Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, 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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 144 of 147
Found at i:26817400 original size:12 final size:12
Alignment explanation
Indices: 26817362--26817406 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
26817352 TATTTTTTAA
26817362 ATATAAATAT-T
1 ATATAAATATAT
26817373 -TATAAATATCATT
1 ATATAAATAT-A-T
26817386 ATATAAATATAT
1 ATATAAATATAT
26817398 ATATAAATA
1 ATATAAATA
26817407 AAAATTTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 9 0.30
12 10 0.33
13 2 0.07
14 9 0.30
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (12 bp):
ATATAAATATAT
Found at i:26818317 original size:13 final size:13
Alignment explanation
Indices: 26818280--26818319 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
26818270 TAATTTAAAA
*
26818280 TTTTAAAATTTTAT
1 TTTTAAAA-TATAT
26818294 TTTATAAAATATAT
1 TTT-TAAAATATAT
26818308 TTTTAAAATATA
1 TTTTAAAATATA
26818320 AATATAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 9 0.38
14 10 0.42
15 5 0.21
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TTTTAAAATATAT
Found at i:26821280 original size:2 final size:2
Alignment explanation
Indices: 26821268--26821301 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
26821258 CCCACTTCTA
*
26821268 AT AT AT CT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26821302 GTGATTAAGC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26825328 original size:21 final size:21
Alignment explanation
Indices: 26825304--26825345 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
26825294 GCATTCCAGT
26825304 CAACCAGAAAGTGCAGCACCA
1 CAACCAGAAAGTGCAGCACCA
* *
26825325 CAACCTGACAGTGCAGCACCA
1 CAACCAGAAAGTGCAGCACCA
26825346 AAGCTCGATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.36, G:0.19, T:0.07
Consensus pattern (21 bp):
CAACCAGAAAGTGCAGCACCA
Found at i:26846405 original size:95 final size:95
Alignment explanation
Indices: 26846293--26846470 Score: 284
Period size: 95 Copynumber: 1.9 Consensus size: 95
26846283 AATTGAAATC
* * * *
26846293 GATATAACGGGAATTTCAGATTTGTTTCAAAATTATTGTTCGAAATCTGGTTTAAATTAAATTAA
1 GATATAACGGCAATTTCAAATTTGTTTAAAAATTATTGTTCGAAATCTGATTTAAATTAAATTAA
* *
26846358 TTTTTAATTTTTAAATTTGAATTTAATTAT
66 ATTTTAAATTTTAAATTTGAATTTAATTAT
* *
26846388 GATATAATGGCAATTTCAAATTTGTTTAAAAATTATTGTTCGAAATTTGATTTAAATTAAATTAA
1 GATATAACGGCAATTTCAAATTTGTTTAAAAATTATTGTTCGAAATCTGATTTAAATTAAATTAA
26846453 ATTTTAAATTTTAAATTT
66 ATTTTAAATTTTAAATTT
26846471 TAAATTTGAA
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
95 75 1.00
ACGTcount: A:0.38, C:0.04, G:0.10, T:0.47
Consensus pattern (95 bp):
GATATAACGGCAATTTCAAATTTGTTTAAAAATTATTGTTCGAAATCTGATTTAAATTAAATTAA
ATTTTAAATTTTAAATTTGAATTTAATTAT
Found at i:26846461 original size:7 final size:7
Alignment explanation
Indices: 26846449--26846477 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
26846439 TTAAATTAAA
26846449 TTAAATT
1 TTAAATT
26846456 TTAAATT
1 TTAAATT
26846463 TTAAATT
1 TTAAATT
26846470 TTAAATT
1 TTAAATT
26846477 T
1 T
26846478 GAATTCAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
TTAAATT
Found at i:26846636 original size:20 final size:20
Alignment explanation
Indices: 26846613--26846693 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
26846603 TATATAAAAG
26846613 TAAAATAATAATTTTTTAAT
1 TAAAATAATAATTTTTTAAT
*
26846633 TAAAATAATAAAAATATATTAAAATTAAAG
1 TAAAATAAT---AAT-T-TT----TT-AAT
26846663 TAAAATAATAATTTTTTAAT
1 TAAAATAATAATTTTTTAAT
26846683 TAAAATAATAA
1 TAAAATAATAA
26846694 AAATATATTA
Statistics
Matches: 49, Mismatches: 2, Indels: 20
0.69 0.03 0.28
Matches are distributed among these distances:
20 22 0.45
21 2 0.04
23 3 0.06
24 1 0.02
25 4 0.08
26 1 0.02
27 3 0.06
29 2 0.04
30 11 0.22
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (20 bp):
TAAAATAATAATTTTTTAAT
Found at i:26846665 original size:50 final size:50
Alignment explanation
Indices: 26846609--26846708 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
26846599 AATATATATA
26846609 AAAGTAAAATAATAATTTTTTAATTAAAATAATAAAAATATATTAAAATT
1 AAAGTAAAATAATAATTTTTTAATTAAAATAATAAAAATATATTAAAATT
26846659 AAAGTAAAATAATAATTTTTTAATTAAAATAATAAAAATATATTAAAATT
1 AAAGTAAAATAATAATTTTTTAATTAAAATAATAAAAATATATTAAAATT
26846709 TAAAATTTTA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (50 bp):
AAAGTAAAATAATAATTTTTTAATTAAAATAATAAAAATATATTAAAATT
Found at i:26846683 original size:25 final size:25
Alignment explanation
Indices: 26846609--26846686 Score: 95
Period size: 25 Copynumber: 3.1 Consensus size: 25
26846599 AATATATATA
26846609 AAAGTAAAATAATAATTTTTTAATT
1 AAAGTAAAATAATAATTTTTTAATT
* * * **
26846634 AAAATAATAAAAAT-ATATTAAAATT
1 AAAGTAA-AATAATAATTTTTTAATT
26846659 AAAGTAAAATAATAATTTTTTAATT
1 AAAGTAAAATAATAATTTTTTAATT
26846684 AAA
1 AAA
26846687 ATAATAAAAA
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
24 5 0.12
25 31 0.76
26 5 0.12
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (25 bp):
AAAGTAAAATAATAATTTTTTAATT
Found at i:26846708 original size:25 final size:25
Alignment explanation
Indices: 26846630--26846714 Score: 100
Period size: 25 Copynumber: 3.4 Consensus size: 25
26846620 ATAATTTTTT
26846630 AATTAAAATAATAAAAATATATTAA
1 AATTAAAATAATAAAAATATATTAA
* * * **
26846655 AATTAAAGTAA-AATAATAATTTTTT
1 AATTAAAATAATAAAAAT-ATATTAA
26846680 AATTAAAATAATAAAAATATATTAA
1 AATTAAAATAATAAAAATATATTAA
26846705 AATTTAAAAT
1 AA-TTAAAAT
26846715 TTTAGATTTA
Statistics
Matches: 47, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
24 5 0.11
25 30 0.64
26 12 0.26
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.36
Consensus pattern (25 bp):
AATTAAAATAATAAAAATATATTAA
Found at i:26853513 original size:29 final size:28
Alignment explanation
Indices: 26853478--26853540 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
26853468 TTATATTCAT
**
26853478 TAAATAT-T-TACTAAATATAAATAAATT
1 TAAATATATCTACTAAATATAAA-AAAAA
*
26853505 TAAATATATCTATTAAATATAAAAAAAA
1 TAAATATATCTACTAAATATAAAAAAAA
26853533 TAAATATA
1 TAAATATA
26853541 ATACAAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 7 0.23
28 12 0.39
29 12 0.39
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (28 bp):
TAAATATATCTACTAAATATAAAAAAAA
Found at i:26854147 original size:2 final size:2
Alignment explanation
Indices: 26854135--26854172 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
26854125 TAGAAGAATC
*
26854135 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
26854173 ATTTCATTCC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:26854479 original size:20 final size:20
Alignment explanation
Indices: 26854454--26854491 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
26854444 TTCATGTCGT
*
26854454 ATTATCATATTATATTTTAA
1 ATTATCAAATTATATTTTAA
*
26854474 ATTATCAAATTTTATTTT
1 ATTATCAAATTATATTTT
26854492 TTCTCAACCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (20 bp):
ATTATCAAATTATATTTTAA
Found at i:26861954 original size:11 final size:11
Alignment explanation
Indices: 26861940--26861976 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
26861930 TTTAATATAT
26861940 ATATAATTTTA
1 ATATAATTTTA
*
26861951 ATAT-ATTTAA
1 ATATAATTTTA
26861961 ATA-AATTTTA
1 ATATAATTTTA
26861971 ATATAA
1 ATATAA
26861977 AATTATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
10 16 0.73
11 6 0.27
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (11 bp):
ATATAATTTTA
Found at i:26864172 original size:21 final size:20
Alignment explanation
Indices: 26864148--26864195 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
26864138 TTAATATTAT
26864148 ATATATTCATATTAAAAAATA
1 ATATATTCATATT-AAAAATA
* *
26864169 ATATTTTTATATTAAAAATA
1 ATATATTCATATTAAAAATA
26864189 ATATATT
1 ATATATT
26864196 ATTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (20 bp):
ATATATTCATATTAAAAATA
Found at i:26864429 original size:2 final size:2
Alignment explanation
Indices: 26864422--26864450 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
26864412 TGTTTTCTAT
26864422 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
26864451 TACATAGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:26865693 original size:19 final size:19
Alignment explanation
Indices: 26865651--26865689 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
26865641 AAATTTTTAT
*
26865651 ATATTTATTTTAATAATTA
1 ATATTTATTTTAATAATAA
*
26865670 ATATTTA-TTTATTAATAA
1 ATATTTATTTTAATAATAA
26865688 AT
1 AT
26865690 TATTATCATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
ATATTTATTTTAATAATAA
Found at i:26867803 original size:14 final size:15
Alignment explanation
Indices: 26867784--26867812 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
26867774 ATACATGAAT
26867784 TATAAA-AAATAAAA
1 TATAAATAAATAAAA
26867798 TATAAATAAATAAAA
1 TATAAATAAATAAAA
26867813 AGAAGAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
TATAAATAAATAAAA
Found at i:26869406 original size:20 final size:19
Alignment explanation
Indices: 26869381--26869431 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
26869371 CATCTCTCTT
26869381 TTTATATAAAATATTAATAA
1 TTTATATAAAATATT-ATAA
* *
26869401 TTTATATAATTATATTATAT
1 TTTATATAA-AATATTATAA
26869421 TTTATATAAAA
1 TTTATATAAAA
26869432 AATATATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 1 0.04
20 21 0.78
21 5 0.19
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TTTATATAAAATATTATAA
Found at i:26874812 original size:102 final size:102
Alignment explanation
Indices: 26874690--26874873 Score: 316
Period size: 102 Copynumber: 1.8 Consensus size: 102
26874680 AACGAAGTGC
26874690 CAATGGCAAAAATGTGAAATGTCAAGCAAGGACAA-AGATAGGGAGCGAAAAGATGAAAAAGAAG
1 CAATGGCAAAAATGTGAAATGTCAAGCAAGGACAACA-ATAGGGAGCGAAAAGATGAAAAAGAAG
26874754 GGATAAAATAATAATTGATAATTCTAGTTGTGGGAATT
65 GGATAAAATAATAATTGATAATTCTAGTTGTGGGAATT
* * *
26874792 CAATGGCAAAAATGTGAAATGTCAAGCAAGGACAACAATCGGGAGCTAAAAGATGAAATAGAAGG
1 CAATGGCAAAAATGTGAAATGTCAAGCAAGGACAACAATAGGGAGCGAAAAGATGAAAAAGAAGG
*
26874857 GATAAAATAGTAATTGA
66 GATAAAATAATAATTGA
26874874 GAGTTGTGGG
Statistics
Matches: 77, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
102 76 0.99
103 1 0.01
ACGTcount: A:0.48, C:0.08, G:0.25, T:0.19
Consensus pattern (102 bp):
CAATGGCAAAAATGTGAAATGTCAAGCAAGGACAACAATAGGGAGCGAAAAGATGAAAAAGAAGG
GATAAAATAATAATTGATAATTCTAGTTGTGGGAATT
Found at i:26886910 original size:15 final size:15
Alignment explanation
Indices: 26886890--26886920 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
26886880 ACAACTTAGC
26886890 AAAATAATAATAATA
1 AAAATAATAATAATA
26886905 AAAATAATAATAATA
1 AAAATAATAATAATA
26886920 A
1 A
26886921 GATTTTCTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (15 bp):
AAAATAATAATAATA
Found at i:26887835 original size:27 final size:28
Alignment explanation
Indices: 26887794--26887858 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 28
26887784 AAAGTATTAC
* * *
26887794 ATTA-ATTAATAAATTCTATAATTTATAT
1 ATTATATTAA-AATTTCTAAAATTTAAAT
*
26887822 ATTATATTAAAATTTTTTAAAATTTAAAT
1 ATTATATTAAAA-TTTCTAAAATTTAAAT
26887851 ATTATATT
1 ATTATATT
26887859 TAATATTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
28 6 0.19
29 25 0.81
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (28 bp):
ATTATATTAAAATTTCTAAAATTTAAAT
Found at i:26887878 original size:30 final size:29
Alignment explanation
Indices: 26887810--26887878 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 29
26887800 TAATAAATTC
* *
26887810 TATAATTTATATATTATATTAAAATTTTT
1 TATAATTTAAATATTATATTAAAATTTAT
* *
26887839 TAAAATTTAAATATTATATTTAATATTTAT
1 TATAATTTAAATATTATA-TTAAAATTTAT
26887869 TATAATTTAA
1 TATAATTTAA
26887879 GAATCATTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 16 0.47
30 18 0.53
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (29 bp):
TATAATTTAAATATTATATTAAAATTTAT
Found at i:26888773 original size:32 final size:30
Alignment explanation
Indices: 26888724--26888784 Score: 77
Period size: 32 Copynumber: 2.0 Consensus size: 30
26888714 GTGTAAGTAT
26888724 ATATTTTTTAATAAATAAAAAATAAAATTA
1 ATATTTTTTAATAAATAAAAAATAAAATTA
* * *
26888754 ATATTTATTTTATACAATAAAATATATAATT
1 ATATTT-TTTAATA-AATAAAAAATAAAATT
26888785 TTAAACATGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 6 0.23
31 6 0.23
32 14 0.54
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (30 bp):
ATATTTTTTAATAAATAAAAAATAAAATTA
Found at i:26889191 original size:23 final size:23
Alignment explanation
Indices: 26889165--26889214 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
26889155 GCAAGTCACT
* *
26889165 TGCCCAGCAATTGCCAATTGCTG
1 TGCCCAACAATTGCCAATTGCAG
*
26889188 TGCCCAACAATTGGCAATTGCAG
1 TGCCCAACAATTGCCAATTGCAG
26889211 TGCC
1 TGCC
26889215 ACTTACAGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.24
Consensus pattern (23 bp):
TGCCCAACAATTGCCAATTGCAG
Found at i:26892114 original size:143 final size:142
Alignment explanation
Indices: 26891856--26892133 Score: 403
Period size: 143 Copynumber: 2.0 Consensus size: 142
26891846 AACCATTAAC
** * *
26891856 GACAGCAGCTAGCATTGTCTTTCATTCCAAGTGCCTAAAGTGAAAGAGGTGTTGGAGAAAAGATG
1 GACAGCAGCTAGCATTGTCTTTCATTCCAAGTGCCTAAAGCCAAAGAGGTGATGGAGAAAAGATA
* * * *
26891921 TTGTTCAATCAAACAGTACCAAAAGCTATTTGCAGACTTAGCACATTTCTCACAAAAATATTACT
66 TTGTTCAATCAAACAATACCAAAAGCTATTTGCAAACTCAGCACATTTCTCAC-AAAATAATACT
26891986 TCAACCGTGTAAT
130 TCAACCGTGTAAT
* *
26891999 GACAGCAGCTGGCTTTGTCTTTCATTCCAAGTGCCTAAAGCCAAAGAGGTGATGGAGAAAAGATA
1 GACAGCAGCTAGCATTGTCTTTCATTCCAAGTGCCTAAAGCCAAAGAGGTGATGGAGAAAAGATA
* * * * * *
26892064 TTGTTCAATCAAAGAATACGAATAGCTATTTGCAAACTCGGCAGATTTCTCACAGAATAATACTT
66 TTGTTCAATCAAACAATACCAAAAGCTATTTGCAAACTCAGCACATTTCTCACAAAATAATACTT
26892129 CAACC
131 CAACC
26892134 TAACACGTTA
Statistics
Matches: 119, Mismatches: 16, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
142 15 0.13
143 104 0.87
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (142 bp):
GACAGCAGCTAGCATTGTCTTTCATTCCAAGTGCCTAAAGCCAAAGAGGTGATGGAGAAAAGATA
TTGTTCAATCAAACAATACCAAAAGCTATTTGCAAACTCAGCACATTTCTCACAAAATAATACTT
CAACCGTGTAAT
Found at i:26893806 original size:18 final size:18
Alignment explanation
Indices: 26893779--26893828 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
26893769 CACAATTTAA
* *
26893779 AGATTCACAAAAACTTTT
1 AGATTTACAAAAACTTGT
*
26893797 AGATTTACAATAAC-TGT
1 AGATTTACAAAAACTTGT
*
26893814 AGATTTACAAGAACT
1 AGATTTACAAAAACT
26893829 CATCAAAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 15 0.56
18 12 0.44
ACGTcount: A:0.44, C:0.14, G:0.10, T:0.32
Consensus pattern (18 bp):
AGATTTACAAAAACTTGT
Found at i:26894143 original size:21 final size:21
Alignment explanation
Indices: 26894068--26894142 Score: 100
Period size: 21 Copynumber: 3.6 Consensus size: 21
26894058 TTACTTAAAA
26894068 ATTCTCATTTGAAACTTACAA-
1 ATTCTCATTTGAAAC-TACAAT
*
26894089 ATTCTCATTTGAAACTAAAAT
1 ATTCTCATTTGAAACTACAAT
*
26894110 ATTCTCATTTGAGACT-CAAT
1 ATTCTCATTTGAAACTACAAT
26894130 GATTCTCATTTGA
1 -ATTCTCATTTGA
26894143 GGATTTACAA
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
20 7 0.14
21 42 0.86
ACGTcount: A:0.35, C:0.17, G:0.08, T:0.40
Consensus pattern (21 bp):
ATTCTCATTTGAAACTACAAT
Found at i:26895095 original size:27 final size:27
Alignment explanation
Indices: 26895049--26895102 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
26895039 ATCAACACAG
* * *
26895049 TTTGTGGGGTCTATGTCATCCAAGCCC
1 TTTGTGGGGTCCAAGGCATCCAAGCCC
26895076 TTTGTGGGGTCCAAGGCATCCAAGCCC
1 TTTGTGGGGTCCAAGGCATCCAAGCCC
26895103 CAAATTGTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.17, C:0.28, G:0.28, T:0.28
Consensus pattern (27 bp):
TTTGTGGGGTCCAAGGCATCCAAGCCC
Found at i:26895872 original size:28 final size:28
Alignment explanation
Indices: 26895840--26895901 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
26895830 TATATTTGTT
*
26895840 TATTAAAAGTAAATGATAAAATTAAACA
1 TATTAAAAGTAAATAATAAAATTAAACA
*
26895868 TATTAAAAGTAAATAATAAAATTAGACA
1 TATTAAAAGTAAATAATAAAATTAAACA
*
26895896 TGTTAA
1 TATTAA
26895902 TTTTTATTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.58, C:0.03, G:0.08, T:0.31
Consensus pattern (28 bp):
TATTAAAAGTAAATAATAAAATTAAACA
Found at i:26898724 original size:22 final size:24
Alignment explanation
Indices: 26898681--26898743 Score: 62
Period size: 23 Copynumber: 2.7 Consensus size: 24
26898671 ATTTTCAAAC
*
26898681 TTATTTATTTGATTTTGAAGA-TA
1 TTATATATTTGATTTTGAAGATTA
26898704 TTATATATTT-ATTTT-ATAGATTA
1 TTATATATTTGATTTTGA-AGATTA
*
26898727 TTA-ATATTATTATTTTG
1 TTATATATT-TGATTTTG
26898744 TACAAATTCA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
21 1 0.03
22 13 0.38
23 15 0.44
24 5 0.15
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (24 bp):
TTATATATTTGATTTTGAAGATTA
Found at i:26900466 original size:18 final size:20
Alignment explanation
Indices: 26900436--26900487 Score: 76
Period size: 18 Copynumber: 2.8 Consensus size: 20
26900426 TGTCAAAATT
26900436 TATAAAA-ATTTAAAATA-A
1 TATAAAATATTTAAAATATA
26900454 TA-AAAATATTTAAAATATA
1 TATAAAATATTTAAAATATA
26900473 TATAAAATA-TTAAAA
1 TATAAAATATTTAAAA
26900488 AATTATTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.13
18 12 0.39
19 9 0.29
20 6 0.19
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
TATAAAATATTTAAAATATA
Found at i:26904604 original size:41 final size:40
Alignment explanation
Indices: 26904539--26904643 Score: 140
Period size: 41 Copynumber: 2.6 Consensus size: 40
26904529 TAACATTCTT
* * *
26904539 TTCTTTTCTCTTTGTGATTCCATTTTTCTTTATTAAAACC
1 TTCTTTTCTCTTGGTGATTCCATTTTTCCTTATTAAAAAC
*
26904579 TTCTTTTCTCATTGGTGATTTCATTTTTCCTTATTAAAAAC
1 TTCTTTTCTC-TTGGTGATTCCATTTTTCCTTATTAAAAAC
* *
26904620 TTCTTTCCTCTT-TTGATTCCATTT
1 TTCTTTTCTCTTGGTGATTCCATTT
26904644 CTTTTTTTCA
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
39 10 0.18
40 12 0.21
41 35 0.61
ACGTcount: A:0.17, C:0.20, G:0.06, T:0.57
Consensus pattern (40 bp):
TTCTTTTCTCTTGGTGATTCCATTTTTCCTTATTAAAAAC
Found at i:26904695 original size:52 final size:50
Alignment explanation
Indices: 26904611--26904731 Score: 199
Period size: 52 Copynumber: 2.4 Consensus size: 50
26904601 ATTTTTCCTT
*
26904611 ATTAAAAACTTCTTTCCTC-TTTTGATTCCATTTCTTTTTTTCAATAATC
1 ATTAAAACCTTCTTTCCTCTTTTTGATTCCATTTCTTTTTTTCAATAATC
*
26904660 ATTAAAACCTTCTTTCCTCTTTTGATGATTCCATTTTTTTTTTTCAATAATC
1 ATTAAAACCTTCTTTCCTCTTTT--TGATTCCATTTCTTTTTTTCAATAATC
26904712 ATTAAAACCTTCTTTCCTCT
1 ATTAAAACCTTCTTTCCTCT
26904732 AGGCTTGATA
Statistics
Matches: 67, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
49 18 0.27
50 3 0.04
52 46 0.69
ACGTcount: A:0.24, C:0.21, G:0.02, T:0.52
Consensus pattern (50 bp):
ATTAAAACCTTCTTTCCTCTTTTTGATTCCATTTCTTTTTTTCAATAATC
Found at i:26910093 original size:24 final size:24
Alignment explanation
Indices: 26910066--26910111 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
26910056 AATTTTAGAT
*
26910066 TTTGTTAGATTACATCTTTACAGG
1 TTTGTTAGATTACATCTCTACAGG
*
26910090 TTTGTTAGGTTACATCTCTACA
1 TTTGTTAGATTACATCTCTACA
26910112 ATATTATTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.46
Consensus pattern (24 bp):
TTTGTTAGATTACATCTCTACAGG
Found at i:26912321 original size:11 final size:11
Alignment explanation
Indices: 26912307--26912341 Score: 52
Period size: 12 Copynumber: 3.0 Consensus size: 11
26912297 TTATGTGTTA
26912307 TTTATTAAAAT
1 TTTATTAAAAT
26912318 TTTATATAAAAT
1 TTTAT-TAAAAT
26912330 TTATATTAAAAT
1 TT-TATTAAAAT
26912342 GCTGAATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 5 0.23
12 14 0.64
13 3 0.14
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (11 bp):
TTTATTAAAAT
Found at i:26913209 original size:80 final size:80
Alignment explanation
Indices: 26913065--26913228 Score: 222
Period size: 80 Copynumber: 2.0 Consensus size: 80
26913055 AAACCTCTTA
* * * * ** * *
26913065 AAGTAATGTTATCTCACGTTCAATAAATATATAATTTTTTGTAATCTTATATTAAAGTTGAACAT
1 AAGTAATATTATCTCACATCCAATAAATATATAACTTCCTATAATCTTATATTAAAGTTCAACAT
* *
26913130 CTGTCAATTAGTTTT
66 CTATCAATTAATTTT
26913145 AAGTAATATTATCTCACATCCAATAAATATATAACTTCCTATAATCTTATATTCAAA-TTCAACA
1 AAGTAATATTATCTCACATCCAATAAATATATAACTTCCTATAATCTTATATT-AAAGTTCAACA
26913209 TCTATCAATTAATTTT
65 TCTATCAATTAATTTT
26913225 AAGT
1 AAGT
26913229 TGATTGTTTA
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
80 70 0.96
81 3 0.04
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.42
Consensus pattern (80 bp):
AAGTAATATTATCTCACATCCAATAAATATATAACTTCCTATAATCTTATATTAAAGTTCAACAT
CTATCAATTAATTTT
Found at i:26916097 original size:22 final size:23
Alignment explanation
Indices: 26916041--26916097 Score: 57
Period size: 22 Copynumber: 2.5 Consensus size: 23
26916031 GGTAAATTGG
*
26916041 TTTTAA-AATTTTTTATATAGTA
1 TTTTAATAATTTTTTATATAGAA
*
26916063 TTTTAGTAAATTTTTTA-ATA-AA
1 TTTTAAT-AATTTTTTATATAGAA
26916085 TTTTAATATATTT
1 TTTTAATA-ATTT
26916098 ATATAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
21 1 0.03
22 16 0.55
23 3 0.10
24 9 0.31
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.60
Consensus pattern (23 bp):
TTTTAATAATTTTTTATATAGAA
Found at i:26916144 original size:18 final size:19
Alignment explanation
Indices: 26916121--26916163 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 19
26916111 ATTTTTATTT
26916121 TATAAAATTT-TAAAAATA
1 TATAAAATTTATAAAAATA
26916139 TATAAAATTTAATAAAAATA
1 TATAAAATTT-ATAAAAATA
26916159 TATAA
1 TATAA
26916164 TTTAATTCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 10 0.43
20 13 0.57
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
TATAAAATTTATAAAAATA
Found at i:26916165 original size:18 final size:19
Alignment explanation
Indices: 26916131--26916169 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
26916121 TATAAAATTT
26916131 TAAAAATATATAAAATTTAA
1 TAAAAATATAT-AAATTTAA
26916151 TAAAAATATAT-AATTTAA
1 TAAAAATATATAAATTTAA
26916169 T
1 T
26916170 TCTATTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.42
20 11 0.58
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAAAATATATAAATTTAA
Found at i:26916826 original size:17 final size:17
Alignment explanation
Indices: 26916804--26916836 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
26916794 GTCACTTGCC
26916804 CAGCAATTGCCAATTGA
1 CAGCAATTGCCAATTGA
*
26916821 CAGCAATTGGCAATTG
1 CAGCAATTGCCAATTG
26916837 CTGTGCCACT
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:0.33, C:0.21, G:0.21, T:0.24
Consensus pattern (17 bp):
CAGCAATTGCCAATTGA
Found at i:26918324 original size:14 final size:13
Alignment explanation
Indices: 26918305--26918339 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
26918295 TTTTTATTAT
*
26918305 AATTATAGTAAATA
1 AATTATAATAAA-A
26918319 AATTATAATAAAA
1 AATTATAATAAAA
26918332 AATTATAA
1 AATTATAA
26918340 GTGAAATGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (13 bp):
AATTATAATAAAA
Found at i:26918419 original size:20 final size:20
Alignment explanation
Indices: 26918375--26918419 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
26918365 ATCAAATCAG
26918375 AAAACAACAAATAAAAAGGA
1 AAAACAACAAATAAAAAGGA
* *
26918395 GAAACAATAAAT-AAAAGTGA
1 AAAACAACAAATAAAAAG-GA
26918415 AAAAC
1 AAAAC
26918420 GGCACCATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.71, C:0.09, G:0.11, T:0.09
Consensus pattern (20 bp):
AAAACAACAAATAAAAAGGA
Found at i:26922857 original size:19 final size:18
Alignment explanation
Indices: 26922822--26922859 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
26922812 ATTTTTTAAA
*
26922822 AATATTAATTTACTTTTT
1 AATATTAATTCACTTTTT
26922840 AATATTAAATTCA-TTTTT
1 AATATT-AATTCACTTTTT
26922858 AA
1 AA
26922860 AACTTTTTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.55
Consensus pattern (18 bp):
AATATTAATTCACTTTTT
Found at i:26928128 original size:12 final size:13
Alignment explanation
Indices: 26928087--26928141 Score: 51
Period size: 14 Copynumber: 4.1 Consensus size: 13
26928077 AAAAATACAA
*
26928087 AAAATTTAAATATT
1 AAAATATAAATA-T
26928101 AAAATATAAATAT
1 AAAATATAAATAT
26928114 AAAA-ATAAA-AGT
1 AAAATATAAATA-T
26928126 AAATATATTAAATAT
1 AAA-ATA-TAAATAT
26928141 A
1 A
26928142 TATTTAAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
11 1 0.03
12 9 0.26
13 6 0.17
14 12 0.34
15 6 0.17
16 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (13 bp):
AAAATATAAATAT
Found at i:26937844 original size:20 final size:19
Alignment explanation
Indices: 26937811--26937854 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
26937801 TAAATTTTTT
*
26937811 TATTTTTCATTTTTCAGAA
1 TATTTTTAATTTTTCAGAA
* *
26937830 TATTTTTAATATTTTTATAA
1 TATTTTTAAT-TTTTCAGAA
26937850 TATTT
1 TATTT
26937855 CAGATTTTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.64
Consensus pattern (19 bp):
TATTTTTAATTTTTCAGAA
Found at i:26938058 original size:17 final size:18
Alignment explanation
Indices: 26938036--26938069 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
26938026 TTATAATATT
*
26938036 TTAAAATATTAT-AAAAA
1 TTAAAAAATTATGAAAAA
26938053 TTAAAAAATTATGAAAA
1 TTAAAAAATTATGAAAA
26938070 CTGAAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (18 bp):
TTAAAAAATTATGAAAAA
Found at i:26938129 original size:19 final size:18
Alignment explanation
Indices: 26938105--26938145 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
26938095 ATTTTAACAA
26938105 AAAAAATTCAAAAAATTG
1 AAAAAATTCAAAAAATTG
*
26938123 TAAAAAATTCATAAAATTG
1 -AAAAAATTCAAAAAATTG
26938142 AAAA
1 AAAA
26938146 TCTTAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.24
Consensus pattern (18 bp):
AAAAAATTCAAAAAATTG
Found at i:26946085 original size:59 final size:59
Alignment explanation
Indices: 26945991--26946105 Score: 185
Period size: 59 Copynumber: 1.9 Consensus size: 59
26945981 TTAAAGCACT
* * *
26945991 AATGTGCTTTATTTAGACTTTTCAATTAACCAATTCTTCTTTATACCTAGAAAATCTAA
1 AATGTGCTTTATTCAGACTTTACAATTAACAAATTCTTCTTTATACCTAGAAAATCTAA
* *
26946050 AATGTGCTTTATTCAGGCTTTACAATTAACAAATTCTTTTTTATACCTAGAAAATC
1 AATGTGCTTTATTCAGACTTTACAATTAACAAATTCTTCTTTATACCTAGAAAATC
26946106 AAACGGTTAC
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
59 51 1.00
ACGTcount: A:0.34, C:0.17, G:0.08, T:0.42
Consensus pattern (59 bp):
AATGTGCTTTATTCAGACTTTACAATTAACAAATTCTTCTTTATACCTAGAAAATCTAA
Found at i:26957868 original size:13 final size:13
Alignment explanation
Indices: 26957858--26957882 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26957848 TATGAATACG
26957858 ATATAAAAATAAA
1 ATATAAAAATAAA
26957871 ATATAAAAATAA
1 ATATAAAAATAA
26957883 TAAATTTAAA
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
ATATAAAAATAAA
Found at i:26962359 original size:18 final size:18
Alignment explanation
Indices: 26962316--26962360 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
26962306 TATTTGTTTC
* *
26962316 ATATTAAATATGTGTAAA
1 ATATTAAATATATATAAA
*
26962334 ATAATAAATATATATAAA
1 ATATTAAATATATATAAA
*
26962352 ATTTTAAAT
1 ATATTAAAT
26962361 TATGTTATTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (18 bp):
ATATTAAATATATATAAA
Found at i:26979191 original size:40 final size:43
Alignment explanation
Indices: 26979110--26979191 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
26979100 CTTATAGTAT
*
26979110 TTATTAGTATTTATTTTATATTAAATATATATAAAATATAAAA
1 TTATTAGTATTTAATTTATATTAAATATATATAAAATATAAAA
26979153 TTATTA-TATTATAATTTATATT-AATATAT-T-AAATATAAA
1 TTATTAGTATT-TAATTTATATTAAATATATATAAAATATAAA
26979192 GCATATTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
40 9 0.24
41 1 0.03
42 11 0.30
43 16 0.43
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (43 bp):
TTATTAGTATTTAATTTATATTAAATATATATAAAATATAAAA
Found at i:26979272 original size:14 final size:14
Alignment explanation
Indices: 26979253--26979282 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
26979243 TTTTATCATC
*
26979253 TTATTATATCTAAA
1 TTATTAAATCTAAA
26979267 TTATTAAATCTAAA
1 TTATTAAATCTAAA
26979281 TT
1 TT
26979283 CAAGCATTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (14 bp):
TTATTAAATCTAAA
Found at i:26982148 original size:20 final size:20
Alignment explanation
Indices: 26982123--26982170 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
26982113 AGATAAAACT
*
26982123 GACATGAATTCACCCAAAAA
1 GACATGAACTCACCCAAAAA
26982143 GACATGAACTCACCCAAAAA
1 GACATGAACTCACCCAAAAA
*
26982163 GGCATGAA
1 GACATGAA
26982171 ACATTTTCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.48, C:0.25, G:0.15, T:0.12
Consensus pattern (20 bp):
GACATGAACTCACCCAAAAA
Found at i:26988453 original size:24 final size:24
Alignment explanation
Indices: 26988414--26988488 Score: 77
Period size: 24 Copynumber: 3.2 Consensus size: 24
26988404 AAATATTTTT
26988414 TATT-TTATTAAA-TTTATATATA
1 TATTATTATTAAATTTTATATATA
*
26988436 -ATTATTATTAAAATTTTAAAT-TA
1 TATTATTATT-AAATTTTATATATA
* * *
26988459 TATTATTTTTATATTTTATTTATA
1 TATTATTATTAAATTTTATATATA
26988483 TATTAT
1 TATTAT
26988489 ATTTATATTA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
21 3 0.07
22 5 0.12
23 13 0.30
24 22 0.51
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (24 bp):
TATTATTATTAAATTTTATATATA
Found at i:26988477 original size:13 final size:13
Alignment explanation
Indices: 26988461--26988496 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
26988451 TTAAATTATA
*
26988461 TTATTTTTATATT
1 TTATTTATATATT
26988474 TTATTTATATATT
1 TTATTTATATATT
*
26988487 ATATTTATAT
1 TTATTTATAT
26988497 TATATCATCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTATTTATATATT
Found at i:26988500 original size:11 final size:11
Alignment explanation
Indices: 26988456--26988501 Score: 56
Period size: 11 Copynumber: 4.0 Consensus size: 11
26988446 AAATTTTAAA
*
26988456 TTATATTATTT
1 TTATATTATAT
*
26988467 TTATATTTTATT
1 TTATATTATA-T
26988479 TATATATTATAT
1 T-TATATTATAT
26988491 TTATATTATAT
1 TTATATTATAT
26988502 CATCATATCA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 18 0.60
12 4 0.13
13 8 0.27
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
TTATATTATAT
Found at i:26988509 original size:24 final size:24
Alignment explanation
Indices: 26988457--26988516 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
26988447 AATTTTAAAT
* * *
26988457 TATATTATTTTTATATTTTATTTA
1 TATATTATATTTATATTATATTCA
26988481 TATATTATATTTATATTATA-TCA
1 TATATTATATTTATATTATATTCA
*
26988504 TCATATCATATTT
1 T-ATATTATATTT
26988517 TAAATTATCA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 3 0.10
24 28 0.90
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (24 bp):
TATATTATATTTATATTATATTCA
Found at i:27002594 original size:9 final size:8
Alignment explanation
Indices: 27002584--27002637 Score: 56
Period size: 9 Copynumber: 6.2 Consensus size: 8
27002574 TCTTCTTTTG
27002584 TATTTTAT
1 TATTTTAT
27002592 GTATTTTAT
1 -TATTTTAT
27002601 TATTATTAT
1 TATT-TTAT
27002610 TATTATGTA-
1 TATT-T-TAT
27002619 TATTTTATT
1 TATTTTA-T
27002628 TATTTTAT
1 TATTTTAT
27002636 TA
1 TA
27002638 GATTAGATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
7 2 0.05
8 8 0.20
9 29 0.71
10 2 0.05
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.69
Consensus pattern (8 bp):
TATTTTAT
Found at i:27002608 original size:6 final size:6
Alignment explanation
Indices: 27002584--27002738 Score: 65
Period size: 6 Copynumber: 25.2 Consensus size: 6
27002574 TCTTCTTTTG
27002584 TATT-T TATGTAT T-TTAT TATTAT TATTAT TATGTA- TATT-T TATTTAT
1 TATTAT TAT-TAT TATTAT TATTAT TATTAT TAT-TAT TATTAT TA-TTAT
* *
27002631 T-TTAT TA-GAT TA-GAT T-TATAT GTATATAGT TATATATT TATTAT
1 TATTAT TATTAT TATTAT TAT-TAT -TAT-TA-T TAT-TA-T TATTAT
* * * * * *
27002675 TATTAT TTTTAT TTTTAT TTTTAA TATATAT TTTTATT TATTTT TATTAT
1 TATTAT TATTAT TATTAT TATTAT TAT-TAT TATTA-T TATTAT TATTAT
*
27002725 TATTTAT TTTTAT T
1 TA-TTAT TATTAT T
27002739 TTTTTTTTTA
Statistics
Matches: 122, Mismatches: 12, Indels: 31
0.74 0.07 0.19
Matches are distributed among these distances:
5 23 0.19
6 62 0.51
7 22 0.18
8 14 0.11
9 1 0.01
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (6 bp):
TATTAT
Found at i:27002613 original size:26 final size:26
Alignment explanation
Indices: 27002584--27002753 Score: 82
Period size: 26 Copynumber: 6.2 Consensus size: 26
27002574 TCTTCTTTTG
* *
27002584 TATTTTATGTATTTTA-TTATTATTAT
1 TATTATATATATTTTATTTATT-TTAT
*
27002610 TATTATGTATATTTTATTTATTTTAT
1 TATTATATATATTTTATTTATTTTAT
* * *
27002636 TA-GAT-TAGATTTATATGTATATAGTTAT
1 TATTATATATATTT-TAT-T-TAT-TTTAT
27002664 ATATT-TAT-TATTATTATTTTTATTTTTAT
1 -TATTATATATATT-TTA--TTTA-TTTTAT
*
27002693 TTTTAATATATATTTTTATTTATTTTTAT
1 TATT-ATATATA-TTTTATTTA-TTTTAT
* * *
27002722 TATTATTTAT-TTTTATTTTTTTTTT
1 TATTATATATATTTTATTTATTTTAT
27002747 TAATTAT
1 T-ATTAT
27002754 CTGTTCTGAT
Statistics
Matches: 113, Mismatches: 14, Indels: 34
0.70 0.09 0.21
Matches are distributed among these distances:
24 6 0.05
25 11 0.10
26 33 0.29
27 8 0.07
28 12 0.11
29 28 0.25
30 7 0.06
31 6 0.05
32 2 0.02
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.69
Consensus pattern (26 bp):
TATTATATATATTTTATTTATTTTAT
Found at i:27002716 original size:38 final size:39
Alignment explanation
Indices: 27002661--27002736 Score: 113
Period size: 38 Copynumber: 2.0 Consensus size: 39
27002651 TGTATATAGT
27002661 TATATATTTATTATTATTATTT-TTATT-TTTATTTTTAA
1 TATATATTTATTATTATT-TTTATTATTATTTATTTTTAA
27002699 TATATATTT-TTATTTATTTTTATTATTATTTATTTTTA
1 TATATATTTATTA-TTATTTTTATTATTATTTATTTTTA
27002737 TTTTTTTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
37 6 0.17
38 19 0.54
39 10 0.29
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (39 bp):
TATATATTTATTATTATTTTTATTATTATTTATTTTTAA
Found at i:27002739 original size:6 final size:6
Alignment explanation
Indices: 27002665--27002748 Score: 80
Period size: 6 Copynumber: 13.3 Consensus size: 6
27002655 TATAGTTATA
* * *
27002665 TATTTAT TATTAT TATTTT TATTTT TATTTT TAATATA TATTTT TATTTAT
1 TATTT-T TATTTT TATTTT TATTTT TATTTT T-ATTTT TATTTT TATTT-T
*
27002716 T-TTTAT TATTATT TATTTT TATTTT TTTTTT TA
1 TATTT-T TATT-TT TATTTT TATTTT TATTTT TA
27002749 ATTATCTGTT
Statistics
Matches: 65, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
6 47 0.72
7 17 0.26
8 1 0.02
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (6 bp):
TATTTT
Found at i:27002744 original size:10 final size:10
Alignment explanation
Indices: 27002703--27002745 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
27002693 TTTTAATATA
*
27002703 TATTTTTATT
1 TATTTTTTTT
27002713 TATTTTTATTAT
1 TATTTTT-TT-T
*
27002725 TATTTATTTT
1 TATTTTTTTT
27002735 TATTTTTTTT
1 TATTTTTTTT
27002745 T
1 T
27002746 TTAATTATCT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
10 18 0.64
11 3 0.11
12 7 0.25
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (10 bp):
TATTTTTTTT
Found at i:27012777 original size:15 final size:15
Alignment explanation
Indices: 27012757--27012787 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
27012747 ATAATTATAT
27012757 ATCTTGGGACTGAAG
1 ATCTTGGGACTGAAG
*
27012772 ATCTTGGGATTGAAG
1 ATCTTGGGACTGAAG
27012787 A
1 A
27012788 GGTAGAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.10, G:0.32, T:0.29
Consensus pattern (15 bp):
ATCTTGGGACTGAAG
Found at i:27015034 original size:2 final size:2
Alignment explanation
Indices: 27015022--27015052 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
27015012 TTCCCAAGTG
*
27015022 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
27015053 TAGCTTTATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:27017230 original size:25 final size:24
Alignment explanation
Indices: 27017194--27017249 Score: 85
Period size: 25 Copynumber: 2.3 Consensus size: 24
27017184 TTTTTATTAA
27017194 AATTTTTTTAATAATAAGTACAAT
1 AATTTTTTTAATAATAAGTACAAT
* *
27017218 AACTTTTTTTAATCATAATTACAAT
1 AA-TTTTTTTAATAATAAGTACAAT
27017243 AATTTTT
1 AATTTTT
27017250 ATTATTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 7 0.24
25 22 0.76
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.50
Consensus pattern (24 bp):
AATTTTTTTAATAATAAGTACAAT
Found at i:27017388 original size:14 final size:15
Alignment explanation
Indices: 27017369--27017398 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
27017359 AGAATACATG
27017369 TTAAAATATAT-TTT
1 TTAAAATATATATTT
27017383 TTAAAATATATATTT
1 TTAAAATATATATTT
27017398 T
1 T
27017399 GGATTATAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TTAAAATATATATTT
Found at i:27025242 original size:2 final size:2
Alignment explanation
Indices: 27025235--27025262 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
27025225 GTAGAAATTA
27025235 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27025263 TCTACGTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27028214 original size:27 final size:27
Alignment explanation
Indices: 27028184--27028239 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
27028174 ATTAAGCAGA
*
27028184 AAGAAGACAGAAAAGCCCAATTGAAGG
1 AAGAAGAAAGAAAAGCCCAATTGAAGG
*
27028211 AAGAAGAAAGAACAGCCCAATTGAAGG
1 AAGAAGAAAGAAAAGCCCAATTGAAGG
27028238 AA
1 AA
27028240 AAAAGTCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.54, C:0.14, G:0.25, T:0.07
Consensus pattern (27 bp):
AAGAAGAAAGAAAAGCCCAATTGAAGG
Found at i:27042176 original size:21 final size:22
Alignment explanation
Indices: 27042150--27042193 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
27042140 AATATAAAAT
*
27042150 ATATATTTTTAA-TTTTATTAA
1 ATATATTTATAATTTTTATTAA
27042171 ATATATTTATAATTTTTATTAA
1 ATATATTTATAATTTTTATTAA
27042193 A
1 A
27042194 ATTTTAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
ATATATTTATAATTTTTATTAA
Found at i:27042696 original size:23 final size:23
Alignment explanation
Indices: 27042661--27042718 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 23
27042651 AGCGAGCAAG
27042661 AATAAAAATAATTTTTAAAAAATT
1 AATAAAAA-AATTTTTAAAAAATT
* **
27042685 AATAAAAAAATTTTTTAATTATT
1 AATAAAAAAATTTTTAAAAAATT
27042708 AATATAAAAAA
1 AATA-AAAAAA
27042719 AGTGCATCTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
23 16 0.53
24 14 0.47
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
AATAAAAAAATTTTTAAAAAATT
Found at i:27044272 original size:18 final size:17
Alignment explanation
Indices: 27044249--27044307 Score: 61
Period size: 18 Copynumber: 3.5 Consensus size: 17
27044239 AAATATAAAA
27044249 ATTATATATTAATATTAT
1 ATTATATA-TAATATTAT
*
27044267 ATTATATATAGAAATTAT
1 ATTATATATA-ATATTAT
27044285 -TTAT-TATAAT-TTAT
1 ATTATATATAATATTAT
27044299 ATTGATATA
1 ATT-ATATA
27044308 AAAATATAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
14 4 0.11
15 3 0.09
16 6 0.17
17 8 0.23
18 14 0.40
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
ATTATATATAATATTAT
Found at i:27044282 original size:31 final size:33
Alignment explanation
Indices: 27044241--27044311 Score: 87
Period size: 31 Copynumber: 2.2 Consensus size: 33
27044231 ATCGTGTAAA
27044241 ATATAAAAATTATATA-T-TAATATTATATT-AT
1 ATATAAAAATTATATATTATAAT-TTATATTGAT
* *
27044272 ATATAGAAATTATTTATTATAATTTATATTGAT
1 ATATAAAAATTATATATTATAATTTATATTGAT
27044305 ATA-AAAA
1 ATATAAAA
27044312 TATAAAATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
31 14 0.41
32 11 0.32
33 9 0.26
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (33 bp):
ATATAAAAATTATATATTATAATTTATATTGAT
Found at i:27044361 original size:22 final size:21
Alignment explanation
Indices: 27044328--27044368 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
27044318 ATATATTTTT
* *
27044328 TAATTTTGTTAAATTTTTATA
1 TAATTTTATTAAAATTTTATA
27044349 TAATTATTATTAAAATTTTA
1 TAATT-TTATTAAAATTTTA
27044369 AATTTTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (21 bp):
TAATTTTATTAAAATTTTATA
Found at i:27044475 original size:17 final size:17
Alignment explanation
Indices: 27044445--27044484 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
27044435 TTAAAATTTT
*
27044445 ATTAAATTTATTTACAA
1 ATTAAATTTATTTAAAA
* *
27044462 ATTAATTTTTTTTAAAA
1 ATTAAATTTATTTAAAA
27044479 ATTAAA
1 ATTAAA
27044485 AATTAATTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTAAATTTATTTAAAA
Found at i:27056903 original size:20 final size:20
Alignment explanation
Indices: 27056870--27056907 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
27056860 ATTTACAAAA
27056870 AACTTTACATAAAGCTAAAGT
1 AACTTTACATAAAG-TAAAGT
27056891 AACTTTA-ATAAAGTAAA
1 AACTTTACATAAAGTAAA
27056908 TATGACTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 6 0.35
21 7 0.41
ACGTcount: A:0.53, C:0.11, G:0.08, T:0.29
Consensus pattern (20 bp):
AACTTTACATAAAGTAAAGT
Found at i:27067024 original size:15 final size:18
Alignment explanation
Indices: 27067002--27067046 Score: 60
Period size: 15 Copynumber: 2.7 Consensus size: 18
27066992 ATTTAAATTA
27067002 TATTATTTTTAT-A-TTT
1 TATTATTTTTATCATTTT
*
27067018 T-TTATTTATATCATTTT
1 TATTATTTTTATCATTTT
27067035 TATTATTTTTAT
1 TATTATTTTTAT
27067047 GTATATTACT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 9 0.38
16 2 0.08
17 4 0.17
18 9 0.38
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (18 bp):
TATTATTTTTATCATTTT
Found at i:27067033 original size:24 final size:24
Alignment explanation
Indices: 27066999--27067052 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
27066989 AAAATTTAAA
*
27066999 TTATATTATTTTTA-TATTTTTTAT
1 TTATATCATTTTTATTA-TTTTTAT
27067023 TTATATCATTTTTATTATTTTTAT
1 TTATATCATTTTTATTATTTTTAT
*
27067047 GTATAT
1 TTATAT
27067053 TACTATATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 25 0.93
25 2 0.07
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (24 bp):
TTATATCATTTTTATTATTTTTAT
Found at i:27067042 original size:9 final size:9
Alignment explanation
Indices: 27067002--27067046 Score: 51
Period size: 9 Copynumber: 5.3 Consensus size: 9
27066992 ATTTAAATTA
27067002 TATTATTTT
1 TATTATTTT
27067011 TA-TA-TTT
1 TATTATTTT
*
27067018 T-TTATTTA
1 TATTATTTT
*
27067026 TATCATTTT
1 TATTATTTT
27067035 TATTATTTT
1 TATTATTTT
27067044 TAT
1 TAT
27067047 GTATATTACT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
7 6 0.21
8 5 0.17
9 18 0.62
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (9 bp):
TATTATTTT
Found at i:27068020 original size:2 final size:2
Alignment explanation
Indices: 27068013--27068044 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
27068003 TTGTTATGAT
27068013 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
27068045 GAGAGAGAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:27068141 original size:18 final size:17
Alignment explanation
Indices: 27068106--27068144 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
27068096 ATACATTATT
27068106 TTATTTTATTTATAATA
1 TTATTTTATTTATAATA
*
27068123 TTATTTTATATTATCATA
1 TTATTTTAT-TTATAATA
27068141 TTAT
1 TTAT
27068145 AATTTTATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (17 bp):
TTATTTTATTTATAATA
Found at i:27071080 original size:20 final size:19
Alignment explanation
Indices: 27071034--27071081 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
27071024 TTTTATAAAT
27071034 TTTTATATAAAATATAATA
1 TTTTATATAAAATATAATA
** *
27071053 TAAATATATAAATTATTAATA
1 T-TTTATATAAAATA-TAATA
27071074 TTTTATAT
1 TTTTATAT
27071082 GATACGAACA
Statistics
Matches: 22, Mismatches: 5, Indels: 3
0.73 0.17 0.10
Matches are distributed among these distances:
19 1 0.05
20 15 0.68
21 6 0.27
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TTTTATATAAAATATAATA
Found at i:27071928 original size:23 final size:23
Alignment explanation
Indices: 27071883--27071961 Score: 76
Period size: 23 Copynumber: 3.5 Consensus size: 23
27071873 CAAATTCTCG
27071883 AATATGTTTAAATTATTAATTATT
1 AATAT-TTTAAATTATTAATTATT
*
27071907 AAT-TTTTAAATTTATTATTTATT
1 AATATTTTAAA-TTATTAATTATT
* *
27071930 ATTATTTT-AA-TA-TAATTTTT
1 AATATTTTAAATTATTAATTATT
27071950 AATATATTTAAA
1 AATAT-TTTAAA
27071962 AAAATTATAT
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
20 10 0.22
21 5 0.11
22 8 0.17
23 16 0.35
24 7 0.15
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (23 bp):
AATATTTTAAATTATTAATTATT
Found at i:27073342 original size:19 final size:20
Alignment explanation
Indices: 27073300--27073343 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 20
27073290 ATTTTTATAT
* *
27073300 TTTAAATTTTATTATATAAA
1 TTTAAATTTTAATAAATAAA
27073320 -TTAAA-TTTAATAAATAAA
1 TTTAAATTTTAATAAATAAA
27073338 TTTAAA
1 TTTAAA
27073344 ATTATTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
TTTAAATTTTAATAAATAAA
Found at i:27073435 original size:26 final size:26
Alignment explanation
Indices: 27073385--27073438 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 26
27073375 TTAAAACTTA
27073385 AAATATTAAATTAAATTAAATTCAAAT
1 AAATATTAAATT-AATTAAATTCAAAT
27073412 AAATATATAAATT-ATT-AATATCAAAT
1 AAATAT-TAAATTAATTAAAT-TCAAAT
27073438 A
1 A
27073439 TAAACTATCC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
25 3 0.12
26 10 0.40
27 6 0.24
28 6 0.24
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (26 bp):
AAATATTAAATTAATTAAATTCAAAT
Found at i:27079445 original size:11 final size:11
Alignment explanation
Indices: 27079421--27079454 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
27079411 TGTACTGGGG
27079421 AAAAAGAAAGAA
1 AAAAAGAAA-AA
27079433 AAAAAGAAAAA
1 AAAAAGAAAAA
*
27079444 AAACAGAAAAA
1 AAAAAGAAAAA
27079455 GTCATAACAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 12 0.57
12 9 0.43
ACGTcount: A:0.85, C:0.03, G:0.12, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:27080044 original size:2 final size:2
Alignment explanation
Indices: 27080037--27080062 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
27080027 ACTGATTTGG
27080037 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
27080063 GAAAACTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27091303 original size:24 final size:24
Alignment explanation
Indices: 27091276--27091333 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
27091266 TTATTTTTAT
*
27091276 TAAATATATAAATATAAAATTAAA
1 TAAATATATAAAAATAAAATTAAA
* **
27091300 TAAATA-ATTAAAAATAATATTTTA
1 TAAATATA-TAAAAATAAAATTAAA
27091324 TAAATATATA
1 TAAATATATA
27091334 TCTGGTTAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 1 0.04
24 26 0.93
25 1 0.04
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
TAAATATATAAAAATAAAATTAAA
Found at i:27095940 original size:22 final size:22
Alignment explanation
Indices: 27095905--27095950 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
27095895 AGCTTGCTTT
*
27095905 TTTTTATATATTATTAATGTAAA
1 TTTTTATATATTATAAATG-AAA
*
27095928 TTTTTA-ATTTTATAAATGAAA
1 TTTTTATATATTATAAATGAAA
27095949 TT
1 TT
27095951 AAGAGATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 5 0.24
22 10 0.48
23 6 0.29
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (22 bp):
TTTTTATATATTATAAATGAAA
Found at i:27096400 original size:14 final size:14
Alignment explanation
Indices: 27096378--27096446 Score: 61
Period size: 14 Copynumber: 4.7 Consensus size: 14
27096368 AAATTTTAAA
27096378 ATTTAATTCAT-AT
1 ATTTAATTCATAAT
27096391 ATTATAATTCATAAT
1 ATT-TAATTCATAAT
*
27096406 ATTTAATTTTCATATT
1 ATTTAA--TTCATAAT
*
27096422 ATTTTAATTTAATAAT
1 A-TTTAA-TTCATAAT
27096438 -TTTAATTCA
1 ATTTAATTCA
27096447 AGTATTAATT
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
13 6 0.13
14 16 0.34
15 5 0.11
16 15 0.32
17 5 0.11
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (14 bp):
ATTTAATTCATAAT
Found at i:27096429 original size:17 final size:16
Alignment explanation
Indices: 27096398--27096444 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
27096388 TATATTATAA
27096398 TTCATAATATTTAATT
1 TTCATAATATTTAATT
*
27096414 TTCATATTATTTTAA-T
1 TTCATAATA-TTTAATT
*
27096430 TTAATAAT-TTTAATT
1 TTCATAATATTTAATT
27096445 CAAGTATTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
14 5 0.19
15 1 0.04
16 15 0.58
17 5 0.19
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (16 bp):
TTCATAATATTTAATT
Found at i:27096442 original size:31 final size:30
Alignment explanation
Indices: 27096384--27096444 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 30
27096374 TAAAATTTAA
*
27096384 TTCATATATTATAATTCATAATATTTAATT
1 TTCATATATTATAATTAATAATATTTAATT
*
27096414 TTCATATTATTTTAATTTAATAAT-TTTAATT
1 TTCATA-TATTATAA-TTAATAATATTTAATT
27096445 CAAGTATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 6 0.22
31 14 0.52
32 7 0.26
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (30 bp):
TTCATATATTATAATTAATAATATTTAATT
Found at i:27109975 original size:102 final size:102
Alignment explanation
Indices: 27109815--27110057 Score: 332
Period size: 102 Copynumber: 2.4 Consensus size: 102
27109805 CTCTCAAGCT
* * *
27109815 CAAACATTAGACAAGCTTAACACAAAGTACACATAACTCACAAAATCATACTAGACGTT-GAGAT
1 CAAACATTAGACAAGCTTAACACAAAGCACACA-AA-TCACAAAACCATACTAAACGTTAG-GAT
* *
27109879 TTTAAAGGTAATTCTTACCGTGTAATCCATCGAATCACAC
63 TTTAAAGGTAATTCTCACCGTGTAATCCATCAAATCACAC
27109919 CAAACATT-GAGCAAG-TCTAACACAAAGCACACAAATCACAAAACCATACTAAACGTTAGGATT
1 CAAACATTAGA-CAAGCT-TAACACAAAGCACACAAATCACAAAACCATACTAAACGTTAGGATT
* *
27109982 TTAGAGGTAGTTCTCACCGTGTAATCCATCAAATCACAC
64 TTAAAGGTAATTCTCACCGTGTAATCCATCAAATCACAC
* *
27110021 CAAATATTAGACAAACTTAACACAAAGCACA-AAATCA
1 CAAACATTAGACAAGCTTAACACAAAGCACACAAATCA
27110058 TATCAGATAT
Statistics
Matches: 125, Mismatches: 9, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
101 6 0.05
102 83 0.66
103 9 0.07
104 27 0.22
ACGTcount: A:0.44, C:0.23, G:0.11, T:0.22
Consensus pattern (102 bp):
CAAACATTAGACAAGCTTAACACAAAGCACACAAATCACAAAACCATACTAAACGTTAGGATTTT
AAAGGTAATTCTCACCGTGTAATCCATCAAATCACAC
Found at i:27110365 original size:66 final size:65
Alignment explanation
Indices: 27110290--27110419 Score: 170
Period size: 66 Copynumber: 2.0 Consensus size: 65
27110280 AGCCCAAAAC
* * * * *
27110290 ACCCAACACAAAGCACACACAAATCATAAGACCATACCAGACGTTGGGATTTTAGATGTAGTTCT
1 ACCCAACACAAAACACACACAAATCACAAGACCAT-CCAGACGTTAGGATTCTAGAGGTAGTTCT
27110355 T
65 T
* * * *
27110356 ACCCAACACAAAACACACACAGATCACAAGAGCATCTAGAGGTTAGGATTCTAGAGGTAGTTCT
1 ACCCAACACAAAACACACACAAATCACAAGACCATCCAGACGTTAGGATTCTAGAGGTAGTTCT
27110420 CATCGTATAG
Statistics
Matches: 55, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
65 24 0.44
66 31 0.56
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.21
Consensus pattern (65 bp):
ACCCAACACAAAACACACACAAATCACAAGACCATCCAGACGTTAGGATTCTAGAGGTAGTTCTT
Found at i:27114348 original size:3 final size:3
Alignment explanation
Indices: 27114340--27114366 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
27114330 GGAACATAGC
27114340 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
27114367 ACTCCTTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:27130342 original size:3 final size:3
Alignment explanation
Indices: 27130334--27130364 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
27130324 GATCAATTCT
27130334 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
27130365 GGAAAATGGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:27130526 original size:13 final size:13
Alignment explanation
Indices: 27130508--27130532 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27130498 CTATGATGTT
27130508 AGAAAAAAAAAAA
1 AGAAAAAAAAAAA
27130521 AGAAAAAAAAAA
1 AGAAAAAAAAAA
27130533 GCATAAAGTT
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:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (13 bp):
AGAAAAAAAAAAA
Found at i:27130689 original size:26 final size:27
Alignment explanation
Indices: 27130637--27130707 Score: 78
Period size: 25 Copynumber: 2.7 Consensus size: 27
27130627 CTTTATATTC
* *
27130637 ATAAATAATAAATAAA--TTATAATTAA
1 ATAAATAA-AAATAAATTTTAAAATAAA
27130663 ATAAATAAAAATAAATTTTAAAATAAA
1 ATAAATAAAAATAAATTTTAAAATAAA
*
27130690 ATTAA-AAAAAT-AATTTTA
1 ATAAATAAAAATAAATTTTA
27130708 TTAATATTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
25 14 0.35
26 14 0.35
27 12 0.30
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (27 bp):
ATAAATAAAAATAAATTTTAAAATAAA
Found at i:27131672 original size:6 final size:6
Alignment explanation
Indices: 27131661--27131688 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
27131651 GCTCACCAGG
27131661 GGAGAA GGAGAA GGAGAA GGAGAA GGAG
1 GGAGAA GGAGAA GGAGAA GGAGAA GGAG
27131689 GTTGTCCGAG
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:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (6 bp):
GGAGAA
Found at i:27138707 original size:15 final size:15
Alignment explanation
Indices: 27138683--27138712 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
27138673 ATCTTAAAGG
*
27138683 AGAAGTTTGAAAAAA
1 AGAAGATTGAAAAAA
27138698 AGAAGATTGAAAAAA
1 AGAAGATTGAAAAAA
27138713 TGTCCACTTA
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:0.63, C:0.00, G:0.20, T:0.17
Consensus pattern (15 bp):
AGAAGATTGAAAAAA
Found at i:27138905 original size:2 final size:2
Alignment explanation
Indices: 27138898--27138933 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
27138888 TGTGCTTCAG
27138898 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27138934 GACTGTTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27140548 original size:14 final size:14
Alignment explanation
Indices: 27140508--27140548 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
27140498 TATTATATTA
*
27140508 AATAATTTAAAAAT
1 AATAATTTAAAATT
27140522 AATAATTTAAAATT
1 AATAATTTAAAATT
27140536 -ATATATTTAAAAT
1 AATA-ATTTAAAAT
27140549 GATCTTAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 3 0.12
14 22 0.88
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AATAATTTAAAATT
Found at i:27141662 original size:22 final size:22
Alignment explanation
Indices: 27141613--27141662 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
27141603 TATTATTAAA
*
27141613 ATTTTAATAAAAATTATAAATAT
1 ATTTTAAT-AAAATTAAAAATAT
27141636 A-TTTAAT-AAATTAAAAAATAT
1 ATTTTAATAAAATT-AAAAATAT
27141657 ATTTTA
1 ATTTTA
27141663 TGTTTTCATA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 5 0.21
21 8 0.33
22 10 0.42
23 1 0.04
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
ATTTTAATAAAATTAAAAATAT
Found at i:27142929 original size:22 final size:22
Alignment explanation
Indices: 27142899--27142940 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
27142889 ATAAAATGTC
*
27142899 AAAATAAATTATCAATCCATAA
1 AAAAAAAATTATCAATCCATAA
* *
27142921 AAAAAAAATTTTGAATCCAT
1 AAAAAAAATTATCAATCCAT
27142941 TTTTAATTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.57, C:0.12, G:0.02, T:0.29
Consensus pattern (22 bp):
AAAAAAAATTATCAATCCATAA
Found at i:27168910 original size:21 final size:20
Alignment explanation
Indices: 27168875--27168917 Score: 52
Period size: 22 Copynumber: 2.1 Consensus size: 20
27168865 AATCTTAGTC
*
27168875 AATCAAATTTAAACATAGCTAT
1 AATCAAATATAAACA-AGC-AT
27168897 AATCAAA-ATAAACAAGCAT
1 AATCAAATATAAACAAGCAT
27168916 AA
1 AA
27168918 GTCTTTGCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
20 3 0.15
21 6 0.30
22 7 0.35
ACGTcount: A:0.58, C:0.14, G:0.05, T:0.23
Consensus pattern (20 bp):
AATCAAATATAAACAAGCAT
Found at i:27185961 original size:22 final size:22
Alignment explanation
Indices: 27185921--27185962 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
27185911 AATCAAATAT
*
27185921 AATTTAAATTTTATTCAAATTA
1 AATTTAAATTTTATACAAATTA
27185943 AATTTAAATTATT-TACAAAT
1 AATTTAAATT-TTATACAAAT
27185963 AATAATAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (22 bp):
AATTTAAATTTTATACAAATTA
Found at i:27189978 original size:13 final size:12
Alignment explanation
Indices: 27189948--27189995 Score: 62
Period size: 13 Copynumber: 4.0 Consensus size: 12
27189938 AAATTATATC
*
27189948 ATTTTTTATTAT
1 ATTTTATATTAT
27189960 -TTTTATATTAT
1 ATTTTATATTAT
27189971 ATTATTATATTAT
1 ATT-TTATATTAT
*
27189984 ATTTTAAATTAT
1 ATTTTATATTAT
27189996 CAAATTTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
11 10 0.31
12 10 0.31
13 12 0.38
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATTTTATATTAT
Found at i:27189986 original size:26 final size:26
Alignment explanation
Indices: 27189934--27189995 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
27189924 ATTATTAAAA
*
27189934 TTTTAAATTATATCATTTTTTATTAT
1 TTTTAAATTATATCATTTATTATTAT
* *
27189960 TTTTATATTATATTA-TTA-TATTAT
1 TTTTAAATTATATCATTTATTATTAT
27189984 ATTTTAAATTAT
1 -TTTTAAATTAT
27189996 CAAATTTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
24 6 0.19
25 12 0.39
26 13 0.42
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.65
Consensus pattern (26 bp):
TTTTAAATTATATCATTTATTATTAT
Found at i:27190871 original size:30 final size:29
Alignment explanation
Indices: 27190791--27190874 Score: 87
Period size: 29 Copynumber: 2.9 Consensus size: 29
27190781 TTATTTTTTG
*
27190791 TTGTATTTAAATAAATTTTTTACATTCAA
1 TTGTATTTAAATAAATTTTTAACATTCAA
* * ** ** *
27190820 TTGGATCTAAATAAACATTTAATTTTTAA
1 TTGTATTTAAATAAATTTTTAACATTCAA
27190849 TATGTATTTAAATAAATTTTTAACAT
1 T-TGTATTTAAATAAATTTTTAACAT
27190875 AAATTAATTT
Statistics
Matches: 40, Mismatches: 14, Indels: 1
0.73 0.25 0.02
Matches are distributed among these distances:
29 22 0.55
30 18 0.45
ACGTcount: A:0.40, C:0.06, G:0.05, T:0.49
Consensus pattern (29 bp):
TTGTATTTAAATAAATTTTTAACATTCAA
Found at i:27190894 original size:17 final size:17
Alignment explanation
Indices: 27190853--27190911 Score: 55
Period size: 17 Copynumber: 3.5 Consensus size: 17
27190843 TTTTAATATG
*
27190853 TATTTAAATAAATTTTT
1 TATTTAAATTAATTTTT
* **
27190870 AACATAAATTAATTTTT
1 TATTTAAATTAATTTTT
* **
27190887 TATTTAAAATAAACTTT
1 TATTTAAATTAATTTTT
27190904 TATTTAAA
1 TATTTAAA
27190912 ATATAAATAA
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (17 bp):
TATTTAAATTAATTTTT
Found at i:27190896 original size:18 final size:18
Alignment explanation
Indices: 27190884--27190918 Score: 54
Period size: 17 Copynumber: 1.9 Consensus size: 18
27190874 TAAATTAATT
27190884 TTTTATTTAAAA-TAAAC
1 TTTTATTTAAAATTAAAC
27190901 TTTTATTTAAAATATAAA
1 TTTTATTTAAAAT-TAAA
27190919 TAAAAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.75
19 4 0.25
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTTATTTAAAATTAAAC
Found at i:27190924 original size:29 final size:29
Alignment explanation
Indices: 27190892--27190971 Score: 90
Period size: 29 Copynumber: 2.7 Consensus size: 29
27190882 TTTTTTATTT
*
27190892 AAAATAAACTTTTATTTAAAATATAAATAA
1 AAAATAAAATTTTATTTAAAATAT-AATAA
** *
27190922 AAAATAAAAAATTATTT-GAATATAATAA
1 AAAATAAAATTTTATTTAAAATATAATAA
*
27190950 AAATATAAGATTTTATTTAAAA
1 AAA-ATAAAATTTTATTTAAAA
27190972 AAAATGAAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
28 8 0.20
29 16 0.40
30 16 0.40
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (29 bp):
AAAATAAAATTTTATTTAAAATATAATAA
Found at i:27193225 original size:21 final size:20
Alignment explanation
Indices: 27193174--27193226 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
27193164 AATTTAATTT
*
27193174 TTTATATATTATTTTAATAGA
1 TTTATATA-TATTTAAATAGA
*
27193195 TTTTTGATATATTTAAAATAGA
1 TTTAT-ATATATTT-AAATAGA
27193217 TTTATATATA
1 TTTATATATA
27193227 ATAATTATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 14 0.52
22 13 0.48
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.55
Consensus pattern (20 bp):
TTTATATATATTTAAATAGA
Found at i:27196103 original size:2 final size:2
Alignment explanation
Indices: 27196096--27196137 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
27196086 TTCACTGGAA
* * *
27196096 AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT AA AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27196138 TTTTAAGGAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:27197226 original size:11 final size:10
Alignment explanation
Indices: 27197202--27197228 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
27197192 TTATGAAAAG
27197202 AAAAAATTTT
1 AAAAAATTTT
27197212 AAAAAATTTT
1 AAAAAATTTT
27197222 AAAAAAT
1 AAAAAAT
27197229 AATAATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
AAAAAATTTT
Found at i:27202052 original size:19 final size:19
Alignment explanation
Indices: 27202030--27202089 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
27202020 TTTTTAATAT
* *
27202030 AAATTTAAATCAATATAAA
1 AAATATAAATAAATATAAA
*
27202049 AAATATATATAAATAT--A
1 AAATATAAATAAATATAAA
*
27202066 AAAT-TAAATAAATAATTAA
1 AAATATAAATAAAT-ATAAA
27202085 AAATA
1 AAATA
27202090 ATTTTTTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
16 8 0.24
17 7 0.21
19 18 0.55
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (19 bp):
AAATATAAATAAATATAAA
Found at i:27208076 original size:2 final size:2
Alignment explanation
Indices: 27208069--27208106 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
27208059 AAGATCAGAT
27208069 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
27208107 GGTCCATGCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:27209889 original size:30 final size:31
Alignment explanation
Indices: 27209851--27209916 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
27209841 TTTTAAAAAT
*
27209851 TTTA-TTTATTAATTAAA-TATTATCA-TTGA
1 TTTATTTTATTAA-TAAATTATCATCATTTGA
*
27209880 TTTATTTTATTAATAAATTATCATTATTTGA
1 TTTATTTTATTAATAAATTATCATCATTTGA
27209911 TTTATT
1 TTTATT
27209917 GACAGTATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 8 0.25
30 14 0.44
31 10 0.31
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (31 bp):
TTTATTTTATTAATAAATTATCATCATTTGA
Found at i:27209914 original size:26 final size:29
Alignment explanation
Indices: 27209851--27209916 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 29
27209841 TTTTAAAAAT
27209851 TTTATTTATTAATTAAATATTATCATTGA
1 TTTATTTATTAATTAAATATTATCATTGA
27209880 TTTATTTTATTAA-T-AA-ATTATCATT-A
1 TTTA-TTTATTAATTAAATATTATCATTGA
27209906 TTTGATTTATT
1 TTT-ATTTATT
27209917 GACAGTATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
26 10 0.29
27 10 0.29
28 2 0.06
29 5 0.14
30 8 0.23
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (29 bp):
TTTATTTATTAATTAAATATTATCATTGA
Done.