Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, 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: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 66 of 130
Found at i:13826370 original size:19 final size:19
Alignment explanation
Indices: 13826331--13826382 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
13826321 TGTTTTAAGT
* *
13826331 TTTTAATATTAATATAATA
1 TTTTAATAATAAAATAATA
13826350 TTTTAATAATAAAATATTATTA
1 TTTTAATAATAAAATA--A-TA
13826372 TTTTAATAATA
1 TTTTAATAATA
13826383 CATTTTTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 14 0.50
21 1 0.04
22 13 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
TTTTAATAATAAAATAATA
Found at i:13826396 original size:21 final size:21
Alignment explanation
Indices: 13826341--13826402 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
13826331 TTTTAATATT
*
13826341 AATATAATATTTTAATAATAA
1 AATATTATATTTTAATAATAA
*
13826362 AATATTATTATTTTAATAATAC
1 AATATTA-TATTTTAATAATAA
* *
13826384 ATTTTTATATTTTAATAAT
1 AATATTATATTTTAATAAT
13826403 TATGTCAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
21 18 0.50
22 18 0.50
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
AATATTATATTTTAATAATAA
Found at i:13828644 original size:20 final size:20
Alignment explanation
Indices: 13828608--13828648 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
13828598 ATTAAAAGTA
*
13828608 ATATATTTTATTTAAAAACT
1 ATATATTTTATTAAAAAACT
*
13828628 ATATATATTTATAAAAAAACT
1 ATATAT-TTTATTAAAAAACT
13828649 CACATAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (20 bp):
ATATATTTTATTAAAAAACT
Found at i:13829834 original size:330 final size:329
Alignment explanation
Indices: 13829214--13829867 Score: 915
Period size: 330 Copynumber: 2.0 Consensus size: 329
13829204 AACATTGTAC
* * *
13829214 ATAAATATATAAAAGTTAAAGCCTTTAATAAAAGAGAAAATAGTCCAATGTGGATGGTTTACATT
1 ATAAATATATAAAAGTTAAAGCCTTTAATAAAAGAGAAAATAGTCCAATGTGAATAGTTTACAAT
* * *
13829279 TTTGACAAATGGATGGGTTTAAAAAATCATCATGTGTTCTTTAATAAATGTATTTTGTTTATTTA
66 TTTGACAAATCGATGGGTTTAAAAAATCATCATGTGTTCTCTAATAAATGTATTTTATTTATTTA
* *
13829344 AAATAGTATTATTTTTTACAGCAATATTTTTATTACTTAAAAAATAATTAGTTAGACTAAATTAA
131 AAACAGTATTATTTTTTACAGCAATATTTTTATTACTTAAAAAATAATTAATTAGACTAAATTAA
* *
13829409 TTACATTTATTACCTTTTAAATATCTAATATTTTTACCTTATATGAATAAATTACAATTAATTTG
196 TTACATTTATTACCTTTTAAATATCAAATATTTTTACCTTATATAAATAAATTACAATTAATTTG
* ** * * *
13829474 GTCAATAATACAAATAAAAGTAGAAACTAAATAAAAATTTAATTACTTATGAATATTTTTCCATC
261 GTCAATAACACAAATAAAAGTAGAAACTAAATAAAAAGATAATCACTCATGAATATTTTCCCATC
13829539 TTAT
326 TTAT
* * *
13829543 ATAAATATGTAAAAGTTAAAAG-CTTTAAT-AAAGAAGAAAATAGTCTAATGTGAATAGTTTATA
1 ATAAATATATAAAAGTT-AAAGCCTTTAATAAAAG-AGAAAATAGTCCAATGTGAATAGTTTACA
** *
13829606 ATTTTGACATGTCGATGGGTTTAAAAAATCA-CTATGTGCTT-TCTAATAAATGTCTTTTATTTA
64 ATTTTGACAAATCGATGGGTTTAAAAAATCATC-ATGTG-TTCTCTAATAAATGTATTTTATTTA
* * ** *
13829669 TTTAAAACATTTTTATTATTTTTATGGTAATATTTTTATTACTT-AAAAATAATTAATTAGACTA
127 TTTAAAACAGTATTA-T-TTTTTACAGCAATATTTTTATTACTTAAAAAATAATTAATTAGACTA
* * * *
13829733 AATTAATTACA-TTGTTACCATTTTAAATATCAAATATTTTTATCTTGTATAAATAAGTTACAAT
190 AATTAATTACATTTATTACC-TTTTAAATATCAAATATTTTTACCTTATATAAATAAATTACAAT
*
13829797 TAATTTGGTCAATAACACAAATAAAAGTAGGAACTAAATAAAAAGATAATCACTCATGAATATTT
254 TAATTTGGTCAATAACACAAATAAAAGTAGAAACTAAATAAAAAGATAATCACTCATGAATATTT
13829862 TCCCAT
319 TCCCAT
13829868 AACTTCTAAT
Statistics
Matches: 286, Mismatches: 32, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
328 5 0.02
329 118 0.41
330 140 0.49
331 23 0.08
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.41
Consensus pattern (329 bp):
ATAAATATATAAAAGTTAAAGCCTTTAATAAAAGAGAAAATAGTCCAATGTGAATAGTTTACAAT
TTTGACAAATCGATGGGTTTAAAAAATCATCATGTGTTCTCTAATAAATGTATTTTATTTATTTA
AAACAGTATTATTTTTTACAGCAATATTTTTATTACTTAAAAAATAATTAATTAGACTAAATTAA
TTACATTTATTACCTTTTAAATATCAAATATTTTTACCTTATATAAATAAATTACAATTAATTTG
GTCAATAACACAAATAAAAGTAGAAACTAAATAAAAAGATAATCACTCATGAATATTTTCCCATC
TTAT
Found at i:13830342 original size:25 final size:23
Alignment explanation
Indices: 13830306--13830376 Score: 79
Period size: 25 Copynumber: 2.9 Consensus size: 23
13830296 GGGTAAGCCC
13830306 ATTTTTTATTTATTTTTATTTTCGT
1 ATTTTTT-TTTATTTTTATTTT-GT
*
13830331 ATTTTATTTTTATTTTTTATTTTTT
1 ATTTT-TTTTTA-TTTTTATTTTGT
*
13830356 ATTTTTTTTATTTTTTTATTT
1 ATTTTTTTT-TATTTTTATTT
13830377 ATTTACTTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
24 13 0.32
25 16 0.39
26 12 0.29
ACGTcount: A:0.15, C:0.01, G:0.01, T:0.82
Consensus pattern (23 bp):
ATTTTTTTTTATTTTTATTTTGT
Found at i:13830348 original size:13 final size:13
Alignment explanation
Indices: 13830314--13830394 Score: 64
Period size: 13 Copynumber: 6.4 Consensus size: 13
13830304 CCATTTTTTA
13830314 TTTATTTTTATTT
1 TTTATTTTTATTT
*
13830327 TCGTA-TTTTA-TT
1 T-TTATTTTTATTT
13830339 TTTATTTTTTATTT
1 TTTA-TTTTTATTT
13830353 TTTATTTTT-TTT
1 TTTATTTTTATTT
*
13830365 ATT-TTTTTATTT
1 TTTATTTTTATTT
* *
13830377 ATTTA-CTTTATCT
1 -TTTATTTTTATTT
13830390 TTTAT
1 TTTAT
13830395 ATATTTATTA
Statistics
Matches: 54, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
11 7 0.13
12 15 0.28
13 24 0.44
14 8 0.15
ACGTcount: A:0.16, C:0.04, G:0.01, T:0.79
Consensus pattern (13 bp):
TTTATTTTTATTT
Found at i:13830349 original size:7 final size:7
Alignment explanation
Indices: 13830332--13830394 Score: 60
Period size: 7 Copynumber: 8.9 Consensus size: 7
13830322 TATTTTCGTA
13830332 TTTTA-T
1 TTTTATT
13830338 TTTTATT
1 TTTTATT
13830345 TTTTATT
1 TTTTATT
13830352 TTTTATT
1 TTTTATT
13830359 TTTT-TT
1 TTTTATT
13830365 ATTTT-TT
1 -TTTTATT
13830372 TATTTATT
1 T-TTTATT
*
13830380 TACTTTATC
1 T--TTTATT
13830389 TTTTAT
1 TTTTAT
13830395 ATATTTATTA
Statistics
Matches: 50, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
6 8 0.16
7 33 0.66
8 3 0.06
9 6 0.12
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (7 bp):
TTTTATT
Found at i:13830386 original size:9 final size:8
Alignment explanation
Indices: 13830339--13830417 Score: 60
Period size: 8 Copynumber: 10.2 Consensus size: 8
13830329 GTATTTTATT
13830339 TTTATTT-
1 TTTATTTA
13830346 TTTATTT-
1 TTTATTTA
*
13830353 TTTATTTTT
1 TTTA-TTTA
*
13830362 TTTATTTT
1 TTTATTTA
13830370 TTTATTTA
1 TTTATTTA
13830378 TTTACTTTA
1 TTTA-TTTA
*
13830387 TCT-TTTA
1 TTTATTTA
*
13830394 TATATTTA
1 TTTATTTA
13830402 -TTA-TTA
1 TTTATTTA
*
13830408 TTTATCTA
1 TTTATTTA
13830416 TT
1 TT
13830418 ATTACTGTTA
Statistics
Matches: 61, Mismatches: 5, Indels: 11
0.79 0.06 0.14
Matches are distributed among these distances:
6 3 0.05
7 22 0.36
8 26 0.43
9 10 0.16
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTATTTA
Found at i:13830406 original size:7 final size:7
Alignment explanation
Indices: 13830334--13830420 Score: 53
Period size: 7 Copynumber: 12.7 Consensus size: 7
13830324 TTTTCGTATT
13830334 TTATTT-
1 TTATTTA
*
13830340 TTATTTT
1 TTATTTA
*
13830347 TTATTTT
1 TTATTTA
13830354 TTATTT-
1 TTATTTA
13830360 TT-TTTA
1 TTATTTA
13830366 TT-TTT-
1 TTATTTA
13830371 TTATTTA
1 TTATTTA
13830378 TTTACTTTA
1 -TTA-TTTA
13830387 TCT-TTTA
1 T-TATTTA
13830394 TATATTTA
1 T-TATTTA
13830402 TTA-TTA
1 TTATTTA
*
13830408 TTTATCTA
1 -TTATTTA
13830416 TTATT
1 TTATT
13830421 ACTGTTAATT
Statistics
Matches: 68, Mismatches: 3, Indels: 19
0.76 0.03 0.21
Matches are distributed among these distances:
5 5 0.07
6 19 0.28
7 28 0.41
8 11 0.16
9 5 0.07
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (7 bp):
TTATTTA
Found at i:13831318 original size:21 final size:21
Alignment explanation
Indices: 13831294--13831363 Score: 54
Period size: 21 Copynumber: 3.4 Consensus size: 21
13831284 CGTTTCTTTT
13831294 TATTATTTTTATTTATTATTA
1 TATTATTTTTATTTATTATTA
*** * *
13831315 TATTAGGATTGTTTAATATT-
1 TATTATTTTTATTTATTATTA
* *
13831335 TTTTATTTTTTATTTATTTTTA
1 TATTA-TTTTTATTTATTATTA
13831357 T-TTATTT
1 TATTATTT
13831364 ATTTTTTTTC
Statistics
Matches: 35, Mismatches: 12, Indels: 5
0.67 0.23 0.10
Matches are distributed among these distances:
20 7 0.20
21 27 0.77
22 1 0.03
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.71
Consensus pattern (21 bp):
TATTATTTTTATTTATTATTA
Found at i:13831352 original size:4 final size:4
Alignment explanation
Indices: 13831331--13831386 Score: 52
Period size: 4 Copynumber: 15.2 Consensus size: 4
13831321 GATTGTTTAA
13831331 TATT T-TT TATT T-TT TATT TA-T T-TT TATT TATT TATT T-TT T-TT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT
*
13831373 CATT TATTT TATT T
1 TATT TA-TT TATT T
13831387 TCTTTAAATA
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
3 15 0.34
4 25 0.57
5 4 0.09
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (4 bp):
TATT
Found at i:13831354 original size:18 final size:19
Alignment explanation
Indices: 13831331--13831386 Score: 73
Period size: 18 Copynumber: 3.1 Consensus size: 19
13831321 GATTGTTTAA
13831331 TATTTTTTATTT-TTTATT
1 TATTTTTTATTTATTTATT
13831349 TA-TTTTTATTTATTTATT
1 TATTTTTTATTTATTTATT
*
13831367 T-TTTTTCATTTATTTTATT
1 TATTTTTTATTTA-TTTATT
13831386 T
1 T
13831387 TCTTTAAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
17 9 0.26
18 18 0.53
19 7 0.21
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (19 bp):
TATTTTTTATTTATTTATT
Found at i:13831392 original size:14 final size:13
Alignment explanation
Indices: 13831340--13831392 Score: 70
Period size: 14 Copynumber: 3.8 Consensus size: 13
13831330 ATATTTTTTA
13831340 TTTTTTATTTATT
1 TTTTTTATTTATT
13831353 TTTATTTATTTATT
1 TTT-TTTATTTATT
13831367 TTTTTTCATTTATT
1 TTTTTT-ATTTATT
*
13831381 TTATTTTCTTTA
1 TT-TTTTATTTA
13831393 AATAAAATTA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
13 6 0.17
14 26 0.72
15 4 0.11
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTTTATTTATT
Found at i:13831564 original size:122 final size:118
Alignment explanation
Indices: 13831392--13831737 Score: 465
Period size: 118 Copynumber: 3.0 Consensus size: 118
13831382 TATTTTCTTT
* * * *
13831392 AAATAAAATT-AAAAAAAA--TATTTTTGAGGAAAAATTGAAAGTATCAATTTTTCTCGAAATTA
1 AAATAAATTTAAAAAAAAAGGTTTTTTTTAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTA
13831454 AAAGTTCCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAA
66 AAAGTTCC-AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAA
13831508 AAATAAATTTAAAAAAAAAAAAGGTTTTTTTTAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAA
1 AAATAAATTT---AAAAAAAAAGGTTTTTTTTAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAA
* * *
13831573 TTAAAAGTTTCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCTTTAA
63 TTAAAAGTTCCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAA
** * *
13831629 AAATAAATTTTCAAAAAAAGTTTTTTTTTAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAATT-
1 AAATAAATTTAAAAAAAAAGGTTTTTTTTAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTA
* * *
13831693 AAAGTTTCC---AAA-ATTTTGAGGAAAAAGTTGAAAGTATTAATTTTC
66 AAAG-TTCCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTC
13831738 TCTTGTACAA
Statistics
Matches: 207, Mismatches: 16, Indels: 16
0.87 0.07 0.07
Matches are distributed among these distances:
114 29 0.14
115 3 0.01
116 9 0.04
117 4 0.02
118 53 0.26
120 8 0.04
121 53 0.26
122 48 0.23
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.36
Consensus pattern (118 bp):
AAATAAATTTAAAAAAAAAGGTTTTTTTTAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTA
AAAGTTCCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAA
Found at i:13831621 original size:121 final size:118
Alignment explanation
Indices: 13831392--13831737 Score: 465
Period size: 121 Copynumber: 3.0 Consensus size: 118
13831382 TATTTTCTTT
* * * *
13831392 AAATAAAATT-AAAAAAAA--TATTTTTGAGGAAAAATTGAAAGTATCAATTTTTCTCGAAATTA
1 AAATAAATTTAAAAAAAAAGGTTTTTTTTAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTA
* *
13831454 AAAGTTCCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAA
66 AAAGTTTC-AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAA
13831508 AAATAAATTTAAAAAAAAAAAAGGTTTTTTTTAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAA
1 AAATAAATTT---AAAAAAAAAGGTTTTTTTTAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAA
*
13831573 TTAAAAGTTTCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCTTTAA
63 TTAAAAGTTTCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAA
** * *
13831629 AAATAAATTTTCAAAAAAAGTTTTTTTTTAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAATT-
1 AAATAAATTTAAAAAAAAAGGTTTTTTTTAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTA
* * *
13831693 AAAGTTTC--CAAA-A-TTTTGAGGAAAAAGTTGAAAGTATTAATTTTC
66 AAAGTTTCAAAAAATATTTTTG-GGGAAAAGTTGAAAGTATCAATTTTC
13831738 TCTTGTACAA
Statistics
Matches: 209, Mismatches: 14, Indels: 16
0.87 0.06 0.07
Matches are distributed among these distances:
113 5 0.02
114 25 0.12
115 3 0.01
116 9 0.04
117 8 0.04
118 50 0.24
120 8 0.04
121 53 0.25
122 48 0.23
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.36
Consensus pattern (118 bp):
AAATAAATTTAAAAAAAAAGGTTTTTTTTAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTA
AAAGTTTCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAA
Found at i:13835719 original size:20 final size:19
Alignment explanation
Indices: 13835679--13835742 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
13835669 AAAAGATGAT
*
13835679 GAAAAAAAATTAAAAAAAA
1 GAAAAAAAATGAAAAAAAA
13835698 GAAAAAAAA-GAAAGAAAGAA
1 GAAAAAAAATGAAA-AAA-AA
* *
13835718 G-AAAAAAATG-AGAAAAT
1 GAAAAAAAATGAAAAAAAA
13835735 GAAAAAAA
1 GAAAAAAA
13835743 GATATTCAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
17 2 0.05
18 12 0.32
19 20 0.53
20 4 0.11
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.06
Consensus pattern (19 bp):
GAAAAAAAATGAAAAAAAA
Found at i:13835731 original size:18 final size:17
Alignment explanation
Indices: 13835655--13835742 Score: 60
Period size: 17 Copynumber: 5.2 Consensus size: 17
13835645 ACAATGGATG
13835655 AAAATGAGAAAAA-AAA
1 AAAATGAGAAAAAGAAA
*
13835671 AAGATGATGAAAAA-AAA
1 AAAATGA-GAAAAAGAAA
**
13835688 TTAA--A-AAAAAGAAA
1 AAAATGAGAAAAAGAAA
*
13835702 AAAAAGAAAGAAAGAAGAAA
1 AAAATG--AGAAA-AAGAAA
*
13835722 AAAATGAGAAAATGAAA
1 AAAATGAGAAAAAGAAA
13835739 AAAA
1 AAAA
13835743 GATATTCAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
13 5 0.09
14 5 0.09
15 1 0.02
16 6 0.11
17 19 0.34
18 6 0.11
19 3 0.05
20 11 0.20
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (17 bp):
AAAATGAGAAAAAGAAA
Found at i:13835742 original size:9 final size:9
Alignment explanation
Indices: 13835679--13835725 Score: 58
Period size: 10 Copynumber: 4.9 Consensus size: 9
13835669 AAAAGATGAT
13835679 GAAAAAAAA
1 GAAAAAAAA
*
13835688 TTAAAAAAAA
1 -GAAAAAAAA
13835698 GAAAAAAAA
1 GAAAAAAAA
13835707 GAAAGAAAGAA
1 GAAA-AAA-AA
13835718 GAAAAAAA
1 GAAAAAAA
13835726 TGAGAAAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
9 13 0.39
10 14 0.42
11 6 0.18
ACGTcount: A:0.83, C:0.00, G:0.13, T:0.04
Consensus pattern (9 bp):
GAAAAAAAA
Found at i:13837141 original size:43 final size:42
Alignment explanation
Indices: 13837093--13837198 Score: 117
Period size: 43 Copynumber: 2.5 Consensus size: 42
13837083 GCCTTTGAAC
*
13837093 TCAAATGAGAAGCTTTGAATTTTTGGATGTGAATCTCCAAAAT
1 TCAAATGAGAAGCTTTGAATTTTTGGATATGAAT-TCCAAAAT
**
13837136 TCAAATG-GAAAGCTTT-AGATTTTTGGATATGAATTCCAAGTT
1 TCAAATGAG-AAGCTTTGA-ATTTTTGGATATGAATTCCAAAAT
*
13837178 TGCCAAATGAGAATCTTTGAA
1 T--CAAATGAGAAGCTTTGAA
13837199 AAAAAAGCCT
Statistics
Matches: 53, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
42 9 0.17
43 29 0.55
44 13 0.25
45 2 0.04
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.35
Consensus pattern (42 bp):
TCAAATGAGAAGCTTTGAATTTTTGGATATGAATTCCAAAAT
Found at i:13837541 original size:41 final size:41
Alignment explanation
Indices: 13837496--13837853 Score: 444
Period size: 41 Copynumber: 8.7 Consensus size: 41
13837486 AAAGTTTCGT
* * *
13837496 TGCCTCTGTTTAGAAGAGCAATTTACTTTTCAAAATCGTAG
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGG
* *
13837537 TGCCTCTATTTAGAGGAGCAATTTATTTTTCAAAGTTTCGT--
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAG--TCGTGG
* * *
13837578 TGCCTCTGTTTAGAAGAGCAATTTATTTTTCAAAGTTTCAT--
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAG--TCGTGG
13837619 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGG
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGG
13837660 TGCCTCTGTTTAGAGGAGCAATTTA-TTTTCCAAAGTTTCGT--
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAG--TCGTGG
* *
13837701 TGCCTCTGTTTAGAAGAGTAATTTACTTTTCAAAGTCGTGG
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGG
* *
13837742 TGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTGTGG
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGG
* *
13837783 TTGCCTCTATTTAGAGGAGCAATTTACTTTTCAAAGTTGTGG
1 -TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGG
* *
13837825 TGCTTCTGTTTAGAGGAGC-ATTTATTTTT
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTT
13837854 GAAGTCATGG
Statistics
Matches: 285, Mismatches: 21, Indels: 23
0.87 0.06 0.07
Matches are distributed among these distances:
39 7 0.02
40 13 0.05
41 214 0.75
42 43 0.15
43 8 0.03
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.41
Consensus pattern (41 bp):
TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGG
Found at i:13837694 original size:123 final size:122
Alignment explanation
Indices: 13837475--13837853 Score: 550
Period size: 123 Copynumber: 3.1 Consensus size: 122
13837465 TCAAGGAACC
* * * *
13837475 ATTTATTTTCCAAAGTTTCGTTGCCTCTGTTTAGAAGAGCAATTTACTTTTCAAAATCGTAGTGC
1 ATTTATTTTTCAAAGTTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGC
13837540 CTCTATTTAGAGGAGCAATTTATTTTTCAAAGTTTCGTTGCCTCTGTTTAGAAGAGCA
66 CTCTATTTAGAGGAGCAATTTA-TTTTCAAAGTTTCGTTGCCTCTGTTTAGAAGAGCA
*
13837598 ATTTATTTTTCAAAGTTTCATTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGC
1 ATTTATTTTTCAAAGTTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGC
* *
13837663 CTCTGTTTAGAGGAGCAATTTATTTTCCAAAGTTTCGTTGCCTCTGTTTAGAAGAGTA
66 CTCTATTTAGAGGAGCAATTTATTTT-CAAAGTTTCGTTGCCTCTGTTTAGAAGAGCA
* * *
13837721 ATTTACTTTTCAAAG--TCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTGTGGT
1 ATTTATTTTTCAAAGTTTCGT--TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGG-
* * *
13837784 TGCCTCTATTTAGAGGAGCAATTTACTTTTCAAAGTTGT-GGTGCTTCTGTTTAGAGGAGC-
63 TGCCTCTATTTAGAGGAGCAATTTA-TTTTCAAAGTT-TCGTTGCCTCTGTTTAGAAGAGCA
13837844 ATTTATTTTT
1 ATTTATTTTT
13837854 GAAGTCATGG
Statistics
Matches: 233, Mismatches: 17, Indels: 12
0.89 0.06 0.05
Matches are distributed among these distances:
121 3 0.01
122 4 0.02
123 173 0.74
124 48 0.21
125 5 0.02
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.42
Consensus pattern (122 bp):
ATTTATTTTTCAAAGTTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGC
CTCTATTTAGAGGAGCAATTTATTTTCAAAGTTTCGTTGCCTCTGTTTAGAAGAGCA
Found at i:13838161 original size:20 final size:19
Alignment explanation
Indices: 13838119--13838156 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
13838109 CATTTTCTTT
*
13838119 TTTTATTTTTATTTTCGTA
1 TTTTATTTTTATTTTCATA
13838138 TTTTATTTTTATTTT-ATA
1 TTTTATTTTTATTTTCATA
13838156 T
1 T
13838157 ATTTTTTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (19 bp):
TTTTATTTTTATTTTCATA
Found at i:13838183 original size:4 final size:4
Alignment explanation
Indices: 13838174--13838228 Score: 53
Period size: 4 Copynumber: 14.2 Consensus size: 4
13838164 CTTTTTTTCC
* *
13838174 TTAT TTAT TTAT TTAT TTACT TTAT CT-T TTAT ATAT TTA- TTA- TTAT
1 TTAT TTAT TTAT TTAT TTA-T TTAT TTAT TTAT TTAT TTAT TTAT TTAT
*
13838220 TTAT CTAT T
1 TTAT TTAT T
13838229 ATTACTGTTA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
3 8 0.19
4 30 0.71
5 4 0.10
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.69
Consensus pattern (4 bp):
TTAT
Found at i:13838827 original size:19 final size:19
Alignment explanation
Indices: 13838800--13838836 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
13838790 ATTTTATAGA
*
13838800 GAAGGGAGAGAAAAGGAAT
1 GAAGAGAGAGAAAAGGAAT
*
13838819 GAAGAGAGAGAGAAGGAA
1 GAAGAGAGAGAAAAGGAA
13838837 GGCTCGGTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.43, T:0.03
Consensus pattern (19 bp):
GAAGAGAGAGAAAAGGAAT
Found at i:13839118 original size:13 final size:12
Alignment explanation
Indices: 13839100--13839205 Score: 52
Period size: 12 Copynumber: 8.3 Consensus size: 12
13839090 CGTTCCCAGG
*
13839100 TTTTTTTTTTCA
1 TTTTTTTTTTTA
*
13839112 TTTTTTTTATTA
1 TTTTTTTTTTTA
*
13839124 TTATTTTTATTTA
1 TT-TTTTTTTTTA
13839137 TTTTTTATTATTATA
1 TTTTTT-TT-TT-TA
*** *
13839152 TTAGGATTGTTTA
1 TT-TTTTTTTTTA
* *
13839165 ATATTTTTTTTA
1 TTTTTTTTTTTA
*
13839177 -TTTTTTATTTA
1 TTTTTTTTTTTA
13839188 TTTTCATTTTTTTA
1 TTTT--TTTTTTTA
13839202 TTTT
1 TTTT
13839206 CTTTAAATAA
Statistics
Matches: 69, Mismatches: 17, Indels: 14
0.69 0.17 0.14
Matches are distributed among these distances:
11 9 0.13
12 25 0.36
13 14 0.20
14 15 0.22
15 5 0.07
16 1 0.01
ACGTcount: A:0.19, C:0.02, G:0.03, T:0.76
Consensus pattern (12 bp):
TTTTTTTTTTTA
Found at i:13839143 original size:11 final size:10
Alignment explanation
Indices: 13839104--13839191 Score: 63
Period size: 11 Copynumber: 8.4 Consensus size: 10
13839094 CCCAGGTTTT
13839104 TTTTTTCATT-
1 TTTTTT-ATTA
13839114 TTTTTTATTA
1 TTTTTTATTA
13839124 TTATTTTTATTTA
1 -T-TTTTTA-TTA
13839137 TTTTTTATTA
1 TTTTTTATTA
* **
13839147 TTATATTAGGA
1 TT-TTTTATTA
* *
13839158 TTGTTTAATA
1 TTTTTTATTA
13839168 TTTTTT-TTA
1 TTTTTTATTA
13839177 TTTTTTATTTA
1 TTTTTTA-TTA
13839188 TTTT
1 TTTT
13839192 CATTTTTTTA
Statistics
Matches: 62, Mismatches: 9, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
9 11 0.18
10 20 0.32
11 21 0.34
12 7 0.11
13 3 0.05
ACGTcount: A:0.20, C:0.01, G:0.03, T:0.75
Consensus pattern (10 bp):
TTTTTTATTA
Found at i:13839210 original size:9 final size:8
Alignment explanation
Indices: 13839169--13839210 Score: 50
Period size: 9 Copynumber: 5.0 Consensus size: 8
13839159 TGTTTAATAT
13839169 TTTTTTTA
1 TTTTTTTA
13839177 -TTTTTTA
1 TTTTTTTA
13839184 TTTATTTTCA
1 TTT-TTTT-A
13839194 TTTTTTTA
1 TTTTTTTA
13839202 TTTTCTTTA
1 TTTT-TTTA
13839211 AATAAAATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
7 7 0.23
8 7 0.23
9 12 0.40
10 4 0.13
ACGTcount: A:0.14, C:0.05, G:0.00, T:0.81
Consensus pattern (8 bp):
TTTTTTTA
Found at i:13839429 original size:58 final size:58
Alignment explanation
Indices: 13839224--13839615 Score: 372
Period size: 58 Copynumber: 6.7 Consensus size: 58
13839214 AAAATTAAAA
* * **
13839224 AAAAAACATTTTTGAGAAAAAATTGAAAGTATCAATTTTTCTCGAAATTAAAAGTTTC
1 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAATTAAAAGTTTC
* * * *
13839282 AAAAAAATATTTTT-AGGGAAAAGTTAAAAGTATCAATTTTTCTTAAAAAT-AAATTTTC
1 -AAAAAATATTTTTGA-GAAAAAGTTGAAAGTATCAATTTTTCTTAAAATTAAAAGTTTC
* * *
13839340 AAAAAAAAAGGGTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATTAAAAGTTTC
1 ---AAAAAA----TATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAATTAAAAGTTTC
*
13839405 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAA-TTTTCTTCGAAATTAAAAGTTTC
1 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTT-AAAATTAAAAGTTTC
* ** *
13839463 AAAACATATTTTTG-G-AAAAGTTGAAAGTATCAA-TTTTCTTTAAAAAAATAAATTTTC
1 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTC-TTAAAATTA-AAAGTTTC
* * * ** *
13839520 AAAAAAGTTTTTTTGAGGAAAAGTTGAAAGTATTAATTTTTCTCGAAATTAAAATTTTC
1 AAAAAA-TATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAATTAAAAGTTTC
** *
13839579 --AAAAT-TTTGGGA-AAAAAGTTAAAAGTATCAATTTTTC
1 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTC
13839616 CCTGTACAAA
Statistics
Matches: 283, Mismatches: 34, Indels: 37
0.80 0.10 0.10
Matches are distributed among these distances:
54 22 0.08
55 5 0.02
56 28 0.10
57 25 0.09
58 69 0.24
59 49 0.17
60 29 0.10
61 5 0.02
62 6 0.02
64 37 0.13
65 8 0.03
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.37
Consensus pattern (58 bp):
AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAATTAAAAGTTTC
Found at i:13839596 original size:114 final size:113
Alignment explanation
Indices: 13839356--13839613 Score: 335
Period size: 114 Copynumber: 2.3 Consensus size: 113
13839346 AAAGGGTTTT
**
13839356 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATTAAAAGTTTCAAAAAATATTTTTGAG
1 TTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAAAAAAGTTTCAAAAAATATTTTTGAG
13839421 AAAAAGTTGAAAGTATCAATTTTCTTCGAAATTAAAAGTTTCAAAACATA
65 AAAAAGTTGAAAGTATCAATTTTCTTCGAAATTAAAAGTTTC-AAACATA
* * * *
13839471 TTTTTGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAAAATAAATTTTCAAAAAAGTTTTTTTGA
1 TTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAAA-AAAGTTTCAAAAAA-TATTTTTGA
* * *
13839536 GGAAAAGTTGAAAGTATTAATTTT-TCTCGAAATTAAAATTTTC-AA-A-A
64 GAAAAAGTTGAAAGTATCAATTTTCT-TCGAAATTAAAAGTTTCAAACATA
*
13839583 TTTTGGGAAAAAAGTTAAAAGTATCAATTTT
1 TTTTGGG--AAAAGTTGAAAGTATCAATTTT
13839614 TCCCTGTACA
Statistics
Matches: 127, Mismatches: 11, Indels: 11
0.85 0.07 0.07
Matches are distributed among these distances:
112 7 0.06
113 1 0.01
114 55 0.43
115 18 0.14
116 46 0.36
ACGTcount: A:0.43, C:0.06, G:0.12, T:0.38
Consensus pattern (113 bp):
TTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAAAAAAGTTTCAAAAAATATTTTTGAGA
AAAAGTTGAAAGTATCAATTTTCTTCGAAATTAAAAGTTTCAAACATA
Found at i:13840404 original size:99 final size:97
Alignment explanation
Indices: 13840226--13840420 Score: 245
Period size: 99 Copynumber: 2.0 Consensus size: 97
13840216 TTTTATAATC
* *
13840226 TTATATAAATATATAAAAGTCAAAACCTTTGATATAAAAGGAAATAATTCATCGTGGATAACTTG
1 TTATATAAATATATAAAAGTCAAAACCTTTGATATAAAAGAAAATAATTAATCGTGGATAACTTG
* * *
13840291 TAATTTTTATATGTGGATGGGTTTAAAAAATA
66 TAATTTTTACATGTGAATAGGTTTAAAAAATA
*
13840323 TTATATAAATATATAAAAGTGAAAATCCTTTGATAATATAAA-AAAATAATTTAAT-GTGGAT-A
1 TTATATAAATATATAAAAGTCAAAA-CCTTTGAT-ATA-AAAGAAAATAA-TTAATCGTGGATAA
*
13840385 GTT-TACATTTTTAACATGTGAATAGGTTTAAAAAAT
62 CTTGTA-ATTTTT-ACATGTGAATAGGTTTAAAAAAT
13840421 CACCATGTGT
Statistics
Matches: 85, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
97 26 0.31
98 17 0.20
99 35 0.41
100 7 0.08
ACGTcount: A:0.45, C:0.05, G:0.13, T:0.37
Consensus pattern (97 bp):
TTATATAAATATATAAAAGTCAAAACCTTTGATATAAAAGAAAATAATTAATCGTGGATAACTTG
TAATTTTTACATGTGAATAGGTTTAAAAAATA
Found at i:13852113 original size:2 final size:2
Alignment explanation
Indices: 13852106--13852133 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
13852096 TGGGTTATGG
13852106 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
13852134 GTAGAACAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13857106 original size:5 final size:5
Alignment explanation
Indices: 13857096--13857146 Score: 59
Period size: 5 Copynumber: 10.0 Consensus size: 5
13857086 AATAATATTT
* *
13857096 AACAA AACAA AACAA AAAAGA AAAAA AACAA AACAGA AA-AA AACAA AACAA
1 AACAA AACAA AACAA AACA-A AACAA AACAA AACA-A AACAA AACAA AACAA
13857147 GTAAACAAAC
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
4 3 0.07
5 30 0.73
6 8 0.20
ACGTcount: A:0.82, C:0.14, G:0.04, T:0.00
Consensus pattern (5 bp):
AACAA
Found at i:13857125 original size:16 final size:16
Alignment explanation
Indices: 13857099--13857162 Score: 76
Period size: 16 Copynumber: 3.9 Consensus size: 16
13857089 AATATTTAAC
13857099 AAAACAAAACAAAAAAG
1 AAAA-AAAACAAAAAAG
*
13857116 AAAAAAAACAAAACAG
1 AAAAAAAACAAAAAAG
13857132 -AAAAAAACAAAACAAG
1 AAAAAAAACAAAA-AAG
* *
13857148 TAAACAAACAAAAAA
1 AAAAAAAACAAAAAA
13857163 AAAGAAAGAA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
15 12 0.29
16 15 0.36
17 15 0.36
ACGTcount: A:0.81, C:0.12, G:0.05, T:0.02
Consensus pattern (16 bp):
AAAAAAAACAAAAAAG
Found at i:13857395 original size:10 final size:10
Alignment explanation
Indices: 13857357--13857395 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
13857347 AAACTTCAAA
*
13857357 AAAAAAAAAG
1 AAAAAAAATG
* *
13857367 AAAAAAGAGG
1 AAAAAAAATG
13857377 AAAAAAAATG
1 AAAAAAAATG
13857387 AAAAAAAAT
1 AAAAAAAAT
13857396 TTTCAGGTGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.05
Consensus pattern (10 bp):
AAAAAAAATG
Found at i:13858192 original size:27 final size:25
Alignment explanation
Indices: 13858151--13858203 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 25
13858141 AACCGGTACT
*
13858151 GAACCGTCGAACCAACCAGACCGAACC
1 GAACCGCCGAACCAACC-G-CCGAACC
*
13858178 GAACCGCCGATCCAACCGCCGAACC
1 GAACCGCCGAACCAACCGCCGAACC
13858203 G
1 G
13858204 GTCAGACCGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 8 0.33
26 1 0.04
27 15 0.62
ACGTcount: A:0.32, C:0.43, G:0.21, T:0.04
Consensus pattern (25 bp):
GAACCGCCGAACCAACCGCCGAACC
Found at i:13859039 original size:141 final size:143
Alignment explanation
Indices: 13858883--13859164 Score: 523
Period size: 143 Copynumber: 2.0 Consensus size: 143
13858873 TCATAATTCA
* *
13858883 TATTAATAATAAGATTAATAAAT-AAAAA-GTATAATAAAATTGAGATTTTAAATATAAACAGTC
1 TATTAATAATAAGATTAATAAATAAAAAAGGTATAATAAAATTGAGATCTTAAATATAAACAATC
13858946 GCACCTAAGCTCTGCCTAGATGTTGGAGAGTCGGGGTGGTCTCATTATATTTAAGAATCCAACTC
66 GCACCTAAGCTCTGCCTAGATGTTGGAGAGTCGGGGTGGTCTCATTATATTTAAGAATCCAACTC
13859011 TTAAATTGCATTT
131 TTAAATTGCATTT
*
13859024 TATTAATAATAAGATTAATAAATAAAAAAGGTATAATAAAATTGGGATCTTAAATATAAACAATC
1 TATTAATAATAAGATTAATAAATAAAAAAGGTATAATAAAATTGAGATCTTAAATATAAACAATC
13859089 GCACCTAAGCTCTGCCTAGATGTTGGAGAGTCGGGGTGGTCTCATTATATTTAAGAATCCAACTC
66 GCACCTAAGCTCTGCCTAGATGTTGGAGAGTCGGGGTGGTCTCATTATATTTAAGAATCCAACTC
13859154 TTAAATTGCAT
131 TTAAATTGCAT
13859165 CTCATTTTAC
Statistics
Matches: 136, Mismatches: 3, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
141 23 0.17
142 5 0.04
143 108 0.79
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.32
Consensus pattern (143 bp):
TATTAATAATAAGATTAATAAATAAAAAAGGTATAATAAAATTGAGATCTTAAATATAAACAATC
GCACCTAAGCTCTGCCTAGATGTTGGAGAGTCGGGGTGGTCTCATTATATTTAAGAATCCAACTC
TTAAATTGCATTT
Found at i:13862115 original size:26 final size:27
Alignment explanation
Indices: 13862077--13862128 Score: 63
Period size: 26 Copynumber: 1.9 Consensus size: 27
13862067 TTCTATTTTT
*
13862077 AAAAATTGAATA-TCATTTTAAAAATAAA
1 AAAAATT-AATATTC-TGTTAAAAATAAA
13862105 AAAAATT-ATATTCTGTTAAAAATA
1 AAAAATTAATATTCTGTTAAAAATA
13862129 TTATAAATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
26 13 0.59
27 2 0.09
28 7 0.32
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.35
Consensus pattern (27 bp):
AAAAATTAATATTCTGTTAAAAATAAA
Found at i:13862453 original size:32 final size:30
Alignment explanation
Indices: 13862412--13862491 Score: 90
Period size: 31 Copynumber: 2.6 Consensus size: 30
13862402 ATATATCATT
*
13862412 TTTAAAAATTAAGTATAAAT-TTCTATATTGA
1 TTTAAAAATTAA--ATAAATATTCCATATTGA
*
13862443 TTTAAGAAATTAAATAAATATTCCATATTGT
1 TTTAA-AAATTAAATAAATATTCCATATTGA
*
13862474 TTTAAAATATTATATAAA
1 TTTAAAA-ATTAAATAAA
13862492 AATTTTCATA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
30 8 0.19
31 28 0.65
32 7 0.16
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.44
Consensus pattern (30 bp):
TTTAAAAATTAAATAAATATTCCATATTGA
Found at i:13864515 original size:99 final size:99
Alignment explanation
Indices: 13864276--13864503 Score: 404
Period size: 99 Copynumber: 2.3 Consensus size: 99
13864266 CACATGTGAA
* * *
13864276 ATAATTTCAGCTTTTATCTTATTCTTTAAATAGCACAAATTTCCTAAGAACCAATTCTATGGTAG
1 ATAATTCCAACTTTTATCTTATTCTTTAAATAGCACAAATTTCCTAAAAACCAATTCTATGGTAG
13864341 TTTCAATTTCTCAAAAACAGAAAAACTACAAAAC
66 TTTCAATTTCTCAAAAACAGAAAAACTACAAAAC
13864375 ATAATTCCAACTTTTATCTTATTCTTTAAATAGCACAAATTTCCTAAAAACCAATTCTATGGTAG
1 ATAATTCCAACTTTTATCTTATTCTTTAAATAGCACAAATTTCCTAAAAACCAATTCTATGGTAG
*
13864440 TTTCAATTTCTCAAAAATAGAAAAACTACAAAAC
66 TTTCAATTTCTCAAAAACAGAAAAACTACAAAAC
13864474 ATAATTCCAACTTTTATCTTA-TCTTATAAA
1 ATAATTCCAACTTTTATCTTATTCTT-TAAA
13864504 AAATAAAAAT
Statistics
Matches: 124, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
98 4 0.03
99 120 0.97
ACGTcount: A:0.41, C:0.18, G:0.05, T:0.36
Consensus pattern (99 bp):
ATAATTCCAACTTTTATCTTATTCTTTAAATAGCACAAATTTCCTAAAAACCAATTCTATGGTAG
TTTCAATTTCTCAAAAACAGAAAAACTACAAAAC
Found at i:13864717 original size:30 final size:30
Alignment explanation
Indices: 13864681--13864748 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
13864671 GCCTGGGTTC
* *
13864681 AAGTTTCAGCATAATTTATG-AGAAGAATCT
1 AAGTTTCAACATAACTTATGAAG-AGAATCT
*
13864711 AAGTTTCAACATAGCTTATGAAGAGAATCT
1 AAGTTTCAACATAACTTATGAAGAGAATCT
13864741 AAGTTTCA
1 AAGTTTCA
13864749 TCTTGTAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 32 0.94
31 2 0.06
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (30 bp):
AAGTTTCAACATAACTTATGAAGAGAATCT
Found at i:13865105 original size:100 final size:98
Alignment explanation
Indices: 13864929--13865126 Score: 256
Period size: 100 Copynumber: 2.0 Consensus size: 98
13864919 ATATCTTTAG
* * * * *
13864929 TCCACTAATAGAATCTTAGCTTTCTCGTTCAAACTTTGTTAATATTAAGTCTTAAATAAAGTAAA
1 TCCACCAACAGAATCTCAGCTTTCTCATCCAAACTTTGTTAATATTAAGTCTTAAATAAAGTAAA
13864994 GTTGCTATAGCTATCAAACCTACCAAAATAAAACA
66 GTTG--ATAGCTATCAAACCTACCAAAATAAAACA
* *
13865029 TCCACCAACAGAATCTCAGCTTTTTCATCCAAACTTTGTTAATATTAAGT-TCTAAATAATGTAT
1 TCCACCAACAGAATCTCAGCTTTCTCATCCAAACTTTGTTAATATTAAGTCT-TAAATAAAG--T
*
13865093 AAAAGTTG-TAGCTATCAAACCTATCAAAATAAAA
63 -AAAGTTGATAGCTATCAAACCTACCAAAATAAAA
13865127 TTGTTTGGGA
Statistics
Matches: 86, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
99 1 0.01
100 77 0.90
102 1 0.01
103 7 0.08
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.33
Consensus pattern (98 bp):
TCCACCAACAGAATCTCAGCTTTCTCATCCAAACTTTGTTAATATTAAGTCTTAAATAAAGTAAA
GTTGATAGCTATCAAACCTACCAAAATAAAACA
Found at i:13866424 original size:43 final size:43
Alignment explanation
Indices: 13866363--13866491 Score: 240
Period size: 43 Copynumber: 3.0 Consensus size: 43
13866353 TTCAATTTAC
13866363 CATAGATAATAATAACTGAATAATGCCAGAGTATCAAAACATT
1 CATAGATAATAATAACTGAATAATGCCAGAGTATCAAAACATT
**
13866406 CATAGATAATAATAACTGAATAATTTCAGAGTATCAAAACATT
1 CATAGATAATAATAACTGAATAATGCCAGAGTATCAAAACATT
13866449 CATAGATAATAATAACTGAATAATGCCAGAGTATCAAAACATT
1 CATAGATAATAATAACTGAATAATGCCAGAGTATCAAAACATT
13866492 TATGACCCAG
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 82 1.00
ACGTcount: A:0.49, C:0.13, G:0.11, T:0.27
Consensus pattern (43 bp):
CATAGATAATAATAACTGAATAATGCCAGAGTATCAAAACATT
Found at i:13868664 original size:1 final size:1
Alignment explanation
Indices: 13868660--13868690 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
13868650 AAAAATTACC
13868660 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
13868691 ACGTTGCTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:13868961 original size:15 final size:14
Alignment explanation
Indices: 13868937--13868966 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
13868927 AATTGCAATG
13868937 ATTTAAAAATATAA
1 ATTTAAAAATATAA
13868951 ATTTCAAAAATATAA
1 ATTT-AAAAATATAA
13868966 A
1 A
13868967 AAGGAATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (14 bp):
ATTTAAAAATATAA
Found at i:13875690 original size:3 final size:3
Alignment explanation
Indices: 13875684--13875715 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
13875674 AGCTACATTG
13875684 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
13875716 TTTAACTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:13876674 original size:21 final size:22
Alignment explanation
Indices: 13876632--13876675 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
13876622 GCCATGGAGG
* *
13876632 AAAAAGAAAGAGAATGAATAAA
1 AAAAAAAAAAAGAATGAATAAA
*
13876654 AAAAAAAAAAAGAA-GAGTAAA
1 AAAAAAAAAAAGAATGAATAAA
13876675 A
1 A
13876676 CATCAGTGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.07
Consensus pattern (22 bp):
AAAAAAAAAAAGAATGAATAAA
Found at i:13879469 original size:16 final size:17
Alignment explanation
Indices: 13879438--13879472 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
13879428 TATAAAATAA
*
13879438 ATAATTTTTATATTTTT
1 ATAAGTTTTATATTTTT
13879455 ATAAGTTTT-TATTTTT
1 ATAAGTTTTATATTTTT
13879471 AT
1 AT
13879473 TTTTCAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (17 bp):
ATAAGTTTTATATTTTT
Found at i:13879532 original size:92 final size:97
Alignment explanation
Indices: 13879425--13879645 Score: 245
Period size: 99 Copynumber: 2.3 Consensus size: 97
13879415 ATATTTGATC
* * *
13879425 AAATATAAAATAAATAATTTTTATATTTTTATA-AGTTT-TTA-TTT-TTATTTTTCAAATATGA
1 AAATTTAAAATAAATAAATTTTATATTTTTATACAGTTTATTAGTTTGTTATTTTTCAAATATAA
* *
13879486 TATAGA-ATTTAATATATTTTTTCAAATATGA
66 CATAGATATTTAATATATTTTATCAAATATGA
* * ** * **
13879517 AAATTTAAAATAAATAAATTTCAAAAATTTCTACTTTTTAATTAGTTTTGTTATTTTTCAAATAT
1 AAATTTAAAATAAATAAATTTTATATTTTTATACAGTTT-ATTAG-TTTGTTATTTTTCAAATAT
* *
13879582 AACATAGATTTTTAATATATTTTATCAAATATTA
64 AACATAGATATTTAATATATTTTATCAAATATGA
*
13879616 TAATTTAAAATAAATAAATTTTATTATTTT
1 AAATTTAAAATAAATAAATTTTA-TATTTT
13879646 CTATTTTTGA
Statistics
Matches: 102, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
92 26 0.25
93 3 0.03
95 3 0.03
97 3 0.03
98 21 0.21
99 43 0.42
100 3 0.03
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.51
Consensus pattern (97 bp):
AAATTTAAAATAAATAAATTTTATATTTTTATACAGTTTATTAGTTTGTTATTTTTCAAATATAA
CATAGATATTTAATATATTTTATCAAATATGA
Found at i:13879647 original size:99 final size:98
Alignment explanation
Indices: 13879468--13879704 Score: 280
Period size: 99 Copynumber: 2.4 Consensus size: 98
13879458 AGTTTTTATT
* * *
13879468 TTTATTTTTCAAATATGATATAGA-ATTTAATATATTTTTTCAAATATGAAAATTTAAAATAAAT
1 TTTATTTTTCAAATATAATATAGATTTTTAATATATTTTATCAAATATGAAAATTTAAAATAAAT
*
13879532 AAATTTCAAAAATTTCTACTTTTTAATTAGTTT-
66 AAATTTCAAAAATTTCTA-TTTTTAATAAGTTTC
* * *
13879565 TGTTATTTTTCAAATATAACATAGATTTTTAATATATTTTATCAAATATTATAATTTAAAATAAA
1 T-TTATTTTTCAAATATAATATAGATTTTTAATATATTTTATCAAATATGAAAATTTAAAATAAA
* ** * *
13879630 TAAATTTTATTATTTTCTATTTTTGATAAGTTTC
65 TAAATTTCAAAAATTTCTATTTTTAATAAGTTTC
* * ** *
13879664 TTTAATTTTTTAAATACAATATTTATTTTTAATATAATTTA
1 TTT-ATTTTTCAAATATAATATAGATTTTTAATATATTTTA
13879705 AAATTAATTA
Statistics
Matches: 118, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
97 1 0.01
98 35 0.30
99 82 0.69
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.52
Consensus pattern (98 bp):
TTTATTTTTCAAATATAATATAGATTTTTAATATATTTTATCAAATATGAAAATTTAAAATAAAT
AAATTTCAAAAATTTCTATTTTTAATAAGTTTC
Found at i:13879653 original size:183 final size:180
Alignment explanation
Indices: 13879313--13879653 Score: 395
Period size: 183 Copynumber: 1.9 Consensus size: 180
13879303 ATAGAAAATT
* *
13879313 TTTAATACATATTTATCAAATATTGTAATTGAAAATAAATAAATTTCAAAATTTTCTATTTTAAT
1 TTTAATACATATTTATCAAATATTGAAATTGAAAATAAATAAATTTCAAAAATTTCTATTTTAAT
* *
13879378 GAGTTTTTATTTTTTAAACATAATACAAATGTTTAATATATTTGATCAAATATAAAATAAATAAT
66 GAGTTTTTATTTTTCAAACATAACACAAATGTTTAATATATTTGATCAAATATAAAATAAATAAT
*** *
13879443 TTTTATATTTTTATAAGTTTTTATTTTTATTTTTCAAATATGATATAGAA
131 AAATATAATTTTATAAGTTTTTATTTTTATTTTTCAAATATGATATAGAA
* * *
13879493 TTTAATATAT-TTTTTCAAATA-TGAAAATTTAAAATAAATAAATTTCAAAAATTTCTACTTTTT
1 TTTAATACATATTTATCAAATATTG-AAATTGAAAATAAATAAATTTCAAAAATTTCTA--TTTT
* * * * * * *
13879556 AATTAGTTTTGTTATTTTTCAAATATAACATAGATTTTTAATATATTTTATCAAATATTATAATT
63 AATGAG-TTT-TTATTTTTCAAACATAACACAAATGTTTAATATATTTGATCAAATA-TA-AAAT
* *
13879621 TAA-AATAAATA-AATTTTATTA-TTTTCTATTTTT
124 AAATAATAAATATAATTTTATAAGTTTT-TATTTTT
13879654 GATAAGTTTC
Statistics
Matches: 133, Mismatches: 20, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
178 2 0.02
179 40 0.30
180 9 0.07
181 9 0.07
182 7 0.05
183 54 0.41
184 7 0.05
185 5 0.04
ACGTcount: A:0.41, C:0.05, G:0.04, T:0.50
Consensus pattern (180 bp):
TTTAATACATATTTATCAAATATTGAAATTGAAAATAAATAAATTTCAAAAATTTCTATTTTAAT
GAGTTTTTATTTTTCAAACATAACACAAATGTTTAATATATTTGATCAAATATAAAATAAATAAT
AAATATAATTTTATAAGTTTTTATTTTTATTTTTCAAATATGATATAGAA
Found at i:13880180 original size:107 final size:106
Alignment explanation
Indices: 13880069--13880492 Score: 474
Period size: 106 Copynumber: 4.0 Consensus size: 106
13880059 AAACACATCA
* ** * *
13880069 TTTTTTTATTTTGTAAATGCCATAATATTGAACAAGCATGACGTTTTAGTCATTATAAATGCAGT
1 TTTTTTTATTTTATAAATGCTGTAATATTAAACAAGCATGACGTTTTAGTCATTATAAACGCAGT
* * * * *
13880134 ATTTGATTAATCATTAAATTATTATATTTAACAAATATGAT
66 CTTTGATAAATCATTAAAATATTATATTTAACAAGTACGAT
* * * * * *
13880175 TTTTTTTGTTTTATAAATGCTGTGATATTAAACATGCATAACGTTTTGGTCATTATAAATGCAGT
1 TTTTTTTATTTTATAAATGCTGTAATATTAAACAAGCATGACGTTTTAGTCATTATAAACGCAGT
* * *
13880240 CTTTGACAAATCATTAAAATATTATATTTAATAAGCACGAT
66 CTTTGATAAATCATTAAAATATTATATTTAACAAGTACGAT
** * * * *
13880281 ATTTTTTTATTTTATAAATATTGTAATATTAAACAAGCATGATGTTTTGGTCATTATAAACACAA
1 -TTTTTTTATTTTATAAATGCTGTAATATTAAACAAGCATGACGTTTTAGTCATTATAAACGCAG
* *
13880346 T-TTCTAATAAATTATTAAAATATTATATTTAACAAGTACGAT
65 TCTT-TGATAAATCATTAAAATATTATATTTAACAAGTACGAT
* * * * * * * *
13880388 GTTTTTTGTTTTATAAACGTTGTAATATTAAGCAAGTCAAG-TGTTTAAGTCATTATAAACGCAG
1 TTTTTTTATTTTATAAATGCTGTAATATTAAACAAG-CATGACGTTTTAGTCATTATAAACGCAG
* *
13880452 TCTTTGATAAATCATTAAAATGTTATATTTAACAAGCACGA
65 TCTTTGATAAATCATTAAAATATTATATTTAACAAGTACGA
13880493 CATTTTTTGT
Statistics
Matches: 268, Mismatches: 46, Indels: 8
0.83 0.14 0.02
Matches are distributed among these distances:
106 175 0.65
107 93 0.35
ACGTcount: A:0.37, C:0.09, G:0.11, T:0.42
Consensus pattern (106 bp):
TTTTTTTATTTTATAAATGCTGTAATATTAAACAAGCATGACGTTTTAGTCATTATAAACGCAGT
CTTTGATAAATCATTAAAATATTATATTTAACAAGTACGAT
Found at i:13880442 original size:213 final size:213
Alignment explanation
Indices: 13880067--13880500 Score: 548
Period size: 213 Copynumber: 2.0 Consensus size: 213
13880057 ACAAACACAT
* * * **
13880067 CATTTTTTTATTTTGTAAATGCCATAATATTGAACAAGCATGACGTTTTAGTCATTATAAATGCA
1 CATTTTTTTATTTTATAAATACCATAATATTAAACAAGCATGACGTTTTAGTCATTATAAACACA
* * * * * * *
13880132 GTATTTGATTAATCATTAAATTATTATATTTAACAAATATGATTTTTTTTGTTTTATAAATGCTG
66 ATATTTAATAAATCATTAAAATATTATATTTAACAAATACGATGTTTTTTGTTTTATAAACGCTG
* * ** *
13880197 TGATATTAAACATGCATAACGTTTTGGTCATTATAAATGCAGTCTTTGACAAATCATTAAAATAT
131 TAATATTAAACAAGCATAACGTTTAAGTCATTATAAACGCAGTCTTTGACAAATCATTAAAATAT
*
13880262 TATATTTAATAAGCACGA
196 TATATTTAACAAGCACGA
* *** * *
13880280 TATTTTTTTATTTTATAAATATTGTAATATTAAACAAGCATGATGTTTTGGTCATTATAAACACA
1 CATTTTTTTATTTTATAAATACCATAATATTAAACAAGCATGACGTTTTAGTCATTATAAACACA
* * *
13880345 AT-TTCTAATAAATTATTAAAATATTATATTTAACAAGTACGATGTTTTTTGTTTTATAAACGTT
66 ATATT-TAATAAATCATTAAAATATTATATTTAACAAATACGATGTTTTTTGTTTTATAAACGCT
* ** *
13880409 GTAATATTAAGCAAGTCA-AGTGTTTAAGTCATTATAAACGCAGTCTTTGATAAATCATTAAAAT
130 GTAATATTAAACAAG-CATAACGTTTAAGTCATTATAAACGCAGTCTTTGACAAATCATTAAAAT
*
13880473 GTTATATTTAACAAGCACGA
194 ATTATATTTAACAAGCACGA
13880493 CATTTTTT
1 CATTTTTT
13880501 GTGGAAACCC
Statistics
Matches: 186, Mismatches: 33, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
212 2 0.01
213 182 0.98
214 2 0.01
ACGTcount: A:0.37, C:0.09, G:0.11, T:0.43
Consensus pattern (213 bp):
CATTTTTTTATTTTATAAATACCATAATATTAAACAAGCATGACGTTTTAGTCATTATAAACACA
ATATTTAATAAATCATTAAAATATTATATTTAACAAATACGATGTTTTTTGTTTTATAAACGCTG
TAATATTAAACAAGCATAACGTTTAAGTCATTATAAACGCAGTCTTTGACAAATCATTAAAATAT
TATATTTAACAAGCACGA
Found at i:13884894 original size:30 final size:30
Alignment explanation
Indices: 13884860--13884921 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
13884850 ATTGATGTAT
*
13884860 ATTTAACAAATAATGTTTATATAAGTCAAA
1 ATTTAACAAATAATGTTTATACAAGTCAAA
** *
13884890 ATTTAACATGTAATGTTTATACAAGTCTAA
1 ATTTAACAAATAATGTTTATACAAGTCAAA
13884920 AT
1 AT
13884922 ATTTTTCTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (30 bp):
ATTTAACAAATAATGTTTATACAAGTCAAA
Found at i:13885395 original size:41 final size:43
Alignment explanation
Indices: 13885309--13885400 Score: 109
Period size: 42 Copynumber: 2.2 Consensus size: 43
13885299 TTTTATGTTA
* *
13885309 ACTTGACAAAGAATATGTTTTTATGTTAAGAAAAGTAATATTT
1 ACTTAACAAAGAATATGTTTTTATGTTAAGAAAAGTAATACTT
* *
13885352 ACTTAACAAAG-ATGAT-TTTTTATGTTAAGAAAGGTAGT-CTT
1 ACTTAACAAAGAAT-ATGTTTTTATGTTAAGAAAAGTAATACTT
*
13885393 ACTCAACA
1 ACTTAACA
13885401 TTTACTTGAA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
41 9 0.21
42 22 0.51
43 12 0.28
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.37
Consensus pattern (43 bp):
ACTTAACAAAGAATATGTTTTTATGTTAAGAAAAGTAATACTT
Found at i:13885553 original size:14 final size:15
Alignment explanation
Indices: 13885534--13885563 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
13885524 CAATCTTTGT
13885534 CAAATTTTA-ATTAA
1 CAAATTTTATATTAA
13885548 CAAATTTTATATTAA
1 CAAATTTTATATTAA
13885563 C
1 C
13885564 TTGACAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.43
Consensus pattern (15 bp):
CAAATTTTATATTAA
Found at i:13885792 original size:22 final size:22
Alignment explanation
Indices: 13885742--13885794 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
13885732 AATATTTTTT
*
13885742 TAAATTGAAAAAAGTAATTATA
1 TAAATTTAAAAAAGTAATTATA
*
13885764 TAGATTTAAAAAAGTAATTATA
1 TAAATTTAAAAAAGTAATTATA
13885786 -ACAATTTAA
1 TA-AATTTAA
13885795 TATACAGTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 1 0.04
22 26 0.96
ACGTcount: A:0.57, C:0.02, G:0.08, T:0.34
Consensus pattern (22 bp):
TAAATTTAAAAAAGTAATTATA
Found at i:13887078 original size:17 final size:17
Alignment explanation
Indices: 13887056--13887088 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13887046 TTCGTATCAT
*
13887056 AAAAAATATATCAAATA
1 AAAAAATACATCAAATA
13887073 AAAAAATACATCAAAT
1 AAAAAATACATCAAAT
13887089 TTTGGAAAAA
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:0.70, C:0.09, G:0.00, T:0.21
Consensus pattern (17 bp):
AAAAAATACATCAAATA
Found at i:13894211 original size:22 final size:20
Alignment explanation
Indices: 13894181--13894227 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 20
13894171 CAATAACCTA
13894181 TTTTTTTTTATTTTTTTCAATT
1 TTTTTTTTTA-TTTTTT-AATT
13894203 TTTTGTTTTTCATTTTTTAATT
1 TTTT-TTTTT-ATTTTTTAATT
13894225 TTT
1 TTT
13894228 CATAAAATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 11 0.48
23 11 0.48
24 1 0.04
ACGTcount: A:0.13, C:0.04, G:0.02, T:0.81
Consensus pattern (20 bp):
TTTTTTTTTATTTTTTAATT
Found at i:13899942 original size:19 final size:19
Alignment explanation
Indices: 13899886--13899947 Score: 79
Period size: 19 Copynumber: 3.2 Consensus size: 19
13899876 AAATTAGTTC
13899886 AAACTTTGTAGATTTCTAT
1 AAACTTTGTAGATTTCTAT
* * *
13899905 AAAATAATGGTAAATTTCTAT
1 AAACT--TTGTAGATTTCTAT
13899926 AAACTTTGTAGATTTCTAT
1 AAACTTTGTAGATTTCTAT
13899945 AAA
1 AAA
13899948 ATAACATACC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
19 19 0.54
21 16 0.46
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (19 bp):
AAACTTTGTAGATTTCTAT
Found at i:13906436 original size:22 final size:23
Alignment explanation
Indices: 13906411--13906454 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
13906401 AAAACACAAA
**
13906411 ATATAT-ATTTTTGTTAAAATTC
1 ATATATAATTTTTACTAAAATTC
13906433 ATATATAATTTTTACTAAAATT
1 ATATATAATTTTTACTAAAATT
13906455 TTAATTTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.52
Consensus pattern (23 bp):
ATATATAATTTTTACTAAAATTC
Found at i:13908701 original size:17 final size:17
Alignment explanation
Indices: 13908675--13908718 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
13908665 AAACAATATG
*
13908675 AAAATCAATAAGTTATA
1 AAAATTAATAAGTTATA
*
13908692 AAAATTAAT-ATTTATA
1 AAAATTAATAAGTTATA
*
13908708 TAAATTAATAA
1 AAAATTAATAA
13908719 ATTAATGTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (17 bp):
AAAATTAATAAGTTATA
Found at i:13909799 original size:15 final size:17
Alignment explanation
Indices: 13909781--13909822 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
13909771 ATTATATCAT
13909781 TAAATAATCAA-TTAA-
1 TAAATAATCAATTTAAC
*
13909796 TAAATTAT-AATTTAAC
1 TAAATAATCAATTTAAC
13909812 TAAATAATCAA
1 TAAATAATCAA
13909823 ATTCATGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.50
16 7 0.32
17 2 0.09
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (17 bp):
TAAATAATCAATTTAAC
Found at i:13909802 original size:31 final size:31
Alignment explanation
Indices: 13909761--13909822 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
13909751 TTATATTTAT
* * * *
13909761 TTAATTAATTATTATATCATTAAATAATCAA
1 TTAATAAATTATAATATAACTAAATAATCAA
*
13909792 TTAATAAATTATAATTTAACTAAATAATCAA
1 TTAATAAATTATAATATAACTAAATAATCAA
13909823 ATTCATGTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (31 bp):
TTAATAAATTATAATATAACTAAATAATCAA
Found at i:13909884 original size:8 final size:7
Alignment explanation
Indices: 13909854--13909880 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
13909844 AATCTAAAAC
13909854 TTCAAAT
1 TTCAAAT
13909861 TTCAAAT
1 TTCAAAT
13909868 TTCAAAT
1 TTCAAAT
13909875 TTCAAA
1 TTCAAA
13909881 ATTTACCTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (7 bp):
TTCAAAT
Found at i:13911279 original size:20 final size:18
Alignment explanation
Indices: 13911256--13911292 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
13911246 AATTAAAAAA
13911256 AAATAAAAGAAAACAAAACC
1 AAATAAAA-AAAA-AAAACC
13911276 AAATAAAAAAAAAAAAC
1 AAATAAAAAAAAAAAAC
13911293 TAAACTAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 4 0.24
20 8 0.47
ACGTcount: A:0.81, C:0.11, G:0.03, T:0.05
Consensus pattern (18 bp):
AAATAAAAAAAAAAAACC
Found at i:13911284 original size:28 final size:28
Alignment explanation
Indices: 13911251--13911306 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
13911241 TTACAAATTA
*
13911251 AAAAAAAATAAAAGAAAACAAAACCAAAT
1 AAAAAAAA-AAAACAAAACAAAACCAAAT
* *
13911280 AAAAAAAAAAAACTAAACTAAACCAAA
1 AAAAAAAAAAAACAAAACAAAACCAAA
13911307 CCAAACCGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 16 0.67
29 8 0.33
ACGTcount: A:0.79, C:0.12, G:0.02, T:0.07
Consensus pattern (28 bp):
AAAAAAAAAAAACAAAACAAAACCAAAT
Found at i:13917243 original size:2 final size:2
Alignment explanation
Indices: 13917236--13917264 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
13917226 AAGGGGAGGG
13917236 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
13917265 GCGGTTGGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:13924323 original size:16 final size:17
Alignment explanation
Indices: 13924291--13924334 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
13924281 AATATTTTTA
*
13924291 ATAAAATATATATAAAT
1 ATAAAATATAAATAAAT
13924308 ATAAAAT-TAAATAAAT
1 ATAAAATATAAATAAAT
*
13924324 AATAAGATATA
1 -ATAAAATATA
13924335 TATTTTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 8 0.35
17 13 0.57
18 2 0.09
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (17 bp):
ATAAAATATAAATAAAT
Found at i:13924838 original size:22 final size:23
Alignment explanation
Indices: 13924782--13924840 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
13924772 AAATTTATCT
13924782 AATAAAAA-AAA-AAAAATATAA
1 AATAAAAACAAATAAAAATATAA
**
13924803 ATATAAATTC-AATAAAAA-ATAA
1 A-ATAAAAACAAATAAAAATATAA
13924825 AATAAAAACAAATAAA
1 AATAAAAACAAATAAA
13924841 GAAGAAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
21 7 0.23
22 18 0.60
23 5 0.17
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (23 bp):
AATAAAAACAAATAAAAATATAA
Found at i:13925338 original size:160 final size:160
Alignment explanation
Indices: 13925148--13925462 Score: 497
Period size: 160 Copynumber: 2.0 Consensus size: 160
13925138 ACAAATAATG
* * * *
13925148 AAAAATAAAAAATAAAAAGCTTATAGTGGGTGTCATATGAACACTCTCATTGAATTTAAAATATT
1 AAAAAAAAAAAAAAAAAAGCTTACAGTGGGTGCCATATGAACACTCTCATTGAATTTAAAATATT
* *
13925213 AATTTCTTAAATTAAAATATCAAATAATAACTTT-TTTATATAATACATATATATAATTAAATTA
66 AATTTCTTAAATTAAAATATCAAATAATAACTTTATTCACATAATACATATATATAATTAAATTA
13925277 ATAATAAAATATAAACTTATATATAAAAAC
131 ATAATAAAATATAAACTTATATATAAAAAC
** * * * *
13925307 AAAAAAAAAAGAAAAAAAAGCTTACAGTGGGTGCCATATGGGCATTTTTATTGAGTTTAAAATAT
1 AAAAAAAAAA-AAAAAAAAGCTTACAGTGGGTGCCATATGAACACTCTCATTGAATTTAAAATAT
13925372 TAATTTCTTAAATTAAAATATCAAATAATAACTTTATTCACATAATACATATATATAATTAAATT
65 TAATTTCTTAAATTAAAATATCAAATAATAACTTTATTCACATAATACATATATATAATTAAATT
*
13925437 AATAATAAAATATAAATTTATATATA
130 AATAATAAAATATAAACTTATATATA
13925463 TATAAAAACA
Statistics
Matches: 141, Mismatches: 13, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
159 9 0.06
160 80 0.57
161 52 0.37
ACGTcount: A:0.51, C:0.07, G:0.06, T:0.36
Consensus pattern (160 bp):
AAAAAAAAAAAAAAAAAAGCTTACAGTGGGTGCCATATGAACACTCTCATTGAATTTAAAATATT
AATTTCTTAAATTAAAATATCAAATAATAACTTTATTCACATAATACATATATATAATTAAATTA
ATAATAAAATATAAACTTATATATAAAAAC
Found at i:13926037 original size:20 final size:20
Alignment explanation
Indices: 13926012--13926052 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
13926002 TAATTTTATT
13926012 ATTAAA-AAATAAAAAGAAAA
1 ATTAAACAAA-AAAAAGAAAA
*
13926032 ATTAAACAAAAAAGAGAAAA
1 ATTAAACAAAAAAAAGAAAA
13926052 A
1 A
13926053 AAATAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 16 0.84
21 3 0.16
ACGTcount: A:0.78, C:0.02, G:0.07, T:0.12
Consensus pattern (20 bp):
ATTAAACAAAAAAAAGAAAA
Found at i:13926060 original size:18 final size:17
Alignment explanation
Indices: 13926015--13926061 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
13926005 TTTTATTATT
13926015 AAAAAAT-AAAAAGAAA
1 AAAAAATAAAAAAGAAA
* *
13926031 AATTAAACAAAAAAGAGAA
1 AA-AAAATAAAAAAGA-AA
13926050 AAAAAATAAAAA
1 AAAAAATAAAAA
13926062 TGAGTTCATT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
16 2 0.08
17 3 0.12
18 15 0.62
19 4 0.17
ACGTcount: A:0.83, C:0.02, G:0.06, T:0.09
Consensus pattern (17 bp):
AAAAAATAAAAAAGAAA
Found at i:13926119 original size:27 final size:28
Alignment explanation
Indices: 13926089--13926141 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
13926079 CATGTCAACA
* * *
13926089 TTTAAGTTAA-GTTTAAAATATTAATAT
1 TTTAAATTAAGGTATAAAATAATAATAT
13926116 TTTAAATTAAGGTATAAAATAATAAT
1 TTTAAATTAAGGTATAAAATAATAAT
13926142 TTTAGAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 9 0.41
28 13 0.59
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (28 bp):
TTTAAATTAAGGTATAAAATAATAATAT
Found at i:13926713 original size:19 final size:18
Alignment explanation
Indices: 13926670--13926713 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
13926660 AAACCAAAAT
13926670 ATTAAAATCTATCTTAAA
1 ATTAAAATCTATCTTAAA
** *
13926688 AAAAAAATCTAATTTTAAA
1 ATTAAAATCT-ATCTTAAA
13926707 ATTAAAA
1 ATTAAAA
13926714 AAAGAAAAAT
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (18 bp):
ATTAAAATCTATCTTAAA
Found at i:13927655 original size:23 final size:24
Alignment explanation
Indices: 13927629--13927681 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
13927619 TTAATTTCCT
* *
13927629 AAAAATCATATTTT-AGTTTTTAA
1 AAAAATAATATTTTGAATTTTTAA
*
13927652 AAAAGTAATATTTTGAATTTTTAA
1 AAAAATAATATTTTGAATTTTTAA
13927676 AAAAAT
1 AAAAAT
13927682 TTTCTATATT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 12 0.48
24 13 0.52
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (24 bp):
AAAAATAATATTTTGAATTTTTAA
Found at i:13927895 original size:18 final size:18
Alignment explanation
Indices: 13927880--13927915 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
13927870 TTCAAATTTT
*
13927880 AACATTTTATTTAATTAA
1 AACATTTAATTTAATTAA
*
13927898 AACATTTAATTTTATTAA
1 AACATTTAATTTAATTAA
13927916 TTTTATTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (18 bp):
AACATTTAATTTAATTAA
Found at i:13928312 original size:22 final size:23
Alignment explanation
Indices: 13928282--13928330 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
13928272 AATTTTATTT
13928282 TAAATTTTAAAATATTTAAAAAA
1 TAAATTTTAAAATATTTAAAAAA
* * *
13928305 TAAA-TTTAATATTTTTAAAAAG
1 TAAATTTTAAAATATTTAAAAAA
13928327 TAAA
1 TAAA
13928331 AAATTTTGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (23 bp):
TAAATTTTAAAATATTTAAAAAA
Found at i:13928363 original size:15 final size:15
Alignment explanation
Indices: 13928331--13928369 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
13928321 AAAAAGTAAA
* *
13928331 AAATTTTGAAATATT
1 AAATTTTGAAAAAAT
13928346 AAATTTTGAAAAAAT
1 AAATTTTGAAAAAAT
*
13928361 AAAATTTGA
1 AAATTTTGA
13928370 TTTTAGAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (15 bp):
AAATTTTGAAAAAAT
Found at i:13928389 original size:56 final size:55
Alignment explanation
Indices: 13928278--13928439 Score: 132
Period size: 55 Copynumber: 2.7 Consensus size: 55
13928268 AATGAATTTT
* ** *
13928278 ATTTTAAATTTTAAAATATTTAAAAAATAAATTTAATATTTTTAAAAAGTAAAAA
1 ATTTTAAATATTAAAATATTTAAAAAATAAATTTAATATTTAGAAAAAATAAAAA
*
13928333 ATTTTGAAATATT-AAAT-TTTGAAAAAATAAAATTTGAT-TTTAGAAAAAATAAAAAAA
1 ATTTT-AAATATTAAAATATTT-AAAAAAT-AAATTTAATATTTAGAAAAAAT--AAAAA
13928390 TGATTTTAGCAAATATTAAAATATTTTTAAAAATATTAAATTTAATATTT
1 --ATTTT---AAATATTAAAATA--TTTAAAAA-A-TAAATTTAATATTT
13928440 TAAAGTATGA
Statistics
Matches: 84, Mismatches: 7, Indels: 21
0.75 0.06 0.19
Matches are distributed among these distances:
54 3 0.04
55 25 0.30
56 14 0.17
57 5 0.06
59 5 0.06
61 7 0.08
62 4 0.05
64 5 0.06
65 12 0.14
66 4 0.05
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.41
Consensus pattern (55 bp):
ATTTTAAATATTAAAATATTTAAAAAATAAATTTAATATTTAGAAAAAATAAAAA
Found at i:13928410 original size:23 final size:23
Alignment explanation
Indices: 13928348--13928398 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
13928338 GAAATATTAA
**
13928348 ATTTT-GAAAAAAT-AAAATTTG
1 ATTTTAGAAAAAATAAAAAAATG
13928369 ATTTTAGAAAAAATAAAAAAATG
1 ATTTTAGAAAAAATAAAAAAATG
13928392 ATTTTAG
1 ATTTTAG
13928399 CAAATATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 5 0.19
22 8 0.31
23 13 0.50
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.35
Consensus pattern (23 bp):
ATTTTAGAAAAAATAAAAAAATG
Found at i:13931244 original size:2 final size:2
Alignment explanation
Indices: 13931237--13931261 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13931227 GAGATCAAAC
13931237 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
13931262 AAATTGTTTA
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:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13936566 original size:11 final size:11
Alignment explanation
Indices: 13936550--13936576 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
13936540 TGTCATAGGC
13936550 TTAAATGATTA
1 TTAAATGATTA
13936561 TTAAATGATTA
1 TTAAATGATTA
13936572 TTAAA
1 TTAAA
13936577 GTTTTATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.44
Consensus pattern (11 bp):
TTAAATGATTA
Found at i:13940893 original size:24 final size:25
Alignment explanation
Indices: 13940851--13940900 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
13940841 TTACAATATT
*
13940851 AATATATTAATATAAAAATTCTTTA
1 AATATATTAATACAAAAATTCTTTA
* *
13940876 AATATATTAA-ACATAAATTTTTTA
1 AATATATTAATACAAAAATTCTTTA
13940900 A
1 A
13940901 TATGTAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (25 bp):
AATATATTAATACAAAAATTCTTTA
Found at i:13941197 original size:23 final size:22
Alignment explanation
Indices: 13941122--13941198 Score: 66
Period size: 23 Copynumber: 3.4 Consensus size: 22
13941112 AATAAGAAAA
*
13941122 TATAAATATATAATACTTTTATG
1 TATAAATA-ATAATACTTTAATG
* * *
13941145 TTTAAATAATAAATATTTTAA-A
1 TATAAATAAT-AATACTTTAATG
*
13941167 TATAAAATAATACTACTTTAATTG
1 TAT-AAATAATAATACTTTAA-TG
13941191 TATAAATA
1 TATAAATA
13941199 TCTTTAACTA
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
22 12 0.29
23 27 0.64
24 3 0.07
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.44
Consensus pattern (22 bp):
TATAAATAATAATACTTTAATG
Found at i:13941265 original size:13 final size:13
Alignment explanation
Indices: 13941232--13941266 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
13941222 ATATTAATGG
*
13941232 AAATATTGTTTTA
1 AAATATTATTTTA
13941245 ATAATATTATTTTA
1 A-AATATTATTTTA
13941259 AAATATTA
1 AAATATTA
13941267 ATATAACTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (13 bp):
AAATATTATTTTA
Found at i:13941398 original size:24 final size:25
Alignment explanation
Indices: 13941371--13941433 Score: 92
Period size: 24 Copynumber: 2.6 Consensus size: 25
13941361 TTTTTAAACG
* *
13941371 TTAATATATTAATAATAAA-TATTT
1 TTAATATTTTAATAATAAACAATTT
13941395 TTAATATTTTAATAATAAACAATTT
1 TTAATATTTTAATAATAAACAATTT
*
13941420 TTAACATTTTAATA
1 TTAATATTTTAATA
13941434 TTTATATCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
24 18 0.51
25 17 0.49
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (25 bp):
TTAATATTTTAATAATAAACAATTT
Found at i:13941428 original size:25 final size:24
Alignment explanation
Indices: 13941379--13941433 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 24
13941369 CGTTAATATA
* *
13941379 TTAATAATAAATATTTTTAATATT
1 TTAATAATAAAAATTTTTAACATT
13941403 TTAATAATAAACAATTTTTAACATT
1 TTAATAATAAA-AATTTTTAACATT
13941428 TTAATA
1 TTAATA
13941434 TTTATATCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
24 11 0.39
25 17 0.61
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (24 bp):
TTAATAATAAAAATTTTTAACATT
Found at i:13942782 original size:2 final size:2
Alignment explanation
Indices: 13942775--13942810 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
13942765 AAGACAGGGG
13942775 GA GA GA GA GA GA GA GA GA GA GA GA GA GA -A GA -A GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
13942811 AGAATTTACC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 30 0.94
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
GA
Found at i:13946481 original size:93 final size:93
Alignment explanation
Indices: 13946379--13946564 Score: 345
Period size: 93 Copynumber: 2.0 Consensus size: 93
13946369 TGACAATAAT
* *
13946379 CAAAATAGTTATGAAATAAATCTTTAAAATATCTATCAAATACTTAACTATAAAAAATGGACAAA
1 CAAAATAGTTATGAAATAAATCTTGAAAATATATATCAAATACTTAACTATAAAAAATGGACAAA
*
13946444 ATAATGAATCTTGTTAGATTTTTTTTAC
66 ATAATGAATCTTCTTAGATTTTTTTTAC
13946472 CAAAATAGTTATGAAATAAATCTTGAAAATATATATCAAATACTTAACTATAAAAAATGGACAAA
1 CAAAATAGTTATGAAATAAATCTTGAAAATATATATCAAATACTTAACTATAAAAAATGGACAAA
13946537 ATAATGAATCTTCTTAGATTTTTTTTAC
66 ATAATGAATCTTCTTAGATTTTTTTTAC
13946565 TTATGTTATG
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 90 1.00
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.36
Consensus pattern (93 bp):
CAAAATAGTTATGAAATAAATCTTGAAAATATATATCAAATACTTAACTATAAAAAATGGACAAA
ATAATGAATCTTCTTAGATTTTTTTTAC
Found at i:13948859 original size:57 final size:56
Alignment explanation
Indices: 13948796--13949336 Score: 570
Period size: 58 Copynumber: 9.1 Consensus size: 56
13948786 TTTTTTGAAA
13948796 TTTTTTGAAATTTATTTTAAGGAAAATTGATACTTTCAACTTTTCTCAAAAATATTT
1 TTTTTTGAAATTTATTTTAAGGAAAATTGATACTTTCAACTTTTCTCAAAAATA-TT
*
13948853 TTTTTTGAGACTTTGATTTTCAAGGAAAATTGATAATTGATACTTTCAACTTTTCCTCAAAAAT-
1 TTTTTTGA-AATTT-ATTTT-AAGG---A---A-AATTGATACTTTCAACTTTT-CTCAAAAATA
**
13948917 CC
55 TT
*
13948919 CTTTTTGAAAATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTCTCCAAAAATA-T
1 TTTTTTG-AAATTTATTT-TAAGGAAAATTGATACTTTCAACTTTTCT-CAAAAATATT
* * *
13948977 TTTTTTGAAATTTATTTTTAAGAAAAATTGATACCTTCAACTTTTCCCTAAAAATATT
1 TTTTTTGAAATTTA-TTTTAAGGAAAATTGATACTTTCAACTTTTCTC-AAAAATATT
* *
13949035 TTTTTTGAAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAATATT
1 TTTTTTG-AAATTTA-TTTTAAGGAAAATTGATACTTTCAACTTTTCTCAAAAATATT
* * *
13949093 TTTTTGGAAATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATGTTTTT
1 TTTTTTGAAATTTATTT-TAAGGAAAATTGATACTTTCAACTTTT-CTCAAAAA---TATT
* * *
13949154 TTTTTTGGAAACTTTGATTTTAAGGAAAATTGATACTTTTAACTTTTCCTCAAAAA-CTC
1 TTTTTT-GAAA-TTT-ATTTTAAGGAAAATTGATACTTTCAACTTTT-CTCAAAAATATT
*
13949213 TTTTTTGAAATTTTATTTTTAAGGAAAATTGATGCTTTCAACTTTTCCTC-AAAATATT
1 TTTTTTGAAA-TTTA-TTTTAAGGAAAATTGATACTTTCAACTTTT-CTCAAAAATATT
*
13949271 TTTTTGGAAATTTTGATTTTCAAGGAAAATTGATACTTTCAACTTTTC-CATAAAAATATT
1 TTTTTTGAAA-TTT-ATTTT-AAGGAAAATTGATACTTTCAACTTTTCTC--AAAAATATT
13949331 TTTTTT
1 TTTTTT
13949337 TTTAAATTTT
Statistics
Matches: 421, Mismatches: 29, Indels: 65
0.82 0.06 0.13
Matches are distributed among these distances:
56 4 0.01
57 90 0.21
58 127 0.30
59 78 0.19
60 17 0.04
61 8 0.02
62 5 0.01
63 38 0.09
64 4 0.01
65 8 0.02
66 12 0.03
67 21 0.05
68 9 0.02
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.47
Consensus pattern (56 bp):
TTTTTTGAAATTTATTTTAAGGAAAATTGATACTTTCAACTTTTCTCAAAAATATT
Found at i:13948952 original size:58 final size:58
Alignment explanation
Indices: 13948887--13949335 Score: 563
Period size: 57 Copynumber: 7.7 Consensus size: 58
13948877 GAAAATTGAT
*** *
13948887 AATTGATACTTTCAACTTTTCCTCAAAAATCCCTTTTTGAAAATTTATTTCTAAGGAA
1 AATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAAGGAA
*
13948945 AATTGATACTTTCAACTTTT-CTCCAAAAATATTTTTTTG-AAATTTATTTTTAAGAAA
1 AATTGATACTTTCAACTTTTCCT-CAAAAATATTTTTTTGAAAATTTATTTTTAAGGAA
*
13949002 AATTGATACCTTCAACTTTTCC-CTAAAAATATTTTTTTTGAAAATTTATTTTTAAGGAA
1 AATTGATACTTTCAACTTTTCCTC-AAAAATA-TTTTTTTGAAAATTTATTTTTAAGGAA
* * *
13949061 AATTGATACTTTCAACTTTTCC-CTAAAATATTTTTTTGGAAATTTATTTCTAAGGAA
1 AATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAAGGAA
* * *
13949118 AATTGATACTTTCAACTTTTCCCCAAAAATGTTTTTTTTTTTGGAAACTTTGA-TTTTAAGGAA
1 AATTGATACTTTCAACTTTTCCTCAAAAA----TATTTTTTT-GAAAATTT-ATTTTTAAGGAA
* * *
13949181 AATTGATACTTTTAACTTTTCCTCAAAAACT-CTTTTTTGAAATTTTATTTTTAAGGAA
1 AATTGATACTTTCAACTTTTCCTCAAAAA-TATTTTTTTGAAAATTTATTTTTAAGGAA
* * *
13949239 AATTGATGCTTTCAACTTTTCCTC-AAAATATTTTTTTGGAAATTTTGATTTTCAAGGAA
1 AATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT-GAAAATTT-ATTTTTAAGGAA
13949298 AATTGATACTTTCAACTTTTCCAT-AAAAATATTTTTTT
1 AATTGATACTTTCAACTTTTCC-TCAAAAATATTTTTTT
13949336 TTTTAAATTT
Statistics
Matches: 347, Mismatches: 26, Indels: 34
0.85 0.06 0.08
Matches are distributed among these distances:
56 2 0.01
57 102 0.29
58 100 0.29
59 77 0.22
60 15 0.04
62 8 0.02
63 42 0.12
64 1 0.00
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (58 bp):
AATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAAGGAA
Found at i:13949471 original size:18 final size:17
Alignment explanation
Indices: 13949450--13949486 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
13949440 AATCTAATCT
*
13949450 AATAAATATAAATAAATA
1 AATAAATA-AAACAAATA
13949468 AATAAATAAAACAAATA
1 AATAAATAAAACAAATA
13949485 AA
1 AA
13949487 AAAAAACTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.22
Consensus pattern (17 bp):
AATAAATAAAACAAATA
Found at i:13949485 original size:9 final size:9
Alignment explanation
Indices: 13949450--13949487 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
13949440 AATCTAATCT
13949450 AATAAATATA
1 AATAAATA-A
13949460 AATAAAT-A
1 AATAAATAA
13949468 AATAAATAA
1 AATAAATAA
*
13949477 AACAAATAA
1 AATAAATAA
13949486 AA
1 AA
13949488 AAAAACTGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
8 8 0.31
9 11 0.42
10 7 0.27
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (9 bp):
AATAAATAA
Found at i:13950399 original size:32 final size:30
Alignment explanation
Indices: 13950310--13950417 Score: 94
Period size: 32 Copynumber: 3.4 Consensus size: 30
13950300 TAAAAATCAA
* *
13950310 ATAAATATAAAAAAAATAATAATAGATAATTAG
1 ATAAATA-AAAAAAAA-AA-GATATATAATTAG
*
13950343 A-ACAGATAAATAAAAAAAAGATATATTA-TAGG
1 ATA-A-ATAAA-AAAAAAAAGATATATAATTA-G
13950375 ATAAATAAAAAAAATAACAGATATATAATTAG
1 ATAAATAAAAAAAA-AA-AGATATATAATTAG
13950407 ATAAATAAAAA
1 ATAAATAAAAA
13950418 TACAAAAATA
Statistics
Matches: 63, Mismatches: 4, Indels: 17
0.75 0.05 0.20
Matches are distributed among these distances:
30 5 0.08
31 9 0.14
32 31 0.49
33 9 0.14
34 9 0.14
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.24
Consensus pattern (30 bp):
ATAAATAAAAAAAAAAAGATATATAATTAG
Found at i:13950430 original size:4 final size:4
Alignment explanation
Indices: 13950407--13950588 Score: 68
Period size: 4 Copynumber: 46.2 Consensus size: 4
13950397 ATATAATTAG
*
13950407 ATAA AT-A A-AA ATACA A-AA ATAA ATAA A-AT ATAA A-ATA AT-A AT-A
1 ATAA ATAA ATAA ATA-A ATAA ATAA ATAA ATAA ATAA ATA-A ATAA ATAA
* * *
13950450 AT-A AT-A ATAA ATAA ATTATA ATATA AT-A ATAA ATAT ATAA CTAT ATAA
1 ATAA ATAA ATAA ATAA A-TA-A ATA-A ATAA ATAA ATAA ATAA ATAA ATAA
* *
13950498 ATAAA ATACA TATAA AT-A TTAA CAGAA A-AA ATAA ATAA ATAA ATAA
1 AT-AA ATA-A -ATAA ATAA ATAA -ATAA ATAA ATAA ATAA ATAA ATAA
* * * * *
13950544 AGAT ATAC ATAT ATTA ATAA ATAGTA AT-A ATAA ATAA AT-A ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATA--A ATAA ATAA ATAA ATAA ATAA A
13950589 ATACATAAAA
Statistics
Matches: 138, Mismatches: 19, Indels: 42
0.69 0.10 0.21
Matches are distributed among these distances:
3 35 0.25
4 77 0.56
5 18 0.13
6 8 0.06
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.29
Consensus pattern (4 bp):
ATAA
Found at i:13950436 original size:17 final size:18
Alignment explanation
Indices: 13950407--13950484 Score: 63
Period size: 18 Copynumber: 4.4 Consensus size: 18
13950397 ATATAATTAG
13950407 ATAAATAAAAATACAAAA
1 ATAAATAAAAATACAAAA
13950425 ATAAATAAAATATA-AAATA
1 ATAAATAAAA-ATACAAA-A
* *
13950444 AT-AATAATAATA-ATAA
1 ATAAATAAAAATACAAAA
* * * *
13950460 ATAAATTATAATATAATA
1 ATAAATAAAAATACAAAA
13950478 ATAAATA
1 ATAAATA
13950485 TATAACTATA
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
16 3 0.06
17 14 0.28
18 27 0.54
19 6 0.12
ACGTcount: A:0.71, C:0.01, G:0.00, T:0.28
Consensus pattern (18 bp):
ATAAATAAAAATACAAAA
Found at i:13950448 original size:3 final size:3
Alignment explanation
Indices: 13950428--13950481 Score: 53
Period size: 3 Copynumber: 18.7 Consensus size: 3
13950418 TACAAAAATA
*
13950428 AAT AA- AAT -AT AA- AAT AAT AAT AAT AAT AAT AAAT AAAT TAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT -AAT AAT AAT
13950472 -AT AAT AAT AA
1 AAT AAT AAT AA
13950482 ATATATAACT
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
2 8 0.18
3 29 0.66
4 7 0.16
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:13950449 original size:22 final size:23
Alignment explanation
Indices: 13950424--13950486 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 23
13950414 AAAATACAAA
13950424 AATAAATAA-AATATAAAATAAT
1 AATAAATAATAATATAAAATAAT
* *
13950446 AAT-AATAATAATAAATAAATTAT
1 AATAAATAATAATATA-AAATAAT
13950469 AATATAATAATAAATATA
1 AATA-AATAAT-AATATA
13950487 TAACTATATA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
21 5 0.15
22 8 0.24
23 9 0.27
25 6 0.18
26 5 0.15
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (23 bp):
AATAAATAATAATATAAAATAAT
Found at i:13950502 original size:62 final size:61
Alignment explanation
Indices: 13950436--13950589 Score: 154
Period size: 62 Copynumber: 2.4 Consensus size: 61
13950426 TAAATAAAAT
* *
13950436 ATAAAATAATAAT-AATAATAATAAATAAATTATAATATAAT-AATAAATATATA-ACTATATAA
1 ATAAAATAATAATAAATAATAATAAA-AAAATA-AATA-AATAAATAAAGATATACA-TATATAA
* * *
13950498 ATAAAATACAT-ATAAATATTAACAGAAAAAATAAATAAATAAATAAAGATATACATATATTA
1 ATAAAATA-ATAATAAATAATAATA-AAAAAATAAATAAATAAATAAAGATATACATATATAA
13950560 ATAAATAGTAATAATAAATAAATAATAAAA
1 ATAAA-A-TAATAATAAAT-AATAATAAAA
13950590 TACATAAAAT
Statistics
Matches: 76, Mismatches: 7, Indels: 16
0.77 0.07 0.16
Matches are distributed among these distances:
61 3 0.04
62 36 0.47
63 19 0.25
64 13 0.17
65 5 0.07
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.30
Consensus pattern (61 bp):
ATAAAATAATAATAAATAATAATAAAAAAATAAATAAATAAATAAAGATATACATATATAA
Found at i:13950581 original size:17 final size:16
Alignment explanation
Indices: 13950422--13950597 Score: 80
Period size: 17 Copynumber: 10.8 Consensus size: 16
13950412 TAAAAATACA
13950422 AAAATAAATAAA-ATAT
1 AAAATAAATAAATA-AT
13950438 AAAAT-AAT-AATAAT
1 AAAATAAATAAATAAT
*
13950452 AATAATAAATAAATTAT
1 AA-AATAAATAAATAAT
*
13950469 AATAT-AAT-AATAA-
1 AAAATAAATAAATAAT
* * *
13950482 ATATATAACTATATAAAT
1 A-AAATAAATAAAT-AAT
*
13950500 AAAATACATATAAATATT
1 AAAATA-A-ATAAATAAT
* *
13950518 AACAGAAA-AAATAA-
1 AAAATAAATAAATAAT
*
13950532 ATAAATAAATAAAGATAT
1 A-AAATAAATAAATA-AT
* *
13950550 ACATATATTAATAAATAGT
1 A-A-A-ATAAATAAATAAT
13950569 AATAATAAATAAATAAT
1 AA-AATAAATAAATAAT
*
13950586 AAAATACATAAA
1 AAAATAAATAAA
13950598 ATACAAAAGA
Statistics
Matches: 121, Mismatches: 22, Indels: 34
0.68 0.12 0.19
Matches are distributed among these distances:
13 1 0.01
14 15 0.12
15 22 0.18
16 26 0.21
17 28 0.23
18 13 0.11
19 7 0.06
20 9 0.07
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.29
Consensus pattern (16 bp):
AAAATAAATAAATAAT
Found at i:13951060 original size:2 final size:2
Alignment explanation
Indices: 13951055--13951105 Score: 84
Period size: 2 Copynumber: 25.5 Consensus size: 2
13951045 CGTGTGTGTG
* *
13951055 TA TA TA TA TA TA TC TA TA TA TA TA TA TA TA TA TC TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13951097 TA TA TA TA T
1 TA TA TA TA T
13951106 CTTGCAAGTG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:13966126 original size:2 final size:2
Alignment explanation
Indices: 13966121--13966145 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13966111 ATTATGTTTG
13966121 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 T
13966146 CTTACATGTG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13968059 original size:23 final size:24
Alignment explanation
Indices: 13968029--13968078 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 24
13968019 AAAAGTAATC
**
13968029 TTAAGTGAGGGTTAATAAAAA-TT
1 TTAAGTGAGAATTAATAAAAACTT
13968052 TTAAGTGAGAATTAATAAAAACTT
1 TTAAGTGAGAATTAATAAAAACTT
13968076 TTA
1 TTA
13968079 CTAAAAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 19 0.79
24 5 0.21
ACGTcount: A:0.46, C:0.02, G:0.16, T:0.36
Consensus pattern (24 bp):
TTAAGTGAGAATTAATAAAAACTT
Found at i:13968303 original size:16 final size:16
Alignment explanation
Indices: 13968282--13968312 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13968272 CTTATAATTT
13968282 TAATATTATTTAAAAA
1 TAATATTATTTAAAAA
*
13968298 TAATATTTTTTAAAA
1 TAATATTATTTAAAA
13968313 TGTTAGTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TAATATTATTTAAAAA
Found at i:13969582 original size:21 final size:21
Alignment explanation
Indices: 13969558--13969597 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
13969548 TTTAATTTAC
*
13969558 TTTTTTATA-TATTTTATATT
1 TTTTTTTTACTATTTTATATT
*
13969578 TTTTTTTTACTTTTTTATAT
1 TTTTTTTTACTATTTTATAT
13969598 ATTTCATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTTTTTACTATTTTATATT
Found at i:13970087 original size:14 final size:14
Alignment explanation
Indices: 13970062--13970106 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
13970052 AAATGTCAAA
*
13970062 TAATTTTACTTTTT
1 TAATTTTTCTTTTT
*
13970076 TCATTTTTC-TTTT
1 TAATTTTTCTTTTT
*
13970089 TAAATTTTCTTTTT
1 TAATTTTTCTTTTT
13970103 TAAT
1 TAAT
13970107 AAATATTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 11 0.44
14 14 0.56
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.71
Consensus pattern (14 bp):
TAATTTTTCTTTTT
Found at i:13970604 original size:20 final size:18
Alignment explanation
Indices: 13970579--13970628 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 18
13970569 GGTTCTGCAC
13970579 AAAATTAAAATATAAACAAA
1 AAAATTAAAATA-AAA-AAA
13970599 AAAATTAAAATAAAAAAA
1 AAAATTAAAATAAAAAAA
13970617 AGTAAATTAAAA
1 A--AAATTAAAA
13970629 AAATATAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 4 0.14
19 3 0.11
20 21 0.75
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (18 bp):
AAAATTAAAATAAAAAAA
Found at i:13970637 original size:15 final size:15
Alignment explanation
Indices: 13970585--13970639 Score: 62
Period size: 15 Copynumber: 3.8 Consensus size: 15
13970575 GCACAAAATT
*
13970585 AAAATATAAA-CAAA
1 AAAATATAAATTAAA
*
13970599 AAAAT-TAAAATAAA
1 AAAATATAAATTAAA
13970613 AAAA-AGTAAATTAAA
1 AAAATA-TAAATTAAA
13970628 AAAATATAAATT
1 AAAATATAAATT
13970640 TATGATATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
13 4 0.11
14 12 0.34
15 18 0.51
16 1 0.03
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.22
Consensus pattern (15 bp):
AAAATATAAATTAAA
Found at i:13971081 original size:12 final size:12
Alignment explanation
Indices: 13971064--13971109 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
13971054 TTTTATCTTG
13971064 ATTATATATTAA
1 ATTATATATTAA
13971076 ATTATATATTAA
1 ATTATATATTAA
* *
13971088 ATTATTTATTTA
1 ATTATATATTAA
*
13971100 ATTTTATATT
1 ATTATATATT
13971110 TATATATATG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
ATTATATATTAA
Found at i:13976930 original size:7 final size:8
Alignment explanation
Indices: 13976906--13976941 Score: 56
Period size: 8 Copynumber: 4.5 Consensus size: 8
13976896 ACTTTTTTAC
13976906 TTAATTTT
1 TTAATTTT
13976914 TTAATTTTT
1 TTAA-TTTT
13976923 TTAA-TTT
1 TTAATTTT
13976930 TTAATTTT
1 TTAATTTT
13976938 TTAA
1 TTAA
13976942 ATTACTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 7 0.27
8 11 0.42
9 8 0.31
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (8 bp):
TTAATTTT
Found at i:13987800 original size:3 final size:3
Alignment explanation
Indices: 13987792--13987820 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
13987782 CTCTCAGCTT
13987792 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
13987821 TACCAAATCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:13988225 original size:18 final size:18
Alignment explanation
Indices: 13988202--13988238 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
13988192 TTAAGGGATA
13988202 TAAAATTGAGTTTCACTT
1 TAAAATTGAGTTTCACTT
*
13988220 TAAAATTGGGTTTCACTT
1 TAAAATTGAGTTTCACTT
13988238 T
1 T
13988239 TGACTTAAAA
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:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (18 bp):
TAAAATTGAGTTTCACTT
Found at i:13993088 original size:33 final size:33
Alignment explanation
Indices: 13993046--13993123 Score: 93
Period size: 34 Copynumber: 2.3 Consensus size: 33
13993036 AAGTTTTATA
* *
13993046 ACTTTTCAAAATCTATTTTTAAAAAATTATAAC
1 ACTTTTCAAAATATATTTTCAAAAAATTATAAC
* * * *
13993079 ACTTCTCAAAAATATATTTTCAAGAAGTTATAAT
1 ACTTTTC-AAAATATATTTTCAAAAAATTATAAC
13993113 ACTTTTCAAAA
1 ACTTTTCAAAA
13993124 ATTTAACAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
33 10 0.27
34 27 0.73
ACGTcount: A:0.45, C:0.13, G:0.03, T:0.40
Consensus pattern (33 bp):
ACTTTTCAAAATATATTTTCAAAAAATTATAAC
Found at i:14004652 original size:93 final size:94
Alignment explanation
Indices: 14004555--14004724 Score: 209
Period size: 94 Copynumber: 1.8 Consensus size: 94
14004545 AAAGGAACCA
* * ** * *
14004555 TGACTCTGTGTGAGGCAAGAGGTGAGGTTGA-GAGAAAGTGA-AAACTGAGAGTGAAGGAGACTA
1 TGACTCTGTATGAGGCAAAAGGCAAGGTTGAGGAG-AAGTAAGAAACTGAGAGTGAAAGAGACTA
*
14004618 AAGGTGATAGTGTAAAAGTAAAAAGAATTG
65 AAGGTGACAGTGTAAAAGTAAAAAGAATTG
* * * * *
14004648 TGACTTTGTATGAGGCAAAAGGCAAGGTTGAGGAGGAGTAAGAAATTGAGATTGAAAGAGACTGA
1 TGACTCTGTATGAGGCAAAAGGCAAGGTTGAGGAGAAGTAAGAAACTGAGAGTGAAAGAGACTAA
14004713 AGGTGACAGTGT
66 AGGTGACAGTGT
14004725 GTCATGTGAG
Statistics
Matches: 63, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
93 30 0.48
94 33 0.52
ACGTcount: A:0.38, C:0.06, G:0.35, T:0.21
Consensus pattern (94 bp):
TGACTCTGTATGAGGCAAAAGGCAAGGTTGAGGAGAAGTAAGAAACTGAGAGTGAAAGAGACTAA
AGGTGACAGTGTAAAAGTAAAAAGAATTG
Found at i:14006256 original size:20 final size:20
Alignment explanation
Indices: 14006198--14006256 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 20
14006188 ATTTTTATTC
*
14006198 ATTTGTATTTTA-GATTTTT
1 ATTTTTATTTTATGATTTTT
*
14006217 -TTATTTCATATTTATCATTTTT
1 ATT-TTT-AT-TTTATGATTTTT
14006239 ATTTTTATTTTATGATTT
1 ATTTTTATTTTATGATTT
14006257 ATTTTCTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
18 2 0.06
19 2 0.06
20 11 0.34
21 6 0.19
22 9 0.28
23 2 0.06
ACGTcount: A:0.22, C:0.03, G:0.05, T:0.69
Consensus pattern (20 bp):
ATTTTTATTTTATGATTTTT
Found at i:14008859 original size:58 final size:59
Alignment explanation
Indices: 14008693--14008973 Score: 284
Period size: 58 Copynumber: 4.7 Consensus size: 59
14008683 ATTCTCGAGA
**
14008693 AAAAGTTGAAAGTATCAATTTTTCTCGAAAATAAAGTTTCCAAAAAAATGAATTTTTTTTAGG
1 AAAAGTTGAAAGTATCAATTTTTCTCGAAAATAAAGTTT-CAAAAAAA--AA-GGTTTTTAGG
* ** * * *
14008756 AAAAGTTGAAAGTATCAATTTTTTTTAAAAATAAATTTTCAAAAAAAAA-GCTTTAAGG
1 AAAAGTTGAAAGTATCAATTTTTCTCGAAAATAAAGTTTCAAAAAAAAAGGTTTTTAGG
* * **
14008814 AAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTCTAAAAAGTA--TTTTT-GG
1 AAAAGTTGAAAGTATCAATTTTTCTCGAAAATAAAGTTTCAAAAAAAAAGGTTTTTAGG
** *
14008870 AAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAA-TTTTAAAAAAGAAAGGGGTTTTTGAGG
1 --AAAAGTTGAAAGTATCAATTTTTCTCGAAAATAAAGTTTCAAAAAA-AAA--GGTTTTT-AGG
* *
14008934 AAAAATTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTC
1 AAAAGTTGAAAGTATCAATTTTTCTCGAAAATAAAGTTTC
14008974 CAGAAAATAT
Statistics
Matches: 179, Mismatches: 29, Indels: 20
0.79 0.13 0.09
Matches are distributed among these distances:
56 2 0.01
57 11 0.06
58 80 0.45
60 2 0.01
62 44 0.25
63 38 0.21
64 2 0.01
ACGTcount: A:0.44, C:0.06, G:0.13, T:0.36
Consensus pattern (59 bp):
AAAAGTTGAAAGTATCAATTTTTCTCGAAAATAAAGTTTCAAAAAAAAAGGTTTTTAGG
Found at i:14008985 original size:120 final size:116
Alignment explanation
Indices: 14008691--14008987 Score: 382
Period size: 120 Copynumber: 2.5 Consensus size: 116
14008681 ATATTCTCGA
* ** *
14008691 GAAAAAGTTGAAAGTATCAATTTTTCTCGAAAATAAAGTTTCCAAAAAAATGAATTTTTTTTAGG
1 GAAAAA-TTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTCC--AAAAAT--A-TTTTTGGAGA
*
14008756 AAAAGTTGAAAGTATCAATTTTTTTTAAAAATAAATTTTCAAAAAAAAAGCTTTAAG
60 AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAAAAGCTTTAAG
* *
14008813 GAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTCTAAAAAGTATTTTTGGA-AAAAAG
1 GAAAAATTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTCCAAAAA-TATTTTTGGAGAAAAAG
* *
14008877 TTGAAAGTATCAATTTTTCTTAAAAATAAATTTT-AAAAAAGAAAGGGGTTTTTGAG
65 TTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAA-AAA---G-CTTTAAG
14008933 GAAAAATTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTCCAGAAAATATTTTT
1 GAAAAATTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTCCA-AAAATATTTTT
14008988 CCCTGCACAT
Statistics
Matches: 157, Mismatches: 11, Indels: 16
0.85 0.06 0.09
Matches are distributed among these distances:
115 6 0.04
116 41 0.26
117 6 0.04
118 1 0.01
119 6 0.04
120 54 0.34
121 38 0.24
122 5 0.03
ACGTcount: A:0.44, C:0.06, G:0.13, T:0.36
Consensus pattern (116 bp):
GAAAAATTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTCCAAAAATATTTTTGGAGAAAAAGT
TGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAAAAGCTTTAAG
Found at i:14013412 original size:30 final size:28
Alignment explanation
Indices: 14013378--14013433 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
14013368 TATTAACAAT
**
14013378 TGATGAAAAATGAGTAAAAAGAAAAGAAGA
1 TGATGAAAAAAAAG-AAAAA-AAAAGAAGA
14013408 TGATGAAAAAAAAGAAAAAAAAAGAA
1 TGATGAAAAAAAAGAAAAAAAAAGAA
14013434 AGAAAGAAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 7 0.29
29 5 0.21
30 12 0.50
ACGTcount: A:0.70, C:0.00, G:0.20, T:0.11
Consensus pattern (28 bp):
TGATGAAAAAAAAGAAAAAAAAAGAAGA
Found at i:14013456 original size:32 final size:30
Alignment explanation
Indices: 14013383--14013468 Score: 77
Period size: 31 Copynumber: 2.8 Consensus size: 30
14013373 ACAATTGATG
* *
14013383 AAAAATGAGTAAAAAGAAAAGAAGATGATGA
1 AAAAATGAG-AAAAAGAAAAGAAGAAGAGGA
*
14013414 AAAAA-AAGAAAAA-AAAAGAAAGAAAGAAGGA
1 AAAAATGAGAAAAAGAAAAG-AAG-AAG-AGGA
* *
14013445 AAAAATGAGAAAATGAAAAAAAGA
1 AAAAATGAGAAAAAGAAAAGAAGA
14013469 GATTCAAATT
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
28 5 0.11
29 8 0.18
30 4 0.09
31 14 0.32
32 9 0.20
33 4 0.09
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.07
Consensus pattern (30 bp):
AAAAATGAGAAAAAGAAAAGAAGAAGAGGA
Found at i:14014226 original size:63 final size:63
Alignment explanation
Indices: 14014158--14014281 Score: 203
Period size: 63 Copynumber: 2.0 Consensus size: 63
14014148 AAATTGGTGC
* * *
14014158 TGAGAAGCTTATAAATGATGACCAAGTGACAGATGATGAAATTTGTTTTGAAATGGCTAGTAT
1 TGAGAAGCTTATAAACGATGACCAAGTGACAGAAGATGAAATTTATTTTGAAATGGCTAGTAT
* *
14014221 TGAGAAGCTTATGAACGATGACCAAGTGACAGAAGATGAAATTTATTTTGAAATGGTTAGT
1 TGAGAAGCTTATAAACGATGACCAAGTGACAGAAGATGAAATTTATTTTGAAATGGCTAGT
14014282 GCTAATAAGC
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 56 1.00
ACGTcount: A:0.37, C:0.08, G:0.24, T:0.31
Consensus pattern (63 bp):
TGAGAAGCTTATAAACGATGACCAAGTGACAGAAGATGAAATTTATTTTGAAATGGCTAGTAT
Done.