 59
Period size: 8 Copynumber: 5.9 Consensus size: 10
19034484 TTTGACTAGC
19034494 AAAAA-AAA-
1 AAAAAGAAAG
19034502 AAAAA-AAAG
1 AAAAAGAAAG
19034511 -AAAAGAGAAG
1 AAAAAGA-AAG
19034521 AAAAAG-AAG
1 AAAAAGAAAG
19034530 AAAAGAGAAAG
1 AAAA-AGAAAG
19034541 AAAAAGAAA
1 AAAAAGAAA
19034550 AGAGATGTGG
Statistics
Matches: 42, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
8 12 0.29
9 8 0.19
10 10 0.24
11 12 0.29
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAG
Found at i:19035874 original size:40 final size:41
Alignment explanation
Indices: 19035760--19035889 Score: 165
Period size: 41 Copynumber: 3.2 Consensus size: 41
19035750 TTACATGTAA
* * *
19035760 ATAATAGATAACGTTTGAGAAAGTAAATGT-AGTCTATTATC
1 ATAATAGATGACGTTTGAAAAAGTAAATGTCA-TATATTATC
* * **
19035801 ATACTAGATGACGTTTGAAATAGTAAACATCATATATTATC
1 ATAATAGATGACGTTTGAAAAAGTAAATGTCATATATTATC
*
19035842 ATAAT-GATGACGTTTGAAAAATTAAATGTCATATATTATC
1 ATAATAGATGACGTTTGAAAAAGTAAATGTCATATATTATC
19035882 ATAATAGA
1 ATAATAGA
19035890 AAATATAGAA
Statistics
Matches: 75, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
40 36 0.48
41 38 0.51
42 1 0.01
ACGTcount: A:0.43, C:0.08, G:0.14, T:0.35
Consensus pattern (41 bp):
ATAATAGATGACGTTTGAAAAAGTAAATGTCATATATTATC
Found at i:19035979 original size:41 final size:41
Alignment explanation
Indices: 19035923--19036138 Score: 113
Period size: 41 Copynumber: 5.3 Consensus size: 41
19035913 GTTATATATA
* *
19035923 TATATATAATCGATGACATTTGAGAAAATAAATGTTGTCTAT
1 TATA-ATAATAGATGACATTTGAAAAAATAAATGTTGTCTAT
* * * ***
19035965 TATAATAATAGATGACGTCT-AAAAAATAAACGTCACCTAT
1 TATAATAATAGATGACATTTGAAAAAATAAATGTTGTCTAT
* * * ** * *
19036005 TATCATAA-A-A-AAAATTAT-AAAATTTACATGTTAAGTTTAT
1 TATAATAATAGATGACATT-TGAAAAAATAAATGTT--GTCTAT
* * * *
19036045 ATATAAT-ATAGATGGCATTTGAGAAAGTAAACT-TCGTCTAT
1 -TATAATAATAGATGACATTTGAAAAAATAAA-TGTTGTCTAT
** * *
19036086 TACCATAATAGATGACATTTGAAAAAATAAACGTTATCTAT
1 TATAATAATAGATGACATTTGAAAAAATAAATGTTGTCTAT
*
19036127 TATCATAATAGA
1 TATAATAATAGA
19036139 AAGTATAAAA
Statistics
Matches: 123, Mismatches: 40, Indels: 23
0.66 0.22 0.12
Matches are distributed among these distances:
37 2 0.02
38 11 0.09
39 1 0.01
40 30 0.24
41 62 0.50
42 6 0.05
43 10 0.08
44 1 0.01
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.34
Consensus pattern (41 bp):
TATAATAATAGATGACATTTGAAAAAATAAATGTTGTCTAT
Found at i:19035989 original size:127 final size:124
Alignment explanation
Indices: 19035835--19036168 Score: 421
Period size: 127 Copynumber: 2.7 Consensus size: 124
19035825 AAACATCATA
* * * *
19035835 TATTATCATAAT-GATGACGTTTGAAAAATTAAATGTCATATATTATCATAATAGAAAATATAGA
1 TATTATCATAATAGATGACGTTTGAAAAAATAAACGTCATCTATTATCATAATAGAAAATATAAA
*
19035899 ATTTACATGTTAATGTTATATATATATATATAATCGATGACATTTGAGAAAATAAA-TGTTGTC
66 ATTTACATGTTAATGTTATATATATA-ATAT-A--GATGACATTTGAGAAAATAAACT-TCGTC
* * * *
19035962 TATTATAATAATAGATGACGTCT-AAAAAATAAACGTCACCTATTATCATAA-AAAAAATTATAA
1 TATTATCATAATAGATGACGTTTGAAAAAATAAACGTCATCTATTATCATAATAGAAAA-TATAA
* *
19036025 AATTTACATGTTAA-GTT-TATATATAATATAGATGGCATTTGAGAAAGTAAACTTCGTC
65 AATTTACATGTTAATGTTATATATATAATATAGATGACATTTGAGAAAATAAACTTCGTC
* * * *
19036083 TATTACCATAATAGATGACATTTGAAAAAATAAACGTTATCTATTATCATAATAGAAAGTATAAA
1 TATTATCATAATAGATGACGTTTGAAAAAATAAACGTCATCTATTATCATAATAGAAAATATAAA
*
19036148 ATTTACATATTAAT-TTATATA
66 ATTTACATGTTAATGTTATATA
19036169 AAAATAATTT
Statistics
Matches: 180, Mismatches: 20, Indels: 18
0.83 0.09 0.08
Matches are distributed among these distances:
121 42 0.23
122 47 0.26
123 9 0.05
124 4 0.02
125 8 0.04
126 8 0.04
127 53 0.29
128 9 0.05
ACGTcount: A:0.45, C:0.08, G:0.10, T:0.37
Consensus pattern (124 bp):
TATTATCATAATAGATGACGTTTGAAAAAATAAACGTCATCTATTATCATAATAGAAAATATAAA
ATTTACATGTTAATGTTATATATATAATATAGATGACATTTGAGAAAATAAACTTCGTC
Found at i:19037530 original size:26 final size:26
Alignment explanation
Indices: 19037481--19037530 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
19037471 TCCCTTTGTA
**
19037481 ATTTTTGATTTGGTTTTTCCATCATG
1 ATTTTTGATTTGGTTTCACCATCATG
* *
19037507 ATTTTTTATTTGGTTTCACTATCA
1 ATTTTTGATTTGGTTTCACCATCA
19037531 CACACATCAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.18, C:0.12, G:0.12, T:0.58
Consensus pattern (26 bp):
ATTTTTGATTTGGTTTCACCATCATG
Found at i:19037996 original size:14 final size:14
Alignment explanation
Indices: 19037960--19038005 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
19037950 CTATGTTTGT
19037960 TTTACGAAAAATGA
1 TTTACGAAAAATGA
* *
19037974 CTTCCGAAAAATGA
1 TTTACGAAAAATGA
*
19037988 TTTATGAAAAATG-
1 TTTACGAAAAATGA
19038001 TTTAC
1 TTTAC
19038006 ATTTTCTTAA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
13 4 0.15
14 22 0.85
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (14 bp):
TTTACGAAAAATGA
Found at i:19038181 original size:15 final size:15
Alignment explanation
Indices: 19038144--19038223 Score: 54
Period size: 15 Copynumber: 5.0 Consensus size: 15
19038134 TTATTAAAGT
*
19038144 ATATTGAAATTATTTA
1 ATATTAAAATTA-TTA
*
19038160 TTATTAAAATTATTA
1 ATATTAAAATTATTA
**
19038175 ATATTAAAAAAATTA
1 ATATTAAAATTATTA
*
19038190 TATTTTAATAATAATATTTA
1 -ATATTAA-AAT--TA-TTA
19038210 ATATTAAAA-TATTA
1 ATATTAAAATTATTA
19038224 TGTTAATATA
Statistics
Matches: 50, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
14 3 0.06
15 17 0.34
16 16 0.32
17 2 0.04
18 2 0.04
19 7 0.14
20 3 0.06
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (15 bp):
ATATTAAAATTATTA
Found at i:19038229 original size:19 final size:18
Alignment explanation
Indices: 19038152--19038241 Score: 66
Period size: 19 Copynumber: 5.2 Consensus size: 18
19038142 GTATATTGAA
*
19038152 ATTATTTATTATT-AAA-
1 ATTATTTAATATTAAAAT
19038168 ATTA-TTAATATTAAAA-
1 ATTATTTAATATTAAAAT
* *
19038184 A--AATTATATTTTAATAAT
1 ATTATTTA-ATATTAA-AAT
*
19038202 AATATTTAATATTAAAAT
1 ATTATTTAATATTAAAAT
*
19038220 ATTATGTTAATATAAAAAT
1 ATTAT-TTAATATTAAAAT
19038239 ATT
1 ATT
19038242 TAAAATAAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 13
0.76 0.08 0.16
Matches are distributed among these distances:
14 1 0.02
15 10 0.17
16 14 0.23
17 2 0.03
18 8 0.13
19 21 0.35
20 4 0.07
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (18 bp):
ATTATTTAATATTAAAAT
Found at i:19038249 original size:15 final size:15
Alignment explanation
Indices: 19038196--19038258 Score: 54
Period size: 15 Copynumber: 3.9 Consensus size: 15
19038186 ATTATATTTT
*
19038196 AATAATAATATTTAA
1 AATAAAAATATTTAA
*
19038211 TATTAAAATATTATGTTAA
1 -AATAAAA-A-TAT-TTAA
*
19038230 TATAAAAATATTTAA
1 AATAAAAATATTTAA
*
19038245 AATAAAACTATTTA
1 AATAAAAATATTTA
19038259 TTACTCTTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
15 16 0.42
16 8 0.21
17 2 0.05
18 8 0.21
19 4 0.11
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (15 bp):
AATAAAAATATTTAA
Found at i:19038285 original size:15 final size:15
Alignment explanation
Indices: 19038267--19038360 Score: 80
Period size: 15 Copynumber: 5.8 Consensus size: 15
19038257 TATTACTCTT
19038267 TATATTATTTATTAA
1 TATATTATTTATTAA
* *
19038282 TATATTATATTAATAG
1 TATATTAT-TTATTAA
* *
19038298 CATAGTATTTATTAA
1 TATATTATTTATTAA
*
19038313 TAATTTATTTTTTATTAA
1 T-A--TATTATTTATTAA
19038331 TATATTATTTATTAA
1 TATATTATTTATTAA
19038346 TGTAATATTATTTAT
1 --T-ATATTATTTAT
19038361 AAGTAAAATT
Statistics
Matches: 62, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
15 25 0.40
16 12 0.19
17 2 0.03
18 23 0.37
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.57
Consensus pattern (15 bp):
TATATTATTTATTAA
Found at i:19038291 original size:20 final size:19
Alignment explanation
Indices: 19038253--19038293 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
19038243 AAAATAAAAC
* *
19038253 TATTTATTACTCTTTATAT
1 TATTTATTAATATTTATAT
19038272 TATTTATTAATATATTATAT
1 TATTTATTAATAT-TTATAT
19038292 TA
1 TA
19038294 ATAGCATAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (19 bp):
TATTTATTAATATTTATAT
Found at i:19038353 original size:18 final size:16
Alignment explanation
Indices: 19038332--19038372 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 16
19038322 TTTTATTAAT
19038332 ATATTATTTATTAATGTA
1 ATATTATTTA-TAA-GTA
19038350 ATATTATTTATAAGTA
1 ATATTATTTATAAGTA
*
19038366 AAATTAT
1 ATATTAT
19038373 GCTAAAAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 9 0.41
17 3 0.14
18 10 0.45
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (16 bp):
ATATTATTTATAAGTA
Found at i:19038371 original size:16 final size:18
Alignment explanation
Indices: 19038334--19038372 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
19038324 TTATTAATAT
*
19038334 ATTATTTATTAATGTAAT
1 ATTATTTATTAATGTAAA
19038352 ATTATTTA-TAA-GTAAA
1 ATTATTTATTAATGTAAA
19038368 ATTAT
1 ATTAT
19038373 GCTAAAAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 9 0.45
17 3 0.15
18 8 0.40
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (18 bp):
ATTATTTATTAATGTAAA
Found at i:19038938 original size:16 final size:16
Alignment explanation
Indices: 19038917--19038947 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
19038907 GGAAAGTAGC
19038917 GATAAAAGTTACAATT
1 GATAAAAGTTACAATT
19038933 GATAAAAGTTACAAT
1 GATAAAAGTTACAAT
19038948 CTTGAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.06, G:0.13, T:0.29
Consensus pattern (16 bp):
GATAAAAGTTACAATT
Found at i:19038973 original size:124 final size:118
Alignment explanation
Indices: 19038810--19039046 Score: 271
Period size: 118 Copynumber: 2.0 Consensus size: 118
19038800 GAAAGTAATA
** * * *
19038810 ATAAAAGTTATGATCTTGTAAAAAACAAGAAAAACAAATCTTAAATTAGTTAAATGTCAAGAAGT
1 ATAAAAGTTACAATCTTGTAAAAAACAAAAAAAACAAATCTCAAACTAG-T---T-T-AAGAAGT
* * * * *
19038875 CAAAGCTTATTTGAAAATGGTGATTAAATTTTGGAAAGTAGCGATAAAAGTTACAATTG
60 CAAAGCTTATTTGAAAACGATGATTAAATTTTAGAAAGTAACGATAAAAATTACAATTG
*
19038934 ATAAAAGTTACAATCTTG-AAAAAA-AAAAATAGAATAAATCTCAAACTAGTTTAAGAAGTCAAA
1 ATAAAAGTTACAATCTTGTAAAAAACAAAAA-A-AACAAATCTCAAACTAGTTTAAGAAGTCAAA
* *
19038997 GTTTATTTGGAAACGATGATTAAATTTTAGAAAGTAACGATAAAAATTAC
64 GCTTATTTGAAAACGATGATTAAATTTTAGAAAGTAACGATAAAAATTAC
19039047 GATCTTGAAA
Statistics
Matches: 98, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
118 54 0.55
119 1 0.01
120 1 0.01
122 4 0.04
123 8 0.08
124 30 0.31
ACGTcount: A:0.49, C:0.08, G:0.14, T:0.29
Consensus pattern (118 bp):
ATAAAAGTTACAATCTTGTAAAAAACAAAAAAAACAAATCTCAAACTAGTTTAAGAAGTCAAAGC
TTATTTGAAAACGATGATTAAATTTTAGAAAGTAACGATAAAAATTACAATTG
Found at i:19039328 original size:106 final size:105
Alignment explanation
Indices: 19039144--19039642 Score: 409
Period size: 106 Copynumber: 4.7 Consensus size: 105
19039134 ATTTATGTAG
* * * * * *
19039144 TAAAAGTTACGATCTTGAAAAAATATAAGATAAATTTCAAACTAATTAAATGTCAATAAGCCAAA
1 TAAAAGTTACGATCTTGAAAAAAAATAAAACAAATCTCAAACTAATTAAGTGTCAAGAAGCCAAA
* * **
19039209 GCTTATTTGGAAATGGTTATTAAATTTTGGAAAATAATGA
66 GCTTATTTGGAAATGGTGATTAAATTTTAGAAAATAACAA
* * *
19039249 TAAAAATTACGATCTTGAAAAAAAATTAAAACATATCTCAAACTAATTAAGTGTTAAGAAGCCAA
1 TAAAAGTTACGATCTTGAAAAAAAA-TAAAACAAATCTCAAACTAATTAAGTGTCAAGAAGCCAA
*
19039314 AGCTTATTTGGAAATGGTGATTAAATTTTAGAAAATTACAA
65 AGCTTATTTGGAAATGGTGATTAAATTTTAGAAAATAACAA
* *
19039355 TAAAAGTTACGATCTTG-AAAAAAA-AAAACAAATCTCAAACTAGTTAAGTGTCATTTTTA-AAA
1 TAAAAGTTACGATCTTGAAAAAAAATAAAACAAATCTCAAACTAATTAAGTGTCA-----AGAAG
* ** ** * * **** * **
19039417 CATCAAGGCACAAATTT--ATCTTG-GCTTAAACCACATAATATATTTATGTAA
61 C--CAAAG--CTTATTTGGAAATGGTGATTAAATTTTAGAA-A-A--TA-ACAA
* * * *
19039468 TAAAAGTTATGATATTGAATAAAAATAAAACAAATCTCAAACTAATTAAATGTCAAGAAGCCAAA
1 TAAAAGTTACGATCTTGAAAAAAAATAAAACAAATCTCAAACTAATTAAGTGTCAAGAAGCCAAA
* * * * *
19039533 GC-TATTTGGAAATGTTGATTAAACTTTGGAAAGTAACGA
66 GCTTATTTGGAAATGGTGATTAAATTTTAGAAAATAACAA
* * * * *
19039572 TAAAAGTCACGATCTTGAAAAAAATTAAAACAAATCTCTAACTAACTAAGTGTCAAGAAGCAAAA
1 TAAAAGTTACGATCTTGAAAAAAAATAAAACAAATCTCAAACTAATTAAGTGTCAAGAAGCCAAA
*
19039637 ACTTAT
66 GCTTAT
19039643 GAAGGATAAT
Statistics
Matches: 306, Mismatches: 66, Indels: 44
0.74 0.16 0.11
Matches are distributed among these distances:
103 26 0.08
104 58 0.19
105 35 0.11
106 88 0.29
107 4 0.01
108 13 0.04
109 21 0.07
110 2 0.01
111 8 0.03
112 1 0.00
113 17 0.06
114 6 0.02
115 27 0.09
ACGTcount: A:0.47, C:0.11, G:0.12, T:0.29
Consensus pattern (105 bp):
TAAAAGTTACGATCTTGAAAAAAAATAAAACAAATCTCAAACTAATTAAGTGTCAAGAAGCCAAA
GCTTATTTGGAAATGGTGATTAAATTTTAGAAAATAACAA
Found at i:19039461 original size:324 final size:316
Alignment explanation
Indices: 19038977--19039642 Score: 885
Period size: 324 Copynumber: 2.1 Consensus size: 316
19038967 ATAAATCTCA
* * * *
19038977 AACT-AGT-TTAAGAAGTCAAAGTTTATTTGGAAACGATGATTAAATTTTAGAAAGTAACGATAA
1 AACTAAGTGTTAAGAAGCCAAAGCTTATTTGGAAACGATGATTAAATTTTAGAAAATAACAATAA
* * * **
19039040 AAATTACGATCTTGAAAAAAAAATCTCAAACTAGTTAATTGTCATTTTTAAAACATTAGGGTGCA
66 AAATTACGATCTTGAAAAAAAAATCTCAAACTAGTTAAGTGTCATTTTTAAAACATCAAGGCACA
* * *
19039105 AATTTATTTCGGTCCAAACCACATAGTATATTTATGTAGTAAAAGTTACGATCTTGAA-AAAATA
131 AATTTATTTCGGTCCAAACCACATAATATATTTATGTAATAAAAGTTACGATATTGAATAAAA-A
* * * *
19039169 TAAGATAAATTTCAAACTAATTAAATGTCAATAAGCCAAAGCTTATTTGGAAATGGTT-ATTAAA
195 TAAAACAAATCTCAAACTAATTAAATGTCAAGAAGCCAAAGC-TATTTGGAAAT-GTTGATTAAA
* * * *
19039233 TTTTGGAAAATAATGATAAAAATTACGATCTTGAAAAAAAATTAAAACATATCTCAAACT
258 CTTTGGAAAATAACGATAAAAATCACGATCTTG-AAAAAAATTAAAACAAATCTCAAACT
* * * *
19039293 AATTAAGTGTTAAGAAGCCAAAGCTTATTTGGAAATGGTGATTAAATTTTAGAAAATTACAATAA
1 AACTAAGTGTTAAGAAGCCAAAGCTTATTTGGAAACGATGATTAAATTTTAGAAAATAACAATAA
*
19039358 AAGTTACGATCTTGAAAAAAAAAAACAAATCTCAAACTAGTTAAGTGTCATTTTTAAAACATCAA
66 AAATTACGATCTTG-----AAAAAA-AAATCTCAAACTAGTTAAGTGTCATTTTTAAAACATCAA
* *
19039423 GGCACAAATTTATCTT-GG-CTTAAACCACATAATATATTTATGTAATAAAAGTTATGATATTGA
125 GGCACAAATTTAT-TTCGGTC-CAAACCACATAATATATTTATGTAATAAAAGTTACGATATTGA
19039486 ATAAAAATAAAACAAATCTCAAACTAATTAAATGTCAAGAAGCCAAAGCTATTTGGAAATGTTGA
188 ATAAAAATAAAACAAATCTCAAACTAATTAAATGTCAAGAAGCCAAAGCTATTTGGAAATGTTGA
* * *
19039551 TTAAACTTTGGAAAGTAACGATAAAAGTCACGATCTTGAAAAAAATTAAAACAAATCTCTAACT
253 TTAAACTTTGGAAAATAACGATAAAAATCACGATCTTGAAAAAAATTAAAACAAATCTCAAACT
* * *
19039615 AACTAAGTGTCAAGAAGCAAAAACTTAT
1 AACTAAGTGTTAAGAAGCCAAAGCTTAT
19039643 GAAGGATAAT
Statistics
Matches: 304, Mismatches: 34, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
316 3 0.01
317 3 0.01
318 62 0.20
322 51 0.17
323 52 0.17
324 127 0.42
325 6 0.02
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.30
Consensus pattern (316 bp):
AACTAAGTGTTAAGAAGCCAAAGCTTATTTGGAAACGATGATTAAATTTTAGAAAATAACAATAA
AAATTACGATCTTGAAAAAAAAATCTCAAACTAGTTAAGTGTCATTTTTAAAACATCAAGGCACA
AATTTATTTCGGTCCAAACCACATAATATATTTATGTAATAAAAGTTACGATATTGAATAAAAAT
AAAACAAATCTCAAACTAATTAAATGTCAAGAAGCCAAAGCTATTTGGAAATGTTGATTAAACTT
TGGAAAATAACGATAAAAATCACGATCTTGAAAAAAATTAAAACAAATCTCAAACT
Found at i:19046525 original size:87 final size:86
Alignment explanation
Indices: 19046370--19046629 Score: 351
Period size: 87 Copynumber: 3.0 Consensus size: 86
19046360 TTCTTTGGCA
* * * * *
19046370 TCAATAAAAGATCAGTTTACTACGCACAGAATACATTTTGAAGGGGAAAGAGGGAAGGCAATATG
1 TCAAT-AAAGATCACTTTACTACGCA-AGAAGACATTCTGAAGGGGAAAGAGGGAAGGTAATAAG
19046435 GAAGAAAGAGAAAGGATTAGATC
64 GAAGAAAGAGAAAGGATTAGATC
* ** * * *
19046458 TCAATAAAGATCACTTTGCTACGCGAAGAAGACATTCCAAAGGGGAAATATGGAAGGTGATAAGG
1 TCAATAAAGATCACTTTACTACGC-AAGAAGACATTCTGAAGGGGAAAGAGGGAAGGTAATAAGG
19046523 AAGAAAGAGAAAGGATTAGATC
65 AAGAAAGAGAAAGGATTAGATC
* * *
19046545 TGAATAAAGATCACTTTACTACAC-AGAAGACATTCTGAAGGGGAAAGAGGGAAGGTTATAAGGA
1 TCAATAAAGATCACTTTACTACGCAAGAAGACATTCTGAAGGGGAAAGAGGGAAGGTAATAAGGA
*
19046609 AGAAAGTGAAAGGATTAGATC
66 AGAAAGAGAAAGGATTAGATC
19046630 ATCTGCCGCA
Statistics
Matches: 151, Mismatches: 20, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
85 55 0.36
87 90 0.60
88 6 0.04
ACGTcount: A:0.44, C:0.10, G:0.27, T:0.19
Consensus pattern (86 bp):
TCAATAAAGATCACTTTACTACGCAAGAAGACATTCTGAAGGGGAAAGAGGGAAGGTAATAAGGA
AGAAAGAGAAAGGATTAGATC
Found at i:19048729 original size:2 final size:2
Alignment explanation
Indices: 19048722--19048756 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
19048712 GACTTAAAAC
19048722 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19048757 CACAACTATA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:19049728 original size:9 final size:9
Alignment explanation
Indices: 19049701--19049741 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
19049691 AACACATATA
19049701 ATAATAATT
1 ATAATAATT
* *
19049710 ATTATTATT
1 ATAATAATT
19049719 ATAATAATT
1 ATAATAATT
*
19049728 ATAATAATA
1 ATAATAATT
19049737 ATAAT
1 ATAAT
19049742 GAGACCAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (9 bp):
ATAATAATT
Found at i:19057182 original size:20 final size:21
Alignment explanation
Indices: 19057157--19057197 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
19057147 CACGAATAAT
*
19057157 CATCATTT-GAGTGAAAAACA
1 CATCATTTGGAATGAAAAACA
19057177 CATCATTTGGAATGAAAAACA
1 CATCATTTGGAATGAAAAACA
19057198 TGTCTAACAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.24
Consensus pattern (21 bp):
CATCATTTGGAATGAAAAACA
Found at i:19057810 original size:27 final size:27
Alignment explanation
Indices: 19057772--19057825 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
19057762 TGTGTCAATG
*
19057772 TGTATCAACAATGCAGTTTAAAATATT
1 TGTATCAACAATACAGTTTAAAATATT
19057799 TGTATCAACAATACAGTTTAAAATATT
1 TGTATCAACAATACAGTTTAAAATATT
19057826 AAAGTTAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.37
Consensus pattern (27 bp):
TGTATCAACAATACAGTTTAAAATATT
Found at i:19058479 original size:19 final size:18
Alignment explanation
Indices: 19058435--19058488 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
19058425 TTTTTTTATA
* *
19058435 AAAAATTTTATTAAAAAAG
1 AAAAA-TTTATAAAAAAAC
19058454 AATAAATTTATAAAAAAACC
1 AA-AAATTTATAAAAAAA-C
*
19058474 AAAAATTAATAAAAA
1 AAAAATTTATAAAAA
19058489 TATTTCACAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 25 0.83
20 5 0.17
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.26
Consensus pattern (18 bp):
AAAAATTTATAAAAAAAC
Found at i:19062664 original size:86 final size:85
Alignment explanation
Indices: 19062553--19062794 Score: 369
Period size: 86 Copynumber: 2.8 Consensus size: 85
19062543 GAATCCTAAG
*
19062553 TTATTGATGTCTTAGAGTTAAATTTTATCAGACTTTGTTCAGTCTTGAATTACAATTAGTTTGTT
1 TTATTGATGTCTTAGAGTTAAATTTTATCAGACTTTGTTCAGTCTTGAATTACAATTAGTTTGTG
* *
19062618 GAGTT-TACAGGTTACTTTGGA
66 GAGTTATA-AGG-CACTTTAGA
* * *
19062639 TTGTTGATGTCCTGGAGTTAAATTTTATCAGACTTTGTTCAGTCTTGAATTACAATTAGTTTGTG
1 TTATTGATGTCTTAGAGTTAAATTTTATCAGACTTTGTTCAGTCTTGAATTACAATTAGTTTGTG
19062704 GAGCTTATAAGGCACTTTAGA
66 GAG-TTATAAGGCACTTTAGA
* * *
19062725 TTATTGATGTCTTAGAGTTAAATTTGATCAGACTTTGTTCAGTCTTCAGTTACAATTAGTTTGTG
1 TTATTGATGTCTTAGAGTTAAATTTTATCAGACTTTGTTCAGTCTTGAATTACAATTAGTTTGTG
19062790 GAGTT
66 GAGTT
19062795 CCCGAGGCAA
Statistics
Matches: 142, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
85 2 0.01
86 133 0.94
87 5 0.04
88 2 0.01
ACGTcount: A:0.25, C:0.10, G:0.20, T:0.45
Consensus pattern (85 bp):
TTATTGATGTCTTAGAGTTAAATTTTATCAGACTTTGTTCAGTCTTGAATTACAATTAGTTTGTG
GAGTTATAAGGCACTTTAGA
Found at i:19065847 original size:22 final size:23
Alignment explanation
Indices: 19065822--19065865 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
19065812 AAAAAAAGTG
* *
19065822 AAAATAGGGAAAAT-AAAAAAAC
1 AAAATAAGAAAAATGAAAAAAAC
19065844 AAAATAAGAAAAATGAAAAAAA
1 AAAATAAGAAAAATGAAAAAAA
19065866 AATTCACAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.77, C:0.02, G:0.11, T:0.09
Consensus pattern (23 bp):
AAAATAAGAAAAATGAAAAAAAC
Found at i:19066341 original size:13 final size:14
Alignment explanation
Indices: 19066318--19066348 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
19066308 AAAAAATGAA
19066318 AAAATATAAAAAAG
1 AAAATATAAAAAAG
19066332 AAAA-ATAAAAAAG
1 AAAATATAAAAAAG
19066345 AAAA
1 AAAA
19066349 GAAAACTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 13 0.76
14 4 0.24
ACGTcount: A:0.84, C:0.00, G:0.06, T:0.10
Consensus pattern (14 bp):
AAAATATAAAAAAG
Found at i:19067099 original size:17 final size:17
Alignment explanation
Indices: 19067077--19067117 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
19067067 ATAATCTAAT
**
19067077 AAAAAAATAAAGGAAGA
1 AAAAAAATAAAAAAAGA
*
19067094 AAAAAATTAAAAAAAGA
1 AAAAAAATAAAAAAAGA
19067111 AAAAAAA
1 AAAAAAA
19067118 AGCAAGAAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (17 bp):
AAAAAAATAAAAAAAGA
Found at i:19067582 original size:18 final size:19
Alignment explanation
Indices: 19067553--19067592 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
19067543 AACATTTATT
19067553 AAATATTAAAAAAATTGAA
1 AAATATTAAAAAAATTGAA
*
19067572 AAATA-TAAAAAAATTTAA
1 AAATATTAAAAAAATTGAA
19067590 AAA
1 AAA
19067593 GCAAAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (19 bp):
AAATATTAAAAAAATTGAA
Found at i:19067598 original size:25 final size:25
Alignment explanation
Indices: 19067570--19067627 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
19067560 AAAAAAATTG
* * *
19067570 AAAAATATAAAAAAATTTAAAAAGCA
1 AAAAAAAT-AAAAAACTAAAAAAGCA
19067596 AAAAAAATAAAAAACTAAAAAAGCA
1 AAAAAAATAAAAAACTAAAAAAGCA
19067621 AAAAAAA
1 AAAAAAA
19067628 AGAATTAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 22 0.76
26 7 0.24
ACGTcount: A:0.79, C:0.05, G:0.03, T:0.12
Consensus pattern (25 bp):
AAAAAAATAAAAAACTAAAAAAGCA
Found at i:19067599 original size:18 final size:18
Alignment explanation
Indices: 19067559--19067617 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
19067549 TATTAAATAT
*
19067559 TAAAAAAATTGAAAAATA
1 TAAAAAAATTGAAAAACA
*
19067577 TAAAAAAATTTAAAAAGCA
1 TAAAAAAATTGAAAAA-CA
*
19067596 -AAAAAAA-TAAAAAAC-
1 TAAAAAAATTGAAAAACA
19067611 TAAAAAA
1 TAAAAAA
19067618 GCAAAAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
16 7 0.19
17 6 0.17
18 22 0.61
19 1 0.03
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.17
Consensus pattern (18 bp):
TAAAAAAATTGAAAAACA
Found at i:19069659 original size:18 final size:17
Alignment explanation
Indices: 19069626--19069663 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
19069616 ATTTTAACAA
19069626 TTTTTAATATTTAATTT
1 TTTTTAATATTTAATTT
19069643 TTTTTAA-ATTTCAAATTT
1 TTTTTAATATTT--AATTT
19069661 TTT
1 TTT
19069664 GAGATCGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 4 0.21
17 7 0.37
18 8 0.42
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTTAATATTTAATTT
Found at i:19070276 original size:12 final size:12
Alignment explanation
Indices: 19070255--19070320 Score: 60
Period size: 12 Copynumber: 5.3 Consensus size: 12
19070245 ATATTAAACA
* *
19070255 AACATGTTCACG
1 AACATATTCATG
19070267 AACATATTCATG
1 AACATATTCATG
*
19070279 AATATATTCATG
1 AACATATTCATG
* *
19070291 AACATATATAAACG
1 AACATAT-T-CATG
*
19070305 AACACATTCATG
1 AACATATTCATG
19070317 AACA
1 AACA
19070321 ATAAATAGAT
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
12 33 0.77
13 2 0.05
14 8 0.19
ACGTcount: A:0.45, C:0.18, G:0.09, T:0.27
Consensus pattern (12 bp):
AACATATTCATG
Found at i:19070881 original size:11 final size:13
Alignment explanation
Indices: 19070841--19070878 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
19070831 TTGTGATTGA
19070841 ATAATTATAAAATT
1 ATAA-TATAAAATT
*
19070855 ATAATAAAAAATT
1 ATAATATAAAATT
19070868 ATAA-ATAAAAT
1 ATAATATAAAAT
19070879 ATATCCTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 6 0.27
13 12 0.55
14 4 0.18
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
ATAATATAAAATT
Found at i:19073095 original size:9 final size:9
Alignment explanation
Indices: 19073081--19073114 Score: 50
Period size: 9 Copynumber: 3.6 Consensus size: 9
19073071 AATTTTTTCT
19073081 TAAAATATA
1 TAAAATATA
19073090 TAAAATATA
1 TAAAATATA
19073099 TTAATAATATA
1 -TAA-AATATA
19073110 TAAAA
1 TAAAA
19073115 AAGATTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 11 0.48
10 6 0.26
11 6 0.26
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (9 bp):
TAAAATATA
Found at i:19073666 original size:255 final size:246
Alignment explanation
Indices: 19073374--19074169 Score: 895
Period size: 253 Copynumber: 3.1 Consensus size: 246
19073364 AAGAATAAAT
*
19073374 ATTTGGTTGATAAAAATGTTATTTATAATTGTGAATTATAATAATAAAGAGTTATAATAAGAACA
1 ATTTGGTTGA-AAAAATGTTATTTATAATTGTGAATTATAATAATAAA-AATTATAATAAGAACA
* * * *
19073439 CGTAGCATATAATTAGCAAATACTCATATAAAATAATTATTTACAATAATAAAATTTTTTCTTAA
64 TGTA-CATATAATAAGCAAATACTCACATAAAATAATTATTTATAATAAT-AAATTTTTTCTTAA
* * * *
19073504 AACATATAAAATATATTAATGATATACAAAAAAAATATTTTTAGGTGTAATATATAAATTCAAAA
127 AATATATAAAATATATTAAT-A-ATATATAAAAAA-ATTTTTAGGTGCAATATATAAA-TCAAAA
* * *
19073569 TTCAAAAATTTTAATAAGAAAGAATGTTACAATAAGAACATGTAACGTATAAT-AAAAAAA
188 TTC-AAAATTATAATAAGAAA-AATGTTATAATAAGAACATGTAACATATAATAAAAAAAA
* *
19073629 ATTTGGTTGAAAAAGATGTTATTTATAATTGTGAATTATAATAAGAAAAAAAAATTATAATAAAA
1 ATTTGGTTGAAAAA-ATGTTATTTATAATTGTGAATTATAAT----AATAAAAATTATAATAAGA
* * *
19073694 ATATGTAACATATAATAAGCAAATAATCACATAAAATAATTATTTATAATAACAAATTTTTTCTT
61 ACATGT-ACATATAATAAGCAAATACTCACATAAAATAATTATTTATAATAATAAATTTTTTCTT
* * * *
19073759 AAAGTATATAAAATATATTAATAATATATAAAAAAGATTTTTACGTACAATATATAAAACAAAAT
125 AAAATATATAAAATATATTAATAATATATAAAAAA-ATTTTTAGGTGCAATATATAAATCAAAAT
*
19073824 TCAAAATTATAATAAGAGAAAATGTTATAATAAGAACATGTAACATACAATAAAAAAAA
189 TCAAAATTATAATAAGA-AAAATGTTATAATAAGAACATGTAACATATAATAAAAAAAA
* * ** ** * * *
19073883 AATTGGTTGAAAAAATGTTATTTATAATTGTGAATTTTGTTTTTATATATTGTACCTATAAGAAC
1 ATTTGGTTGAAAAAATGTTATTTATAATTGTGAATTATAATAATAAAAATTATA---ATAAGAAC
* * * *
19073948 ATGTAAATACAACAAACAAATACTCACAT-AAATAATTATTTATAATAAT-AATTTTTT-TT-AA
63 ATGTACATATAATAAGCAAATACTCACATAAAATAATTATTTATAATAATAAATTTTTTCTTAAA
* * * *
19074009 ATATAAAAAATATGTTAATAATATATAAACAAA-TTTTAGATGCAATATATAAAAAT-AAAATTC
128 ATATATAAAATATATTAATAATATATAAAAAAATTTTTAGGTGCAATATAT--AAATCAAAATTC
*
19074072 AAAATTATAATAAGAAAAAATGTTATAATAAGAACATATAACATATAATAAGAAAAAAA
191 AAAATTATAATAAG-AAAAATGTTATAATAAGAACATGTAACATATAAT-A-AAAAAAA
** *
19074131 TATTTGAATGAAAAAAAATGTTATTTATGATTGTGAATT
1 -ATTTGGTTG--AAAAAATGTTATTTATAATTGTGAATT
19074170 TTGCTTTTAT
Statistics
Matches: 467, Mismatches: 55, Indels: 42
0.83 0.10 0.07
Matches are distributed among these distances:
245 14 0.03
246 53 0.11
247 35 0.07
248 9 0.02
249 21 0.04
250 19 0.04
251 46 0.10
252 10 0.02
253 66 0.14
254 34 0.07
255 66 0.14
256 1 0.00
257 32 0.07
258 55 0.12
259 6 0.01
ACGTcount: A:0.52, C:0.05, G:0.08, T:0.35
Consensus pattern (246 bp):
ATTTGGTTGAAAAAATGTTATTTATAATTGTGAATTATAATAATAAAAATTATAATAAGAACATG
TACATATAATAAGCAAATACTCACATAAAATAATTATTTATAATAATAAATTTTTTCTTAAAATA
TATAAAATATATTAATAATATATAAAAAAATTTTTAGGTGCAATATATAAATCAAAATTCAAAAT
TATAATAAGAAAAATGTTATAATAAGAACATGTAACATATAATAAAAAAAA
Found at i:19074034 original size:22 final size:22
Alignment explanation
Indices: 19074009--19074063 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 22
19073999 TTTTTTTTAA
19074009 ATATAAAAAATATGTTA-AT-AAT
1 ATATAAAAAAT-T-TTAGATCAAT
19074031 ATATAAACAAATTTTAGATGCAAT
1 ATATAAA-AAATTTTAGAT-CAAT
19074055 ATATAAAAA
1 ATATAAAAA
19074064 TAAAATTCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
21 3 0.10
22 10 0.34
23 6 0.21
24 10 0.34
ACGTcount: A:0.58, C:0.04, G:0.05, T:0.33
Consensus pattern (22 bp):
ATATAAAAAATTTTAGATCAAT
Found at i:19074090 original size:15 final size:17
Alignment explanation
Indices: 19074072--19074129 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 17
19074062 AATAAAATTC
19074072 AAAA-TTATAATAAGAA
1 AAAAGTTATAATAAGAA
19074088 AAAATGTTATAATAAGAA
1 AAAA-GTTATAATAAGAA
**
19074106 CATATAACATATAATAAGAA
1 -A-A-AAGTTATAATAAGAA
19074126 AAAA
1 AAAA
19074130 ATATTTGAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
16 4 0.11
17 2 0.06
18 13 0.37
19 2 0.06
20 12 0.34
21 2 0.06
ACGTcount: A:0.66, C:0.03, G:0.07, T:0.24
Consensus pattern (17 bp):
AAAAGTTATAATAAGAA
Found at i:19074228 original size:9 final size:9
Alignment explanation
Indices: 19074201--19074234 Score: 50
Period size: 9 Copynumber: 3.6 Consensus size: 9
19074191 AAAATTATTT
19074201 TTTTATATA
1 TTTTATATA
19074210 TTATTAATATA
1 TT-TT-ATATA
19074221 TTTTATATA
1 TTTTATATA
19074230 TTTTA
1 TTTTA
19074235 AGAAAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 12 0.52
10 4 0.17
11 7 0.30
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (9 bp):
TTTTATATA
Found at i:19074911 original size:33 final size:36
Alignment explanation
Indices: 19074853--19074934 Score: 91
Period size: 34 Copynumber: 2.4 Consensus size: 36
19074843 TTTTTAATTA
*
19074853 TTTTTTATTATTTTGAAAACTTTATTT-ACAAAGATT
1 TTTTTTATTATTTT-AAAACTTTATTTGAAAAAGATT
* *
19074889 TTTTTTATTCTTTT-AAAC-TTATTTGAAAAAGGTT
1 TTTTTTATTATTTTAAAACTTTATTTGAAAAAGATT
*
19074923 TTTTAT-TTATTT
1 TTTTTTATTATTT
19074935 CATAAATAAG
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
33 11 0.28
34 16 0.40
36 13 0.32
ACGTcount: A:0.29, C:0.05, G:0.06, T:0.60
Consensus pattern (36 bp):
TTTTTTATTATTTTAAAACTTTATTTGAAAAAGATT
Found at i:19075625 original size:50 final size:49
Alignment explanation
Indices: 19075545--19075690 Score: 134
Period size: 52 Copynumber: 2.9 Consensus size: 49
19075535 TTGATTTTCG
* * * *
19075545 TTTTAATGAGAATTGACTTTGAAATCAAATCCCAAAATTTCTC-C-TTAT
1 TTTTAATGAGAATTGA-TTTGGAATTAAATCCCAAAATCTCTCACATCAT
* * *
19075593 TAATTTAATGTGAATTGATTATGGAATTAAATCCTGACAATCTCTCAACATCAT
1 T--TTTAATGAGAATTGATT-TGGAATTAAATCC-CAAAATCTCTC-ACATCAT
**
19075647 TTTTAATGCCAATTGATTCTGGAATTAAATCCCAAAATCTCTCA
1 TTTTAATGAGAATTGATT-TGGAATTAAATCCCAAAATCTCTCA
19075691 ATTATGGTTG
Statistics
Matches: 79, Mismatches: 12, Indels: 12
0.77 0.12 0.12
Matches are distributed among these distances:
48 1 0.01
49 2 0.03
50 26 0.33
51 17 0.22
52 28 0.35
53 1 0.01
54 4 0.05
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.38
Consensus pattern (49 bp):
TTTTAATGAGAATTGATTTGGAATTAAATCCCAAAATCTCTCACATCAT
Found at i:19076654 original size:25 final size:25
Alignment explanation
Indices: 19076624--19076689 Score: 71
Period size: 26 Copynumber: 2.6 Consensus size: 25
19076614 TTAATGTAAC
19076624 TATTAAAATATTAAAAAATATTTAT
1 TATTAAAATATTAAAAAATATTTAT
* *
19076649 TATTAAAGTATATT-ATAATTATTTAT
1 TATTAAA--ATATTAAAAAATATTTAT
*
19076675 TATCAAAATTATTAA
1 TATTAAAA-TATTAA
19076690 TATTTAAGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
24 1 0.03
25 11 0.32
26 17 0.50
27 5 0.15
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (25 bp):
TATTAAAATATTAAAAAATATTTAT
Found at i:19076706 original size:20 final size:20
Alignment explanation
Indices: 19076681--19076730 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 20
19076671 TTATTATCAA
19076681 AATTATTAATATTTAAGAAT
1 AATTATTAATATTTAAGAAT
*
19076701 AATTA-T-AT-TTTAATAAT
1 AATTATTAATATTTAAGAAT
19076718 AA-TATTTAATATT
1 AATTA-TTAATATT
19076731 ATAATAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
16 2 0.08
17 10 0.40
18 3 0.12
19 3 0.12
20 7 0.28
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
AATTATTAATATTTAAGAAT
Found at i:19076866 original size:15 final size:16
Alignment explanation
Indices: 19076846--19076880 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
19076836 TTAAAATAGT
19076846 AATATTTAT-TATTAA
1 AATATTTATATATTAA
19076861 AATATTTATACTATTAA
1 AATATTTATA-TATTAA
19076878 AAT
1 AAT
19076881 TGTAGACATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.50
17 9 0.50
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (16 bp):
AATATTTATATATTAA
Found at i:19076876 original size:44 final size:43
Alignment explanation
Indices: 19076793--19076881 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 43
19076783 TTTAAAATAT
* * **
19076793 TTAAAATAGTATTACTATTCTTAAAATATTATTTTTATTAAAA
1 TTAAAATAGTAATACTATTATTAAAATATTATTACTATTAAAA
*
19076836 TTAAAATAGTAATATTTATTATTAAAATATT-TATACTATTAAAA
1 TTAAAATAGTAATA-CTATTATTAAAATATTAT-TACTATTAAAA
19076880 TT
1 TT
19076882 GTAGACATCA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
43 14 0.36
44 25 0.64
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.48
Consensus pattern (43 bp):
TTAAAATAGTAATACTATTATTAAAATATTATTACTATTAAAA
Found at i:19077061 original size:3 final size:3
Alignment explanation
Indices: 19077053--19077085 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
19077043 TTTATTTGTT
19077053 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
19077086 AAGAAAGAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:19077351 original size:22 final size:22
Alignment explanation
Indices: 19077326--19077372 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
19077316 GATTTTAAAA
*
19077326 AAATTTCAAATTTCAAATAATT
1 AAATTTCAAAATTCAAATAATT
* *
19077348 AAATTTGAAAATTGAAATAATT
1 AAATTTCAAAATTCAAATAATT
19077370 AAA
1 AAA
19077373 ATTTTAATTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.36
Consensus pattern (22 bp):
AAATTTCAAAATTCAAATAATT
Found at i:19079354 original size:18 final size:20
Alignment explanation
Indices: 19079306--19079351 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
19079296 AGTAATGAGT
19079306 AAAATAATAATTAAGGAAAA
1 AAAATAATAATTAAGGAAAA
*
19079326 AATAATAATAA-TAAGTAAAA
1 AA-AATAATAATTAAGGAAAA
19079346 AAAATA
1 AAAATA
19079352 TAAAAATCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 4 0.17
20 12 0.50
21 8 0.33
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.22
Consensus pattern (20 bp):
AAAATAATAATTAAGGAAAA
Found at i:19079354 original size:21 final size:23
Alignment explanation
Indices: 19079308--19079351 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
19079298 TAATGAGTAA
*
19079308 AATAATAATTAAGGAAAAAATAAT
1 AATAATAAGTAA-GAAAAAATAAT
19079332 AATAATAAGTAA-AAAAAATA
1 AATAATAAGTAAGAAAAAATA
19079352 TAAAAATCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
24 11 0.58
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (23 bp):
AATAATAAGTAAGAAAAAATAAT
Found at i:19080234 original size:17 final size:17
Alignment explanation
Indices: 19080214--19080246 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
19080204 TGCCTCTTGT
*
19080214 CCCTTTATGATTTTTTC
1 CCCTATATGATTTTTTC
19080231 CCCTATATGATTTTTT
1 CCCTATATGATTTTTT
19080247 TTGCCCTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.21, G:0.06, T:0.58
Consensus pattern (17 bp):
CCCTATATGATTTTTTC
Found at i:19080422 original size:18 final size:19
Alignment explanation
Indices: 19080390--19080425 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
19080380 TTTCAAACTT
*
19080390 TTTTTTTTCATTTTTTAAC
1 TTTTTTTTCACTTTTTAAC
19080409 TTTTTTTTC-CTTTTTAA
1 TTTTTTTTCACTTTTTAA
19080426 TACTCTAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTTTTTTCACTTTTTAAC
Found at i:19080484 original size:6 final size:6
Alignment explanation
Indices: 19080473--19080500 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
19080463 AAAATAAATC
19080473 AAATTA AAATTA AAATTA AAATTA AAAT
1 AAATTA AAATTA AAATTA AAATTA AAAT
19080501 ATTTTTATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AAATTA
Found at i:19080829 original size:18 final size:18
Alignment explanation
Indices: 19080785--19080870 Score: 66
Period size: 18 Copynumber: 4.7 Consensus size: 18
19080775 CTAAGACTCT
*
19080785 AAGATTTGCAAAAGTTTTGTA
1 AAGATTT-CAAAA--TTTGCA
*
19080806 ACGATTTCAAAATTTGCA
1 AAGATTTCAAAATTTGCA
* **
19080824 AAGA-TTCAAGATTCACA
1 AAGATTTCAAAATTTGCA
* *
19080841 AAGGTTTCAAGATTTGCA
1 AAGATTTCAAAATTTGCA
*
19080859 AAGATTCCAAAA
1 AAGATTTCAAAA
19080871 GCTCGTAAAT
Statistics
Matches: 52, Mismatches: 12, Indels: 5
0.75 0.17 0.07
Matches are distributed among these distances:
17 13 0.25
18 28 0.54
20 5 0.10
21 6 0.12
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.30
Consensus pattern (18 bp):
AAGATTTCAAAATTTGCA
Found at i:19081047 original size:17 final size:17
Alignment explanation
Indices: 19081025--19081071 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 17
19081015 GATTTTAAAA
*
19081025 ATTTGCAAAACTTTTAG
1 ATTTGCAAAAATTTTAG
19081042 ATTTGCAAAAATTTTAG
1 ATTTGCAAAAATTTTAG
* *
19081059 ATTAGCAAGAATT
1 ATTTGCAAAAATT
19081072 CAGATTTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (17 bp):
ATTTGCAAAAATTTTAG
Found at i:19081201 original size:17 final size:17
Alignment explanation
Indices: 19081160--19081210 Score: 66
Period size: 17 Copynumber: 3.0 Consensus size: 17
19081150 AAACTTTTAG
* * *
19081160 ATTCACAAGAACTTCAG
1 ATTCGCAAGAATTTCAT
19081177 ATTCGCAAGAATTTCAT
1 ATTCGCAAGAATTTCAT
*
19081194 ATTTGCAAGAATTTCAT
1 ATTCGCAAGAATTTCAT
19081211 CATTGTATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (17 bp):
ATTCGCAAGAATTTCAT
Found at i:19081391 original size:42 final size:42
Alignment explanation
Indices: 19081332--19081412 Score: 126
Period size: 42 Copynumber: 1.9 Consensus size: 42
19081322 CCTAAAATTC
* * *
19081332 AAAGATTTTCATTTGAAAATTTTAGAAATTCACCCAAAAGTT
1 AAAGATTTCCATTTGAAAAATTTAGAAATTCACACAAAAGTT
*
19081374 AAAGATTTCCATTTGAAAAATTTAGAGATTCACACAAAA
1 AAAGATTTCCATTTGAAAAATTTAGAAATTCACACAAAA
19081413 AATTTCAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.46, C:0.12, G:0.10, T:0.32
Consensus pattern (42 bp):
AAAGATTTCCATTTGAAAAATTTAGAAATTCACACAAAAGTT
Found at i:19081544 original size:45 final size:46
Alignment explanation
Indices: 19081433--19081737 Score: 176
Period size: 46 Copynumber: 6.6 Consensus size: 46
19081423 ATTTTAATAT
*
19081433 TTCACACCCAAAATTTCAACA-ATTCTCATCCTAAAAATTTTAGAGG
1 TTCACATCCAAAATTTCAA-AGATTCTCATCCTAAAAATTTTAGAGG
* *
19081479 TTCATATCCAAAATTTCAAAGATTCTCTTTCC-AAAAATTTT-G-GG
1 TTCACATCCAAAATTTCAAAGATTCTC-ATCCTAAAAATTTTAGAGG
* * * **
19081523 ATTCACATCCAAAGTTTCAAAGATTCTTATTC-AAAACATTTTA-ATAT
1 -TTCACATCCAAAATTTCAAAGATTCTCATCCTAAAA-ATTTTAGA-GG
* * * * * * * *
19081570 TTTAAAACCAAAATGTCAAAAATTTTCATCCAAAAAATTTTTAG-GT
1 TTCACATCCAAAATTTCAAAGATTCTCATCCTAAAAA-TTTTAGAGG
* * * * * * * **
19081616 TTCACATCCAAAATTTCTAATATTCACATTCGACAAATTTCAGATAT
1 TTCACATCCAAAATTTCAAAGATTCTCATCCTAAAAATTTTAGA-GG
* * * * * * *
19081663 TTCATAACTAAAATTTCAAAGATTCACAT-TTGAAAAATTTTGGTGG
1 TTCACATCCAAAATTTCAAAGATTCTCATCCT-AAAAATTTTAGAGG
* *
19081709 TTCACATCTAAAATTTTAAAGATTCTCAT
1 TTCACATCCAAAATTTCAAAGATTCTCAT
19081738 TCGAAAAGCT
Statistics
Matches: 196, Mismatches: 50, Indels: 26
0.72 0.18 0.10
Matches are distributed among these distances:
44 8 0.04
45 36 0.18
46 107 0.55
47 45 0.23
ACGTcount: A:0.39, C:0.17, G:0.07, T:0.36
Consensus pattern (46 bp):
TTCACATCCAAAATTTCAAAGATTCTCATCCTAAAAATTTTAGAGG
Found at i:19087805 original size:19 final size:22
Alignment explanation
Indices: 19087768--19087828 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
19087758 TAATGAGTAA
19087768 AATAATAACTAAAGATAAAAAT
1 AATAATAACTAAAGATAAAAAT
19087790 AATAATAA-T-AAG-TAAAAAT
1 AATAATAACTAAAGATAAAAAT
* *
19087809 AA-AAAAATCTAAAAATAAAA
1 AATAATAA-CTAAAGATAAAA
19087829 TGAAAACAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
18 4 0.12
19 9 0.27
20 4 0.12
21 3 0.09
22 13 0.39
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.21
Consensus pattern (22 bp):
AATAATAACTAAAGATAAAAAT
Found at i:19089101 original size:24 final size:24
Alignment explanation
Indices: 19089052--19089101 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
19089042 TAAAAAATAA
* **
19089052 GAAAACCAATAAAAATTGAAAAAT
1 GAAAACAAATAAAAATACAAAAAT
19089076 GAAAACAAATAAAAA-ACAAAACAT
1 GAAAACAAATAAAAATACAAAA-AT
19089100 GA
1 GA
19089102 TAAATTTTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.70, C:0.10, G:0.08, T:0.12
Consensus pattern (24 bp):
GAAAACAAATAAAAATACAAAAAT
Found at i:19093268 original size:41 final size:41
Alignment explanation
Indices: 19093223--19093631 Score: 423
Period size: 41 Copynumber: 9.8 Consensus size: 41
19093213 ATACAAATAG
* * *
19093223 ACATGCAATTAAATATGTAATCATGCAACTAACAATGTAAA
1 ACATGCAATTAAATATATAATCATGCAATTAACAATATAAA
* * *
19093264 ACATGCCATTAAATATCTAATCATGCAATTAACAATGTAAA
1 ACATGCAATTAAATATATAATCATGCAATTAACAATATAAA
* *
19093305 ACATGCAAATAAATATATTATCATGCAATTAACAATATAAA
1 ACATGCAATTAAATATATAATCATGCAATTAACAATATAAA
** * *
19093346 ACATGCAACAAAATATATAGTCATGCAATTAAAAATATAAA
1 ACATGCAATTAAATATATAATCATGCAATTAACAATATAAA
*
19093387 ACATGCAAATATATATATATATTATCATGCAATTAACAATATAAA
1 ACATGC-AAT-TA-A-ATATATAATCATGCAATTAACAATATAAA
* * *
19093432 ACATGCAA--ATATATATTATCATGCAAGTAACAATATAAA
1 ACATGCAATTAAATATATAATCATGCAATTAACAATATAAA
* *
19093471 ATATGCAATTAAATATATAATCATGCAATTCACATGCAATTCACAAAAA
1 ACATGCAATTAAATATATAATCATGCAATT-A-A--CAA-T---ATAAA
* *
19093520 ACTTGCAATTAAATATATTATCATGCAATTAACAATATAAA
1 ACATGCAATTAAATATATAATCATGCAATTAACAATATAAA
* * * **
19093561 ACATGTAAATAAATATATTATCATTTAATTAACAATATAAA
1 ACATGCAATTAAATATATAATCATGCAATTAACAATATAAA
* *
19093602 ACATCCCAA-T--ATATATAATCATCCAATTAA
1 ACAT-GCAATTAAATATATAATCATGCAATTAA
19093632 ATAATAATAA
Statistics
Matches: 314, Mismatches: 39, Indels: 32
0.82 0.10 0.08
Matches are distributed among these distances:
39 52 0.17
41 179 0.57
42 5 0.02
43 2 0.01
44 4 0.01
45 38 0.12
46 1 0.00
47 1 0.00
48 1 0.00
49 31 0.10
ACGTcount: A:0.51, C:0.14, G:0.06, T:0.30
Consensus pattern (41 bp):
ACATGCAATTAAATATATAATCATGCAATTAACAATATAAA
Found at i:19093416 original size:24 final size:23
Alignment explanation
Indices: 19093301--19093447 Score: 77
Period size: 21 Copynumber: 6.9 Consensus size: 23
19093291 ATTAACAATG
19093301 TAAAACATGCAAATA-A-ATATA
1 TAAAACATGCAAATATATATATA
* * * *
19093322 T-TATCATGCAATTA-ACA-ATA
1 TAAAACATGCAAATATATATATA
19093342 TAAAACATGCAACA-A-A-ATATA
1 TAAAACATGCAA-ATATATATATA
** * *
19093363 T-AGTCATGC-AAT-TAAAAATA
1 TAAAACATGCAAATATATATATA
19093383 TAAAACATGCAAATATATATATA
1 TAAAACATGCAAATATATATATA
* * * *
19093406 TATTATCATGCAATTA-ACA-ATA
1 TA-AAACATGCAAATATATATATA
19093428 TAAAACATGCAAATATATAT
1 TAAAACATGCAAATATATAT
19093448 TATCATGCAA
Statistics
Matches: 92, Mismatches: 21, Indels: 24
0.67 0.15 0.18
Matches are distributed among these distances:
18 1 0.01
19 2 0.02
20 27 0.29
21 32 0.35
22 10 0.11
23 10 0.11
24 10 0.11
ACGTcount: A:0.54, C:0.12, G:0.05, T:0.29
Consensus pattern (23 bp):
TAAAACATGCAAATATATATATA
Found at i:19093548 original size:20 final size:20
Alignment explanation
Indices: 19093523--19093584 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
19093513 ACAAAAAACT
19093523 TGCAATTAAATATATTATCA
1 TGCAATTAAATATATTATCA
* *
19093543 TGCAATTAACA-ATATAAAACA
1 TGCAATTAA-ATATAT-TATCA
* *
19093564 TGTAAATAAATATATTATCA
1 TGCAATTAAATATATTATCA
19093584 T
1 T
19093585 TTAATTAACA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
20 18 0.55
21 15 0.45
ACGTcount: A:0.50, C:0.10, G:0.05, T:0.35
Consensus pattern (20 bp):
TGCAATTAAATATATTATCA
Found at i:19093597 original size:22 final size:22
Alignment explanation
Indices: 19093531--19093599 Score: 72
Period size: 22 Copynumber: 3.3 Consensus size: 22
19093521 CTTGCAATTA
*
19093531 AATATATTATCATGCAATTAAC
1 AATATATTATCATGTAATTAAC
* * *
19093553 AATATA-AAACATGTAAAT-A-
1 AATATATTATCATGTAATTAAC
*
19093572 AATATATTATCATTTAATTAAC
1 AATATATTATCATGTAATTAAC
19093594 AATATA
1 AATATA
19093600 AAACATCCCA
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
19 6 0.17
20 9 0.25
21 9 0.25
22 12 0.33
ACGTcount: A:0.52, C:0.09, G:0.03, T:0.36
Consensus pattern (22 bp):
AATATATTATCATGTAATTAAC
Found at i:19093678 original size:170 final size:173
Alignment explanation
Indices: 19093356--19093681 Score: 418
Period size: 170 Copynumber: 1.9 Consensus size: 173
19093346 ACATGCAACA
19093356 AAATATATAGTCATGCAATTAAAAATATAAAACATGCAAATATATATATATATTATCATGCAATT
1 AAATATATAGTCATGCAATTAAAAATATAAAACATGCAAATATATATATATATTATCATGCAATT
* * * *
19093421 AACAATATAAAACATGCAAATATATATTATCATGCAAGTAACAATATAAAATATGCAATTAAATA
66 AACAATATAAAACATCCAAATATATATAATCATCCAAGTAACAATATAAAATA-GCAATAAAATA
**
19093486 TATAATCATGCAATTCACATGCAATTCACAAAAAACTTGCAATT
130 TATAATCATGCAATAAACATGCAATTCACAAAAAACTTGCAATT
* * **
19093530 AAATATATTA-TCATGCAATTAACAATATAAAACATG-TAA-ATA-A-ATATATTATCATTTAAT
1 AAATATA-TAGTCATGCAATTAAAAATATAAAACATGCAAATATATATATATATTATCATGCAAT
* *
19093590 TAACAATATAAAACATCCCAATATATATAATCATCCAA-TTA-AATAATAATAATA-CAAATAAT
65 TAACAATATAAAACATCCAAATATATATAATCATCCAAGTAACAAT-ATAA-AATAGC-AATAA-
19093652 AATATA-AATCATGCAAATAAACATGCAATT
126 AATATATAATCATGC-AATAAACATGCAATT
19093682 AAATATATAA
Statistics
Matches: 134, Mismatches: 12, Indels: 16
0.83 0.07 0.10
Matches are distributed among these distances:
168 4 0.03
169 18 0.13
170 72 0.54
171 1 0.01
172 3 0.02
173 2 0.01
174 32 0.24
175 2 0.01
ACGTcount: A:0.52, C:0.12, G:0.05, T:0.31
Consensus pattern (173 bp):
AAATATATAGTCATGCAATTAAAAATATAAAACATGCAAATATATATATATATTATCATGCAATT
AACAATATAAAACATCCAAATATATATAATCATCCAAGTAACAATATAAAATAGCAATAAAATAT
ATAATCATGCAATAAACATGCAATTCACAAAAAACTTGCAATT
Found at i:19093741 original size:20 final size:20
Alignment explanation
Indices: 19093716--19093779 Score: 74
Period size: 20 Copynumber: 3.2 Consensus size: 20
19093706 TCACACAAAT
*
19093716 AAATAAATTGATAATCATGC
1 AAATAAATTAATAATCATGC
*
19093736 AAATAAATTAATAATCATGT
1 AAATAAATTAATAATCATGC
* * * *
19093756 AAACATATCAATAGTCATGC
1 AAATAAATTAATAATCATGC
19093776 AAAT
1 AAAT
19093780 TCATGCAAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.52, C:0.11, G:0.08, T:0.30
Consensus pattern (20 bp):
AAATAAATTAATAATCATGC
Found at i:19094344 original size:3 final size:3
Alignment explanation
Indices: 19094336--19094366 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
19094326 TATTTTTCTT
19094336 TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
19094367 TACTCTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:19094458 original size:16 final size:17
Alignment explanation
Indices: 19094437--19094476 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
19094427 AAATCAAACC
*
19094437 AAAAATTAAACTA-AAA
1 AAAAATTAAAATACAAA
19094453 AAAAATTAAAATACAAA
1 AAAAATTAAAATACAAA
*
19094470 TAAAATT
1 AAAAATT
19094477 TAAGGCTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (17 bp):
AAAAATTAAAATACAAA
Found at i:19094783 original size:43 final size:43
Alignment explanation
Indices: 19094734--19094915 Score: 149
Period size: 43 Copynumber: 4.3 Consensus size: 43
19094724 TTTTTTTTGA
* **
19094734 AAAATGCTCCCCTACGACTAAGATTTTGAAACTTTTGAAAAAT
1 AAAATGCTCCCCTACGACTGAGGCTTTGAAACTTTTGAAAAAT
* * * * ***
19094777 AAAATGCTCCCCCAC-AGCTGAGGTTTTGGAATTTTTTTTAAA-
1 AAAATGCTCCCCTACGA-CTGAGGCTTTGAAACTTTTGAAAAAT
* * *
19094819 AAAATGCTCGCCTACAACTGAGGCTTT-AGAAC-TTTGAAAAGT
1 AAAATGCTCCCCTACGACTGAGGCTTTGA-AACTTTTGAAAAAT
* * * *
19094861 AAAATGCTCACAC-ACGATTGAGGCATTAAAACTTTTGAAAAAT
1 AAAATGCTC-CCCTACGACTGAGGCTTTGAAACTTTTGAAAAAT
19094904 AAAATGCTCCCC
1 AAAATGCTCCCC
19094916 CAAAACTGAG
Statistics
Matches: 108, Mismatches: 24, Indels: 15
0.73 0.16 0.10
Matches are distributed among these distances:
41 5 0.05
42 50 0.46
43 53 0.49
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.29
Consensus pattern (43 bp):
AAAATGCTCCCCTACGACTGAGGCTTTGAAACTTTTGAAAAAT
Found at i:19094840 original size:42 final size:42
Alignment explanation
Indices: 19094710--19094841 Score: 113
Period size: 43 Copynumber: 3.1 Consensus size: 42
19094700 CTCTTCCTTA
** *
19094710 GAGG-TTTGAAATTTTTTTTTTTGAAAAATGCTCCCCTACGACT
1 GAGGTTTTGAAA--TTTTTTTTAAAAAAATGCTCCCCTACAACT
* * * *** * *
19094753 AAGATTTTGAAACTTTTGAAAAATAAAATGCTCCCCCACAGCT
1 GAGGTTTTGAAATTTTTTTTAAA-AAAATGCTCCCCTACAACT
* *
19094796 GAGGTTTTGGAATTTTTTTTAAAAAAATGCTCGCCTACAACT
1 GAGGTTTTGAAATTTTTTTTAAAAAAATGCTCCCCTACAACT
19094838 GAGG
1 GAGG
19094842 CTTTAGAACT
Statistics
Matches: 66, Mismatches: 21, Indels: 5
0.72 0.23 0.05
Matches are distributed among these distances:
42 25 0.38
43 34 0.52
44 7 0.11
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.35
Consensus pattern (42 bp):
GAGGTTTTGAAATTTTTTTTAAAAAAATGCTCCCCTACAACT
Found at i:19094865 original size:42 final size:42
Alignment explanation
Indices: 19094762--19094927 Score: 120
Period size: 42 Copynumber: 3.9 Consensus size: 42
19094752 TAAGATTTTG
* * ** *
19094762 AAACTTTTGAAAAATAAAATGCTCCCCCACAGCTGAGGTTTTG
1 AAACTTTTGAAAAATAAAATGCT-CACCACAACTGAGGCATTA
* * *** * *
19094805 GAATTTTTTTTAAA-AAAATGCTCGCCTACAACTGAGGCTTTA
1 AAACTTTTGAAAAATAAAATGCTCACC-ACAACTGAGGCATTA
* * * *
19094847 GAAC-TTTGAAAAGTAAAATGCTCACACACGATTGAGGCATTA
1 AAACTTTTGAAAAATAAAATGCTCAC-CACAACTGAGGCATTA
* *
19094889 AAACTTTTGAAAAATAAAATGCTCCCCCAAAACTGAGGC
1 AAACTTTTGAAAAATAAAATGCT-CACCACAACTGAGGC
19094928 GCTATAACTG
Statistics
Matches: 94, Mismatches: 24, Indels: 10
0.73 0.19 0.08
Matches are distributed among these distances:
41 8 0.09
42 48 0.51
43 36 0.38
44 2 0.02
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (42 bp):
AAACTTTTGAAAAATAAAATGCTCACCACAACTGAGGCATTA
Found at i:19095200 original size:13 final size:13
Alignment explanation
Indices: 19095182--19095206 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19095172 TTCCAAACAT
19095182 ATGCAATGAATGC
1 ATGCAATGAATGC
19095195 ATGCAATGAATG
1 ATGCAATGAATG
19095207 AAAAGATTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.12, G:0.24, T:0.24
Consensus pattern (13 bp):
ATGCAATGAATGC
Found at i:19099238 original size:13 final size:13
Alignment explanation
Indices: 19099222--19099246 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19099212 CATATAAAAA
19099222 ATCATGCAATAAT
1 ATCATGCAATAAT
19099235 ATCATGCAATAA
1 ATCATGCAATAA
19099247 AAAAAATGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.16, G:0.08, T:0.28
Consensus pattern (13 bp):
ATCATGCAATAAT
Found at i:19099246 original size:28 final size:28
Alignment explanation
Indices: 19099215--19099274 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
19099205 TAAAAATCAT
* *
19099215 ATAAAAAATCATGCAATAA-TATCATGCA
1 ATAAAAAA-AATGCAAAAACTATCATGCA
*
19099243 ATAAAAAAAATGCAAAAACTATCATGCG
1 ATAAAAAAAATGCAAAAACTATCATGCA
19099271 ATAA
1 ATAA
19099275 TATAAAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 8 0.29
28 20 0.71
ACGTcount: A:0.57, C:0.13, G:0.08, T:0.22
Consensus pattern (28 bp):
ATAAAAAAAATGCAAAAACTATCATGCA
Found at i:19099399 original size:44 final size:44
Alignment explanation
Indices: 19099349--19099445 Score: 149
Period size: 44 Copynumber: 2.2 Consensus size: 44
19099339 TAAATCATAC
* **
19099349 AATTAATAAATCACATAAATAAATATACTAATAATCATGCAATT
1 AATTAATAAATCACACAAATAAATATACTAATAATCATAAAATT
* *
19099393 AATTAATAAATCACACAAATAAATATATTAATAATTATAAAATT
1 AATTAATAAATCACACAAATAAATATACTAATAATCATAAAATT
19099437 AATTAATAA
1 AATTAATAA
19099446 TCATGCAATA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.58, C:0.08, G:0.01, T:0.33
Consensus pattern (44 bp):
AATTAATAAATCACACAAATAAATATACTAATAATCATAAAATT
Found at i:19099501 original size:31 final size:31
Alignment explanation
Indices: 19099444--19099508 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
19099434 ATTAATTAAT
* * *
19099444 AATCATGCAATAATAAAGAATTATGCAATTA
1 AATCATGCAATAATAAACAATCATGCAAATA
*
19099475 AATCATGCAAT-ATATATCAATCATGCAAATA
1 AATCATGCAATAATA-AACAATCATGCAAATA
19099506 AAT
1 AAT
19099509 TATTAATTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 3 0.10
31 26 0.90
ACGTcount: A:0.51, C:0.12, G:0.08, T:0.29
Consensus pattern (31 bp):
AATCATGCAATAATAAACAATCATGCAAATA
Found at i:19099566 original size:18 final size:18
Alignment explanation
Indices: 19099540--19099577 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
19099530 ATTAGTCATA
* *
19099540 CAAATTCATGCAAATAAT
1 CAAACTCATGCAAAAAAT
19099558 CAAACTCATGCAAAAAAT
1 CAAACTCATGCAAAAAAT
19099576 CA
1 CA
19099578 TGCAAATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.53, C:0.21, G:0.05, T:0.21
Consensus pattern (18 bp):
CAAACTCATGCAAAAAAT
Found at i:19099685 original size:1 final size:1
Alignment explanation
Indices: 19099679--19099744 Score: 60
Period size: 1 Copynumber: 66.0 Consensus size: 1
19099669 AACAAATATG
** * * * ** *
19099679 AAAAAAAAAAAAAAAAGCAAAGATAGAAAAAAAAATCAGAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
19099744 A
1 A
19099745 CACTCCTATG
Statistics
Matches: 51, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 51 1.00
ACGTcount: A:0.88, C:0.03, G:0.06, T:0.03
Consensus pattern (1 bp):
A
Found at i:19099688 original size:25 final size:26
Alignment explanation
Indices: 19099678--19099744 Score: 72
Period size: 26 Copynumber: 2.7 Consensus size: 26
19099668 GAACAAATAT
19099678 GAAAAAAAAAAAAAAAAGCAAAGATA
1 GAAAAAAAAAAAAAAAAGCAAAGATA
19099704 GAAAAAAAAATCAGAAAAAA--AAA-A-A
1 GAAAAAAAAA--A-AAAAAAGCAAAGATA
19099729 -AAAAAAAAAAAAAAAA
1 GAAAAAAAAAAAAAAAA
19099745 CACTCCTATG
Statistics
Matches: 38, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
21 6 0.16
22 1 0.03
24 9 0.24
25 1 0.03
26 11 0.29
27 3 0.08
28 1 0.03
29 6 0.16
ACGTcount: A:0.87, C:0.03, G:0.07, T:0.03
Consensus pattern (26 bp):
GAAAAAAAAAAAAAAAAGCAAAGATA
Found at i:19099690 original size:27 final size:26
Alignment explanation
Indices: 19099659--19099746 Score: 78
Period size: 25 Copynumber: 3.5 Consensus size: 26
19099649 TTAAAAATAT
* * *
19099659 AAAAACAAAGAACAAATAT-GAAAAA
1 AAAAAAAAAAAACAAAGATAGAAAAA
*
19099684 AAAAAAAAAAAGCAAAGATAGAAAAA
1 AAAAAAAAAAAACAAAGATAGAAAAA
* *
19099710 AAAATCAGAAAAA-AAA-A-A-AAAAA
1 AAAA-AAAAAAAACAAAGATAGAAAAA
19099733 AAAAAAAAAAAACA
1 AAAAAAAAAAAACA
19099747 CTCCTATGCT
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
22 6 0.12
23 10 0.20
24 1 0.02
25 16 0.31
26 13 0.25
27 5 0.10
ACGTcount: A:0.83, C:0.06, G:0.07, T:0.05
Consensus pattern (26 bp):
AAAAAAAAAAAACAAAGATAGAAAAA
Found at i:19101104 original size:12 final size:11
Alignment explanation
Indices: 19101087--19101153 Score: 53
Period size: 12 Copynumber: 5.5 Consensus size: 11
19101077 CCAAAACAAT
19101087 ATTAAATCAAAA
1 ATTAAATC-AAA
*
19101099 ATTAAAATTAAA
1 ATT-AAATCAAA
*
19101111 ATATCACAATCCAA
1 AT-T-A-AATCAAA
19101125 ATTAAAATCAAA
1 ATT-AAATCAAA
*
19101137 ATTAAACCAAA
1 ATTAAATCAAA
19101148 ATTAAA
1 ATTAAA
19101154 ATTAACACCT
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
11 13 0.29
12 17 0.38
13 8 0.18
14 7 0.16
ACGTcount: A:0.63, C:0.12, G:0.00, T:0.25
Consensus pattern (11 bp):
ATTAAATCAAA
Found at i:19103112 original size:7 final size:7
Alignment explanation
Indices: 19103102--19103127 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
19103092 TTTTTTTCCT
19103102 TTTTTTA
1 TTTTTTA
19103109 TTTTTTA
1 TTTTTTA
19103116 TTTTTTA
1 TTTTTTA
19103123 TTTTT
1 TTTTT
19103128 CATCATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Found at i:19105305 original size:14 final size:13
Alignment explanation
Indices: 19105278--19105321 Score: 70
Period size: 13 Copynumber: 3.3 Consensus size: 13
19105268 TTAGAAATTA
19105278 AAAATCTCATTTG
1 AAAATCTCATTTG
*
19105291 AAAATCTAATGTTG
1 AAAATCTCAT-TTG
19105305 AAAATCTCATTTG
1 AAAATCTCATTTG
19105318 AAAA
1 AAAA
19105322 CATAGAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 16 0.57
14 12 0.43
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.34
Consensus pattern (13 bp):
AAAATCTCATTTG
Found at i:19106273 original size:16 final size:16
Alignment explanation
Indices: 19106254--19106288 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
19106244 ATTTGGACTC
*
19106254 TTTTTTCTTTT-TCTT
1 TTTTTTTTTTTATCTT
19106269 TTTTTTTTTTTATCTT
1 TTTTTTTTTTTATCTT
19106285 TTTT
1 TTTT
19106289 CTATCCTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.03, C:0.09, G:0.00, T:0.89
Consensus pattern (16 bp):
TTTTTTTTTTTATCTT
Done.