Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168026.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_28, 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: 15507587
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 55 of 91
Found at i:9123456 original size:41 final size:41
Alignment explanation
Indices: 9123411--9123494 Score: 141
Period size: 41 Copynumber: 2.0 Consensus size: 41
9123401 ATGCAACAAA
* *
9123411 GAGACACGTGGTAAGTTTTAATTTTGTCAAAAACTAATTTT
1 GAGACACGTGATAAGTTTTAACTTTGTCAAAAACTAATTTT
*
9123452 GAGACACGTGATTAGTTTTAACTTTGTCAAAAACTAATTTT
1 GAGACACGTGATAAGTTTTAACTTTGTCAAAAACTAATTTT
9123493 GA
1 GA
9123495 AACGATGAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.38
Consensus pattern (41 bp):
GAGACACGTGATAAGTTTTAACTTTGTCAAAAACTAATTTT
Found at i:9123671 original size:36 final size:36
Alignment explanation
Indices: 9123625--9123699 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 36
9123615 ATTAAAACTC
* *
9123625 AAAGTGATTATCAGATATCT-GAAGATTTCAAATAAA
1 AAAGTAATTATCAAATAT-TAGAAGATTTCAAATAAA
* *
9123661 AAAGTAATTATCAAATATTAGAGGATTTCAGATAAA
1 AAAGTAATTATCAAATATTAGAAGATTTCAAATAAA
9123697 AAA
1 AAA
9123700 ATGATGAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 1 0.03
36 33 0.97
ACGTcount: A:0.51, C:0.07, G:0.13, T:0.29
Consensus pattern (36 bp):
AAAGTAATTATCAAATATTAGAAGATTTCAAATAAA
Found at i:9125770 original size:14 final size:14
Alignment explanation
Indices: 9125751--9125778 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
9125741 TCAATTGGTT
9125751 CTTGAAAGGAACCC
1 CTTGAAAGGAACCC
9125765 CTTGAAAGGAACCC
1 CTTGAAAGGAACCC
9125779 AAATGCTCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.29, G:0.21, T:0.14
Consensus pattern (14 bp):
CTTGAAAGGAACCC
Found at i:9127049 original size:2 final size:2
Alignment explanation
Indices: 9127042--9127077 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
9127032 AATTTGAAAC
9127042 TA TA 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
9127078 CACACACTTT
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):
TA
Found at i:9130577 original size:41 final size:42
Alignment explanation
Indices: 9130494--9130585 Score: 132
Period size: 41 Copynumber: 2.2 Consensus size: 42
9130484 AGGAAAAGAG
* * * *
9130494 CACACACACAGAAACAGCTGCATCTACGCCCCCAACCAAAGC
1 CACACACACACAAACAACTGCATCAACACCCCCAACCAAAGC
*
9130536 CACACACACACAAACAACTG-TTCAACACCCCCAACCAAAGC
1 CACACACACACAAACAACTGCATCAACACCCCCAACCAAAGC
9130577 CACACACAC
1 CACACACAC
9130586 CCCACCTAAC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 27 0.60
42 18 0.40
ACGTcount: A:0.41, C:0.45, G:0.08, T:0.07
Consensus pattern (42 bp):
CACACACACACAAACAACTGCATCAACACCCCCAACCAAAGC
Found at i:9134171 original size:5 final size:6
Alignment explanation
Indices: 9134144--9134169 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
9134134 CTGTCCTCTC
9134144 AAACAA AAACAA AAACAA AAACAA AA
1 AAACAA AAACAA AAACAA AAACAA AA
9134170 CATGAAAGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (6 bp):
AAACAA
Found at i:9134440 original size:169 final size:167
Alignment explanation
Indices: 9134156--9134612 Score: 598
Period size: 169 Copynumber: 2.7 Consensus size: 167
9134146 ACAAAAACAA
* * * * * *
9134156 AAACAAAAACAAAACATGAAAGAGGAAAACCAGATA-TTTGCCTTTTCGTGGAAGACCCGGATCC
1 AAACAAAAACAAGACATGAAACAGGAAAA-CA-ATATTTTGACTTTTCTTGAAAGACCCAGAT-C
* * *
9134220 ATGATTTTGAGGG-ACAGACCCAGATCCAAAACTAGATAAAACTAAAGAAAAGAAGTTAAGATCC
63 ATGATTTTG-GGGTAAAGACCCAGATCCAAATC-AGCTAAAACTAAAGAAAAGAAGTTAAGATCC
* * *
9134284 ATGGTTTTAACAAGAAAGAAATAAGCTAAT-TTTAGTCCTCTC
126 ATGATTTTAACAAGAAACAAATAAG-TAATATTCAGTCCTCTC
9134326 AAACAAAAACAAGACATGAAACAGGAAAACAATATTTTTGACTTTTCTTGAAAGACCCAGATCAT
1 AAACAAAAACAAGACATGAAACAGGAAAACAATA-TTTTGACTTTTCTTGAAAGACCCAGATCAT
* *
9134391 GATTTTGGGGTAAAGACCCAGACCCTAAATCAGCTAAAACTAAAGAAAAGAAGTTAGGATCCATG
65 GATTTTGGGGTAAAGACCCAGATCC-AAATCAGCTAAAACTAAAGAAAAGAAGTTAAGATCCATG
*
9134456 ATTTTAACAAGAAACAAATAAGTTATATTCAGTCCTCTC
129 ATTTTAACAAGAAACAAATAAGTAATATTCAGTCCTCTC
* * *
9134495 AAACAAAAACAAGACATGAAACAGGAAAATCAGATA-TTTGACTTTTATTGAAACACCCAGAACA
1 AAACAAAAACAAGACATGAAACAGGAAAA-CA-ATATTTTGACTTTTCTTGAAAGACCCAGATC-
* *
9134559 ATGACTTTGGGGTAAAGACCCAGATCCAAAATCAGCTAAAACTAAAGGAAAGAA
63 ATGATTTTGGGGTAAAGACCCAGATCC-AAATCAGCTAAAACTAAAGAAAAGAA
9134613 AATAATTAAG
Statistics
Matches: 257, Mismatches: 22, Indels: 16
0.87 0.07 0.05
Matches are distributed among these distances:
168 9 0.04
169 140 0.54
170 105 0.41
171 3 0.01
ACGTcount: A:0.45, C:0.17, G:0.16, T:0.22
Consensus pattern (167 bp):
AAACAAAAACAAGACATGAAACAGGAAAACAATATTTTGACTTTTCTTGAAAGACCCAGATCATG
ATTTTGGGGTAAAGACCCAGATCCAAATCAGCTAAAACTAAAGAAAAGAAGTTAAGATCCATGAT
TTTAACAAGAAACAAATAAGTAATATTCAGTCCTCTC
Found at i:9135053 original size:14 final size:13
Alignment explanation
Indices: 9135030--9135061 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
9135020 AAAAGCAAAC
9135030 AGAAAAAAAATAA
1 AGAAAAAAAATAA
9135043 AGAAAAGAAAATAA
1 AGAAAA-AAAATAA
9135057 AGAAA
1 AGAAA
9135062 GACACTTACT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.06
Consensus pattern (13 bp):
AGAAAAAAAATAA
Found at i:9137368 original size:21 final size:21
Alignment explanation
Indices: 9137344--9137385 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
9137334 TTGATAAATT
**
9137344 ATTAAAATTTTAATTTTAATA
1 ATTAAAATTCAAATTTTAATA
9137365 ATTAAAATTCAAATTTTAATA
1 ATTAAAATTCAAATTTTAATA
9137386 GTTTTAACAA
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:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
ATTAAAATTCAAATTTTAATA
Found at i:9137557 original size:16 final size:17
Alignment explanation
Indices: 9137536--9137574 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
9137526 GAGTAAAATG
*
9137536 ATTTTATTATTTTTA-T
1 ATTTTATAATTTTTATT
9137552 ATTTTA-AATTTTTATT
1 ATTTTATAATTTTTATT
9137568 ATTTTAT
1 ATTTTAT
9137575 GCATTTTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
ATTTTATAATTTTTATT
Found at i:9137564 original size:15 final size:16
Alignment explanation
Indices: 9137544--9137573 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
9137534 TGATTTTATT
9137544 ATTTTTA-TATTTTAA
1 ATTTTTATTATTTTAA
9137559 ATTTTTATTATTTTA
1 ATTTTTATTATTTTA
9137574 TGCATTTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
ATTTTTATTATTTTAA
Found at i:9138645 original size:2 final size:2
Alignment explanation
Indices: 9138605--9138634 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
9138595 ATGACCAATT
9138605 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9138635 TACAATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:9138754 original size:16 final size:15
Alignment explanation
Indices: 9138733--9138762 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
9138723 ATGATTTAAA
9138733 TTCAAATATCAAAATT
1 TTCAAATAT-AAAATT
9138749 TTCAAATATAAAAT
1 TTCAAATATAAAAT
9138763 CCTATCCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (15 bp):
TTCAAATATAAAATT
Found at i:9143279 original size:21 final size:20
Alignment explanation
Indices: 9143255--9143314 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 20
9143245 TAATCTTTGT
9143255 TAAAAGTTTGATAATTTTTTA
1 TAAAA-TTTGATAATTTTTTA
* *
9143276 TAAAATTTTGGTAACTTTTTA
1 TAAAA-TTTGATAATTTTTTA
* *
9143297 TGCATATTTGATAATTTT
1 T-AAAATTTGATAATTTT
9143315 CGATATTATT
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
21 29 0.94
22 2 0.06
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.53
Consensus pattern (20 bp):
TAAAATTTGATAATTTTTTA
Found at i:9144060 original size:22 final size:22
Alignment explanation
Indices: 9144042--9144182 Score: 101
Period size: 22 Copynumber: 6.4 Consensus size: 22
9144032 ATAATCAGTG
*
9144042 ATTTACTACTAAGTTATCAATT
1 ATTTACTACTAAATTATCAATT
9144064 ATTTA-TAACTAAATTATCAATT
1 ATTTACT-ACTAAATTATCAATT
*
9144086 ATTTACTACTAAATTATC-TTT
1 ATTTACTACTAAATTATCAATT
* * ** *
9144107 AATTCACTACTAATTTATGTATG
1 -ATTTACTACTAAATTATCAATT
* * ** *
9144130 ATTTATTACTAATTTATTGATG
1 ATTTACTACTAAATTATCAATT
*
9144152 ATTTATTA-TAAAGTTAT-AACTT
1 ATTTACTACTAAA-TTATCAA-TT
9144174 ATTTACTAC
1 ATTTACTAC
9144183 AATTTATGGA
Statistics
Matches: 97, Mismatches: 15, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
21 7 0.07
22 88 0.91
23 2 0.02
ACGTcount: A:0.37, C:0.11, G:0.04, T:0.48
Consensus pattern (22 bp):
ATTTACTACTAAATTATCAATT
Found at i:9144250 original size:22 final size:22
Alignment explanation
Indices: 9144225--9144364 Score: 83
Period size: 22 Copynumber: 6.4 Consensus size: 22
9144215 TGATTAGTTA
*
9144225 ATTTACTACTAAATTATCACTG
1 ATTTACTACTAAATTATCAATG
* * * *
9144247 ATTTAC-ATTTAAATGATTAGTG
1 ATTTACTA-CTAAATTATCAATG
* *
9144269 ATTTACTACTAAGTTTATCAATT
1 ATTTACTACTAA-ATTATCAATG
* * *
9144292 AATTATTA-TCAAATTA-AAACTG
1 ATTTACTACT-AAATTATCAA-TG
* *
9144314 ATTTACTACT-AGTTAACAATG
1 ATTTACTACTAAATTATCAATG
*
9144335 TTTTACTACTAAATTATCAAT-
1 ATTTACTACTAAATTATCAATG
9144356 ATTTTACTA
1 A-TTTACTA
9144365 ATATGTTATT
Statistics
Matches: 86, Mismatches: 23, Indels: 18
0.68 0.18 0.14
Matches are distributed among these distances:
21 18 0.21
22 53 0.62
23 15 0.17
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.44
Consensus pattern (22 bp):
ATTTACTACTAAATTATCAATG
Found at i:9144373 original size:22 final size:21
Alignment explanation
Indices: 9144315--9144373 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
9144305 TTAAAACTGA
* *
9144315 TTTACTACTAGTTAACAATGT
1 TTTACTACTAGTTATCAATAT
*
9144336 TTTACTACTAAATTATCAATAT
1 TTTACTACT-AGTTATCAATAT
*
9144358 TTTACTAATATGTTAT
1 TTTACTACTA-GTTAT
9144374 TGTGCATTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 10 0.32
22 21 0.68
ACGTcount: A:0.36, C:0.12, G:0.05, T:0.47
Consensus pattern (21 bp):
TTTACTACTAGTTATCAATAT
Found at i:9144455 original size:22 final size:23
Alignment explanation
Indices: 9144430--9144492 Score: 69
Period size: 21 Copynumber: 2.9 Consensus size: 23
9144420 GTTTTAGATT
9144430 ATTTACTATAAAATTATCACA-A
1 ATTTACTATAAAATTATCACATA
* *
9144452 ATTT-GTATTAAATTATC-CATA
1 ATTTACTATAAAATTATCACATA
* *
9144473 ATTTACTATCAAGTTATCAC
1 ATTTACTATAAAATTATCAC
9144493 TAACTTATAC
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
20 2 0.06
21 16 0.48
22 14 0.42
23 1 0.03
ACGTcount: A:0.41, C:0.14, G:0.03, T:0.41
Consensus pattern (23 bp):
ATTTACTATAAAATTATCACATA
Found at i:9144491 original size:43 final size:42
Alignment explanation
Indices: 9144430--9144518 Score: 106
Period size: 43 Copynumber: 2.1 Consensus size: 42
9144420 GTTTTAGATT
* * *
9144430 ATTTACTATAAAATTATCACAAATTTGTATTAAATTATCCATA
1 ATTTACTATAAAATTATCACAAACTTATA-CAAATTATCCATA
* * * *
9144473 ATTTACTATCAAGTTATCACTAACTTATACAAATTATCCATG
1 ATTTACTATAAAATTATCACAAACTTATACAAATTATCCATA
9144515 ATTT
1 ATTT
9144519 TTTATTAAGT
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
42 15 0.38
43 24 0.62
ACGTcount: A:0.40, C:0.15, G:0.03, T:0.42
Consensus pattern (42 bp):
ATTTACTATAAAATTATCACAAACTTATACAAATTATCCATA
Found at i:9145063 original size:22 final size:22
Alignment explanation
Indices: 9145035--9145205 Score: 148
Period size: 22 Copynumber: 7.8 Consensus size: 22
9145025 AATTGATTAC
*
9145035 TAAATTATCAATGATTTACTAA
1 TAAATTATCAATGATTTACTAT
* * *
9145057 TAAATTATCTATGATTTTCTAC
1 TAAATTATCAATGATTTACTAT
* * * *
9145079 TAATTTATTAATAATTTACCAT
1 TAAATTATCAATGATTTACTAT
* *
9145101 TAAGTTATAAATGATTTACTAT
1 TAAATTATCAATGATTTACTAT
* *
9145123 TAAATTGTTAATGATTTACTAT
1 TAAATTATCAATGATTTACTAT
* *
9145145 TAAGTTATCAATGATTTATTA-
1 TAAATTATCAATGATTTACTAT
* * *
9145166 TAAAGTTA-AAACTGATTTATTAC
1 TAAA-TTATCAA-TGATTTACTAT
*
9145189 TAATTTATCAATGATTT
1 TAAATTATCAATGATTT
9145206 TTTATAAAGT
Statistics
Matches: 120, Mismatches: 25, Indels: 8
0.78 0.16 0.05
Matches are distributed among these distances:
21 5 0.04
22 110 0.92
23 5 0.04
ACGTcount: A:0.39, C:0.08, G:0.06, T:0.47
Consensus pattern (22 bp):
TAAATTATCAATGATTTACTAT
Found at i:9145096 original size:44 final size:44
Alignment explanation
Indices: 9145032--9145231 Score: 172
Period size: 44 Copynumber: 4.5 Consensus size: 44
9145022 ATTAATTGAT
* * * * *
9145032 TACTAAATTATCAATGATTTACTAATAAATTATCTATGATTTTC
1 TACTAAATTATTAATGATTTACTATTAAGTTATCAATGATTTAC
* * * *
9145076 TACTAATTTATTAATAATTTACCATTAAGTTATAAATGATTTAC
1 TACTAAATTATTAATGATTTACTATTAAGTTATCAATGATTTAC
* * *
9145120 TATTAAATTGTTAATGATTTACTATTAAGTTATCAATGATTTAT
1 TACTAAATTATTAATGATTTACTATTAAGTTATCAATGATTTAC
* * * * **
9145164 TA-TAAAGTTA-AAACTGATTTATTACTAATTTATCAATGATTTTT
1 TACTAAA-TTATTAA-TGATTTACTATTAAGTTATCAATGATTTAC
* *
9145208 TA-TAAAGTTATTATTGATTAACTA
1 TACTAAA-TTATTAATGATTTACTA
9145232 ATTTATTAGT
Statistics
Matches: 127, Mismatches: 26, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
43 6 0.05
44 120 0.94
45 1 0.01
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.47
Consensus pattern (44 bp):
TACTAAATTATTAATGATTTACTATTAAGTTATCAATGATTTAC
Found at i:9145115 original size:66 final size:66
Alignment explanation
Indices: 9145035--9145206 Score: 170
Period size: 66 Copynumber: 2.6 Consensus size: 66
9145025 AATTGATTAC
* * *
9145035 TAAA-TTATCAATGATTTACTAATAAATTATCTATGATTTTCTACTAATTTATTAATAATTTACC
1 TAAAGTTATAAATGATTTACTAATAAATTATCTATGATTTTCTACTAAGTTATCAATAATTTACC
9145099 A
66 A
* * * * * * *
9145100 TTAAGTTATAAATGATTTACTATTAAATTGT-TAATGATTTACTATTAAGTTATCAATGATTTAT
1 TAAAGTTATAAATGATTTACTAATAAATTATCT-ATGATTTTCTACTAAGTTATCAATAATTTAC
*
9145164 TA
65 CA
* * * *
9145166 TAAAGTTA-AAACTGATTTATTACTAATTTATCAATGATTTT
1 TAAAGTTATAAA-TGATTTACTAATAAATTATCTATGATTTT
9145207 TTATAAAGTT
Statistics
Matches: 85, Mismatches: 18, Indels: 7
0.77 0.16 0.06
Matches are distributed among these distances:
65 7 0.08
66 78 0.92
ACGTcount: A:0.39, C:0.08, G:0.06, T:0.47
Consensus pattern (66 bp):
TAAAGTTATAAATGATTTACTAATAAATTATCTATGATTTTCTACTAAGTTATCAATAATTTACC
A
Found at i:9145270 original size:22 final size:22
Alignment explanation
Indices: 9145245--9145286 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
9145235 TATTAGTAAA
* *
9145245 TTATTACTGATTTACAACTAAG
1 TTATTAATAATTTACAACTAAG
*
9145267 TTATTAATAATTTACTACTA
1 TTATTAATAATTTACAACTA
9145287 CGATATTTGT
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:0.38, C:0.12, G:0.05, T:0.45
Consensus pattern (22 bp):
TTATTAATAATTTACAACTAAG
Found at i:9145436 original size:22 final size:23
Alignment explanation
Indices: 9145392--9145460 Score: 72
Period size: 22 Copynumber: 3.1 Consensus size: 23
9145382 ATGGCTATGC
* * * *
9145392 TATTATTGATTTATTATTTAATT
1 TATTATTGATTTACTACTAAAAT
*
9145415 TTTTATT-ATTTACTA-TAAAAT
1 TATTATTGATTTACTACTAAAAT
9145436 TATTATTGATTTACTACT-AAAT
1 TATTATTGATTTACTACTAAAAT
9145458 TAT
1 TAT
9145461 GCATAACTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
21 10 0.26
22 22 0.56
23 7 0.18
ACGTcount: A:0.35, C:0.04, G:0.03, T:0.58
Consensus pattern (23 bp):
TATTATTGATTTACTACTAAAAT
Found at i:9145547 original size:22 final size:22
Alignment explanation
Indices: 9145522--9145566 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
9145512 TTTTAAAATT
*
9145522 TCATTGATTAACTACTAAGTTA
1 TCATTGATTAACCACTAAGTTA
*
9145544 TCATTGATTTACCACTAAGTTA
1 TCATTGATTAACCACTAAGTTA
9145566 T
1 T
9145567 ATCAATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.16, G:0.09, T:0.42
Consensus pattern (22 bp):
TCATTGATTAACCACTAAGTTA
Found at i:9145619 original size:22 final size:22
Alignment explanation
Indices: 9145580--9145666 Score: 72
Period size: 22 Copynumber: 4.0 Consensus size: 22
9145570 AATTAAACTG
*
9145580 ATTTACTATCAAAG-TATCACTA
1 ATTTACTAT-TAAGTTATCACTA
9145602 ATTTACTATTAAGTTATCA-TGA
1 ATTTACTATTAAGTTATCACT-A
* * * *
9145624 ATTTATTACTAAATTATCAATA
1 ATTTACTATTAAGTTATCACTA
*
9145646 ATTAACTACTT-AGTTATCACT
1 ATTTACTA-TTAAGTTATCACT
9145667 TTTTTTAATA
Statistics
Matches: 52, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
21 4 0.08
22 46 0.88
23 2 0.04
ACGTcount: A:0.39, C:0.14, G:0.05, T:0.43
Consensus pattern (22 bp):
ATTTACTATTAAGTTATCACTA
Found at i:9145628 original size:44 final size:44
Alignment explanation
Indices: 9145580--9145664 Score: 102
Period size: 44 Copynumber: 1.9 Consensus size: 44
9145570 AATTAAACTG
* *
9145580 ATTTACTA-TCAAAGTATCACTAATTTACTA-TTAAGTTATCATGA
1 ATTTACTACT-AAAGTATCAATAATTAACTACTT-AGTTATCATGA
* *
9145624 ATTTATTACTAAATTATCAATAATTAACTACTTAGTTATCA
1 ATTTACTACTAAAGTATCAATAATTAACTACTTAGTTATCA
9145665 CTTTTTTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
44 32 0.91
45 3 0.09
ACGTcount: A:0.40, C:0.13, G:0.05, T:0.42
Consensus pattern (44 bp):
ATTTACTACTAAAGTATCAATAATTAACTACTTAGTTATCATGA
Found at i:9145826 original size:22 final size:22
Alignment explanation
Indices: 9145709--9145848 Score: 88
Period size: 22 Copynumber: 6.4 Consensus size: 22
9145699 TATGGTTACA
* * *
9145709 CATTTACAACTATATTAT-AAT
1 CATTTACTACTAAATTATCATT
* *
9145730 CGATTTACTACTAAATTATTATG
1 C-ATTTACTACTAAATTATCATT
* * ** *
9145753 CAATTATTA-TATGTTATTATT
1 CATTTACTACTAAATTATCATT
*
9145774 GATTTACTACTAAATTATCAATT
1 CATTTACTACTAAATTATC-ATT
* *
9145797 -GTTGACTACTAAATTATCATT
1 CATTTACTACTAAATTATCATT
* * *
9145818 CATTTACTATTAAGTTATCACT
1 CATTTACTACTAAATTATCATT
*
9145840 AATTTACTA
1 CATTTACTA
9145849 TTAAGCTATC
Statistics
Matches: 91, Mismatches: 23, Indels: 9
0.74 0.19 0.07
Matches are distributed among these distances:
21 19 0.21
22 67 0.74
23 5 0.05
ACGTcount: A:0.36, C:0.13, G:0.05, T:0.46
Consensus pattern (22 bp):
CATTTACTACTAAATTATCATT
Found at i:9145849 original size:22 final size:22
Alignment explanation
Indices: 9145765--9145972 Score: 140
Period size: 22 Copynumber: 9.6 Consensus size: 22
9145755 ATTATTATAT
* * *
9145765 GTTATTATTGATTTACTACTAA
1 GTTATCATTAATTTACTATTAA
* * * *
9145787 ATTATCAATT-GTTGACTACTAA
1 GTTATC-ATTAATTTACTATTAA
* *
9145809 ATTATCATTCATTTACTATTAA
1 GTTATCATTAATTTACTATTAA
*
9145831 GTTATCACTAATTTACTATTAA
1 GTTATCATTAATTTACTATTAA
* * *
9145853 GCTATC-TATGATTTAATATTAA
1 GTTATCAT-TAATTTACTATTAA
* ** * *
9145875 GTTATTACCAATTAAGTATTAA
1 GTTATCATTAATTTACTATTAA
* *
9145897 GTTATCATTGA-TTACTACTAA
1 GTTATCATTAATTTACTATTAA
* *
9145918 -CTATCATTAATTTACTTTTAA
1 GTTATCATTAATTTACTATTAA
*
9145939 GTTATCATTAATTTACTACTATA
1 GTTATCATTAATTTACTATTA-A
9145962 -TTAT-ATTAATT
1 GTTATCATTAATT
9145973 ATTTTAAATT
Statistics
Matches: 144, Mismatches: 35, Indels: 15
0.74 0.18 0.08
Matches are distributed among these distances:
20 8 0.06
21 25 0.17
22 107 0.74
23 4 0.03
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.47
Consensus pattern (22 bp):
GTTATCATTAATTTACTATTAA
Found at i:9145867 original size:44 final size:44
Alignment explanation
Indices: 9145765--9145956 Score: 165
Period size: 44 Copynumber: 4.4 Consensus size: 44
9145755 ATTATTATAT
* * * * ** * *
9145765 GTTATTATTGATTTACTACTAAATTATCAATTGTTGACTACTAA
1 GTTATCATTGATTTACTATTAAGTTATCACTAATTTACTATTAA
* *
9145809 ATTATCATTCATTTACTATTAAGTTATCACTAATTTACTATTAA
1 GTTATCATTGATTTACTATTAAGTTATCACTAATTTACTATTAA
* * * * * *
9145853 GCTATC-TATGATTTAATATTAAGTTATTACCAATTAAGTATTAA
1 GTTATCAT-TGATTTACTATTAAGTTATCACTAATTTACTATTAA
* * * *
9145897 GTTATCATTGA-TTACTACTAA-CTATCATTAATTTACTTTTAA
1 GTTATCATTGATTTACTATTAAGTTATCACTAATTTACTATTAA
*
9145939 GTTATCATTAATTTACTA
1 GTTATCATTGATTTACTA
9145957 CTATATTATA
Statistics
Matches: 116, Mismatches: 29, Indels: 7
0.76 0.19 0.05
Matches are distributed among these distances:
42 24 0.21
43 15 0.13
44 76 0.66
45 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.46
Consensus pattern (44 bp):
GTTATCATTGATTTACTATTAAGTTATCACTAATTTACTATTAA
Found at i:9145941 original size:42 final size:41
Alignment explanation
Indices: 9145893--9145979 Score: 115
Period size: 42 Copynumber: 2.1 Consensus size: 41
9145883 CAATTAAGTA
*
9145893 TTAAGTTATCATTGA-TTACTACTA-ACTATCATTAATTTACTT
1 TTAAGTTATCATTAATTTACTACTATACTAT-ATTAA-TTA-TT
*
9145935 TTAAGTTATCATTAATTTACTACTATATTATATTAATTATT
1 TTAAGTTATCATTAATTTACTACTATACTATATTAATTATT
9145976 TTAA
1 TTAA
9145980 ATTTTCAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
41 6 0.15
42 17 0.41
43 14 0.34
44 4 0.10
ACGTcount: A:0.36, C:0.10, G:0.03, T:0.51
Consensus pattern (41 bp):
TTAAGTTATCATTAATTTACTACTATACTATATTAATTATT
Found at i:9145970 original size:43 final size:40
Alignment explanation
Indices: 9145893--9145993 Score: 114
Period size: 42 Copynumber: 2.5 Consensus size: 40
9145883 CAATTAAGTA
*
9145893 TTAAGTTATCATTGATTACTACTAACTATCATTAATTTACTT
1 TTAAGTTATCATTAATTACTACTAACTATCATTAA-TTA-TT
*
9145935 TTAAGTTATCATTAATTTACTACTATATTAT-ATTAATTATT
1 TTAAGTTATCATTAA-TTACTACTA-ACTATCATTAATTATT
* * *
9145976 TTAAATTTTCAATAATTA
1 TTAAGTTATCATTAATTA
9145994 ATTAATAAGT
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
40 3 0.06
41 14 0.27
42 17 0.33
43 14 0.27
44 4 0.08
ACGTcount: A:0.37, C:0.10, G:0.03, T:0.50
Consensus pattern (40 bp):
TTAAGTTATCATTAATTACTACTAACTATCATTAATTATT
Found at i:9145992 original size:41 final size:43
Alignment explanation
Indices: 9145908--9145992 Score: 104
Period size: 41 Copynumber: 2.0 Consensus size: 43
9145898 TTATCATTGA
* *
9145908 TTACTACTAACTATCATTAATTTACTTTTAAGTTATCATTAAT
1 TTACTACTAACTATCATTAATTTACTTTTAAATTATCAATAAT
* *
9145951 TTACTACTATATTAT-ATTAA-TTA-TTTTAAATTTTCAATAAT
1 TTACTACTA-ACTATCATTAATTTACTTTTAAATTATCAATAAT
9145992 T
1 T
9145993 AATTAATAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
41 16 0.43
42 3 0.08
43 14 0.38
44 4 0.11
ACGTcount: A:0.36, C:0.11, G:0.01, T:0.52
Consensus pattern (43 bp):
TTACTACTAACTATCATTAATTTACTTTTAAATTATCAATAAT
Found at i:9146179 original size:140 final size:140
Alignment explanation
Indices: 9145926--9146759 Score: 1240
Period size: 140 Copynumber: 6.0 Consensus size: 140
9145916 AACTATCATT
* * *
9145926 AATTTACTTTTAAGTTATCA-TTAATTTACTACTATATTATATTAATTA-TTTTAAATTTTCAAT
1 AATTTACTATTAAGTTATCACTT-ATTTACTACTAAATTATACTAATTACTTTTAAATTTTCAAT
* *
9145989 AATTAATTAATAAGTTATCCATTATCTACTATTATATTATTGTTGATTTGTATATATCCAGAAAG
65 GATTAATTAATAAGTTATCTATTATCTACTATTATATTATTGTTGATTTGTATATATCCAGAAAG
9146054 AAAGTAACCAC
130 AAAGTAACCAC
* * * * *
9146065 ATTTTACTATTAAGTTATCACTAATTTACTATTAAATTATATTAATTACTTTTAAATTTTCAGTG
1 AATTTACTATTAAGTTATCACTTATTTACTACTAAATTATACTAATTACTTTTAAATTTTCAATG
*
9146130 ATTAATTAATAAGTTATCTATTATCTACTATTATATTATTGTTGATTTGTATATATCCAGAAAAA
66 ATTAATTAATAAGTTATCTATTATCTACTATTATATTATTGTTGATTTGTATATATCCAGAAAGA
*
9146195 AAGCAA-CAC
131 AAGTAACCAC
*
9146204 AATTTACTGATTAAGTTATCACTTATTTATTACTAAATTATACTAATTACTTTTAAATTTTCAAT
1 AATTTACT-ATTAAGTTATCACTTATTTACTACTAAATTATACTAATTACTTTTAAATTTTCAAT
*
9146269 GATTAATTAATAAGTTATCGATTATCTACT-TTATATTATTGTTGATTTGTATATA-CCTAGAAA
65 GATTAATTAATAAGTTATCTATTATCTACTATTATATTATTGTTGATTTGTATATATCC-AGAAA
*
9146332 GAAAGTAACTAC
129 GAAAGTAACCAC
*
9146344 AATTTACTATTAAGTTATCACTTATTTACTACTAAATTATACTAATTACTTGTAAAATTTT-AAT
1 AATTTACTATTAAGTTATCACTTATTTACTACTAAATTATACTAATTACTT-TTAAATTTTCAAT
*
9146408 GATTAATTAATAAGTTATCTATTATCTATTATTATATTATTGTTGATTTGTATATA-CCTAGAAA
65 GATTAATTAATAAGTTATCTATTATCTACTATTATATTATTGTTGATTTGTATATATCC-AGAAA
**
9146472 GAAAGTAATTAC
129 GAAAGTAACCAC
* *
9146484 AATTTACTATTAAGTTTTCACTTATTTACTACTAAATTATACCAATTACTTTTAAATTTTCAATG
1 AATTTACTATTAAGTTATCACTTATTTACTACTAAATTATACTAATTACTTTTAAATTTTCAATG
* * * *
9146549 AATAATTAATAAGTTATCGATTATCTACTATTATATTATTATTGATTTATATATATCCAGAAAGA
66 ATTAATTAATAAGTTATCTATTATCTACTATTATATTATTGTTGATTTGTATATATCCAGAAAGA
* * *
9146614 TAGTAATCAT
131 AAGTAACCAC
9146624 AATTTACTATTAAGTTATCACTTA-TT--TACTAAATTATACTAATTACTTTTAAATTTTCAATG
1 AATTTACTATTAAGTTATCACTTATTTACTACTAAATTATACTAATTACTTTTAAATTTTCAATG
* ** * *
9146686 ATTAATTTATAAGTTAT-TGATTATCTACTATTATATTATTGTTGATTTACATATATTCAAAAAG
66 ATTAATTAATAAGTTATCT-ATTATCTACTATTATATTATTGTTGATTTGTATATATCCAGAAAG
9146750 AAAGTAACCA
130 AAAGTAACCA
9146760 TAATGTATGT
Statistics
Matches: 638, Mismatches: 47, Indels: 22
0.90 0.07 0.03
Matches are distributed among these distances:
137 99 0.16
138 2 0.00
139 170 0.27
140 365 0.57
141 2 0.00
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.45
Consensus pattern (140 bp):
AATTTACTATTAAGTTATCACTTATTTACTACTAAATTATACTAATTACTTTTAAATTTTCAATG
ATTAATTAATAAGTTATCTATTATCTACTATTATATTATTGTTGATTTGTATATATCCAGAAAGA
AAGTAACCAC
Found at i:9146333 original size:279 final size:279
Alignment explanation
Indices: 9145926--9146733 Score: 1249
Period size: 279 Copynumber: 2.9 Consensus size: 279
9145916 AACTATCATT
* * *
9145926 AATTTACTTTTAAGTTATCA-TTAATTTACTACTATATTATATTAATTA-TTTTAAATTTTCAAT
1 AATTTACTATTAAGTTATCACTT-ATTTACTACTAAATTATACTAATTACTTTTAAATTTTCAAT
* *
9145989 AATTAATTAATAAGTTATCCATTATCTACTATTATATTATTGTTGATTTGTATATATCCAGAAAG
65 GATTAATTAATAAGTTATCGATTATCTACTATTATATTATTGTTGATTTGTATATATCCAGAAAG
* * *
9146054 AAAGTAACCACATTTTACTATTAAGTTATCACTAATTTACTATTAAATTATATTAATTACTTTTA
130 AAAGTAACCACAATTTACTATTAAGTTATCACTTATTTACTA-TAAATTATACTAATTACTTTTA
*
9146119 AATTTTCAGTGATTAATTAATAAGTTATCTATTATCTACTATTATATTATTGTTGATTTGTATAT
194 AATTTTCAATGATTAATTAATAAGTTATCTATTATCTACTATTATATTATTGTTGATTTGTATAT
9146184 ATCC-AGAAAAAAAGCAA-CAC
259 A-CCTAGAAAAAAAGCAATCAC
*
9146204 AATTTACTGATTAAGTTATCACTTATTTATTACTAAATTATACTAATTACTTTTAAATTTTCAAT
1 AATTTACT-ATTAAGTTATCACTTATTTACTACTAAATTATACTAATTACTTTTAAATTTTCAAT
9146269 GATTAATTAATAAGTTATCGATTATCTACT-TTATATTATTGTTGATTTGTATATA-CCTAGAAA
65 GATTAATTAATAAGTTATCGATTATCTACTATTATATTATTGTTGATTTGTATATATCC-AGAAA
*
9146332 GAAAGTAACTACAATTTACTATTAAGTTATCACTTATTTACTACTAAATTATACTAATTACTTGT
129 GAAAGTAACCACAATTTACTATTAAGTTATCACTTATTTACTA-TAAATTATACTAATTACTT-T
* *
9146397 AAAATTTT-AATGATTAATTAATAAGTTATCTATTATCTATTATTATATTATTGTTGATTTGTAT
192 TAAATTTTCAATGATTAATTAATAAGTTATCTATTATCTACTATTATATTATTGTTGATTTGTAT
* * *
9146461 ATACCTAGAAAGAAAGTAATTAC
257 ATACCTAGAAAAAAAGCAATCAC
* *
9146484 AATTTACTATTAAGTTTTCACTTATTTACTACTAAATTATACCAATTACTTTTAAATTTTCAATG
1 AATTTACTATTAAGTTATCACTTATTTACTACTAAATTATACTAATTACTTTTAAATTTTCAATG
* * *
9146549 AATAATTAATAAGTTATCGATTATCTACTATTATATTATTATTGATTTATATATATCCAGAAAGA
66 ATTAATTAATAAGTTATCGATTATCTACTATTATATTATTGTTGATTTGTATATATCCAGAAAGA
* * *
9146614 TAGTAATCATAATTTACTATTAAGTTATCACTTATTTAC--TAAATTATACTAATTACTTTTAAA
131 AAGTAACCACAATTTACTATTAAGTTATCACTTATTTACTATAAATTATACTAATTACTTTTAAA
*
9146677 TTTTCAATGATTAATTTATAAGTTAT-TGATTATCTACTATTATATTATTGTTGATTT
196 TTTTCAATGATTAATTAATAAGTTATCT-ATTATCTACTATTATATTATTGTTGATTT
9146734 ACATATATTC
Statistics
Matches: 489, Mismatches: 30, Indels: 23
0.90 0.06 0.04
Matches are distributed among these distances:
276 9 0.02
277 67 0.14
278 12 0.02
279 271 0.55
280 128 0.26
281 2 0.00
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.46
Consensus pattern (279 bp):
AATTTACTATTAAGTTATCACTTATTTACTACTAAATTATACTAATTACTTTTAAATTTTCAATG
ATTAATTAATAAGTTATCGATTATCTACTATTATATTATTGTTGATTTGTATATATCCAGAAAGA
AAGTAACCACAATTTACTATTAAGTTATCACTTATTTACTATAAATTATACTAATTACTTTTAAA
TTTTCAATGATTAATTAATAAGTTATCTATTATCTACTATTATATTATTGTTGATTTGTATATAC
CTAGAAAAAAAGCAATCAC
Found at i:9148587 original size:29 final size:30
Alignment explanation
Indices: 9148553--9148611 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
9148543 AGCTCTCATG
9148553 CTTTTAT-TGTATCT-AAAT-AAACTCTTATT
1 CTTTTATCTGTAT-TAAAATAAAACT-TTATT
9148582 CTTTTATCTGTATTAAAATAAAACTTTATT
1 CTTTTATCTGTATTAAAATAAAACTTTATT
9148612 TCGAACCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
29 8 0.30
30 14 0.52
31 5 0.19
ACGTcount: A:0.34, C:0.12, G:0.03, T:0.51
Consensus pattern (30 bp):
CTTTTATCTGTATTAAAATAAAACTTTATT
Found at i:9148601 original size:30 final size:29
Alignment explanation
Indices: 9148535--9148611 Score: 77
Period size: 29 Copynumber: 2.6 Consensus size: 29
9148525 ATTTCACTTT
* * * *
9148535 TTAAAGTAAGCTCTCATGCTTTTATTGTA
1 TTAAAATAAACTCTTATTCTTTTATTGTA
9148564 TCT-AAATAAACTCTTATTCTTTTATCTGTA
1 T-TAAAATAAACTCTTATTCTTTTAT-TGTA
9148594 TTAAAATAAAACT-TTATT
1 TTAAAAT-AAACTCTTATT
9148612 TCGAACCAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
29 20 0.50
30 15 0.38
31 5 0.12
ACGTcount: A:0.34, C:0.13, G:0.06, T:0.47
Consensus pattern (29 bp):
TTAAAATAAACTCTTATTCTTTTATTGTA
Found at i:9148687 original size:30 final size:30
Alignment explanation
Indices: 9148651--9148707 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
9148641 TTGATTTAAG
* * *
9148651 TACAAATAAAAGTTTAGGGTTTTATTTGGA
1 TACAAATAAAAGCTTAAGGATTTATTTGGA
*
9148681 TACAAATTAAAGCTTAAGGATTTATTT
1 TACAAATAAAAGCTTAAGGATTTATTT
9148708 AAATGCAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.39, C:0.05, G:0.16, T:0.40
Consensus pattern (30 bp):
TACAAATAAAAGCTTAAGGATTTATTTGGA
Found at i:9149227 original size:16 final size:17
Alignment explanation
Indices: 9149192--9149229 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
9149182 TAACAGCTTC
* *
9149192 AAATTTTTTTTATTTAA
1 AAATTTTTATTATGTAA
9149209 AAATTTTTATTATGTAA
1 AAATTTTTATTATGTAA
9149226 AAAT
1 AAAT
9149230 ATAAAAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (17 bp):
AAATTTTTATTATGTAA
Found at i:9150101 original size:6 final size:7
Alignment explanation
Indices: 9150072--9150110 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
9150062 CAAACCAATT
*
9150072 AAAACAA
1 AAAATAA
*
9150079 AAAATTA
1 AAAATAA
*
9150086 AAAGTAA
1 AAAATAA
9150093 AAAATAA
1 AAAATAA
9150100 AAAATAA
1 AAAATAA
9150107 AAAA
1 AAAA
9150111 ATATGCTTCA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.13
Consensus pattern (7 bp):
AAAATAA
Found at i:9151130 original size:26 final size:26
Alignment explanation
Indices: 9151092--9151154 Score: 72
Period size: 29 Copynumber: 2.3 Consensus size: 26
9151082 TTTAAATTCG
*
9151092 AACAAATTTATTATGAAATAAAAACTAAT
1 AACAAAATTATTA--AAATAAAAA-TAAT
*
9151121 AACAAAATTATTAAAATAATAATAAT
1 AACAAAATTATTAAAATAAAAATAAT
*
9151147 AATAAAAT
1 AACAAAAT
9151155 AAAACACTCG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 11 0.35
27 8 0.26
29 12 0.39
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.30
Consensus pattern (26 bp):
AACAAAATTATTAAAATAAAAATAAT
Found at i:9152680 original size:15 final size:17
Alignment explanation
Indices: 9152648--9152688 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
9152638 TTATTATATA
*
9152648 TATATATATATGTGAAT
1 TATATATAAATGTGAAT
9152665 TATATATAAAT-T-AAT
1 TATATATAAATGTGAAT
9152680 TCATATATA
1 T-ATATATA
9152689 TATAAATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 4 0.18
16 8 0.36
17 10 0.45
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.46
Consensus pattern (17 bp):
TATATATAAATGTGAAT
Found at i:9152749 original size:6 final size:6
Alignment explanation
Indices: 9152740--9152784 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
9152730 ATTTTTTATA
* * *
9152740 TTATTT TTATTT TTA-AT TTATAT ATATTT TTATTT TTATTT TTAT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTAT
9152785 ATAATATAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
5 4 0.12
6 30 0.88
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (6 bp):
TTATTT
Found at i:9152759 original size:22 final size:24
Alignment explanation
Indices: 9152734--9152787 Score: 85
Period size: 23 Copynumber: 2.3 Consensus size: 24
9152724 AACTTAATTT
9152734 TTTATAT-TATTTTTATTTTTA-A
1 TTTATATATATTTTTATTTTTATA
*
9152756 TTTATATATATTTTTATTTTTATT
1 TTTATATATATTTTTATTTTTATA
9152780 TTTATATA
1 TTTATATA
9152788 ATATAATTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 7 0.24
23 14 0.48
24 8 0.28
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (24 bp):
TTTATATATATTTTTATTTTTATA
Found at i:9152763 original size:24 final size:23
Alignment explanation
Indices: 9152734--9152787 Score: 85
Period size: 22 Copynumber: 2.4 Consensus size: 23
9152724 AACTTAATTT
9152734 TTTATAT-TATTTTTATTTTTAA
1 TTTATATATATTTTTATTTTTAA
9152756 TTTATATATATTTTTATTTTT-A
1 TTTATATATATTTTTATTTTTAA
*
9152778 TTTTTATATA
1 TTTATATATA
9152788 ATATAATTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 17 0.57
23 13 0.43
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (23 bp):
TTTATATATATTTTTATTTTTAA
Found at i:9152791 original size:29 final size:28
Alignment explanation
Indices: 9152740--9152796 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 28
9152730 ATTTTTTATA
*
9152740 TTATTTTTATTTTTAATTTATATATATTT
1 TTATTTTTATTTTTAATTAATATA-ATTT
9152769 TTATTTTTATTTTT-ATATAATATAATTT
1 TTATTTTTATTTTTAAT-TAATATAATTT
9152797 CATTAAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 6 0.23
29 20 0.77
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (28 bp):
TTATTTTTATTTTTAATTAATATAATTT
Found at i:9152796 original size:22 final size:23
Alignment explanation
Indices: 9152748--9152796 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 23
9152738 TATTATTTTT
* * *
9152748 ATTTTTAATTTATATATATTTTT
1 ATTTTTAATTTATATATAATATA
*
9152771 ATTTTT-ATTTTTATATAATATA
1 ATTTTTAATTTATATATAATATA
9152793 ATTT
1 ATTT
9152797 CATTAAATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (23 bp):
ATTTTTAATTTATATATAATATA
Found at i:9156416 original size:15 final size:15
Alignment explanation
Indices: 9156398--9156432 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
9156388 AACAATTCTA
*
9156398 GGAGGAGCAGCTCTT
1 GGAGGAGCAGCTCGT
*
9156413 GGAGAAGCAGCTCGT
1 GGAGGAGCAGCTCGT
9156428 GGAGG
1 GGAGG
9156433 TGGAGCTGGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.23, C:0.17, G:0.46, T:0.14
Consensus pattern (15 bp):
GGAGGAGCAGCTCGT
Found at i:9156497 original size:48 final size:49
Alignment explanation
Indices: 9156393--9156513 Score: 122
Period size: 48 Copynumber: 2.5 Consensus size: 49
9156383 GGACGAACAA
* * * * *
9156393 TTCTAGGAGGAGCAGCTCTTGGAGAAGCAGCTCGTGGAGGTGGAGCTGG
1 TTCTTGGAGAAGCAACTCTAGGAGAAGCAGCTCGTGGAGGTGGAGCTAG
** *
9156442 AGC-TGGAGAAGCAACTCTAGGGGAAGCAGCTCGTGGAGG-GGAAGC-AG
1 TTCTTGGAGAAGCAACTCTAGGAGAAGCAGCTCGTGGAGGTGG-AGCTAG
* *
9156489 TTCTTGGAGAAGCAACCCTGGGAGA
1 TTCTTGGAGAAGCAACTCTAGGAGA
9156514 GGCAATCCTC
Statistics
Matches: 57, Mismatches: 13, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
47 4 0.07
48 52 0.91
49 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.40, T:0.17
Consensus pattern (49 bp):
TTCTTGGAGAAGCAACTCTAGGAGAAGCAGCTCGTGGAGGTGGAGCTAG
Found at i:9160018 original size:2 final size:2
Alignment explanation
Indices: 9160011--9160045 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
9160001 TAATCATGAT
*
9160011 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9160046 TTGTTGAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:9162229 original size:24 final size:24
Alignment explanation
Indices: 9162197--9162245 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
9162187 TCTTCAAACA
* *
9162197 TCTTAAAATATTTGCTTTATGATC
1 TCTTAAAATACTTGCTTCATGATC
*
9162221 TCTTGAAATACTTGCTTCATGATC
1 TCTTAAAATACTTGCTTCATGATC
9162245 T
1 T
9162246 TGGGCCTATC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.27, C:0.16, G:0.10, T:0.47
Consensus pattern (24 bp):
TCTTAAAATACTTGCTTCATGATC
Found at i:9163744 original size:21 final size:20
Alignment explanation
Indices: 9163707--9163746 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
9163697 TCAATTGAAT
9163707 TAATTACTTATTAATAATAA
1 TAATTACTTATTAATAATAA
9163727 TAATT-CTTATCTCAATAATA
1 TAATTACTTAT-T-AATAATA
9163747 TTGGTACGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.28
20 6 0.33
21 7 0.39
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (20 bp):
TAATTACTTATTAATAATAA
Found at i:9164870 original size:3 final size:3
Alignment explanation
Indices: 9164864--9164903 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
9164854 TTTACACTAC
9164864 TAT TAT TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
9164904 CTACCTAGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:9165066 original size:30 final size:30
Alignment explanation
Indices: 9165032--9165112 Score: 85
Period size: 30 Copynumber: 2.7 Consensus size: 30
9165022 ATCTAAATTT
* *
9165032 TTTATTTTAAAT-TAATTGAATCTTTAAATA
1 TTTATTTT-AATCTAATTAAATCTTTAAACA
* *
9165062 TTTATTTTCATCTAATTAAATCTTTATACA
1 TTTATTTTAATCTAATTAAATCTTTAAACA
*
9165092 TTTATTTTCAT-TCAATTAAAT
1 TTTATTTTAATCT-AATTAAAT
9165113 ATTCGATTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
29 3 0.07
30 42 0.93
ACGTcount: A:0.36, C:0.09, G:0.01, T:0.54
Consensus pattern (30 bp):
TTTATTTTAATCTAATTAAATCTTTAAACA
Found at i:9168170 original size:2 final size:2
Alignment explanation
Indices: 9168163--9168198 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
9168153 CCTACTGATT
*
9168163 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9168199 ATGGAGAAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:9170963 original size:20 final size:19
Alignment explanation
Indices: 9170923--9170961 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
9170913 AACAATTATC
9170923 ATATATCATGGGAAAAGAA
1 ATATATCATGGGAAAAGAA
9170942 ATATATCATGAGG-AAAGAA
1 ATATATCATG-GGAAAAGAA
9170961 A
1 A
9170962 ATGTAGGTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 17 0.89
20 2 0.11
ACGTcount: A:0.54, C:0.05, G:0.21, T:0.21
Consensus pattern (19 bp):
ATATATCATGGGAAAAGAA
Found at i:9173652 original size:30 final size:30
Alignment explanation
Indices: 9173612--9173668 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
9173602 TAAGGTAGAG
*
9173612 ACACAAAAAATTTTGATGAGGGGAAAAGGA
1 ACACAAAAAATTCTGATGAGGGGAAAAGGA
*
9173642 ACACATAAAATTCTGATGAGGGGAAAA
1 ACACAAAAAATTCTGATGAGGGGAAAA
9173669 AAAAAAAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.49, C:0.09, G:0.25, T:0.18
Consensus pattern (30 bp):
ACACAAAAAATTCTGATGAGGGGAAAAGGA
Found at i:9175133 original size:15 final size:15
Alignment explanation
Indices: 9175099--9175141 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
9175089 ATTTAGATGG
**
9175099 ATAATAAAATTAATT
1 ATAATAAAATTAAAA
*
9175114 TTAATAAAATTAAAA
1 ATAATAAAATTAAAA
9175129 ATAATAATAATTA
1 ATAATAA-AATTA
9175142 TTATTATAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 18 0.78
16 5 0.22
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
ATAATAAAATTAAAA
Found at i:9175413 original size:28 final size:27
Alignment explanation
Indices: 9175382--9175441 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 27
9175372 TTTGAATAAA
9175382 AAATATTAAAATTTGAATTAATTAAATT
1 AAATATT-AAATTTGAATTAATTAAATT
** **
9175410 AAATTATTTTATTTTTATTAATTAAATT
1 AAA-TATTAAATTTGAATTAATTAAATT
9175438 AAAT
1 AAAT
9175442 TTTTTAATTG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
27 1 0.04
28 22 0.81
29 4 0.15
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (27 bp):
AAATATTAAATTTGAATTAATTAAATT
Found at i:9175575 original size:32 final size:30
Alignment explanation
Indices: 9175534--9175592 Score: 91
Period size: 32 Copynumber: 1.9 Consensus size: 30
9175524 TAACTAAAAT
*
9175534 ATATTTAAATTGTATTAAATTATAAATTACTC
1 ATATTTAAATTGAATTAAA-TA-AAATTACTC
9175566 ATATTTAAATTGAATTAAATAAAATTA
1 ATATTTAAATTGAATTAAATAAAATTA
9175593 TCTAATTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 6 0.23
31 2 0.08
32 18 0.69
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.44
Consensus pattern (30 bp):
ATATTTAAATTGAATTAAATAAAATTACTC
Found at i:9175991 original size:24 final size:24
Alignment explanation
Indices: 9175946--9175991 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
9175936 TAATTAAAAA
* * **
9175946 AATTATTCAAGTTTTTTTTATTAC
1 AATTAATCAAATTTTTAATATTAC
9175970 AATTAATCAAATTTTTAATATT
1 AATTAATCAAATTTTTAATATT
9175992 TATTTTGCAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.54
Consensus pattern (24 bp):
AATTAATCAAATTTTTAATATTAC
Found at i:9176482 original size:24 final size:23
Alignment explanation
Indices: 9176450--9176512 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 23
9176440 GGTCATTTAC
9176450 TAAATTAAATATTTAAAATATAAA
1 TAAATTAAATATTTAAAA-ATAAA
* *
9176474 TAAATTAAACACTTTAATAATAAA
1 TAAATTAAATA-TTTAAAAATAAA
*
9176498 -AAA-TAAATTTTTAAA
1 TAAATTAAATATTTAAA
9176513 TAAATTCTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
21 5 0.15
22 4 0.12
23 3 0.09
24 15 0.45
25 6 0.18
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (23 bp):
TAAATTAAATATTTAAAAATAAA
Found at i:9185699 original size:73 final size:72
Alignment explanation
Indices: 9185551--9185728 Score: 216
Period size: 73 Copynumber: 2.4 Consensus size: 72
9185541 CTTTGCCCAG
* *
9185551 ACCCGATCGATCCCTTCCATGAGGAGATCAATTGATTCATGTTTTGGAACCAATTCATGGCTTGA
1 ACCCGATCGATCCCTTCCATGAGG-GATCGATCGATTCATGTTTTGGAACCAATTCATGGCTTGA
9185616 AAAAGCCT
65 AAAAGCCT
* ** * *
9185624 ACCCGATCGATCCCTTCCGTGAAGGGATCGATCGATTCATGTTTTGTTACC-ATTTAT-GCTTTA
1 ACCCGATCGATCCCTTCCATG-AGGGATCGATCGATTCATGTTTTGGAACCAATTCATGGCTTGA
9185687 CAAAAGCACT
65 -AAAAGC-CT
* *
9185697 ACCTGATCGATCCCTTCCTTGAGAGGATCGAT
1 ACCCGATCGATCCCTTCCATGAG-GGATCGAT
9185729 TGGTTCAATG
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
71 5 0.05
72 13 0.14
73 71 0.77
74 3 0.03
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (72 bp):
ACCCGATCGATCCCTTCCATGAGGGATCGATCGATTCATGTTTTGGAACCAATTCATGGCTTGAA
AAAGCCT
Found at i:9190140 original size:10 final size:11
Alignment explanation
Indices: 9190124--9190152 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
9190114 ATTGAAATTT
9190124 TTTATTTTATA
1 TTTATTTTATA
9190135 -TTATTTTATA
1 TTTATTTTATA
9190145 TTTATTTT
1 TTTATTTT
9190153 TAAAAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTATTTTATA
Found at i:9193979 original size:95 final size:95
Alignment explanation
Indices: 9193873--9194052 Score: 238
Period size: 95 Copynumber: 1.9 Consensus size: 95
9193863 TTTTTACTTA
* * * *
9193873 ATTCTACCAAACCATTAGAAA-ATTTAAATCTTAAAATTAAATGTTACTAAACTATT-AGAAGGT
1 ATTCTACCAAACCACT-GAAAGATTTAAATCTTAAAATTAAATCTTACCAAACTATTGA-AAGAT
* *
9193936 TTAATTATTTTTTTAAAAAAATAAAATTTTTT
64 ATAATGATTTTTTTAAAAAAATAAAATTTTTT
* * *
9193968 ATTCTATCAAACTACTGAAAGATTTAAATCTTAAAGTTAAATCTTACCAAACTATTGAAAGATAT
1 ATTCTACCAAACCACTGAAAGATTTAAATCTTAAAATTAAATCTTACCAAACTATTGAAAGATAT
*
9194033 AATGATTTTTTTAAATAAAT
66 AATGATTTTTTTAAAAAAAT
9194053 TCATAAATAA
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
94 4 0.05
95 68 0.93
96 1 0.01
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.39
Consensus pattern (95 bp):
ATTCTACCAAACCACTGAAAGATTTAAATCTTAAAATTAAATCTTACCAAACTATTGAAAGATAT
AATGATTTTTTTAAAAAAATAAAATTTTTT
Found at i:9196225 original size:15 final size:17
Alignment explanation
Indices: 9196195--9196226 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
9196185 TTAGAATGCT
9196195 TAAATTCTTAATTTTCA
1 TAAATTCTTAATTTTCA
9196212 TAAATT-TT-ATTTTCA
1 TAAATTCTTAATTTTCA
9196227 CTTGACCAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 2 0.13
17 6 0.40
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.56
Consensus pattern (17 bp):
TAAATTCTTAATTTTCA
Found at i:9200486 original size:39 final size:40
Alignment explanation
Indices: 9200421--9200602 Score: 155
Period size: 38 Copynumber: 4.7 Consensus size: 40
9200411 AATTTTGGAC
* *
9200421 TTTTGAATCCTTAAAATGA-GACAAATTTTTCAACATGAGA
1 TTTTGGATCC-TAAAATGAGGAAAAATTTTTCAACATGAGA
*
9200461 -TTTGGATCCTAAAATGAGGAAAAA-TTTTCAACTTGAGA
1 TTTTGGATCCTAAAATGAGGAAAAATTTTTCAACATGAGA
* * * *
9200499 -CTTAGATCCTCAAATGAGG-AAAATTTTTCAAGAT-ATGA
1 TTTTGGATCCTAAAATGAGGAAAAATTTTTCAACATGA-GA
* * * *
9200537 TTTTGGATCCTTAGATGAGGAAAACTTTTTCGGA-ATGAGA
1 TTTTGGATCCTAAAATGAGGAAAAATTTTTC-AACATGAGA
* * *
9200577 TTTTGAATCCTCAAATGA-CAAAAATT
1 TTTTGGATCCTAAAATGAGGAAAAATT
9200603 CCTTAGGATG
Statistics
Matches: 116, Mismatches: 19, Indels: 15
0.77 0.13 0.10
Matches are distributed among these distances:
37 5 0.04
38 47 0.41
39 34 0.29
40 28 0.24
41 2 0.02
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (40 bp):
TTTTGGATCCTAAAATGAGGAAAAATTTTTCAACATGAGA
Found at i:9200818 original size:17 final size:17
Alignment explanation
Indices: 9200798--9200897 Score: 58
Period size: 18 Copynumber: 5.7 Consensus size: 17
9200788 CAATTCTTGA
*
9200798 GAATTTTTAAATTTTAT
1 GAATTTTTAAATTTTAC
*
9200815 GAATTTTTTAAACTCTTAC
1 GAA-TTTTTAAA-TTTTAC
* * * *
9200834 AAATCTTTAAATCTTGAA
1 GAATTTTTAAAT-TTTAC
* *
9200852 G-ATCTTTAAATTTCAC
1 GAATTTTTAAATTTTAC
* *
9200868 GAATTGTTAAATTTTTGC
1 GAATTTTTAAA-TTTTAC
*
9200886 AAATTTTTAAAT
1 GAATTTTTAAAT
9200898 CATGTGAATC
Statistics
Matches: 62, Mismatches: 16, Indels: 10
0.70 0.18 0.11
Matches are distributed among these distances:
16 4 0.06
17 22 0.35
18 30 0.48
19 6 0.10
ACGTcount: A:0.36, C:0.09, G:0.07, T:0.48
Consensus pattern (17 bp):
GAATTTTTAAATTTTAC
Found at i:9200977 original size:17 final size:17
Alignment explanation
Indices: 9200944--9200978 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
9200934 CTTGGTAATA
*
9200944 TGAAAATCTTACGAATT
1 TGAAAATCTTACAAATT
*
9200961 TGAAAATCTTGCAAATT
1 TGAAAATCTTACAAATT
9200978 T
1 T
9200979 TTTATTCTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.37
Consensus pattern (17 bp):
TGAAAATCTTACAAATT
Found at i:9201033 original size:18 final size:18
Alignment explanation
Indices: 9200998--9201111 Score: 81
Period size: 18 Copynumber: 6.4 Consensus size: 18
9200988 ATGAATCTTC
*
9200998 AATTCTTAC--ATATTTG
1 AATTCTTACAAATCTTTG
9201014 AATTCTTACAAATCTTTG
1 AATTCTTACAAATCTTTG
*
9201032 AATTCTTACAAGTCTTT-
1 AATTCTTACAAATCTTTG
* * *
9201049 AATTTCTTCCGAATCTTTT
1 AA-TTCTTACAAATCTTTG
* * *
9201068 AAATCTTGCAAATATTTTG
1 AATTCTTACAAAT-CTTTG
* **
9201087 AATCCTTGTAAATCTTTG
1 AATTCTTACAAATCTTTG
*
9201105 AAATCTT
1 AATTCTT
9201112 GTGAACCATT
Statistics
Matches: 77, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
16 9 0.12
17 2 0.03
18 51 0.66
19 15 0.19
ACGTcount: A:0.31, C:0.16, G:0.07, T:0.46
Consensus pattern (18 bp):
AATTCTTACAAATCTTTG
Found at i:9201116 original size:28 final size:27
Alignment explanation
Indices: 9201059--9201116 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 27
9201049 AATTTCTTCC
* *
9201059 GAATCTTTTAAATCTTGCAAATATTTT
1 GAATCTTGTAAATCTTGCAAATATTGT
*
9201086 GAATCCTTGTAAATCTTTG-AAATCTTGT
1 GAAT-CTTGTAAATC-TTGCAAATATTGT
9201114 GAA
1 GAA
9201117 CCATTGATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
27 4 0.15
28 19 0.73
29 3 0.12
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (27 bp):
GAATCTTGTAAATCTTGCAAATATTGT
Found at i:9201225 original size:22 final size:22
Alignment explanation
Indices: 9201165--9201225 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 22
9201155 GGAATCCTTA
* **
9201165 AATTTCAAATTATGAACCTTTG
1 AATTTCAAATTATGAATCACTG
** *
9201187 AATTTCATGTTAGGAATCACTG
1 AATTTCAAATTATGAATCACTG
9201209 AATTTCAAATTATGAAT
1 AATTTCAAATTATGAAT
9201226 TTTTATTTCA
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.39
Consensus pattern (22 bp):
AATTTCAAATTATGAATCACTG
Found at i:9206795 original size:129 final size:129
Alignment explanation
Indices: 9206636--9206871 Score: 348
Period size: 128 Copynumber: 1.8 Consensus size: 129
9206626 TGTTAACCCC
*
9206636 AAGCAAAATTTTCAATTTGCATACATGTGTTAATGTTTTTTGGTAGTTCATAATAGGTCCTCGCC
1 AAGCAAAATTTTCAATTTGCATACATGTGTTAAT-TTTTTTGGTAGTTCATAATAGGTCCTCACC
9206701 ATTAAATAGCTT-TGACACGATATCATTCGCCAAGCGTAAGAAACCGTAACAATAGAGGAAACAA
65 ATTAAATAGCTTATGACACGATATCATTCGCCAAGCGTAAGAAACCGTAACAATAGAGGAAACAA
* * ** * *
9206765 AAGCAAAATTTTCAATTTGCTTACGTGTGTTAATTTTTTTTTTAGTTCATAATGGGTCTTCACCA
1 AAGCAAAATTTTCAATTTGCATACATGTGTTAATTTTTTTGGTAGTTCATAATAGGTCCTCACCA
* * *
9206830 TTAAATAGCTTACGTGACATGATATCATTGGCCAAGCTTAAG
66 TTAAATAGCTTA--TGACACGATATCATTCGCCAAGCGTAAG
9206872 GAACTACAAA
Statistics
Matches: 94, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
128 37 0.39
129 32 0.34
131 25 0.27
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.35
Consensus pattern (129 bp):
AAGCAAAATTTTCAATTTGCATACATGTGTTAATTTTTTTGGTAGTTCATAATAGGTCCTCACCA
TTAAATAGCTTATGACACGATATCATTCGCCAAGCGTAAGAAACCGTAACAATAGAGGAAACAA
Found at i:9206897 original size:131 final size:129
Alignment explanation
Indices: 9206636--9206897 Score: 337
Period size: 131 Copynumber: 2.0 Consensus size: 129
9206626 TGTTAACCCC
*
9206636 AAGCAAAATTTTCAATTTGCATACATGTGTTAATGTTTTTTGGTAGTTCATAATAGGTCCTCGCC
1 AAGCAAAATTTTCAATTTGCATACATGTGTTAATGTTTTTTGGTAGTTCATAATAGGTCCTCACC
** *
9206701 ATTAAATAGCTTTGACACGATATCATTCGCCAAGCGTAAGAAACCGTAACAATAGAGGAAACAA
66 ATTAAATAGCTTTGACACGATATCATTCGCCAAGCGTAAGAAACCACAAAAATAGAGGAAACAA
* * ** * *
9206765 AAGCAAAATTTTCAATTTGCTTACGTGTGTTAAT-TTTTTTTTTAGTTCATAATGGGTCTTCACC
1 AAGCAAAATTTTCAATTTGCATACATGTGTTAATGTTTTTTGGTAGTTCATAATAGGTCCTCACC
* * * * * * *
9206829 ATTAAATAGCTTACGTGACATGATATCATTGGCCAAGCTTAAGGAACTACAAAAATAGGGGAATC
66 ATTAAATAGCTT---TGACACGATATCATTCGCCAAGCGTAAGAAACCACAAAAATAGAGGAAAC
9206894 AA
128 AA
9206896 AA
1 AA
9206898 TAATAAAATA
Statistics
Matches: 113, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
128 37 0.33
129 32 0.28
131 44 0.39
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (129 bp):
AAGCAAAATTTTCAATTTGCATACATGTGTTAATGTTTTTTGGTAGTTCATAATAGGTCCTCACC
ATTAAATAGCTTTGACACGATATCATTCGCCAAGCGTAAGAAACCACAAAAATAGAGGAAACAA
Found at i:9209520 original size:165 final size:164
Alignment explanation
Indices: 9209210--9209538 Score: 595
Period size: 165 Copynumber: 2.0 Consensus size: 164
9209200 AATATATTAT
* *
9209210 CAAATTTATTAAAAATTCGTTCATTTATAAATTCATTGATTTTTAATTAAATTAAATTTAAATAA
1 CAAATTTATTAAAAATTCGTTCATTTATAAATTCATTAATTTTTAATTAAACTAAATTTAAATAA
* *
9209275 AAAAAAAATCAGCTCAACTCTATTCATTTACGGCCTTTTTCGGTCTCACCGAAACCATAAAATAA
66 AAAAAAAATCAGCTCAACTCTATTCATTTACAGCCTTTCTCGGTCTCACCGAAACCATAAAATAA
*
9209340 AAACGCATACATTCTCTGTAATTATAGGAAAAAA
131 AAACGCACACATTCTCTGTAATTATAGGAAAAAA
9209374 CAAATTTATTAAAAATTCGTTCATTTATAAATTCATTAATTTTTAATTAAACTAAATTTAAATTA
1 CAAATTTATTAAAAATTCGTTCATTTATAAATTCATTAATTTTTAATTAAACTAAATTTAAA-TA
9209439 AAAAAAAAATCAGCTCAACTCTATTCATTTACAGCCTTTCTCGGTCTCACCGAAACCATAAAATA
65 AAAAAAAAATCAGCTCAACTCTATTCATTTACAGCCTTTCTCGGTCTCACCGAAACCATAAAATA
*
9209504 AAACCGCACACATTCTCTGTAATTATAGGAAAAAA
130 AAAACGCACACATTCTCTGTAATTATAGGAAAAAA
9209539 TAACAGTATT
Statistics
Matches: 158, Mismatches: 6, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
164 60 0.38
165 98 0.62
ACGTcount: A:0.43, C:0.16, G:0.07, T:0.34
Consensus pattern (164 bp):
CAAATTTATTAAAAATTCGTTCATTTATAAATTCATTAATTTTTAATTAAACTAAATTTAAATAA
AAAAAAAATCAGCTCAACTCTATTCATTTACAGCCTTTCTCGGTCTCACCGAAACCATAAAATAA
AAACGCACACATTCTCTGTAATTATAGGAAAAAA
Found at i:9213723 original size:2 final size:2
Alignment explanation
Indices: 9213716--9213747 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
9213706 GCAGCTTCTC
9213716 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
9213748 TTCTACTGAA
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):
AT
Found at i:9219048 original size:2 final size:2
Alignment explanation
Indices: 9219041--9219075 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
9219031 TATTTACATA
*
9219041 TG TG TG TG TG TG TG TG TG TG TG TC TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
9219076 TGGGTGAGGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.03, G:0.46, T:0.51
Consensus pattern (2 bp):
TG
Found at i:9227827 original size:22 final size:22
Alignment explanation
Indices: 9227802--9227854 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
9227792 ATATAAAAAT
9227802 ATTATAATTTA-AAATTTTAATA
1 ATTATAATTTATAAA-TTTAATA
* *
9227824 ATTATTATATATAAATTTAATA
1 ATTATAATTTATAAATTTAATA
*
9227846 A-AATAATTT
1 ATTATAATTT
9227855 TTTTTATATT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 5 0.20
22 17 0.68
23 3 0.12
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
ATTATAATTTATAAATTTAATA
Found at i:9228123 original size:21 final size:21
Alignment explanation
Indices: 9228090--9228130 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
9228080 ATATTTACTC
* *
9228090 AAATTTTAGTAATTAAATTAA
1 AAATCTTAATAATTAAATTAA
*
9228111 AAATCTTAATAATTAGATTA
1 AAATCTTAATAATTAAATTA
9228131 TCACTTTAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.41
Consensus pattern (21 bp):
AAATCTTAATAATTAAATTAA
Found at i:9229439 original size:20 final size:19
Alignment explanation
Indices: 9229409--9229446 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
9229399 TACCAAAATT
*
9229409 TAGCAATCAAACATTAAAG
1 TAGCAATCAAAAATTAAAG
9229428 TAGCAGATCAAAAATTAAA
1 TAGCA-ATCAAAAATTAAA
9229447 ACCAAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.55, C:0.13, G:0.11, T:0.21
Consensus pattern (19 bp):
TAGCAATCAAAAATTAAAG
Found at i:9229645 original size:3 final size:3
Alignment explanation
Indices: 9229637--9229664 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
9229627 AGAGGATGAG
9229637 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
9229665 GTGTACAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:9230690 original size:18 final size:18
Alignment explanation
Indices: 9230655--9230758 Score: 65
Period size: 18 Copynumber: 5.7 Consensus size: 18
9230645 TTTTTTTTAT
* * *
9230655 TTTTTTTTCATTTTTTAA
1 TTTTTTTTAAATTATTAA
9230673 TTTTTTTTAAATTATTAA
1 TTTTTTTTAAATTATTAA
*
9230691 TATATTTTTAAA-TATTTCAA
1 T-TTTTTTTAAATTA-TT-AA
9230711 --TTTTTTAAATTTATTAA
1 TTTTTTTTAAA-TTATTAA
*
9230728 TATATTTTTAAAGATT-TTAA
1 T-T-TTTTTTAA-ATTATTAA
9230748 -TTTTTTTAAAT
1 TTTTTTTTAAAT
9230759 GTGATCCATT
Statistics
Matches: 69, Mismatches: 7, Indels: 22
0.70 0.07 0.22
Matches are distributed among these distances:
16 2 0.03
17 17 0.25
18 21 0.30
19 13 0.19
20 6 0.09
21 9 0.13
22 1 0.01
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (18 bp):
TTTTTTTTAAATTATTAA
Found at i:9230698 original size:19 final size:19
Alignment explanation
Indices: 9230676--9230739 Score: 80
Period size: 19 Copynumber: 3.4 Consensus size: 19
9230666 TTTTTAATTT
9230676 TTTTTAAATTATTAATATA
1 TTTTTAAATTATTAATATA
*
9230695 TTTTTAAA-TATTTCA-AT-
1 TTTTTAAATTA-TTAATATA
9230712 TTTTTAAATTTATTAATATA
1 TTTTTAAA-TTATTAATATA
9230732 TTTTTAAA
1 TTTTTAAA
9230740 GATTTTAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
17 8 0.21
18 7 0.18
19 15 0.39
20 8 0.21
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTTTAAATTATTAATATA
Found at i:9230698 original size:29 final size:32
Alignment explanation
Indices: 9230666--9230738 Score: 80
Period size: 37 Copynumber: 2.2 Consensus size: 32
9230656 TTTTTTTCAT
9230666 TTTTTAA-TT-TTTTTTAAA-TTATTAATATA
1 TTTTTAATTTATTTTTTAAATTTATTAATATA
9230695 TTTTTAAATATTTCAATTTTTTAAATTTATTAATATA
1 TTTTT--A-ATTT--ATTTTTTAAATTTATTAATATA
9230732 TTTTTAA
1 TTTTTAA
9230739 AGATTTTAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
29 5 0.14
31 1 0.03
32 1 0.03
33 2 0.06
34 1 0.03
35 1 0.03
36 9 0.25
37 16 0.44
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (32 bp):
TTTTTAATTTATTTTTTAAATTTATTAATATA
Found at i:9230715 original size:37 final size:37
Alignment explanation
Indices: 9230674--9230758 Score: 136
Period size: 37 Copynumber: 2.3 Consensus size: 37
9230664 ATTTTTTAAT
*
9230674 TTTTTTTAAATTATTAATATATTTTTAAATATTTCAA
1 TTTTTTTAAATTATTAATATATTTTTAAAGATTTCAA
*
9230711 -TTTTTTAAATTTATTAATATATTTTTAAAGATTTTAA
1 TTTTTTTAAA-TTATTAATATATTTTTAAAGATTTCAA
9230748 TTTTTTTAAAT
1 TTTTTTTAAAT
9230759 GTGATCCATT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
36 9 0.20
37 26 0.59
38 9 0.20
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (37 bp):
TTTTTTTAAATTATTAATATATTTTTAAAGATTTCAA
Found at i:9230873 original size:16 final size:16
Alignment explanation
Indices: 9230840--9230882 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
9230830 ACTTTTCAAA
* *
9230840 AAAAAATTTAGTATTTT
1 AAAAAATTT-TTAATTT
9230857 AAAAAATTTTTAATTT
1 AAAAAATTTTTAATTT
*
9230873 AATAAATTTT
1 AAAAAATTTT
9230883 GTTACTATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (16 bp):
AAAAAATTTTTAATTT
Found at i:9231605 original size:30 final size:31
Alignment explanation
Indices: 9231561--9231628 Score: 88
Period size: 30 Copynumber: 2.2 Consensus size: 31
9231551 ATTTCTTCTC
*
9231561 TTTTTTATTTTTGTTTTCTAT-TTTTTT-AT-
1 TTTTTTATTATTGTTTT-TATATTTTTTAATA
9231590 TTTTTTCATTATTGTTTTTATATTTTTTAATA
1 TTTTTT-ATTATTGTTTTTATATTTTTTAATA
9231622 TTTTTTA
1 TTTTTTA
9231629 AGTTAAATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
29 9 0.26
30 16 0.47
31 3 0.09
32 6 0.18
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.78
Consensus pattern (31 bp):
TTTTTTATTATTGTTTTTATATTTTTTAATA
Found at i:9231607 original size:21 final size:20
Alignment explanation
Indices: 9231561--9231627 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 20
9231551 ATTTCTTCTC
*
9231561 TTTTTTATTTTTGTTTTCTAT
1 TTTTTTATTTTT-TTATCTAT
9231582 TTTTTTATTTTTTTCAT-TAT
1 TTTTTTATTTTTTT-ATCTAT
*
9231602 TGTTTTTATATTTTTTA-ATAT
1 T-TTTTTAT-TTTTTTATCTAT
9231623 TTTTT
1 TTTTT
9231628 AAGTTAAATT
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
20 10 0.24
21 25 0.61
22 6 0.15
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (20 bp):
TTTTTTATTTTTTTATCTAT
Found at i:9231628 original size:10 final size:10
Alignment explanation
Indices: 9231579--9231629 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
9231569 TTTTGTTTTC
*
9231579 TATTTTTTTA
1 TATTTTTTAA
*
9231589 T-TTTTTTCAT
1 TATTTTTT-AA
*
9231599 TATTGTTTTTA
1 TATT-TTTTAA
9231610 TATTTTTTAA
1 TATTTTTTAA
9231620 TATTTTTTAA
1 TATTTTTTAA
9231630 GTTAAATTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
9 6 0.18
10 17 0.52
11 6 0.18
12 4 0.12
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.75
Consensus pattern (10 bp):
TATTTTTTAA
Found at i:9231959 original size:24 final size:24
Alignment explanation
Indices: 9231932--9231982 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
9231922 ATAAAAAGCA
* ** *
9231932 TATATATTTTATTTTTAATTTTAT
1 TATATATTATATTAATAAATTTAT
9231956 TATATATTATATTAATAAATTTAT
1 TATATATTATATTAATAAATTTAT
9231980 TAT
1 TAT
9231983 TTAATACCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (24 bp):
TATATATTATATTAATAAATTTAT
Found at i:9233202 original size:26 final size:25
Alignment explanation
Indices: 9233167--9233221 Score: 92
Period size: 26 Copynumber: 2.2 Consensus size: 25
9233157 TTAAGGTCTA
9233167 TAATATTTTATTTTGCAATAATTAT
1 TAATATTTTATTTTGCAATAATTAT
*
9233192 TAATCATTTTATTTTGTAATAATTAT
1 TAAT-ATTTTATTTTGCAATAATTAT
9233218 TAAT
1 TAAT
9233222 TCTTGAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
25 4 0.14
26 24 0.86
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (25 bp):
TAATATTTTATTTTGCAATAATTAT
Found at i:9235250 original size:30 final size:30
Alignment explanation
Indices: 9235216--9235272 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
9235206 ATAATAATTT
* *
9235216 TATGTTTTACTTTT-TTAATTTTTTTTAAAA
1 TATGTATTA-TTTTATTAATTTTATTTAAAA
9235246 TATGTATTATTTTATTAATTTTATTTA
1 TATGTATTATTTTATTAATTTTATTTA
9235273 TGAAATTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 4 0.17
30 20 0.83
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.67
Consensus pattern (30 bp):
TATGTATTATTTTATTAATTTTATTTAAAA
Found at i:9240826 original size:23 final size:23
Alignment explanation
Indices: 9240800--9240848 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
9240790 AAAAAAAGAG
9240800 CAAATACTGAGAATTTTATCAGT
1 CAAATACTGAGAATTTTATCAGT
9240823 CAAATACTGAGAATTTTATCAGT
1 CAAATACTGAGAATTTTATCAGT
9240846 CAA
1 CAA
9240849 TGGCATATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (23 bp):
CAAATACTGAGAATTTTATCAGT
Found at i:9242877 original size:43 final size:42
Alignment explanation
Indices: 9242829--9242915 Score: 108
Period size: 43 Copynumber: 2.0 Consensus size: 42
9242819 AATCATAATC
*
9242829 AAATAAA-TTT-AAATAAAAATTTTAAATACACTTAA-AAAAATAT
1 AAATAAATTTTAAAAT-AAAA-TTAAAATA-A-TTAATAAAAATAT
9242872 AAATAAATTTTAAAATAAAATTAAAATAATTAATAAAAATAT
1 AAATAAATTTTAAAATAAAATTAAAATAATTAATAAAAATAT
9242914 AA
1 AA
9242916 TTTTATTAGT
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
41 4 0.10
42 11 0.28
43 14 0.35
44 7 0.17
45 4 0.10
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (42 bp):
AAATAAATTTTAAAATAAAATTAAAATAATTAATAAAAATAT
Found at i:9245069 original size:2 final size:2
Alignment explanation
Indices: 9245062--9245087 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9245052 TATAACTTGA
9245062 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
9245088 TTATTTATCA
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:9252601 original size:12 final size:12
Alignment explanation
Indices: 9252584--9252609 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9252574 AAATTTTAAA
9252584 TTATAAATAATT
1 TTATAAATAATT
9252596 TTATAAATAATT
1 TTATAAATAATT
9252608 TT
1 TT
9252610 TTTATAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
TTATAAATAATT
Found at i:9252614 original size:15 final size:15
Alignment explanation
Indices: 9252594--9252637 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 15
9252584 TTATAAATAA
9252594 TTTTATAAATAATTT
1 TTTTATAAATAATTT
9252609 TTTTATAATTATTAATTT
1 TTTTATAA--A-TAATTT
9252627 TTTTATTAAAT
1 TTTTA-TAAAT
9252638 TCTATCAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
15 8 0.32
16 1 0.04
17 2 0.08
18 11 0.44
19 3 0.12
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
TTTTATAAATAATTT
Found at i:9252667 original size:18 final size:18
Alignment explanation
Indices: 9252604--9252671 Score: 57
Period size: 18 Copynumber: 3.8 Consensus size: 18
9252594 TTTTATAAAT
*
9252604 AATTTTTTTA-TAATTATT
1 AATTTTTTTATTAATT-TA
* *
9252622 AATTTTTTTATTAAATTC
1 AATTTTTTTATTAATTTA
* ***
9252640 TATCAATTTATTAATTTA
1 AATTTTTTTATTAATTTA
9252658 AATTTTTTTATTAA
1 AATTTTTTTATTAA
9252672 AAGTTTTATC
Statistics
Matches: 37, Mismatches: 12, Indels: 2
0.73 0.24 0.04
Matches are distributed among these distances:
18 33 0.89
19 4 0.11
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (18 bp):
AATTTTTTTATTAATTTA
Found at i:9256014 original size:19 final size:19
Alignment explanation
Indices: 9255990--9256041 Score: 74
Period size: 16 Copynumber: 2.9 Consensus size: 19
9255980 ATATAGAAAC
9255990 TATATAATACAATAACCAG
1 TATATAATACAATAACCAG
*
9256009 TATATAATAC--T-GCCAG
1 TATATAATACAATAACCAG
9256025 TATATAATACAATAACC
1 TATATAATACAATAACC
9256042 CTTTTAGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
16 14 0.50
17 1 0.04
18 1 0.04
19 12 0.43
ACGTcount: A:0.48, C:0.17, G:0.06, T:0.29
Consensus pattern (19 bp):
TATATAATACAATAACCAG
Found at i:9265675 original size:27 final size:26
Alignment explanation
Indices: 9265621--9265684 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 26
9265611 TTGAAATATC
* * *
9265621 ATTTAAAAATCATGATTAAGAATTAA
1 ATTTAAAAATCATGATGAAAAATAAA
*
9265647 ATTTAAAAATCTTGAATGAAAAATAAA
1 ATTTAAAAATCATG-ATGAAAAATAAA
9265674 ATATTACAAAA
1 AT-TTA-AAAA
9265685 ATAAATAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
26 13 0.42
27 11 0.35
28 3 0.10
29 4 0.13
ACGTcount: A:0.58, C:0.05, G:0.06, T:0.31
Consensus pattern (26 bp):
ATTTAAAAATCATGATGAAAAATAAA
Found at i:9267639 original size:95 final size:96
Alignment explanation
Indices: 9267467--9267641 Score: 221
Period size: 95 Copynumber: 1.8 Consensus size: 96
9267457 TTTTTTTATC
* * ** *
9267467 TTTTTAATTTTTAATTAAATAAATTTTGTGAAAAAATATTAATAAAAGTGTACATGTGACACCTC
1 TTTTTAATTTTTAATTAAATAAATTTTGTGAAAAAAAACTAATAAAAGTGTACACCTGACACATC
*
9267532 AATTTAGTTTTTTTCTTATTATTTTATTTTA
66 AATTTAGATTTTTTCTTATTATTTTATTTTA
* * * *
9267563 TTTTT-ATTTTTAATTAGATAAATTTTGTGAAAAAAAAGCTAATGAAGGTGTTCACCT-AGCACA
1 TTTTTAATTTTTAATTAAATAAATTTTGTGAAAAAAAA-CTAATAAAAGTGTACACCTGA-CACA
9267626 TCAATTTA-ATTTTTTC
64 TCAATTTAGATTTTTTC
9267642 ATTCATTCTT
Statistics
Matches: 67, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
95 38 0.57
96 29 0.43
ACGTcount: A:0.35, C:0.08, G:0.09, T:0.47
Consensus pattern (96 bp):
TTTTTAATTTTTAATTAAATAAATTTTGTGAAAAAAAACTAATAAAAGTGTACACCTGACACATC
AATTTAGATTTTTTCTTATTATTTTATTTTA
Found at i:9268669 original size:27 final size:24
Alignment explanation
Indices: 9268639--9268702 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 24
9268629 ATTTATTTAT
9268639 TTATATATATGTATTATATTAATAAAA
1 TTAT-TATATG-A-TATATTAATAAAA
* * *
9268666 TTATTATTTGATATTTTAATAAAG
1 TTATTATATGATATATTAATAAAA
*
9268690 TTATTATTTGATA
1 TTATTATATGATA
9268703 CACCTCAATC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 24 0.71
25 1 0.03
26 5 0.15
27 4 0.12
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (24 bp):
TTATTATATGATATATTAATAAAA
Found at i:9268688 original size:24 final size:24
Alignment explanation
Indices: 9268657--9268702 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
9268647 ATGTATTATA
9268657 TTAATAAAATTATTATTTGATATT
1 TTAATAAAATTATTATTTGATATT
*
9268681 TTAATAAAGTTATTATTTGATA
1 TTAATAAAATTATTATTTGATA
9268703 CACCTCAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (24 bp):
TTAATAAAATTATTATTTGATATT
Found at i:9269248 original size:60 final size:60
Alignment explanation
Indices: 9269150--9269269 Score: 222
Period size: 60 Copynumber: 2.0 Consensus size: 60
9269140 CCTTACTGTG
*
9269150 GTATATTTAAAAGTATATATTTTAGTATTTGTTAAATTTTATATTTTTATATATGTATTA
1 GTATATTTAAAAGTATATATTTTAGCATTTGTTAAATTTTATATTTTTATATATGTATTA
*
9269210 GTATATTTAAAAGTATATATTTTAGCATTTGTTGAATTTTATATTTTTATATATGTATTA
1 GTATATTTAAAAGTATATATTTTAGCATTTGTTAAATTTTATATTTTTATATATGTATTA
9269270 TATTAATAAA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.34, C:0.01, G:0.09, T:0.56
Consensus pattern (60 bp):
GTATATTTAAAAGTATATATTTTAGCATTTGTTAAATTTTATATTTTTATATATGTATTA
Found at i:9272019 original size:22 final size:22
Alignment explanation
Indices: 9271994--9272046 Score: 90
Period size: 22 Copynumber: 2.4 Consensus size: 22
9271984 AAGCAACTCT
9271994 TTTATTTAC-TTTTACCTTCACA
1 TTTATTT-CTTTTTACCTTCACA
9272016 TTTATTTCTTTTTACCTTCACA
1 TTTATTTCTTTTTACCTTCACA
9272038 TTTATTTCT
1 TTTATTTCT
9272047 AACACTAGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 1 0.03
22 29 0.97
ACGTcount: A:0.19, C:0.21, G:0.00, T:0.60
Consensus pattern (22 bp):
TTTATTTCTTTTTACCTTCACA
Found at i:9272952 original size:2 final size:2
Alignment explanation
Indices: 9272945--9272981 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
9272935 GACAAAGATA
9272945 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
9272982 TAGGGAACCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:9278053 original size:2 final size:2
Alignment explanation
Indices: 9278048--9278074 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9278038 AATATATCAG
9278048 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
9278075 CTAGAACTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9279995 original size:21 final size:21
Alignment explanation
Indices: 9279953--9279992 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
9279943 TTTTTTACAA
9279953 TAATTATTGTCACAAATAAAT
1 TAATTATTGTCACAAATAAAT
*
9279974 TAATTCTTGTCAC-AATAAA
1 TAATTATTGTCACAAATAAA
9279993 ATTTGTCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (21 bp):
TAATTATTGTCACAAATAAAT
Found at i:9282285 original size:16 final size:16
Alignment explanation
Indices: 9282264--9282296 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
9282254 TACAATGACA
9282264 ATGGGAATATGAGCCT
1 ATGGGAATATGAGCCT
*
9282280 ATGGGATTATGAGCCT
1 ATGGGAATATGAGCCT
9282296 A
1 A
9282297 AAACAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.12, G:0.30, T:0.27
Consensus pattern (16 bp):
ATGGGAATATGAGCCT
Found at i:9282677 original size:117 final size:118
Alignment explanation
Indices: 9282468--9282716 Score: 362
Period size: 117 Copynumber: 2.1 Consensus size: 118
9282458 TTCTTCCTTC
*
9282468 TTTTTTTCTTATTTATACTAAAATTTTACTCTCTTAATGTAAAAAAAAAAAACACTTACTAATTT
1 TTTTTTT-TTATTTATACTAAAATTTTACTCTCTTAATATAAAAAAAAAAAACACTTACTAATTT
* * *
9282533 TTGACTTTTGAGCCAAATCAACAAAAACAGCATATCTTATAAAATTAAATAAGA
65 TTGACTTTTGAGCCAAATCAACAAAAACAGCATACCCTATAAAACTAAATAAGA
* * *
9282587 TTTTTTTTTATTTGTACTAAAATTTTACTCTCTTAATATAAAAAAAAAATAC-TTTA-TCAATTT
1 TTTTTTTTTATTTATACTAAAATTTTACTCTCTTAATATAAAAAAAAAAAACACTTACT-AATTT
* * *
9282650 TTTACTTTTGAGCCAAATCAACAAAAACAGCGTACCCTATAAAGCTAAATAAG-
65 TTGACTTTTGAGCCAAATCAACAAAAACAGCATACCCTATAAAACTAAATAAGA
9282703 TTTTTTTTT-TTTAT
1 TTTTTTTTTATTTAT
9282717 TAGGATCTAA
Statistics
Matches: 118, Mismatches: 11, Indels: 6
0.87 0.08 0.04
Matches are distributed among these distances:
115 4 0.03
116 10 0.08
117 55 0.47
118 42 0.36
119 7 0.06
ACGTcount: A:0.40, C:0.13, G:0.05, T:0.41
Consensus pattern (118 bp):
TTTTTTTTTATTTATACTAAAATTTTACTCTCTTAATATAAAAAAAAAAAACACTTACTAATTTT
TGACTTTTGAGCCAAATCAACAAAAACAGCATACCCTATAAAACTAAATAAGA
Found at i:9283663 original size:19 final size:18
Alignment explanation
Indices: 9283619--9283671 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 18
9283609 GAGGTGTTCG
**
9283619 AATTCAATTAAAATTGAAT
1 AATTCAATT-AAATCAAAT
*
9283638 AAATCAATTAAATCAAACT
1 AATTCAATTAAATCAAA-T
9283657 AATTCAATT-AATCAA
1 AATTCAATTAAATCAA
9283672 TCGGTCATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 12 0.41
19 17 0.59
ACGTcount: A:0.55, C:0.11, G:0.02, T:0.32
Consensus pattern (18 bp):
AATTCAATTAAATCAAAT
Found at i:9285637 original size:19 final size:20
Alignment explanation
Indices: 9285615--9285652 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
9285605 CAGAATTTGA
9285615 AGTTTTTGAT-AAGTTTTTT
1 AGTTTTTGATGAAGTTTTTT
9285634 AGTTTTTGATGAAGTTTTT
1 AGTTTTTGATGAAGTTTTT
9285653 GGTAAAACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.21, C:0.00, G:0.18, T:0.61
Consensus pattern (20 bp):
AGTTTTTGATGAAGTTTTTT
Found at i:9286012 original size:4 final size:4
Alignment explanation
Indices: 9286003--9286037 Score: 52
Period size: 4 Copynumber: 8.5 Consensus size: 4
9285993 TGTTTTGGTA
*
9286003 TTAT TTAT TTAT TTAT TTAT TTGGT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TT-AT TTAT TTAT TT
9286038 TTAAAGTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 25 0.89
5 3 0.11
ACGTcount: A:0.20, C:0.00, G:0.06, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:9289338 original size:23 final size:22
Alignment explanation
Indices: 9289294--9289352 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 22
9289284 TTCCAATATC
***
9289294 ATTTTC-TAAAACCTTTGGGTA
1 ATTTTCTTAAAACCTTCAAGTA
9289315 ATTTTTCTTAAAACCTTCAAGTA
1 A-TTTTCTTAAAACCTTCAAGTA
*
9289338 ATCTTCTTTAAAACC
1 ATTTTC-TTAAAACC
9289353 ACTGGGTGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 1 0.03
22 9 0.29
23 21 0.68
ACGTcount: A:0.32, C:0.19, G:0.07, T:0.42
Consensus pattern (22 bp):
ATTTTCTTAAAACCTTCAAGTA
Found at i:9292693 original size:56 final size:55
Alignment explanation
Indices: 9292628--9292900 Score: 277
Period size: 56 Copynumber: 4.9 Consensus size: 55
9292618 ATATCATTTT
* *
9292628 TTTC-TTAAAATAAAAATGATTTCAAAATTT-TGAGAAAAATGTTGAAATATTAAAA
1 TTTCTTTAAAATAAAAATAATTTCAAAATTTAAG-GAAAAA-GTTGAAATATTAAAA
* *
9292683 TTTCTTTAAAACT-AAAATAATTTCCAAAACTAAAGGAAAAAGTTGAAATATTGAAAA
1 TTTCTTTAAAA-TAAAAATAATTT-CAAAATTTAAGGAAAAAGTTGAAATATT-AAAA
* * ** * * *
9292740 TTTC-TTAAAATTAAGATAATTTCAATTTTTTTAGGAAAAAAGTTGAAATATTGAAT
1 TTTCTTTAAAATAAAAATAATTTCAA-AATTTAAGG-AAAAAGTTGAAATATTAAAA
* * * * **
9292796 TTTCTTT-TAATGAGAATAATTTCAAGAATTCAAGGAAAAAGTTGAAATATTAATT
1 TTTCTTTAAAATAAAAATAATTTCAA-AATTTAAGGAAAAAGTTGAAATATTAAAA
*
9292851 TTTCTTTAAAACAAAAATAATTTCAAAATTTAAGGAAAAAGTTGAAATAT
1 TTTCTTTAAAATAAAAATAATTTCAAAATTTAAGGAAAAAGTTGAAATAT
9292901 CAACTTTTTT
Statistics
Matches: 180, Mismatches: 28, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
55 56 0.31
56 84 0.47
57 39 0.22
58 1 0.01
ACGTcount: A:0.48, C:0.05, G:0.10, T:0.36
Consensus pattern (55 bp):
TTTCTTTAAAATAAAAATAATTTCAAAATTTAAGGAAAAAGTTGAAATATTAAAA
Found at i:9293230 original size:20 final size:20
Alignment explanation
Indices: 9293205--9293244 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
9293195 CTCCTAGACT
*
9293205 TAGTTTAATGTTGTAAACTA
1 TAGTTTAATCTTGTAAACTA
*
9293225 TAGTTTAGTCTTGTAAACTA
1 TAGTTTAATCTTGTAAACTA
9293245 AAATCTATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.07, G:0.15, T:0.45
Consensus pattern (20 bp):
TAGTTTAATCTTGTAAACTA
Found at i:9295654 original size:158 final size:157
Alignment explanation
Indices: 9295366--9295809 Score: 477
Period size: 158 Copynumber: 2.8 Consensus size: 157
9295356 TAACAAACGC
* * * * * *
9295366 TTTTGCACTCTTTAAAAAA-TCTTCAAAATGCTAAAAGGAGATATTGAATCTAAAATTTTATGGT
1 TTTTGCACTCTTTAAAAAACTC-TCAAAATGTTAAAGGGAGGTATCGAACCTAAAATTTTATGAT
* * *
9295430 TAATAGCTATATACTTTAATCAACTAAACTAC-TCTAGTGTTTTTAACAAG-GAATTATTTAAGG
65 TAATAGCTATATGCTCTAATCAACTAAACTACTTC-AGTGTTTTTAACAAGAG-ATTATTCAAGG
*
9295493 CGTTTATAATGTAAACACCGCTGATAC-GTA-T
128 CGTTTATAATATAAACACCGCT-A-ACAG-ACT
* * *
9295524 TTTTGCATTCTTTAAAAAACTCTCAAAATGTTAGAGGGAGGTATCAAACCTAAAATTTTATGATT
1 TTTTGCACTCTTTAAAAAACTCTCAAAATGTTAAAGGGAGGTATCGAACCTAAAATTTTATGATT
* * * * * * *
9295589 AATAGTTTTATGCTCTAACCGACTGAACTGCTTCAGTGTTTTTAGCAAGAGATTATTCAAGGCGT
66 AATAGCTATATGCTCTAATCAACTAAACTACTTCAGTGTTTTTAACAAGAGATTATTCAAGGCGT
*
9295654 TTATAATATAAACGCCGCTAACAGACGT
131 TTATAATATAAACACCGCTAACAGAC-T
* * * * ** *
9295682 TTTTGCACTCCTTAAAAAACTTTCAAAATGTCAAAGGGAAGG-ATCGAACCTAGAACCTTATAAT
1 TTTTGCACTCTTTAAAAAACTCTCAAAATGTTAAAGGG-AGGTATCGAACCTAAAATTTTATGAT
* * * * *
9295746 TAATAACTGTATGTTCTAATCAACTAAACTACTTCAATGTTTTTAACAAAAGATTATTCAAGGC
65 TAATAGCTATATGCTCTAATCAACTAAACTACTTCAGTGTTTTTAACAAGAGATTATTCAAGGC
9295810 ATTTTTGGTC
Statistics
Matches: 237, Mismatches: 42, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
156 3 0.01
157 2 0.01
158 224 0.95
159 8 0.03
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.34
Consensus pattern (157 bp):
TTTTGCACTCTTTAAAAAACTCTCAAAATGTTAAAGGGAGGTATCGAACCTAAAATTTTATGATT
AATAGCTATATGCTCTAATCAACTAAACTACTTCAGTGTTTTTAACAAGAGATTATTCAAGGCGT
TTATAATATAAACACCGCTAACAGACT
Found at i:9295910 original size:61 final size:61
Alignment explanation
Indices: 9295796--9295910 Score: 142
Period size: 61 Copynumber: 1.9 Consensus size: 61
9295786 TTTTAACAAA
* * * * * * *
9295796 AGATTATTCAAGGCATTTTTGGTCAAAAACGCCTTTAATAATCTCCAATAAAAAATAAAAG
1 AGATTATTCAAAGCATTTTAGGCCAAAAACACCTTGAATAATCTCAAAAAAAAAATAAAAG
* *
9295857 AGATTATTCAAAGCGTTTTAGGCCAAAAATACCTTGAATAATC-CAAAAAAAAAA
1 AGATTATTCAAAGCATTTTAGGCCAAAAACACCTTGAATAATCTCAAAAAAAAAA
9295911 GGGCAGTGGA
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
60 9 0.20
61 36 0.80
ACGTcount: A:0.47, C:0.15, G:0.11, T:0.27
Consensus pattern (61 bp):
AGATTATTCAAAGCATTTTAGGCCAAAAACACCTTGAATAATCTCAAAAAAAAAATAAAAG
Found at i:9297027 original size:34 final size:34
Alignment explanation
Indices: 9296989--9297055 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
9296979 TTACATTTTG
*
9296989 GGTCAAATCCCTAAA-TTTTTATTCTGATTTGTTT
1 GGTCAAATCCCTAAACTTCTTATT-TGATTTGTTT
* *
9297023 GGTCAAATCCTTAAACTTCTTGTTTGATTTGTT
1 GGTCAAATCCCTAAACTTCTTATTTGATTTGTT
9297056 GCATTTTTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 23 0.79
35 6 0.21
ACGTcount: A:0.22, C:0.15, G:0.13, T:0.49
Consensus pattern (34 bp):
GGTCAAATCCCTAAACTTCTTATTTGATTTGTTT
Found at i:9301191 original size:16 final size:15
Alignment explanation
Indices: 9301170--9301203 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
9301160 TGCCATTACT
*
9301170 AAAGATTGCTAAGACA
1 AAAGATTGCAAAG-CA
9301186 AAAGATTGCAAAGCA
1 AAAGATTGCAAAGCA
9301201 AAA
1 AAA
9301204 TTAACAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.56, C:0.12, G:0.18, T:0.15
Consensus pattern (15 bp):
AAAGATTGCAAAGCA
Done.