Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, 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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 66 of 127
Found at i:12862164 original size:22 final size:22
Alignment explanation
Indices: 12862104--12862519 Score: 197
Period size: 22 Copynumber: 19.0 Consensus size: 22
12862094 ATTAGTAGTA
**
12862104 ATTTACTATTAAATTATCAACA
1 ATTTACTATTAAATTATCAATG
12862126 ATTTAC-ATCTAAATTATCAATG
1 ATTTACTAT-TAAATTATCAATG
** *
12862148 ATTTACTATTATGTTAT-TATG
1 ATTTACTATTAAATTATCAATG
* ** *
12862169 TATTTATTATTATGTTATCATTG
1 -ATTTACTATTAAATTATCAATG
* * *
12862192 ATTTACTACTT-AATTTTCGATT
1 ATTTACTA-TTAAATTATCAATG
**
12862214 ATTTACTACAAAATTATC-ATAG
1 ATTTACTATTAAATTATCAAT-G
* *
12862236 ATTTATTACTAAATTAATC-ATG
1 ATTTACTATTAAATT-ATCAATG
* * * * * *
12862258 ATTCATTGTTAAGTTATCATTT
1 ATTTACTATTAAATTATCAATG
* ** *
12862280 ATTTA-TAGTAAATTATCCCTA
1 ATTTACTATTAAATTATCAATG
* * *
12862301 ATTTGCTATTAAATTATTATTG
1 ATTTACTATTAAATTATCAATG
* * *
12862323 ATTAACTATTAAGTTAT-ATTG
1 ATTTACTATTAAATTATCAATG
* * *
12862344 ATTTATTTTTAAGTT-TCAAATG
1 ATTTACTATTAAATTATC-AATG
* * *
12862366 ATTAATTATTAAATTATCATTG
1 ATTTACTATTAAATTATCAATG
* **
12862388 ATTTACTATTAATTTATTTATG
1 ATTTACTATTAAATTATCAATG
* *
12862410 ATTTACTACTAAATTTATCAATT
1 ATTTACTATTAAA-TTATCAATG
* * *
12862433 AATTATTATTAAATGGA--AACTG
1 ATTTACTATTAAAT-TATCAA-TG
* * *
12862455 ATTTATTATTAAATTATCATTA
1 ATTTACTATTAAATTATCAATG
*
12862477 ATTTACTATTAAGTTATC-ATCG
1 ATTTACTATTAAATTATCAAT-G
* *
12862499 ATTTATTATTAATTTATCAAT
1 ATTTACTATTAAATTATCAAT
12862520 TATTAACAAA
Statistics
Matches: 297, Mismatches: 77, Indels: 39
0.72 0.19 0.09
Matches are distributed among these distances:
20 1 0.00
21 44 0.15
22 219 0.74
23 33 0.11
ACGTcount: A:0.36, C:0.08, G:0.06, T:0.50
Consensus pattern (22 bp):
ATTTACTATTAAATTATCAATG
Found at i:12862513 original size:11 final size:11
Alignment explanation
Indices: 12862455--12862515 Score: 59
Period size: 11 Copynumber: 5.5 Consensus size: 11
12862445 ATGGAAACTG
12862455 ATTTATTATTA
1 ATTTATTATTA
* *
12862466 AATTATCATTA
1 ATTTATTATTA
*
12862477 ATTTACTATTA
1 ATTTATTATTA
* * **
12862488 AGTTATCATCG
1 ATTTATTATTA
12862499 ATTTATTATTA
1 ATTTATTATTA
12862510 ATTTAT
1 ATTTAT
12862516 CAATTATTAA
Statistics
Matches: 36, Mismatches: 14, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
11 36 1.00
ACGTcount: A:0.36, C:0.07, G:0.03, T:0.54
Consensus pattern (11 bp):
ATTTATTATTA
Found at i:12862945 original size:22 final size:22
Alignment explanation
Indices: 12862919--12862964 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
12862909 TTACCGATCA
* *
12862919 TTGTTGGTAATTTATCATTAAG
1 TTGTTGATAATTTATCATAAAG
* *
12862941 TTGTTGATGATTTATTATAAAG
1 TTGTTGATAATTTATCATAAAG
12862963 TT
1 TT
12862965 ATAACTGATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.28, C:0.02, G:0.17, T:0.52
Consensus pattern (22 bp):
TTGTTGATAATTTATCATAAAG
Found at i:12862973 original size:22 final size:22
Alignment explanation
Indices: 12862947--12863023 Score: 93
Period size: 22 Copynumber: 3.5 Consensus size: 22
12862937 TAAGTTGTTG
*
12862947 ATGATTTATTATAAAGTTAT-A
1 ATGATTTACTATAAAGTTATCA
* *
12862968 ACTGATTTACTATTAATTTATCA
1 A-TGATTTACTATAAAGTTATCA
*
12862991 ATGATTTACTAAAAAGTTATCA
1 ATGATTTACTATAAAGTTATCA
*
12863013 ATGATTAACTA
1 ATGATTTACTA
12863024 ATTTACTTTT
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
21 1 0.02
22 44 0.94
23 2 0.04
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.43
Consensus pattern (22 bp):
ATGATTTACTATAAAGTTATCA
Found at i:12863137 original size:44 final size:42
Alignment explanation
Indices: 12863067--12863201 Score: 127
Period size: 44 Copynumber: 3.1 Consensus size: 42
12863057 GTTATTGGTA
* *
12863067 ATTTACTATTATGTTATTAGT-GATTTACTCCTAAATTATCAATT-
1 ATTTACTATTAT-TTTTTA-TATATTTA-TCCTAAATTATC-ATTG
*
12863111 ATTTACTATTATATTTTTATATATTTAT--TATATTATCATTG
1 ATTTACTATTAT-TTTTTATATATTTATCCTAAATTATCATTG
*
12863152 ATTTACTACTTATTTTTTA-ATTATTTATCACAAAATTATCATTG
1 ATTTACTA-TTATTTTTTATA-TATTTATC-CTAAATTATCATTG
12863196 ATTTAC
1 ATTTAC
12863202 CCCTAAATTA
Statistics
Matches: 78, Mismatches: 6, Indels: 14
0.80 0.06 0.14
Matches are distributed among these distances:
40 4 0.05
41 29 0.37
42 4 0.05
43 2 0.03
44 39 0.50
ACGTcount: A:0.33, C:0.10, G:0.04, T:0.54
Consensus pattern (42 bp):
ATTTACTATTATTTTTTATATATTTATCCTAAATTATCATTG
Found at i:12863158 original size:41 final size:41
Alignment explanation
Indices: 12863101--12863179 Score: 110
Period size: 41 Copynumber: 1.9 Consensus size: 41
12863091 TTACTCCTAA
12863101 ATTATCAATTATTTACTA-TTATATTTTT-ATATATTTATTAT
1 ATTATCAATTATTTACTACTTAT-TTTTTAAT-TATTTATTAT
12863142 ATTATC-ATTGATTTACTACTTATTTTTTAATTATTTAT
1 ATTATCAATT-ATTTACTACTTATTTTTTAATTATTTAT
12863180 CACAAAATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
40 3 0.09
41 26 0.74
42 6 0.17
ACGTcount: A:0.32, C:0.06, G:0.01, T:0.61
Consensus pattern (41 bp):
ATTATCAATTATTTACTACTTATTTTTTAATTATTTATTAT
Found at i:12863270 original size:22 final size:22
Alignment explanation
Indices: 12863241--12863407 Score: 101
Period size: 22 Copynumber: 7.7 Consensus size: 22
12863231 TTTGTACTAT
12863241 TTTA-TATTAAATTATGC-ATGA
1 TTTACTATTAAATTAT-CAATGA
12863262 TTTACTATTAAATTATCAATGA
1 TTTACTATTAAATTATCAATGA
* ** *
12863284 TTAACTATTCTATTATCGATGA
1 TTTACTATTAAATTATCAATGA
* * * *
12863306 TTTACTATTAAGTTCT-ATTAA
1 TTTACTATTAAATTATCAATGA
* * *
12863327 TTTA-TTTTAAGTTTTCAATGA
1 TTTACTATTAAATTATCAATGA
*** * *
12863348 ACAACTACTAAATTATCAATTA
1 TTTACTATTAAATTATCAATGA
* *
12863370 TTTAATATTAATTTAT-AATTGA
1 TTTACTATTAAATTATCAA-TGA
* *
12863392 TTTACTACTAAGTTAT
1 TTTACTATTAAATTAT
12863408 TTATTATTTA
Statistics
Matches: 107, Mismatches: 34, Indels: 9
0.71 0.23 0.06
Matches are distributed among these distances:
20 9 0.08
21 17 0.16
22 81 0.76
ACGTcount: A:0.37, C:0.09, G:0.06, T:0.48
Consensus pattern (22 bp):
TTTACTATTAAATTATCAATGA
Found at i:12863416 original size:22 final size:22
Alignment explanation
Indices: 12863351--12863421 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 22
12863341 TCAATGAACA
*
12863351 ACTACTAAATTATCAATTATTT
1 ACTACTAAATTATTAATTATTT
* * *
12863373 AATATTAATTTA-TAATTGATTT
1 ACTACTAAATTATTAATT-ATTT
* *
12863395 ACTACTAAGTTATTTATTATTT
1 ACTACTAAATTATTAATTATTT
12863417 ACTAC
1 ACTAC
12863422 GATCAATTAC
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
21 4 0.10
22 31 0.79
23 4 0.10
ACGTcount: A:0.38, C:0.10, G:0.03, T:0.49
Consensus pattern (22 bp):
ACTACTAAATTATTAATTATTT
Found at i:12863501 original size:11 final size:11
Alignment explanation
Indices: 12863452--12863503 Score: 50
Period size: 11 Copynumber: 4.7 Consensus size: 11
12863442 ACTGAAACTG
12863452 ATTTATTATTA
1 ATTTATTATTA
* * *
12863463 AATTATTACTC
1 ATTTATTATTA
*
12863474 ATTTACTATTA
1 ATTTATTATTA
* *
12863485 AGTTATTATTG
1 ATTTATTATTA
12863496 ATTTATTA
1 ATTTATTA
12863504 CTAAGTGATC
Statistics
Matches: 30, Mismatches: 11, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.56
Consensus pattern (11 bp):
ATTTATTATTA
Found at i:12863508 original size:22 final size:22
Alignment explanation
Indices: 12863448--12863509 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
12863438 TTAAACTGAA
*
12863448 ACTGATTTATTATTAAATTATT
1 ACTGATTTATTATTAAGTTATT
* *
12863470 ACTCATTTACTATTAAGTTATT
1 ACTGATTTATTATTAAGTTATT
* *
12863492 ATTGATTTATTACTAAGT
1 ACTGATTTATTATTAAGT
12863510 GATCAATAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.34, C:0.08, G:0.06, T:0.52
Consensus pattern (22 bp):
ACTGATTTATTATTAAGTTATT
Found at i:12863739 original size:22 final size:22
Alignment explanation
Indices: 12863676--12863753 Score: 79
Period size: 22 Copynumber: 3.6 Consensus size: 22
12863666 TCAACTATTG
*
12863676 ACTATTAAATTA-TCATTCATTT
1 ACTATTAAATTATTCA-TAATTT
* *
12863698 ACTGTTAAATTATTCCTAATTT
1 ACTATTAAATTATTCATAATTT
* * *
12863720 ACTATTAAGTTATTGATAA-TG
1 ACTATTAAATTATTCATAATTT
12863741 ACTATTAAATTAT
1 ACTATTAAATTAT
12863754 ACTAATTATA
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
21 13 0.28
22 31 0.67
23 2 0.04
ACGTcount: A:0.37, C:0.10, G:0.05, T:0.47
Consensus pattern (22 bp):
ACTATTAAATTATTCATAATTT
Found at i:12865800 original size:15 final size:16
Alignment explanation
Indices: 12865748--12865808 Score: 85
Period size: 17 Copynumber: 4.0 Consensus size: 16
12865738 TTAATTTTTC
12865748 TTTTATT-TAA-AAAA
1 TTTTATTATAATAAAA
12865762 TTTTATTATACATAAAA
1 TTTTATTATA-ATAAAA
12865779 TTTTATTATAATAAAA
1 TTTTATTATAATAAAA
12865795 -TTTATTAT-ATAAAA
1 TTTTATTATAATAAAA
12865809 ATATATAATT
Statistics
Matches: 44, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
14 13 0.30
15 10 0.23
16 7 0.16
17 14 0.32
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (16 bp):
TTTTATTATAATAAAA
Found at i:12865809 original size:15 final size:15
Alignment explanation
Indices: 12865749--12865824 Score: 59
Period size: 15 Copynumber: 5.0 Consensus size: 15
12865739 TAATTTTTCT
12865749 TTTATT-TA-AAAAA
1 TTTATTATATAAAAA
*
12865762 TTTTATTATACATAAAAT
1 -TTTATTAT--ATAAAAA
12865780 TTTATTATA-ATAAAA
1 TTTATTATATA-AAAA
12865795 TTTATTATATAAAAA
1 TTTATTATATAAAAA
* * *
12865810 TATATAATTTAAAAA
1 TTTATTATATAAAAA
12865825 ATAAAATAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
14 7 0.14
15 30 0.59
16 1 0.02
17 9 0.18
18 4 0.08
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (15 bp):
TTTATTATATAAAAA
Found at i:12867008 original size:17 final size:17
Alignment explanation
Indices: 12866988--12867021 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
12866978 GTATATTTTT
*
12866988 AGTCTAATTATAAAAAA
1 AGTCTAATAATAAAAAA
*
12867005 AGTCTAGTAATAAAAAA
1 AGTCTAATAATAAAAAA
12867022 TTCATTTAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.59, C:0.06, G:0.09, T:0.26
Consensus pattern (17 bp):
AGTCTAATAATAAAAAA
Found at i:12867305 original size:2 final size:2
Alignment explanation
Indices: 12867289--12867325 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
12867279 TATAGATGAC
*
12867289 AT AT AT AG AT A- 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 AT
12867326 CACTTTGATC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:12868174 original size:2 final size:2
Alignment explanation
Indices: 12868167--12868198 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
12868157 GATCAAAGTG
12868167 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
12868199 TTCTTAGTAC
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:12869263 original size:12 final size:13
Alignment explanation
Indices: 12869219--12869301 Score: 72
Period size: 12 Copynumber: 6.8 Consensus size: 13
12869209 AAATCCGACC
* *
12869219 TTATATATATAAA
1 TTATATATTTAAT
*
12869232 TTAT-TTTTTAA-
1 TTATATATTTAAT
12869243 TTACT-TATTTAAT
1 TTA-TATATTTAAT
12869256 TT-TATATTT-AT
1 TTATATATTTAAT
*
12869267 TTATATATCT-AT
1 TTATATATTTAAT
12869279 TTATATATTTAAT
1 TTATATATTTAAT
12869292 TT-TATATTTA
1 TTATATATTTA
12869302 TATTAAAAAT
Statistics
Matches: 60, Mismatches: 5, Indels: 11
0.79 0.07 0.14
Matches are distributed among these distances:
11 8 0.13
12 42 0.70
13 10 0.17
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (13 bp):
TTATATATTTAAT
Found at i:12869322 original size:19 final size:20
Alignment explanation
Indices: 12869298--12869341 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
12869288 TAATTTTATA
12869298 TTTATA-TTAAAAATAATAT
1 TTTATATTTAAAAATAATAT
12869317 TTTATATTTAAAAATAATAT
1 TTTATATTTAAAAATAATAT
12869337 TTTAT
1 TTTAT
12869342 TAATTTCAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
TTTATATTTAAAAATAATAT
Found at i:12874750 original size:20 final size:19
Alignment explanation
Indices: 12874707--12874751 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
12874697 ATAATAATAT
* *
12874707 TTAATATTAAAATATTATA
1 TTAATATAAAAATATTAAA
12874726 TTAATATAAAAATACTTAAA
1 TTAATATAAAAATA-TTAAA
12874746 TTAATA
1 TTAATA
12874752 CTATATATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (19 bp):
TTAATATAAAAATATTAAA
Found at i:12875088 original size:43 final size:44
Alignment explanation
Indices: 12875028--12875131 Score: 131
Period size: 43 Copynumber: 2.4 Consensus size: 44
12875018 TCATATTCGA
12875028 AAAATAATATTATTATATTAT-TTAACATTAATTATTAAAATAAT
1 AAAATAATATTATTATA-TATGTTAACATTAATTATTAAAATAAT
** *
12875072 AAAA-AATATTATTATATATGTTATTATTTATTATTAAAATAAT
1 AAAATAATATTATTATATATGTTAACATTAATTATTAAAATAAT
* *
12875115 ATAATACTATATATTAT
1 AAAATAATAT-TATTAT
12875132 TGAAATATTA
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
42 3 0.06
43 35 0.67
44 8 0.15
45 6 0.12
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (44 bp):
AAAATAATATTATTATATATGTTAACATTAATTATTAAAATAAT
Found at i:12880342 original size:25 final size:26
Alignment explanation
Indices: 12880312--12880363 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
12880302 CAATGGAAGA
*
12880312 ACCCCTTTCTTGTCTTTTCAAATTAT
1 ACCCTTTTCTTGTCTTTTCAAATTAT
12880338 ACCCTTTTCTTGTCTTTTCAAATTAT
1 ACCCTTTTCTTGTCTTTTCAAATTAT
12880364 TCATTCTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.19, C:0.25, G:0.04, T:0.52
Consensus pattern (26 bp):
ACCCTTTTCTTGTCTTTTCAAATTAT
Found at i:12882039 original size:18 final size:17
Alignment explanation
Indices: 12881996--12882040 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
12881986 AATTATTATC
12881996 AAAATAAATTAAAAAATT
1 AAAATAAA-TAAAAAATT
* *
12882014 AAATTAAATATAAAATT
1 AAAATAAATAAAAAATT
12882031 AAGAATAAAT
1 AA-AATAAAT
12882041 CAATAATTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 10 0.43
18 13 0.57
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (17 bp):
AAAATAAATAAAAAATT
Found at i:12886528 original size:2 final size:2
Alignment explanation
Indices: 12886521--12886550 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
12886511 ATAAAAAGTT
12886521 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
12886551 CACACACACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:12890869 original size:25 final size:25
Alignment explanation
Indices: 12890841--12890891 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
12890831 ACATATCTGA
*
12890841 GACACAGCTGCAAGATAATTGAATT
1 GACACAGATGCAAGATAATTGAATT
*
12890866 GACACAGATGTAAGATAATTGAATT
1 GACACAGATGCAAGATAATTGAATT
12890891 G
1 G
12890892 CCATTGACCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.41, C:0.12, G:0.22, T:0.25
Consensus pattern (25 bp):
GACACAGATGCAAGATAATTGAATT
Found at i:12899289 original size:17 final size:17
Alignment explanation
Indices: 12899267--12899299 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
12899257 TGTTGGTAAG
*
12899267 GGTATACATGTAAGAAA
1 GGTATACATATAAGAAA
12899284 GGTATACATATAAGAA
1 GGTATACATATAAGAA
12899300 GAATACAAAT
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:0.48, C:0.06, G:0.21, T:0.24
Consensus pattern (17 bp):
GGTATACATATAAGAAA
Found at i:12906680 original size:35 final size:37
Alignment explanation
Indices: 12906614--12906682 Score: 90
Period size: 35 Copynumber: 1.9 Consensus size: 37
12906604 ATTAAAACTA
*
12906614 TTAATATTAAAAAATAATTATATTTTAATAAAAACAT
1 TTAATATTAAAAAATAATTATATTATAATAAAAACAT
*
12906651 TTAATATT-CAAAAT-ATTATATTA-ATATAAAAA
1 TTAATATTAAAAAATAATTATATTATA-ATAAAAA
12906683 TACTTAAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 1 0.03
35 15 0.52
36 5 0.17
37 8 0.28
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (37 bp):
TTAATATTAAAAAATAATTATATTATAATAAAAACAT
Found at i:12908967 original size:26 final size:26
Alignment explanation
Indices: 12908935--12908989 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
12908925 ATTAAATATG
* *
12908935 TTTTTATCTATTTATTTAAATGGATA
1 TTTTTATCCATTTATTTAAATGGAGA
* *
12908961 TTTTTATCCGTTTATTTAATTGGAGA
1 TTTTTATCCATTTATTTAAATGGAGA
12908987 TTT
1 TTT
12908990 AAGAAATGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.25, C:0.05, G:0.11, T:0.58
Consensus pattern (26 bp):
TTTTTATCCATTTATTTAAATGGAGA
Found at i:12912097 original size:17 final size:16
Alignment explanation
Indices: 12912077--12912108 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
12912067 AAAAAGGCAT
12912077 AAAAAGTAAAAAAAAAA
1 AAAAAG-AAAAAAAAAA
12912094 AAAAAGAAAAAAAAA
1 AAAAAGAAAAAAAAA
12912109 TAAGGGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.91, C:0.00, G:0.06, T:0.03
Consensus pattern (16 bp):
AAAAAGAAAAAAAAAA
Found at i:12912600 original size:21 final size:23
Alignment explanation
Indices: 12912586--12912638 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
12912576 TAAAACAATT
12912586 TTAAA-ATATTTTAAAATAAATA
1 TTAAATATATTTTAAAATAAATA
* *
12912608 TTAAATATTTTTTAAAAATAAAAA
1 TTAAATATATTTT-AAAATAAATA
*
12912632 GTAAATA
1 TTAAATA
12912639 ACGAAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 5 0.19
23 6 0.23
24 15 0.58
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (23 bp):
TTAAATATATTTTAAAATAAATA
Found at i:12918351 original size:2 final size:2
Alignment explanation
Indices: 12918344--12918368 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
12918334 GGATTTTCAT
12918344 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
12918369 TGCTCATGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:12919373 original size:81 final size:80
Alignment explanation
Indices: 12919233--12919395 Score: 299
Period size: 81 Copynumber: 2.0 Consensus size: 80
12919223 TTCAAAGTAT
* *
12919233 GACGCTTTATCAACTGCGTGACTGTGACTCTCGTAGTAATGTGTAATATATTGAATATGCAACGT
1 GACGCTTTATCAACTGCGTGACTGTGACTCTCCTAGTAATATGTAATATATTGAATATGCAACGT
12919298 ATAACAAAACTTGTG
66 ATAACAAAACTTGTG
12919313 GACGCTTTTATCAACTGCGTGACTGTGACTCTCCTAGTAATATGTAATATATTGAATATGCAACG
1 GACGC-TTTATCAACTGCGTGACTGTGACTCTCCTAGTAATATGTAATATATTGAATATGCAACG
12919378 TATAACAAAACTTGTG
65 TATAACAAAACTTGTG
12919394 GA
1 GA
12919396 GACTCATGCC
Statistics
Matches: 80, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
80 5 0.06
81 75 0.94
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.33
Consensus pattern (80 bp):
GACGCTTTATCAACTGCGTGACTGTGACTCTCCTAGTAATATGTAATATATTGAATATGCAACGT
ATAACAAAACTTGTG
Found at i:12920294 original size:24 final size:22
Alignment explanation
Indices: 12920244--12920287 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
12920234 GGGTTAAAGC
*
12920244 GGATAATAACTTAATACAAAAT
1 GGATAATAACTTAAAACAAAAT
* *
12920266 GGATAATACCTTAAAATAAAAT
1 GGATAATAACTTAAAACAAAAT
12920288 TGTGATACTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.55, C:0.09, G:0.09, T:0.27
Consensus pattern (22 bp):
GGATAATAACTTAAAACAAAAT
Found at i:12920712 original size:24 final size:22
Alignment explanation
Indices: 12920663--12920705 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
12920653 GGTTAAAGCA
*
12920663 GATAATAACTTAATATAAAATG
1 GATAATAACTTAAAATAAAATG
*
12920685 GATAATACCTTAAAATAAAAT
1 GATAATAACTTAAAATAAAAT
12920706 CGTGATACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.30
Consensus pattern (22 bp):
GATAATAACTTAAAATAAAATG
Found at i:12920974 original size:418 final size:414
Alignment explanation
Indices: 12920154--12920998 Score: 1447
Period size: 418 Copynumber: 2.0 Consensus size: 414
12920144 CTTTAACGTC
* *
12920154 AAAACGGATAATACTTTAGGATAAAGTGGACAATAGCTACGAGACCTTAAGGTCAAAATGAATAA
1 AAAACGGATAATACTTTAGAATAAAATGGACAATAGCTACGAGACCTTAAGGTCAAAATGAATAA
* *
12920219 AACTGTAATACCTTAGGGTTAAAGCGGATAATAACTTAATACAAAATGGATAATACCTTAAAATA
66 AACTATAATACCTTAGGGTTAAAGCAGATAATAACTTAATACAAAATGGATAATACCTTAAAATA
*
12920284 AAATTGTGATACTTTAAAATCATAGCAAACAAGACTTTAACGTTAAAGCGGATAATACTTTAGAA
131 AAATCGTGATACTTTAAAATCATAGCAAACAAGACTTTAACGTTAAAGCGGATAATACTTTAGAA
12920349 TAAAGTAAACAATATCTTATCATGAGATTTTAAGATCAAAATGGATAAAACTGTAATACCTTAGA
196 TAAAGTAAACAATATCTTATCATGAGATTTTAAGATCAAAATGGATAAAACTGTAATACCTTAGA
*
12920414 GTTAAAGCGGATAAAAACTTAACACAAAACCGTGATACCTAAGTCAAAGCAGACAAAATCTTAGA
261 GTTAAAACGGATAAAAACTTAACACAAAACCGTGATACCTAAGTCAAAGCAGACAAAATCTTAGA
*
12920479 ATCAAAATGGACAACATCTACAACAAAAACCGTAATTTTTTAGAGTCAAAGAGGACAATAGGATA
326 ATCAAAATGGACAACATCTACAACAAAAACCGTAATATTTTAGAGTCAAAGAGGACAATAGGATA
*
12920544 AAAAAAGACAAATACCTTAGGGTT
391 AAAAAAGACAAATACCTTAGAGTT
* *
12920568 AAAGCGGATAATACTTTAGAATAAAATGGACAATAGCTTATCACGAGACCTTAAGGTCAAAATGG
1 AAAACGGATAATACTTTAGAATAAAATGGACAATAGC---T-ACGAGACCTTAAGGTCAAAATGA
* *
12920633 ATAAAACTATAATATCTTAGGGTTAAAGCAGATAATAACTTAATATAAAATGGATAATACCTTAA
62 ATAAAACTATAATACCTTAGGGTTAAAGCAGATAATAACTTAATACAAAATGGATAATACCTTAA
* *
12920698 AATAAAATCGTGATACTTTATAATCATAGCAAACAATACTTTAACGTTAAAGCGGATAATACTTT
127 AATAAAATCGTGATACTTTAAAATCATAGCAAACAAGACTTTAACGTTAAAGCGGATAATACTTT
* *
12920763 AGAATAAAGTAGACAATATCTTATCATGAGATTTTAAGATCAAAATGGATAAAACTGTAATGCCT
192 AGAATAAAGTAAACAATATCTTATCATGAGATTTTAAGATCAAAATGGATAAAACTGTAATACCT
* * *
12920828 TAGGGTTAAAACGGATAATAACTTAACACAAAACCTTGATACCTAAGTCAAAGCAGACAAAATCT
257 TAGAGTTAAAACGGATAAAAACTTAACACAAAACCGTGATACCTAAGTCAAAGCAGACAAAATCT
* *
12920893 TAGAATCAAAATGGATAACATCTACAACAAAAACCGTAATATTTTAGAGTCAAAGAGGATAATAG
322 TAGAATCAAAATGGACAACATCTACAACAAAAACCGTAATATTTTAGAGTCAAAGAGGACAATAG
* *
12920958 GATCAAAAAGGACAAATACCTTAGAGTT
387 GATAAAAAAAGACAAATACCTTAGAGTT
12920986 AAAACGGATAATA
1 AAAACGGATAATA
12920999 ACTTAATACA
Statistics
Matches: 403, Mismatches: 24, Indels: 4
0.94 0.06 0.01
Matches are distributed among these distances:
414 34 0.08
417 1 0.00
418 368 0.91
ACGTcount: A:0.47, C:0.13, G:0.15, T:0.25
Consensus pattern (414 bp):
AAAACGGATAATACTTTAGAATAAAATGGACAATAGCTACGAGACCTTAAGGTCAAAATGAATAA
AACTATAATACCTTAGGGTTAAAGCAGATAATAACTTAATACAAAATGGATAATACCTTAAAATA
AAATCGTGATACTTTAAAATCATAGCAAACAAGACTTTAACGTTAAAGCGGATAATACTTTAGAA
TAAAGTAAACAATATCTTATCATGAGATTTTAAGATCAAAATGGATAAAACTGTAATACCTTAGA
GTTAAAACGGATAAAAACTTAACACAAAACCGTGATACCTAAGTCAAAGCAGACAAAATCTTAGA
ATCAAAATGGACAACATCTACAACAAAAACCGTAATATTTTAGAGTCAAAGAGGACAATAGGATA
AAAAAAGACAAATACCTTAGAGTT
Found at i:12925446 original size:22 final size:21
Alignment explanation
Indices: 12925421--12925463 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
12925411 TTATCTTGTA
* *
12925421 AAGCGCCTCACCAAATATGGGT
1 AAGCGCATCA-CAAACATGGGT
*
12925443 AAGCTCATCACAAACATGGGT
1 AAGCGCATCACAAACATGGGT
12925464 TTAAGTCTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.35, C:0.26, G:0.21, T:0.19
Consensus pattern (21 bp):
AAGCGCATCACAAACATGGGT
Found at i:12927283 original size:14 final size:14
Alignment explanation
Indices: 12927239--12927307 Score: 50
Period size: 14 Copynumber: 4.8 Consensus size: 14
12927229 TAATTGCGAT
*
12927239 AAAATAATTATAGTA
1 AAAAT-ATTATATTA
* *
12927254 AAAAAATAATTATTA
1 AAAATATTA-TATTA
*
12927269 AAGATATTATATTA
1 AAAATATTATATTA
* *
12927283 AAAATTTTATATAA
1 AAAATATTATATTA
12927297 TAAAAT-TTATA
1 -AAAATATTATA
12927308 ATATATTTGA
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
14 24 0.56
15 19 0.44
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (14 bp):
AAAATATTATATTA
Found at i:12927730 original size:12 final size:11
Alignment explanation
Indices: 12927692--12927750 Score: 57
Period size: 12 Copynumber: 5.1 Consensus size: 11
12927682 TTCACTAATA
12927692 ATTTATTTGATT
1 ATTTATTT-ATT
*
12927704 ATTAAGTTTATT
1 ATTTA-TTTATT
12927716 ATTTATTTATGT
1 ATTTATTTAT-T
12927728 ATTTA-TTATT
1 ATTTATTTATT
*
12927738 TTATTATTTATT
1 AT-TTATTTATT
12927750 A
1 A
12927751 AATAATTATA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
10 2 0.05
11 12 0.31
12 22 0.56
13 3 0.08
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (11 bp):
ATTTATTTATT
Found at i:12927736 original size:15 final size:15
Alignment explanation
Indices: 12927721--12927750 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
12927711 TTATTATTTA
12927721 TTTATGTATTTATTAT
1 TTTAT-TATTTATTAT
12927737 TTTATTATTTATTA
1 TTTATTATTTATTA
12927751 AATAATTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (15 bp):
TTTATTATTTATTAT
Found at i:12927749 original size:19 final size:19
Alignment explanation
Indices: 12927694--12927749 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
12927684 CACTAATAAT
* *
12927694 TTATTTGATTATTAAGTTTA
1 TTATTTTATTATTTA-TTTA
*
12927714 TTA-TTTATTTATGTATTTA
1 TTATTTTA-TTATTTATTTA
12927733 TTATTTTATTATTTATT
1 TTATTTTATTATTTATT
12927750 AAATAATTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
19 18 0.60
20 12 0.40
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (19 bp):
TTATTTTATTATTTATTTA
Found at i:12929065 original size:44 final size:45
Alignment explanation
Indices: 12928793--12929066 Score: 204
Period size: 45 Copynumber: 6.1 Consensus size: 45
12928783 CTTTGAGTAT
* *
12928793 AATCACTAAAATTTTTTGAATGAGAATATTTGAAAATTTGGATGTG
1 AATCACTAAAA-TTTTTGAATGAGAATCTTTGAAATTTTGGATGTG
* * *
12928839 AAAC-CTAAAATTTTTTTGAATGAGAATTTTTGAAATTTTGGATGTTA
1 AATCACTAAAA--TTTTTGAATGAGAATCTTTGAAATTTTGGATG-TG
* * * ** *
12928886 AATTA-TAAAATTTTTTAATGAGAAACTTTGAAAAATTGGATGTAA
1 AATCACTAAAATTTTTGAATGAGAATCTTTGAAATTTTGGATGT-G
* * * * * *
12928931 AAT-ACCAAAATTTTTGAATGTGAATCTTTGAAGTTTCGAATGCG
1 AATCACTAAAATTTTTGAATGAGAATCTTTGAAATTTTGGATGTG
* * * * *
12928975 AATC-GTTACATTTTTCGAATGAAAATCTTT-AACTTTTTGGCA--TG
1 AATCACTAAAATTTTT-GAATGAGAATCTTTGAA-ATTTTGG-ATGTG
* *
12929019 AATCACTAAAATTTTCGAATGAGAATCTTTG-AATTTTGGCTGTG
1 AATCACTAAAATTTTTGAATGAGAATCTTTGAAATTTTGGATGTG
12929063 AATC
1 AATC
12929067 TTGAAATCTT
Statistics
Matches: 176, Mismatches: 39, Indels: 28
0.72 0.16 0.12
Matches are distributed among these distances:
43 6 0.03
44 39 0.22
45 88 0.50
46 35 0.20
47 8 0.05
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (45 bp):
AATCACTAAAATTTTTGAATGAGAATCTTTGAAATTTTGGATGTG
Found at i:12929310 original size:18 final size:18
Alignment explanation
Indices: 12929263--12929346 Score: 95
Period size: 18 Copynumber: 4.8 Consensus size: 18
12929253 TACGAATCTA
*
12929263 AAAATTCTTGTGAATAT-
1 AAAATTCTTGTGAATTTG
*
12929280 -AAGTTCTTGTGAATTTG
1 AAAATTCTTGTGAATTTG
*
12929297 AAAATTCTTATGAATTTG
1 AAAATTCTTGTGAATTTG
*
12929315 AAAATT-TATGTGAATATG
1 AAAATTCT-TGTGAATTTG
12929333 -AAATTCTTGTGAAT
1 AAAATTCTTGTGAAT
12929347 CTTTAAATTC
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
16 14 0.25
17 13 0.23
18 30 0.53
ACGTcount: A:0.37, C:0.05, G:0.15, T:0.43
Consensus pattern (18 bp):
AAAATTCTTGTGAATTTG
Found at i:12929354 original size:18 final size:17
Alignment explanation
Indices: 12929263--12929356 Score: 84
Period size: 18 Copynumber: 5.4 Consensus size: 17
12929253 TACGAATCTA
*
12929263 AAAATTCTTGTGAATAT
1 AAAATTCTTGTGAATTT
*
12929280 -AAGTTCTTGTGAATTT
1 AAAATTCTTGTGAATTT
*
12929296 GAAAATTCTTATGAATTT
1 -AAAATTCTTGTGAATTT
*
12929314 GAAAATT-TATGTGAATAT
1 -AAAATTCT-TGTGAATTT
*
12929332 GAAATTCTTGTGAATCTT
1 AAAATTCTTGTGAAT-TT
*
12929350 TAAATTC
1 AAAATTC
12929357 ACAATCTTTA
Statistics
Matches: 63, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
16 14 0.22
17 13 0.21
18 36 0.57
ACGTcount: A:0.36, C:0.06, G:0.14, T:0.44
Consensus pattern (17 bp):
AAAATTCTTGTGAATTT
Found at i:12929386 original size:18 final size:18
Alignment explanation
Indices: 12929363--12929399 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
12929353 ATTCACAATC
12929363 TTTAAATTATTACGAATT
1 TTTAAATTATTACGAATT
*
12929381 TTTAAATTCTTACGAATT
1 TTTAAATTATTACGAATT
12929399 T
1 T
12929400 AAAATTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.35, C:0.08, G:0.05, T:0.51
Consensus pattern (18 bp):
TTTAAATTATTACGAATT
Found at i:12929485 original size:18 final size:17
Alignment explanation
Indices: 12929440--12929507 Score: 75
Period size: 17 Copynumber: 3.9 Consensus size: 17
12929430 ATTGCAAATC
**
12929440 TGAAATTCTTATGAAAC
1 TGAAATTCTTATGAATT
*
12929457 T-AAATTTCTTACGAATT
1 TGAAA-TTCTTATGAATT
*
12929474 TGAAAATTCTTATGAACT
1 TG-AAATTCTTATGAATT
12929492 TGAAATTCTTATGAAT
1 TGAAATTCTTATGAAT
12929508 CTAAAACCTT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
16 3 0.07
17 24 0.57
18 12 0.29
19 3 0.07
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.41
Consensus pattern (17 bp):
TGAAATTCTTATGAATT
Found at i:12930035 original size:41 final size:42
Alignment explanation
Indices: 12929901--12930058 Score: 174
Period size: 43 Copynumber: 3.7 Consensus size: 42
12929891 ATTTAAAGTT
* * *
12929901 TTTAAAGTTGTTTAACCTATATATAGATGAGCTTATTTTTTAA
1 TTTAAAGTTGTTTAGCCTCTATATAGAGGAGCTTA-TTTTTAA
* * *
12929944 TTTAAAATTGTTTAGCCTTTATATAGAGAAGCTTATTTCTTAA
1 TTTAAAGTTGTTTAGCCTCTATATAGAGGAGCTTATTT-TTAA
* * *
12929987 TTTAAAGTTGTTTAGCCTCTGTAAAGAGGAGC-CATTTTTAA
1 TTTAAAGTTGTTTAGCCTCTATATAGAGGAGCTTATTTTTAA
* * * *
12930028 TTTAAAGTTATTTGGCCTCTGTTTAGAGGAG
1 TTTAAAGTTGTTTAGCCTCTATATAGAGGAG
12930059 TCCGTTTGTT
Statistics
Matches: 99, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
41 31 0.31
42 7 0.07
43 61 0.62
ACGTcount: A:0.30, C:0.09, G:0.16, T:0.44
Consensus pattern (42 bp):
TTTAAAGTTGTTTAGCCTCTATATAGAGGAGCTTATTTTTAA
Found at i:12930385 original size:6 final size:6
Alignment explanation
Indices: 12930374--12930449 Score: 61
Period size: 6 Copynumber: 13.2 Consensus size: 6
12930364 AAAAGCCCAC
* * * *
12930374 AATTTT AATTTT AATGTTT -ATGTT AATTTT AATTAT AACTTT GATTTT
1 AATTTT AATTTT AAT-TTT AATTTT AATTTT AATTTT AATTTT AATTTT
* *
12930422 AATTGT GATTTT AA-TTT -A-TTT AATTTT A
1 AATTTT AATTTT AATTTT AATTTT AATTTT A
12930450 GTCCAGAAGT
Statistics
Matches: 54, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
4 4 0.07
5 6 0.11
6 41 0.76
7 3 0.06
ACGTcount: A:0.32, C:0.01, G:0.07, T:0.61
Consensus pattern (6 bp):
AATTTT
Found at i:12931191 original size:24 final size:25
Alignment explanation
Indices: 12931158--12931221 Score: 71
Period size: 24 Copynumber: 2.6 Consensus size: 25
12931148 TGGCTTTCCC
* *
12931158 TTTTTCTTTTTC-TTTTTTCTT-TT
1 TTTTTATTTTTCATTTTTCCTTATT
12931181 TATTTTA-TTTTCATTTTTCCTTATT
1 T-TTTTATTTTTCATTTTTCCTTATT
*
12931206 TTTTTATTTATCATTT
1 TTTTTATTTTTCATTT
12931222 AATTGTCATA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
23 6 0.18
24 17 0.50
25 11 0.32
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (25 bp):
TTTTTATTTTTCATTTTTCCTTATT
Found at i:12931191 original size:29 final size:29
Alignment explanation
Indices: 12931159--12931214 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
12931149 GGCTTTCCCT
* *
12931159 TTTTC-TTTTTCTTTTTTCTTTTTATTTTA
1 TTTTCATTTTTCCTTATT-TTTTTATTTTA
12931188 TTTTCATTTTTCCTTATTTTTTTATTT
1 TTTTCATTTTTCCTTATTTTTTTATTT
12931215 ATCATTTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 14 0.58
30 10 0.42
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.80
Consensus pattern (29 bp):
TTTTCATTTTTCCTTATTTTTTTATTTTA
Found at i:12931326 original size:22 final size:23
Alignment explanation
Indices: 12931301--12931353 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
12931291 TGCTTGCATA
* *
12931301 ATTAATTACGTGATTATTGAT-T
1 ATTAATTACATGATTATTAATAT
* *
12931323 ATTAATTGCATGATTTTTAATAT
1 ATTAATTACATGATTATTAATAT
12931346 ATTAATTA
1 ATTAATTA
12931354 TTATTGTATG
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 17 0.68
23 8 0.32
ACGTcount: A:0.36, C:0.04, G:0.09, T:0.51
Consensus pattern (23 bp):
ATTAATTACATGATTATTAATAT
Found at i:12931428 original size:19 final size:19
Alignment explanation
Indices: 12931391--12931429 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
12931381 ATTAATATTA
* *
12931391 TATTATTGCATGATTATAT
1 TATTATTGCATAATAATAT
*
12931410 TATTATTGCCTAATAATAT
1 TATTATTGCATAATAATAT
12931429 T
1 T
12931430 TGTTTATTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.33, C:0.08, G:0.08, T:0.51
Consensus pattern (19 bp):
TATTATTGCATAATAATAT
Found at i:12933358 original size:10 final size:10
Alignment explanation
Indices: 12933343--12933385 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
12933333 AAAAACTTCT
12933343 TTTCTTTTCC
1 TTTCTTTTCC
12933353 TTTCTTTTCC
1 TTTCTTTTCC
* *
12933363 TTTCCTTTCA
1 TTTCTTTTCC
12933373 TTT-TCTTTCC
1 TTTCT-TTTCC
12933383 TTT
1 TTT
12933386 ATTAATATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.02, C:0.28, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTCTTTTCC
Found at i:12933359 original size:15 final size:14
Alignment explanation
Indices: 12933339--12933385 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 14
12933329 TTTAAAAAAC
12933339 TTCTTTTCTTTTCCT
1 TTCTTTTC-TTTCCT
12933354 TTCTTTTCCTTTCCT
1 TTCTTTT-CTTTCCT
12933369 TTCATTTTCTTTCCT
1 TTC-TTTTCTTTCCT
12933384 TT
1 TT
12933386 ATTAATATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
15 25 0.83
16 5 0.17
ACGTcount: A:0.02, C:0.28, G:0.00, T:0.70
Consensus pattern (14 bp):
TTCTTTTCTTTCCT
Found at i:12934264 original size:7 final size:7
Alignment explanation
Indices: 12934254--12934294 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
12934244 TGGGTCAAAT
12934254 TTTTTTA
1 TTTTTTA
12934261 TTTTTTA
1 TTTTTTA
12934268 --TTTTA
1 TTTTTTA
12934273 TTTTTATA
1 TTTTT-TA
*
12934281 TTTATTA
1 TTTTTTA
12934288 TTTTTTA
1 TTTTTTA
12934295 AAAATTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
5 5 0.17
7 18 0.62
8 6 0.21
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (7 bp):
TTTTTTA
Found at i:12934273 original size:12 final size:13
Alignment explanation
Indices: 12934255--12934294 Score: 55
Period size: 12 Copynumber: 3.0 Consensus size: 13
12934245 GGGTCAAATT
12934255 TTTTTATTTTTTA
1 TTTTTATTTTTTA
12934268 -TTTTATTTTTATA
1 TTTTTATTTTT-TA
12934281 TTTATTATTTTTTA
1 TTT-TTATTTTTTA
12934295 AAAATTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 10 0.42
13 2 0.08
14 4 0.17
15 8 0.33
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:12934277 original size:20 final size:20
Alignment explanation
Indices: 12934252--12934291 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
12934242 CATGGGTCAA
* *
12934252 ATTTTTTTATTTTTTATTTT
1 ATTTTTATATTTATTATTTT
12934272 ATTTTTATATTTATTATTTT
1 ATTTTTATATTTATTATTTT
12934292 TTAAAAATTA
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:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (20 bp):
ATTTTTATATTTATTATTTT
Found at i:12934433 original size:14 final size:15
Alignment explanation
Indices: 12934388--12934434 Score: 64
Period size: 14 Copynumber: 3.3 Consensus size: 15
12934378 ATTAAAAATA
12934388 AAAAAT-AAAAGAATG
1 AAAAATGAAAAG-ATG
12934403 AAAAATGAAAA-ATG
1 AAAAATGAAAAGATG
12934417 AAAAATGAAAAGA-G
1 AAAAATGAAAAGATG
12934431 AAAA
1 AAAA
12934435 TGGAAAAACA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
14 19 0.63
15 7 0.23
16 4 0.13
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.11
Consensus pattern (15 bp):
AAAAATGAAAAGATG
Found at i:12934434 original size:21 final size:21
Alignment explanation
Indices: 12934381--12934427 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
12934371 TTATCTAATT
* *
12934381 AAAAATAAAAAATAAAAGAATG
1 AAAAATGAAAAATGAAA-AATG
12934403 AAAAATGAAAAATGAAAAATG
1 AAAAATGAAAAATGAAAAATG
12934424 AAAA
1 AAAA
12934428 GAGAAAATGG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.13
Consensus pattern (21 bp):
AAAAATGAAAAATGAAAAATG
Found at i:12934440 original size:14 final size:14
Alignment explanation
Indices: 12934399--12934441 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
12934389 AAAATAAAAG
*
12934399 AATGAAAAATGAAA
1 AATGAAAAATGGAA
12934413 AATGAAAAAT-GAA
1 AATGAAAAATGGAA
12934426 AA-GAGAAAATGGAA
1 AATGA-AAAATGGAA
12934440 AA
1 AA
12934442 ACAAAACTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 2 0.08
13 9 0.35
14 15 0.58
ACGTcount: A:0.70, C:0.00, G:0.19, T:0.12
Consensus pattern (14 bp):
AATGAAAAATGGAA
Found at i:12934441 original size:7 final size:7
Alignment explanation
Indices: 12934381--12934427 Score: 67
Period size: 7 Copynumber: 6.6 Consensus size: 7
12934371 TTATCTAATT
*
12934381 AAAAATA
1 AAAAATG
*
12934388 AAAAATA
1 AAAAATG
12934395 AAAGAATG
1 AAA-AATG
12934403 AAAAATG
1 AAAAATG
12934410 AAAAATG
1 AAAAATG
12934417 AAAAATG
1 AAAAATG
12934424 AAAA
1 AAAA
12934428 GAGAAAATGG
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
7 32 0.84
8 6 0.16
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.13
Consensus pattern (7 bp):
AAAAATG
Found at i:12937029 original size:14 final size:14
Alignment explanation
Indices: 12937010--12937041 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
12937000 TTAAGCTTTC
12937010 TTTAGTTTTCAAGA
1 TTTAGTTTTCAAGA
*
12937024 TTTAGTTTTGAAGA
1 TTTAGTTTTCAAGA
12937038 TTTA
1 TTTA
12937042 TTATTCTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.28, C:0.03, G:0.16, T:0.53
Consensus pattern (14 bp):
TTTAGTTTTCAAGA
Found at i:12938309 original size:197 final size:197
Alignment explanation
Indices: 12937970--12938366 Score: 740
Period size: 197 Copynumber: 2.0 Consensus size: 197
12937960 TTCTTAATAA
12937970 ATAATTTTAATGTTTTACCAAATAATCTTATTTAAGAAATTATTTAATTATCAAAATCTTTCAAA
1 ATAATTTTAATGTTTTACCAAATAATCTTATTTAAGAAATTATTTAATTATCAAAATCTTTCAAA
*
12938035 GATATTTAAAAAATTACAAAAATTAAGTTTATCTAAATCTTTCTGCAAATTTTTTATTCTTGATT
66 GATATTTAAAAAATTACAAAAATTAAGTTTATCTAAATCTTTCTACAAATTTTTTATTCTTGATT
*
12938100 TGAATCAATAAAAAAAATTTTCAAAAATTTACATAAGACATTAAAAATTCAAACAACTTTATGTA
131 TGAATCAATAAAAAAAATTTTCAAAAATTTACATAAGAAATTAAAAATTCAAACAACTTTATGTA
12938165 AG
196 AG
* *
12938167 ATAATTTTAGTGTTTTACCAAATAATCTTATTTAAGAAATTATTTAGTTATCAAAATCTTTCAAA
1 ATAATTTTAATGTTTTACCAAATAATCTTATTTAAGAAATTATTTAATTATCAAAATCTTTCAAA
*
12938232 GATATTTTAAAAATTACAAAAATTAAGTTTATCTAAATCTTTCTACAAATTTTTTATTCTTGATT
66 GATATTTAAAAAATTACAAAAATTAAGTTTATCTAAATCTTTCTACAAATTTTTTATTCTTGATT
*
12938297 TGAATTAATAAAAAAAATTTTCAAAAATTTACATAAGAAATTAAAAATTCAAACAACTTTATGTA
131 TGAATCAATAAAAAAAATTTTCAAAAATTTACATAAGAAATTAAAAATTCAAACAACTTTATGTA
12938362 AG
196 AG
12938364 ATA
1 ATA
12938367 TTGAAAGTTC
Statistics
Matches: 194, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
197 194 1.00
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (197 bp):
ATAATTTTAATGTTTTACCAAATAATCTTATTTAAGAAATTATTTAATTATCAAAATCTTTCAAA
GATATTTAAAAAATTACAAAAATTAAGTTTATCTAAATCTTTCTACAAATTTTTTATTCTTGATT
TGAATCAATAAAAAAAATTTTCAAAAATTTACATAAGAAATTAAAAATTCAAACAACTTTATGTA
AG
Found at i:12939545 original size:22 final size:23
Alignment explanation
Indices: 12939520--12939563 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
12939510 AAAACTCATA
*
12939520 AAAAACCCAAGA-AAAAAATGAT
1 AAAAACCCAAAACAAAAAATGAT
*
12939542 AAAAATCCAAAACAAAAAATGA
1 AAAAACCCAAAACAAAAAATGA
12939564 GTCTATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.70, C:0.14, G:0.07, T:0.09
Consensus pattern (23 bp):
AAAAACCCAAAACAAAAAATGAT
Found at i:12939839 original size:15 final size:15
Alignment explanation
Indices: 12939819--12939860 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 15
12939809 TTATATATTT
12939819 TAAAAAATAAAAAGA
1 TAAAAAATAAAAAGA
*
12939834 T-AAAAATATAAAATA
1 TAAAAAATA-AAAAGA
12939849 TAAAAAAGTAAA
1 TAAAAAA-TAAA
12939861 GAAAGCAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
14 7 0.30
15 7 0.30
16 7 0.30
17 2 0.09
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (15 bp):
TAAAAAATAAAAAGA
Found at i:12940326 original size:13 final size:13
Alignment explanation
Indices: 12940298--12940338 Score: 64
Period size: 13 Copynumber: 3.1 Consensus size: 13
12940288 TAAAATATTT
12940298 ATTAAATATAAAAA
1 ATTAAATAT-AAAA
*
12940312 ATTAAAAATAAAA
1 ATTAAATATAAAA
12940325 ATTAAATATAAAA
1 ATTAAATATAAAA
12940338 A
1 A
12940339 GAAAAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 17 0.68
14 8 0.32
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (13 bp):
ATTAAATATAAAA
Found at i:12948936 original size:44 final size:44
Alignment explanation
Indices: 12948886--12948978 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 44
12948876 ATGCTTAAAT
* * * *
12948886 AATAAAGTTCTCAAAATATAAATAAAGCATTGTAAATGAATTAC
1 AATAAAGTCCTCAAAATATAAATAAAACATTGCAAAGGAATTAC
** *
12948930 AATAAAGTCCTCGGAATATAAATAAAACATTGCAAGGGAATTAC
1 AATAAAGTCCTCAAAATATAAATAAAACATTGCAAAGGAATTAC
12948974 AATAA
1 AATAA
12948979 GATTATAAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.52, C:0.11, G:0.12, T:0.26
Consensus pattern (44 bp):
AATAAAGTCCTCAAAATATAAATAAAACATTGCAAAGGAATTAC
Found at i:12953143 original size:18 final size:18
Alignment explanation
Indices: 12953096--12953143 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 18
12953086 ATGACAAATT
12953096 ATTAATTAAA-ATAAAAA
1 ATTAATTAAATATAAAAA
*
12953113 AATATATTAAAATATAAAAA
1 ATTA-ATT-AAATATAAAAA
*
12953133 TTTAATTAAAT
1 ATTAATTAAAT
12953144 TCGTAAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
17 3 0.12
18 7 0.28
19 6 0.24
20 9 0.36
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
ATTAATTAAATATAAAAA
Found at i:12953927 original size:9 final size:9
Alignment explanation
Indices: 12953904--12953937 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
12953894 ATATAAAAAT
*
12953904 AATTTAATA
1 AATTTTATA
*
12953913 ATTTTTATA
1 AATTTTATA
12953922 AATTTTATA
1 AATTTTATA
12953931 AATTTTA
1 AATTTTA
12953938 AATAATTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
AATTTTATA
Found at i:12953931 original size:18 final size:18
Alignment explanation
Indices: 12953904--12953961 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
12953894 ATATAAAAAT
*
12953904 AATTTAATAATTTTTATA
1 AATTTTATAATTTTTATA
*
12953922 AATTTTATAAATTTTA-A
1 AATTTTATAATTTTTATA
* *
12953939 ATAATTTAAAATTTTTATTA
1 A-ATTTTATAATTTTTA-TA
12953959 AAT
1 AAT
12953962 ATAAATTGTA
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
17 2 0.06
18 26 0.84
19 1 0.03
20 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
AATTTTATAATTTTTATA
Found at i:12960343 original size:19 final size:20
Alignment explanation
Indices: 12960307--12960376 Score: 115
Period size: 21 Copynumber: 3.5 Consensus size: 20
12960297 ATGATTGTAT
12960307 GAATGAGGAAATTTTGAGTGA
1 GAATGAGGAAA-TTTGAGTGA
12960328 GAATGAGG-AATTTGAGTGA
1 GAATGAGGAAATTTGAGTGA
12960347 GAATGAGGAAAATTTGAGTGA
1 GAATGAGG-AAATTTGAGTGA
12960368 GAATGAGGA
1 GAATGAGGA
12960377 TCCTGCAACT
Statistics
Matches: 47, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
19 17 0.36
20 3 0.06
21 27 0.57
ACGTcount: A:0.40, C:0.00, G:0.36, T:0.24
Consensus pattern (20 bp):
GAATGAGGAAATTTGAGTGA
Found at i:12971182 original size:17 final size:18
Alignment explanation
Indices: 12971162--12971199 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
12971152 TATATTTTTC
*
12971162 AAAAAAATAAAATA-TAA
1 AAAAAAACAAAATACTAA
*
12971179 AAAATAACAAAATACTAA
1 AAAAAAACAAAATACTAA
12971197 AAA
1 AAA
12971200 TATTTAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.16
Consensus pattern (18 bp):
AAAAAAACAAAATACTAA
Found at i:12971466 original size:6 final size:6
Alignment explanation
Indices: 12971457--12971491 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
12971447 ACATCTCGTC
12971457 TCTTTA TCTTTA TCTTTA TCTTTA TCTTTA TCTTT
1 TCTTTA TCTTTA TCTTTA TCTTTA TCTTTA TCTTT
12971492 TTTTTTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (6 bp):
TCTTTA
Found at i:12972932 original size:36 final size:37
Alignment explanation
Indices: 12972875--12972961 Score: 97
Period size: 36 Copynumber: 2.4 Consensus size: 37
12972865 TGCTGTTATT
*
12972875 GGGTTAGGG-TTTGAGATTTCAACAGACTAGGAAATG
1 GGGTTAGGGATTTGGGATTTCAACAGACTAGGAAATG
* ** **
12972911 GTGTTAGGGATTTGGGA-TTCAATTGGTTAGGAAATG
1 GGGTTAGGGATTTGGGATTTCAACAGACTAGGAAATG
*
12972947 GGGTTATGGATTTGG
1 GGGTTAGGGATTTGG
12972962 AGTTTTAATT
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
36 36 0.86
37 6 0.14
ACGTcount: A:0.25, C:0.05, G:0.37, T:0.33
Consensus pattern (37 bp):
GGGTTAGGGATTTGGGATTTCAACAGACTAGGAAATG
Found at i:12973388 original size:22 final size:21
Alignment explanation
Indices: 12973345--12973395 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
12973335 TTAGTTCTTA
* *
12973345 AATTTTATGGATTATTTGGATT
1 AATTTT-TCGATTATTTAGATT
*
12973367 ATTTTTTCGATTATCTTAGATT
1 AATTTTTCGATTAT-TTAGATT
12973389 AATTTTT
1 AATTTTT
12973396 ATTTTTCATT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.25, C:0.04, G:0.12, T:0.59
Consensus pattern (21 bp):
AATTTTTCGATTATTTAGATT
Found at i:12976935 original size:27 final size:27
Alignment explanation
Indices: 12976882--12976935 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
12976872 TAAAGCTGGA
*
12976882 GTTGAAACTAGAATGGAAACTGGATTT
1 GTTGAAACTAGAATGGAAACTGAATTT
* * * *
12976909 GTTGAAGCTAGATTTGAAATTGAATTT
1 GTTGAAACTAGAATGGAAACTGAATTT
12976936 AGGGTTTGTG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.35
Consensus pattern (27 bp):
GTTGAAACTAGAATGGAAACTGAATTT
Found at i:12978403 original size:79 final size:79
Alignment explanation
Indices: 12978312--12978468 Score: 287
Period size: 79 Copynumber: 2.0 Consensus size: 79
12978302 TAAAGTATTC
*
12978312 AGTACATAATTTAATTTAAATCTGCATAAAATATTTACCTTTTGTTGATCTGTCATGATTGTCCA
1 AGTACATAATTTAATTTAAATCTGCATAAAATATTTACCCTTTGTTGATCTGTCATGATTGTCCA
12978377 TCCTATACCATTTT
66 TCCTATACCATTTT
*
12978391 AGTACATAATTTAATTTAAATCTGCATAAAATATTTACCCTTTGTTGATCTGTCATGATTGTCCG
1 AGTACATAATTTAATTTAAATCTGCATAAAATATTTACCCTTTGTTGATCTGTCATGATTGTCCA
*
12978456 TCTTATACCATTT
66 TCCTATACCATTT
12978469 CCCAAAGATA
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
79 75 1.00
ACGTcount: A:0.30, C:0.17, G:0.10, T:0.44
Consensus pattern (79 bp):
AGTACATAATTTAATTTAAATCTGCATAAAATATTTACCCTTTGTTGATCTGTCATGATTGTCCA
TCCTATACCATTTT
Found at i:12980230 original size:32 final size:32
Alignment explanation
Indices: 12980180--12980257 Score: 102
Period size: 32 Copynumber: 2.4 Consensus size: 32
12980170 TGCATGTTCG
* ** *
12980180 TTACATTGTTATCTAATTTATACTATAATCTT
1 TTACTTTGTTATAAAATTTATACTATAAGCTT
* *
12980212 TTACTTTGTTATAAAATTTCTATTATAAGCTT
1 TTACTTTGTTATAAAATTTATACTATAAGCTT
12980244 TTACTTTGTTATAA
1 TTACTTTGTTATAA
12980258 CCAAGGGTCT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.31, C:0.10, G:0.05, T:0.54
Consensus pattern (32 bp):
TTACTTTGTTATAAAATTTATACTATAAGCTT
Found at i:12980856 original size:42 final size:42
Alignment explanation
Indices: 12980809--12980956 Score: 167
Period size: 42 Copynumber: 3.5 Consensus size: 42
12980799 AAATTCAAGT
*
12980809 AATTAAGAATAACAACAAAAAATTCTAACTATAATTTTGAGC
1 AATTAAGAACAACAACAAAAAATTCTAACTATAATTTTGAGC
* * * * *
12980851 AATTAAGAATAACAGCATAAAACTT-TAATTATAATTTTGACC
1 AATTAAGAACAACAACA-AAAAATTCTAACTATAATTTTGAGC
* *
12980893 AATTAAGAACAACAA-AAAAAAATCTCATAC-ATAAATTTGAGC
1 AATTAAGAACAACAACAAAAAATTCT-A-ACTATAATTTTGAGC
*
12980935 AATTAAGAACAACATCAAAAAA
1 AATTAAGAACAACAACAAAAAA
12980957 CCATAAATTA
Statistics
Matches: 89, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
40 5 0.06
41 2 0.02
42 69 0.78
43 13 0.15
ACGTcount: A:0.55, C:0.13, G:0.07, T:0.26
Consensus pattern (42 bp):
AATTAAGAACAACAACAAAAAATTCTAACTATAATTTTGAGC
Found at i:12981113 original size:12 final size:12
Alignment explanation
Indices: 12981096--12981132 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
12981086 AATATGTGTA
12981096 CATATTATTCAC
1 CATATTATTCAC
12981108 CATATTATTCAC
1 CATATTATTCAC
*
12981120 TATATTATTCAC
1 CATATTATTCAC
12981132 C
1 C
12981133 TTACACAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.32, C:0.24, G:0.00, T:0.43
Consensus pattern (12 bp):
CATATTATTCAC
Found at i:12986358 original size:17 final size:18
Alignment explanation
Indices: 12986333--12986366 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
12986323 ATAGAAAAAG
*
12986333 AAAAGAACCTA-AATGGA
1 AAAAAAACCTATAATGGA
12986350 AAAAAAACCTATAATGG
1 AAAAAAACCTATAATGG
12986367 TTGGGCATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.59, C:0.12, G:0.15, T:0.15
Consensus pattern (18 bp):
AAAAAAACCTATAATGGA
Found at i:12989028 original size:13 final size:11
Alignment explanation
Indices: 12988999--12989029 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
12988989 AAGAAAGAAA
12988999 AAATATATACG
1 AAATATATACG
12989010 AAATATATACG
1 AAATATATACG
12989021 AAATATATA
1 AAATATATA
12989030 AGAATATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.29
Consensus pattern (11 bp):
AAATATATACG
Found at i:12989334 original size:17 final size:17
Alignment explanation
Indices: 12989312--12989344 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
12989302 TCATTTTGTT
*
12989312 AAAATAATAAATATAAA
1 AAAATAATAAAAATAAA
12989329 AAAATAATAAAAATAA
1 AAAATAATAAAAATAA
12989345 TAGTATAAGA
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:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (17 bp):
AAAATAATAAAAATAAA
Found at i:12989340 original size:9 final size:9
Alignment explanation
Indices: 12989312--12989346 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
12989302 TCATTTTGTT
12989312 AAAATAATA
1 AAAATAATA
*
12989321 AATATAA-A
1 AAAATAATA
12989329 AAAATAATA
1 AAAATAATA
12989338 AAAATAATA
1 AAAATAATA
12989347 GTATAAGATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
8 7 0.30
9 16 0.70
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (9 bp):
AAAATAATA
Found at i:12991344 original size:15 final size:15
Alignment explanation
Indices: 12991326--12991355 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
12991316 AAGTTGGCTA
*
12991326 GGATCATGGAAATTG
1 GGATCAAGGAAATTG
12991341 GGATCAAGGAAATTG
1 GGATCAAGGAAATTG
12991356 ATAAACATAA
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:0.37, C:0.07, G:0.33, T:0.23
Consensus pattern (15 bp):
GGATCAAGGAAATTG
Found at i:12994304 original size:10 final size:10
Alignment explanation
Indices: 12994289--12994318 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
12994279 ATTGAGCCTT
12994289 TATATTTTAA
1 TATATTTTAA
12994299 TATATTTTAA
1 TATATTTTAA
12994309 T-TATTTTAA
1 TATATTTTAA
12994318 T
1 T
12994319 TAATAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TATATTTTAA
Found at i:12994315 original size:9 final size:9
Alignment explanation
Indices: 12994291--12994320 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
12994281 TGAGCCTTTA
12994291 TATTTTAAT
1 TATTTTAAT
12994300 ATATTTTAAT
1 -TATTTTAAT
12994310 TATTTTAAT
1 TATTTTAAT
12994319 TA
1 TA
12994321 ATAAAATATC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
TATTTTAAT
Found at i:12995379 original size:16 final size:16
Alignment explanation
Indices: 12995360--12995394 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
12995350 ATGGGTAATG
*
12995360 AAAAATATGCAAGGAT
1 AAAAAAATGCAAGGAT
*
12995376 AAAAAAATGCATGGAT
1 AAAAAAATGCAAGGAT
12995392 AAA
1 AAA
12995395 GTAAGGACCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.60, C:0.06, G:0.17, T:0.17
Consensus pattern (16 bp):
AAAAAAATGCAAGGAT
Found at i:13003292 original size:35 final size:35
Alignment explanation
Indices: 13003253--13003328 Score: 107
Period size: 35 Copynumber: 2.2 Consensus size: 35
13003243 ATGTATATTC
*
13003253 ATCATCTTTATCCTTCAACTTACAGTTTAATCTAG
1 ATCATCTTTATCCTTCAACTTACAATTTAATCTAG
* * * *
13003288 ATCATTTTTATCCTTCGACTTGCAATTTAATCTTG
1 ATCATCTTTATCCTTCAACTTACAATTTAATCTAG
13003323 ATCATC
1 ATCATC
13003329 GTCATTTCTC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.45
Consensus pattern (35 bp):
ATCATCTTTATCCTTCAACTTACAATTTAATCTAG
Found at i:13007661 original size:3 final size:3
Alignment explanation
Indices: 13007653--13007690 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
13007643 GAATTTATGC
13007653 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
13007691 GATTTTAAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:13009704 original size:11 final size:11
Alignment explanation
Indices: 13009690--13009722 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
13009680 ATATATTTTA
*
13009690 AAAAATTAAAT
1 AAAAATAAAAT
13009701 AAAAATAAAAT
1 AAAAATAAAAT
13009712 -AAAATAAAAT
1 AAAAATAAAAT
13009722 A
1 A
13009723 TTTATCAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:13010238 original size:12 final size:15
Alignment explanation
Indices: 13010199--13010232 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
13010189 GGAGGAGACG
13010199 GCGGTGGTGGAGGTT
1 GCGGTGGTGGAGGTT
13010214 GCGGTGGTGGAGGTT
1 GCGGTGGTGGAGGTT
13010229 GCGG
1 GCGG
13010233 GGGAGGGGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.06, C:0.09, G:0.62, T:0.24
Consensus pattern (15 bp):
GCGGTGGTGGAGGTT
Found at i:13013424 original size:30 final size:30
Alignment explanation
Indices: 13013388--13013451 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
13013378 AATCATAAAT
13013388 TATTTACTTTAATTTTTTAAATATAAATAG
1 TATTTACTTTAATTTTTTAAATATAAATAG
13013418 TATTTACTTTAATTTTTTAAATATAAATAG
1 TATTTACTTTAATTTTTTAAATATAAATAG
13013448 TATT
1 TATT
13013452 AATCTTAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (30 bp):
TATTTACTTTAATTTTTTAAATATAAATAG
Found at i:13016002 original size:19 final size:21
Alignment explanation
Indices: 13015948--13016002 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
13015938 CTAAAATCTC
13015948 TAAAAGTACAAAAATGATAAAA
1 TAAAAGTA-AAAAATGATAAAA
*
13015970 T-AAATTAAAGAAAT-A-AAAA
1 TAAAAGTAAA-AAATGATAAAA
13015989 TAAAAGTAAAAAAT
1 TAAAAGTAAAAAAT
13016003 TACAAAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
19 9 0.31
20 10 0.34
21 9 0.31
22 1 0.03
ACGTcount: A:0.71, C:0.02, G:0.07, T:0.20
Consensus pattern (21 bp):
TAAAAGTAAAAAATGATAAAA
Found at i:13020864 original size:144 final size:142
Alignment explanation
Indices: 13020649--13020911 Score: 359
Period size: 144 Copynumber: 1.8 Consensus size: 142
13020639 TCATTTTTAG
* * *
13020649 GATTTTAAAGCACCAAAAATAATGAAATATTATATAATTGAGATATTGAAAGTTTCATAAAAATC
1 GATTTAAAAGCACCAAAAATAATGAAATATTATAGAATTAAGATATTGAAAGTTTCATAAAAATC
*
13020714 TAAGCTT-AGAAAGGCCAATTTACAAAAATACCCTTTAAAGGGTATTTTAGTAATTTCACACATT
66 TAAGCTTGAG-AA-GCCAAATTACAAAAATA-CCTTTAAAGGGTATTTTAGTAATTTCACACATT
13020778 TGGGGATACTATTAT
128 TGGGGATACTATTAT
* * * * * *
13020793 GATTTAAAAGCACTAAAAATCATGAAATATTATGGAATTAAGAT-TTGAAAATTTTCATGAAACT
1 GATTTAAAAGCACCAAAAATAATGAAATATTATAGAATTAAGATATTG-AAAGTTTCATAAAAAT
* * *
13020857 TTGAGCTTGAGAAGCTAAATTACAAAAATACCTTTAAAGGGTATTTTAGTAATTT
65 CTAAGCTTGAGAAGCCAAATTACAAAAATACCTTTAAAGGGTATTTTAGTAATTT
13020912 TATAATCCCC
Statistics
Matches: 104, Mismatches: 13, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
142 25 0.24
143 18 0.17
144 59 0.57
145 2 0.02
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.34
Consensus pattern (142 bp):
GATTTAAAAGCACCAAAAATAATGAAATATTATAGAATTAAGATATTGAAAGTTTCATAAAAATC
TAAGCTTGAGAAGCCAAATTACAAAAATACCTTTAAAGGGTATTTTAGTAATTTCACACATTTGG
GGATACTATTAT
Found at i:13021614 original size:107 final size:107
Alignment explanation
Indices: 13021503--13021714 Score: 266
Period size: 107 Copynumber: 2.0 Consensus size: 107
13021493 TCACAGGTTG
* * *
13021503 AAAAAACAAATATGACTTG-GACAACATTAAAAATCAAAAAATAAATATGATT-AGGATAACACT
1 AAAAAACAAATATGAC-TGAGACAACACTAAAAATCAAAAAATAAAGATGATTGA-GATAACACC
* *
13021566 GTAGATTAGAAAAATAAAAATGACTGGGACAACACCAATGGTCA
64 GTAGATCAAAAAAATAAAAATGACTGGGACAACACCAATGGTCA
* ** * * *
13021610 AAAAAACAAATATGACTGAGATAACACTACCAGTCGAAAAATAAAGATGATTGAGATAGCACCGT
1 AAAAAACAAATATGACTGAGACAACACTAAAAATCAAAAAATAAAGATGATTGAGATAACACCGT
* * *
13021675 AGATCAAAAAAATAGAGATGATTGGGACAACACCAATGGT
66 AGATCAAAAAAATAAAAATGACTGGGACAACACCAATGGT
13021715 TAGGAGGTTA
Statistics
Matches: 89, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
106 2 0.02
107 86 0.97
108 1 0.01
ACGTcount: A:0.51, C:0.13, G:0.17, T:0.19
Consensus pattern (107 bp):
AAAAAACAAATATGACTGAGACAACACTAAAAATCAAAAAATAAAGATGATTGAGATAACACCGT
AGATCAAAAAAATAAAAATGACTGGGACAACACCAATGGTCA
Found at i:13021796 original size:36 final size:36
Alignment explanation
Indices: 13021726--13021838 Score: 95
Period size: 36 Copynumber: 3.1 Consensus size: 36
13021716 AGGAGGTTAT
* * *
13021726 GATGACCAGGATAACACTAATGGTTCAGATGATAAA
1 GATGACCAGGACAACACTAATGGATCAGAAGATAAA
*
13021762 GATGACCTGGACAACACTAAT-GATCAGAAAGATAAA
1 GATGACCAGGACAACACTAATGGATCAG-AAGATAAA
* * * * * * *
13021798 AATGATCAAGACAACGCCAACGG-TTATGAAGATAAA
1 GATGACCAGGACAACACTAATGGATCA-GAAGATAAA
13021834 GATGA
1 GATGA
13021839 TCGAAACATC
Statistics
Matches: 61, Mismatches: 13, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
35 5 0.08
36 54 0.89
37 2 0.03
ACGTcount: A:0.45, C:0.15, G:0.21, T:0.19
Consensus pattern (36 bp):
GATGACCAGGACAACACTAATGGATCAGAAGATAAA
Found at i:13021906 original size:36 final size:35
Alignment explanation
Indices: 13021829--13021939 Score: 113
Period size: 35 Copynumber: 3.1 Consensus size: 35
13021819 GGTTATGAAG
* * *
13021829 ATAAAGATGA-TCGAAACATCACTATAAGT-TAAAAA
1 ATAAAGATGACT-GAGACAACACTA-AAGTCAAAAAA
13021864 ATAAAGATGACTGAGACAACACTACAAGTCAAAAAA
1 ATAAAGATGACTGAGACAACACTA-AAGTCAAAAAA
*
13021900 ATAAAGATGAAC-G-GACAACACCAATAGTCAAAAAA
1 ATAAAGATG-ACTGAGACAACACTAA-AGTCAAAAAA
13021935 ATAAA
1 ATAAA
13021940 TTGATCAAAA
Statistics
Matches: 67, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
34 1 0.01
35 48 0.72
36 16 0.24
37 2 0.03
ACGTcount: A:0.57, C:0.14, G:0.13, T:0.16
Consensus pattern (35 bp):
ATAAAGATGACTGAGACAACACTAAAGTCAAAAAA
Found at i:13022178 original size:70 final size:70
Alignment explanation
Indices: 13022034--13022184 Score: 166
Period size: 70 Copynumber: 2.1 Consensus size: 70
13022024 GATATGGAGG
* *
13022034 TAAAGATGA-CTGAGACAACACCAATGGTCGGGAAGATAAAATAACCAGGACAACAGCAATGGTC
1 TAAAGATGATC-GA-ACAACACCAACGGTCGGGAAGATAAAATAACCAGGACAACAGCAATGATC
13022098 AAGAAAA
64 AAGAAAA
* * * * *
13022105 TAAATATGATCGAACAACACCAACGGTTGGGAAG-TAAAGATAATCGGGATAACA-CTAATGATC
1 TAAAGATGATCGAACAACACCAACGGTCGGGAAGATAAA-ATAACCAGGACAACAGC-AATGATC
13022168 AA-AAAGA
64 AAGAAA-A
13022175 TAAAGATGAT
1 TAAAGATGAT
13022185 TGGGACAACA
Statistics
Matches: 68, Mismatches: 8, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
69 8 0.12
70 49 0.72
71 10 0.15
72 1 0.01
ACGTcount: A:0.48, C:0.15, G:0.21, T:0.17
Consensus pattern (70 bp):
TAAAGATGATCGAACAACACCAACGGTCGGGAAGATAAAATAACCAGGACAACAGCAATGATCAA
GAAAA
Found at i:13022179 original size:36 final size:35
Alignment explanation
Indices: 13022136--13022213 Score: 102
Period size: 36 Copynumber: 2.2 Consensus size: 35
13022126 AACGGTTGGG
*
13022136 AAGTAAAGATAATCGGGATAACACTAATGATCAAA
1 AAGTAAAGATAATCGGGACAACACTAATGATCAAA
* * * *
13022171 AAGATAAAGATGATTGGGACAACACTAATGGTCAAG
1 AAG-TAAAGATAATCGGGACAACACTAATGATCAAA
13022207 AAGTAAA
1 AAGTAAA
13022214 AATGACTGAG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 7 0.19
36 30 0.81
ACGTcount: A:0.50, C:0.10, G:0.21, T:0.19
Consensus pattern (35 bp):
AAGTAAAGATAATCGGGACAACACTAATGATCAAA
Found at i:13022236 original size:35 final size:35
Alignment explanation
Indices: 13022033--13022237 Score: 132
Period size: 35 Copynumber: 5.8 Consensus size: 35
13022023 TGATATGGAG
**
13022033 GTAAAGATGACTGAGACAACACCAATGGTCGGGAA
1 GTAAAGATGACTGAGACAACACCAATGGTCAAGAA
* * *
13022068 GATAAA-ATAAC-CAGGACAACAGCAATGGTCAAGAAA
1 G-TAAAGATGACTGA-GACAACACCAATGGTCAAG-AA
* * * ***
13022104 ATAAATATGA-TCGA-ACAACACCAACGGTTGGGAA
1 GTAAAGATGACT-GAGACAACACCAATGGTCAAGAA
* * * * * *
13022138 GTAAAGAT-AATCGGGATAACACTAATGATCAAAAA
1 GTAAAGATGACT-GAGACAACACCAATGGTCAAGAA
* * *
13022173 GATAAAGATGATTGGGACAACACTAATGGTCAAGAA
1 G-TAAAGATGACTGAGACAACACCAATGGTCAAGAA
*
13022209 GTAAAAATGACTGAGACAACACCAATGGT
1 GTAAAGATGACTGAGACAACACCAATGGT
13022238 TGAGAAAATG
Statistics
Matches: 128, Mismatches: 32, Indels: 20
0.71 0.18 0.11
Matches are distributed among these distances:
33 1 0.01
34 12 0.09
35 75 0.59
36 37 0.29
37 3 0.02
ACGTcount: A:0.46, C:0.15, G:0.22, T:0.17
Consensus pattern (35 bp):
GTAAAGATGACTGAGACAACACCAATGGTCAAGAA
Found at i:13022502 original size:36 final size:35
Alignment explanation
Indices: 13022444--13022599 Score: 118
Period size: 36 Copynumber: 4.4 Consensus size: 35
13022434 CAATGGTAAA
* ** * **
13022444 AAAGATAAAGATTACCGAGACAACACCAATTATCTG
1 AAAGATAAAGATGATTGGGACAACACCAACGATC-G
* * *
13022480 AAAGATAATGATGATTGGGACAACACCAACAATTGG
1 AAAGATAAAGATGATTGGGACAACACCAACGA-TCG
* * *
13022516 AAGGATAAAGATGATTGAG-CAACACTAACGATCG
1 AAAGATAAAGATGATTGGGACAACACCAACGATCG
* * * * *
13022550 AAAGATAAAGTTGAGTAGGAGAACACCAATGATCG
1 AAAGATAAAGATGATTGGGACAACACCAACGATCG
13022585 AAAAGAT-AAGATGAT
1 -AAAGATAAAGATGAT
13022600 CGAAAGAACA
Statistics
Matches: 93, Mismatches: 24, Indels: 7
0.75 0.19 0.06
Matches are distributed among these distances:
34 16 0.17
35 28 0.30
36 48 0.52
37 1 0.01
ACGTcount: A:0.47, C:0.13, G:0.21, T:0.19
Consensus pattern (35 bp):
AAAGATAAAGATGATTGGGACAACACCAACGATCG
Found at i:13022736 original size:36 final size:36
Alignment explanation
Indices: 13022657--13022811 Score: 125
Period size: 36 Copynumber: 4.3 Consensus size: 36
13022647 TTACATTTGG
* * * * **
13022657 AAAGATAAAGATGACCAGGACAACACCAATGGTTGA
1 AAAGATAAAGATGACTAAGACAACACTAATAGTCAA
* * *
13022693 GAGGATAAAGATGACTAAGACAACAC-CATCAGTCAA
1 AAAGATAAAGATGACTAAGACAACACTAAT-AGTCAA
* * * *
13022729 AAAGATAAAGATAACCAAGACAACACTAATGGTCAG
1 AAAGATAAAGATGACTAAGACAACACTAATAGTCAA
* * **
13022765 AAAGATAAAGATGATTAAGATAACACTAAT-GATTGA
1 AAAGATAAAGATGACTAAGACAACACTAATAG-TCAA
13022801 AAAGATAAAGA
1 AAAGATAAAGA
13022812 ATAAAATTTC
Statistics
Matches: 94, Mismatches: 22, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
35 3 0.03
36 89 0.95
37 2 0.02
ACGTcount: A:0.52, C:0.14, G:0.19, T:0.16
Consensus pattern (36 bp):
AAAGATAAAGATGACTAAGACAACACTAATAGTCAA
Found at i:13022804 original size:72 final size:72
Alignment explanation
Indices: 13022429--13022811 Score: 217
Period size: 72 Copynumber: 5.4 Consensus size: 72
13022419 TGACCAGGAT
* ** * * * ** * *
13022429 AACACCAATGGTAAAAAAGATAAAGATTACCGAGACAACACCAATTATCTGAAAGATAATGATGA
1 AACACCAATGATTGAAAAGATAAAGATAACCAAGACAACACTAATGGTCAGAAAGATAAAGATGA
**
13022494 TTGGGAC
66 TTAAGAC
** * * * *** * * *
13022501 AACACCAACAATTGGAAGGATAAAGATGATTGAG-CAACACTAACGATC-GAAAGATAAAGTTGA
1 AACACCAATGATTGAAAAGATAAAGATAACCAAGACAACACTAATGGTCAGAAAGATAAAGATGA
* * *
13022564 GTAGGAG
66 TTAAGAC
* * * * * * *
13022571 AACACCAATGATCGAAAAGAT-AAGATGATCGAA-AGAACACTAATAGTAAAAAAGATAAAGAT-
1 AACACCAATGATTGAAAAGATAAAGAT-AACCAAGACAACACTAATGGTCAGAAAGATAAAGATG
* *
13022633 ATATGAGGC
65 AT-TAAGAC
* * * * * * *
13022642 AACACTTACAT--TTGGAAAGATAAAGATGACCAGGACAACACCAATGGT-TGAGAGGATAAAGA
1 AACAC-CA-ATGATTGAAAAGATAAAGATAACCAAGACAACACTAATGGTCAGA-AAGATAAAGA
*
13022704 TGACTAAGAC
63 TGATTAAGAC
* **
13022714 AACACC-ATCAGTCAAAAAGATAAAGATAACCAAGACAACACTAATGGTCAGAAAGATAAAGATG
1 AACACCAATGA-TTGAAAAGATAAAGATAACCAAGACAACACTAATGGTCAGAAAGATAAAGATG
*
13022778 ATTAAGAT
65 ATTAAGAC
*
13022786 AACACTAATGATTGAAAAGATAAAGA
1 AACACCAATGATTGAAAAGATAAAGA
13022812 ATAAAATTTC
Statistics
Matches: 225, Mismatches: 71, Indels: 30
0.69 0.22 0.09
Matches are distributed among these distances:
69 7 0.03
70 44 0.20
71 40 0.18
72 126 0.56
73 8 0.04
ACGTcount: A:0.49, C:0.14, G:0.19, T:0.18
Consensus pattern (72 bp):
AACACCAATGATTGAAAAGATAAAGATAACCAAGACAACACTAATGGTCAGAAAGATAAAGATGA
TTAAGAC
Found at i:13036712 original size:134 final size:133
Alignment explanation
Indices: 13036470--13036746 Score: 500
Period size: 134 Copynumber: 2.1 Consensus size: 133
13036460 TGCATTATTA
*
13036470 TTAGACCAATTTGATTTTTCCTTCTTTCTTGGGTTATTTTTCCACTTTCGAGCTATTTTCTTCTA
1 TTAGACCAATTTGATTTTTCCTTCTTTATTGGGTTATTTTTCCACTTTCGAGCTATTTTCTTCTA
*
13036535 GGCCATTTAGGATTAGGCCATTTAGTGGAAATCAATGGTTTTTTTTTATTATTATTGGGCTATTT
66 AGCCATTTAGGATTAGGCCATTTAGTGGAAATCAATGGTTTTTTTTTATTATTATTGGGCTATTT
13036600 TGT
131 TGT
*
13036603 TTAGACCAATTTGATTTTTCCTTCTTTATTGGGTTATTTTTCCACTTTTCGGGCTATTTTCTTCT
1 TTAGACCAATTTGATTTTTCCTTCTTTATTGGGTTATTTTTCCAC-TTTCGAGCTATTTTCTTCT
13036668 AAGCCATTTAGGATTAGGCCATTTAGTGGAAATCAAGTGGTTTTTTTTTATTATTATTGGGCTAT
65 AAGCCATTTAGGATTAGGCCATTTAGTGGAAATCAA-TGGTTTTTTTTTATTATTATTGGGCTAT
13036733 TTTGT
129 TTTGT
*
13036738 TTAGGCCAA
1 TTAGACCAA
13036747 AATTTAATGA
Statistics
Matches: 138, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
133 44 0.32
134 53 0.38
135 41 0.30
ACGTcount: A:0.19, C:0.14, G:0.17, T:0.49
Consensus pattern (133 bp):
TTAGACCAATTTGATTTTTCCTTCTTTATTGGGTTATTTTTCCACTTTCGAGCTATTTTCTTCTA
AGCCATTTAGGATTAGGCCATTTAGTGGAAATCAATGGTTTTTTTTTATTATTATTGGGCTATTT
TGT
Found at i:13042708 original size:27 final size:27
Alignment explanation
Indices: 13042665--13042723 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
13042655 TATATAAAAT
* *
13042665 AAAT-TTATATAATATA-TATGATTTTA
1 AAATATTATATAACATATTAT-ATATTA
13042691 AAATATTATATAACATATTATATATTA
1 AAATATTATATAACATATTATATATTA
13042718 AAATAT
1 AAATAT
13042724 ATTTAAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 4 0.14
27 22 0.76
28 3 0.10
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (27 bp):
AAATATTATATAACATATTATATATTA
Found at i:13044491 original size:16 final size:18
Alignment explanation
Indices: 13044470--13044502 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
13044460 CAGAGCAGTT
13044470 GAGAAG-GATA-TCATTG
1 GAGAAGAGATATTCATTG
13044486 GAGAAGAGATATTCATT
1 GAGAAGAGATATTCATT
13044503 TGCATCCGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.39, C:0.06, G:0.27, T:0.27
Consensus pattern (18 bp):
GAGAAGAGATATTCATTG
Found at i:13056074 original size:17 final size:16
Alignment explanation
Indices: 13056052--13056103 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 16
13056042 ATTATTTATT
13056052 TAAATAATATATATTAA
1 TAAATAA-ATATATTAA
* *
13056069 TAAATAACATATATCAT
1 TAAATAA-ATATATTAA
13056086 TAAATAAATATTATTAA
1 TAAATAAATA-TATTAA
13056103 T
1 T
13056104 TATTTAATTA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
16 3 0.10
17 26 0.90
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (16 bp):
TAAATAAATATATTAA
Found at i:13059421 original size:16 final size:17
Alignment explanation
Indices: 13059400--13059434 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
13059390 CCGCCCTCCG
13059400 CCCTCTCCCTC-TCCCT
1 CCCTCTCCCTCGTCCCT
13059416 CCCTCTCCCTCGTCCCT
1 CCCTCTCCCTCGTCCCT
13059433 CC
1 CC
13059435 TACGAAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.00, C:0.69, G:0.03, T:0.29
Consensus pattern (17 bp):
CCCTCTCCCTCGTCCCT
Found at i:13059862 original size:15 final size:17
Alignment explanation
Indices: 13059834--13059869 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
13059824 CCCTATATTT
13059834 GTTTATTTTATTTTTAA
1 GTTTATTTTATTTTTAA
13059851 GTTT-TTTT-TTTTTAA
1 GTTTATTTTATTTTTAA
13059866 -TTTA
1 GTTTA
13059870 AAAATCAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
14 3 0.17
15 7 0.39
16 4 0.22
17 4 0.22
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.75
Consensus pattern (17 bp):
GTTTATTTTATTTTTAA
Found at i:13061054 original size:3 final size:3
Alignment explanation
Indices: 13061046--13061087 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
13061036 TTAATTTAAA
13061046 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
13061088 CATCTTAGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:13062177 original size:133 final size:136
Alignment explanation
Indices: 13062013--13062291 Score: 384
Period size: 135 Copynumber: 2.1 Consensus size: 136
13062003 AAAAATGAAT
*
13062013 AATAAAAATAAATAAAAATAAAAGTGTTTCTTTAAATAAATTTCTTAATTATTA-AAAAAAATAT
1 AATAAAAATAAAT-AAAATAAAAGTGTTTCTTTAAATAAATCTCTTAATTATTACAAAAAAATAT
* ** * *
13062077 TTTTGGATTTCACCAAAAAGTTGGAATAATCCAAAAAGTTATTTTCACTAAAT-AATATTTGTTT
65 TTTTGAATTTCACCAAAAAGTTGGAATAATCCAAAAAAATATTTTCACTAAATAAAAATTTATTT
13062141 AAATAAC
130 AAATAAC
* **
13062148 AATATAAATAAAT-AAATAAAAGTGTTTCTTTAAATAAATCTCTTAATTATTACCAAAAATCTAT
1 AATAAAAATAAATAAAATAAAAGTGTTTCTTTAAATAAATCTCTTAATTATTA-CAAAAAAATAT
* * * *
13062212 TTTTGAATTTCACCAAAAATTTGGGATAATCGAAAAAAATATTTTTACTAAATAAAAATTTATTT
65 TTTTGAATTTCACCAAAAAGTTGGAATAATCCAAAAAAATATTTTCACTAAATAAAAATTTATTT
*
13062277 AAATAAT
130 AAATAAC
*
13062284 AAGAAAAA
1 AATAAAAA
13062292 GATGAAAATA
Statistics
Matches: 125, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
133 38 0.30
135 66 0.53
136 21 0.17
ACGTcount: A:0.50, C:0.08, G:0.06, T:0.37
Consensus pattern (136 bp):
AATAAAAATAAATAAAATAAAAGTGTTTCTTTAAATAAATCTCTTAATTATTACAAAAAAATATT
TTTGAATTTCACCAAAAAGTTGGAATAATCCAAAAAAATATTTTCACTAAATAAAAATTTATTTA
AATAAC
Found at i:13062321 original size:20 final size:20
Alignment explanation
Indices: 13062304--13062348 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
13062294 TGAAAATAAT
*
13062304 AAATAGAAAATAATAATAGA
1 AAATAAAAAATAATAATAGA
**
13062324 AAATAAAAAATAGCAATA-A
1 AAATAAAAAATAATAATAGA
13062343 AAATAA
1 AAATAA
13062349 CAATAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.73, C:0.02, G:0.07, T:0.18
Consensus pattern (20 bp):
AAATAAAAAATAATAATAGA
Found at i:13062323 original size:13 final size:14
Alignment explanation
Indices: 13062295--13062336 Score: 68
Period size: 14 Copynumber: 3.1 Consensus size: 14
13062285 AGAAAAAGAT
13062295 GAAAATAATAAATA
1 GAAAATAATAAATA
13062309 GAAAATAAT-AATA
1 GAAAATAATAAATA
*
13062322 GAAAATAAAAAATA
1 GAAAATAATAAATA
13062336 G
1 G
13062337 CAATAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
13 12 0.46
14 14 0.54
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (14 bp):
GAAAATAATAAATA
Found at i:13062332 original size:6 final size:6
Alignment explanation
Indices: 13062296--13062358 Score: 54
Period size: 6 Copynumber: 9.8 Consensus size: 6
13062286 GAAAAAGATG
* **
13062296 AAAATA ATAAATA GAAAATA ATAATA GAAAATAA AAAATA GCAATA AAAATA
1 AAAATA A-AAATA -AAAATA AAAATA -AAAAT-A AAAATA AAAATA AAAATA
*
13062348 ACAATA AAAAT
1 AAAATA AAAAT
13062359 TAATTAAATG
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
6 24 0.53
7 19 0.42
8 2 0.04
ACGTcount: A:0.73, C:0.03, G:0.05, T:0.19
Consensus pattern (6 bp):
AAAATA
Found at i:13073395 original size:33 final size:33
Alignment explanation
Indices: 13073316--13073398 Score: 82
Period size: 33 Copynumber: 2.5 Consensus size: 33
13073306 AACCCTTTAC
* * *
13073316 TTAGAGGAATCATTTAAACTACATGGCCTTTGT
1 TTAGAGAAATCATTCAAACTACATCGCCTTTGT
*
13073349 TTA-A-AAGAGTCATTCAAACTTCATCGCCTCTT-T
1 TTAGAGAA-A-TCATTCAAACTACATCGCCT-TTGT
13073382 TTAGAGAAATCATTCAA
1 TTAGAGAAATCATTCAA
13073399 GTTTCATGAC
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
31 1 0.02
32 2 0.05
33 32 0.78
34 4 0.10
35 2 0.05
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.35
Consensus pattern (33 bp):
TTAGAGAAATCATTCAAACTACATCGCCTTTGT
Found at i:13073585 original size:35 final size:36
Alignment explanation
Indices: 13073457--13073586 Score: 95
Period size: 36 Copynumber: 3.6 Consensus size: 36
13073447 ATATTTTTAA
* * *
13073457 TTTAAAGT-TCCATAACCTCTGGTCAGGGAAGCTTTC
1 TTTAAAGTGT-CATAGCATCTGGTCAGAGAAGCTTTC
* * * * * * *
13073493 TTTGAAGTGTCATAACCAT-TAGTTATAGGAGCTTTT
1 TTTAAAGTGTCAT-AGCATCTGGTCAGAGAAGCTTTC
* ** *
13073529 TTTAAAGTTTTTTAGCCTCTGGTCAGAGAAG-TTTC
1 TTTAAAGTGTCATAGCATCTGGTCAGAGAAGCTTTC
13073564 TTTAAAGTGTCATAGCATCTGGT
1 TTTAAAGTGTCATAGCATCTGGT
13073587 TAGATGAGTT
Statistics
Matches: 67, Mismatches: 24, Indels: 7
0.68 0.24 0.07
Matches are distributed among these distances:
35 25 0.37
36 38 0.57
37 4 0.06
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.39
Consensus pattern (36 bp):
TTTAAAGTGTCATAGCATCTGGTCAGAGAAGCTTTC
Found at i:13073607 original size:71 final size:72
Alignment explanation
Indices: 13073472--13073607 Score: 170
Period size: 71 Copynumber: 1.9 Consensus size: 72
13073462 AGTTCCATAA
* * * *
13073472 CCTCTGGTCAGGGAAGCTTTCTTTGAAGTGTCATAACCATTAGTTATAGGAGCTTTTTTTAAAGT
1 CCTCTGGTCAGAGAAGCTTTCTTTAAAGTGTCATAACCATTAGTTAGAGGAGCTTTTTTCAAAGT
13073537 TTTTTAG
66 TTTTTAG
* * *
13073544 CCTCTGGTCAGAGAAG-TTTCTTTAAAGTGTCAT-AGCATCTGGTTAGATGAG-TTATTTTCAAA
1 CCTCTGGTCAGAGAAGCTTTCTTTAAAGTGTCATAACCAT-TAGTTAGAGGAGCTT-TTTTCAAA
13073606 GT
64 GT
13073608 GTTATGCCCT
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
70 6 0.11
71 34 0.62
72 15 0.27
ACGTcount: A:0.25, C:0.14, G:0.21, T:0.40
Consensus pattern (72 bp):
CCTCTGGTCAGAGAAGCTTTCTTTAAAGTGTCATAACCATTAGTTAGAGGAGCTTTTTTCAAAGT
TTTTTAG
Found at i:13073847 original size:36 final size:35
Alignment explanation
Indices: 13073790--13073870 Score: 110
Period size: 36 Copynumber: 2.3 Consensus size: 35
13073780 ATCCGGTTAT
13073790 AAGAGCTTTATTAAAGTTTCATTA-CCTCTAGTCAA
1 AAGAGCTTTATTAAAGTTTCA-TAGCCTCTAGTCAA
* *
13073825 AAGAGCTTTCTTTAAAGTTTCATAGTCTCTAGTCAA
1 AAGAGCTTT-ATTAAAGTTTCATAGCCTCTAGTCAA
*
13073861 ATGAGCTTTA
1 AAGAGCTTTA
13073871 AGTTATCAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
35 11 0.28
36 29 0.73
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (35 bp):
AAGAGCTTTATTAAAGTTTCATAGCCTCTAGTCAA
Found at i:13075191 original size:13 final size:13
Alignment explanation
Indices: 13075175--13075210 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
13075165 TTTTTTTTCA
13075175 TTTTATTTTTATT
1 TTTTATTTTTATT
13075188 TTTTA-TTTTATT
1 TTTTATTTTTATT
13075200 TTATTATTTTT
1 TT-TTATTTTT
13075211 TGTTAGATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 9 0.43
13 8 0.38
14 4 0.19
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTATTTTTATT
Found at i:13075209 original size:18 final size:19
Alignment explanation
Indices: 13075163--13075211 Score: 66
Period size: 18 Copynumber: 2.6 Consensus size: 19
13075153 CATTTGTTAC
13075163 TTTT-TTTTTTCATTTTAT
1 TTTTATTTTTTCATTTTAT
13075181 TTTTATTTTTT-ATTTTATT
1 TTTTATTTTTTCATTTTA-T
13075200 TTATTATTTTTT
1 TT-TTATTTTTT
13075212 GTTAGATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 10 0.36
19 9 0.32
20 9 0.32
ACGTcount: A:0.14, C:0.02, G:0.00, T:0.84
Consensus pattern (19 bp):
TTTTATTTTTTCATTTTAT
Found at i:13075220 original size:20 final size:20
Alignment explanation
Indices: 13075183--13075221 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
13075173 CATTTTATTT
**
13075183 TTATTTTTTATTTTATTTTA
1 TTATTTTTTATTAGATTTTA
*
13075203 TTATTTTTTGTTAGATTTT
1 TTATTTTTTATTAGATTTT
13075222 TTAAATATAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (20 bp):
TTATTTTTTATTAGATTTTA
Done.