Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold177
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: 788481
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.27
Warning! 150793 characters in sequence are not A, C, G, or T
File 4 of 5
Found at i:615217 original size:22 final size:22
Alignment explanation
Indices: 615172--615236 Score: 69
Period size: 24 Copynumber: 2.9 Consensus size: 22
615162 TGTTTATTAA
* * *
615172 TTAATAAAAAATTAAAAATATTT
1 TTAATTAAAAATTATATAT-TTT
*
615195 TTATATTAAAATTTATATATTTT
1 TTA-ATTAAAAATTATATATTTT
615218 TTAATTAAAAATTAT-TATT
1 TTAATTAAAAATTATATATT
615237 AAATTATTTC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 4 0.11
22 11 0.31
23 9 0.25
24 12 0.33
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TTAATTAAAAATTATATATTTT
Found at i:615218 original size:23 final size:21
Alignment explanation
Indices: 615192--615236 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 21
615182 ATTAAAAATA
*
615192 TTTTTATATTAAAATTTATATAT
1 TTTTTA-ATTAAAAATTAT-TAT
615215 TTTTTAATTAAAAATTATTAT
1 TTTTTAATTAAAAATTATTAT
615236 T
1 T
615237 AAATTATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 4 0.19
22 11 0.52
23 6 0.29
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTTTAATTAAAAATTATTAT
Found at i:615271 original size:21 final size:21
Alignment explanation
Indices: 615234--615276 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
615224 AAAAATTATT
*
615234 ATTAAATTATTTCAAATCAAA
1 ATTAAATAATTTCAAATCAAA
*
615255 ATTAAATCAATTT-AAATTAAA
1 ATTAAAT-AATTTCAAATCAAA
615276 A
1 A
615277 AAATTATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (21 bp):
ATTAAATAATTTCAAATCAAA
Found at i:615852 original size:15 final size:15
Alignment explanation
Indices: 615828--615858 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
615818 TATATGTAAA
615828 TATAAATTTTAAAAT
1 TATAAATTTTAAAAT
*
615843 TATAATTTTTAAAAT
1 TATAAATTTTAAAAT
615858 T
1 T
615859 TTTAAATATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATAAATTTTAAAAT
Found at i:623525 original size:290 final size:284
Alignment explanation
Indices: 622951--623527 Score: 967
Period size: 284 Copynumber: 2.0 Consensus size: 284
622941 GTCAATTCTT
* *
622951 AATCATTCACGAGAATCTAAGATAAAATGTGGTTTTAGAAGTACTACTTCAAGTCATATAAGCAC
1 AATCATTCACAAGAATCTAAGATAAAATGTGGTTTTAGAAGTACTACTGCAAGTCATATAAGCAC
*
623016 CCATACAAATACTAGGATCAAGTAGTTTTCAAAGTTAACAACACTGGTGTAACTAAATATGTCCT
66 CCATACAAATACTAGGATCAAGTAGTTTTCAAAGGTAACAACACTGGTGTAACTAAATATGTCCT
*
623081 AATTGAGAGATAGCAAAAGCCACCATAGATACAGAACAAATTCTAATTACCCTTTAAATTTAGAC
131 AATTGAGACATAGCAAAAGCCACCATAGATACAGAACAAATTCTAATTACCCTTTAAATTTAGAC
*
623146 AGTATCAATGGTATCCAATATATTAAGACTGTTTAAGTCATATATGTAGGTTTTCTCTTGCAAAA
196 AGTATCAATGATATCCAATATATTAAGACTGTTTAAGTCATATATGTAGGTTTTCTCTTGCAAAA
*
623211 TCACAAGAAGTCTGCAATTATACA
261 CCACAAGAAGTCTGCAATTATACA
* *
623235 AATCATTTACAAGAATCTAAGATAAAATGTGGTTTTAGAAGTACTACTGCACGTCATATAAGCAC
1 AATCATTCACAAGAATCTAAGATAAAATGTGGTTTTAGAAGTACTACTGCAAGTCATATAAGCAC
*
623300 CCATACAAATACTAGGATCAAGTAGTTTTCGAAGTTAGAGTAACAATACTGGTGTAACTAAATAT
66 CCATACAAATACTAGGATCAAGTAGTTTTC-AA---AG-GTAACAACACTGGTGTAACTAAATAT
* *
623365 GTCCTATTTGAGACATAGCAAAAGCCACCATAGATACAGAACAAATTCTACTTACCCTTTAAATT
126 GTCCTAATTGAGACATAGCAAAAGCCACCATAGATACAGAACAAATTCTAATTACCCTTTAAATT
* *
623430 TGGCACAGTATCAATGATATCCAATAT-TTCAAGACTGTTTATGTCATATATGTAGGTTTTCTCT
191 TAG-ACAGTATCAATGATATCCAATATATT-AAGACTGTTTAAGTCATATATGTAGGTTTTCTCT
623494 TGCAAAACCACAAGAAGTCTGCAATTATACA
254 TGCAAAACCACAAGAAGTCTGCAATTATACA
623525 AAT
1 AAT
623528 TAAGTATCAT
Statistics
Matches: 273, Mismatches: 13, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
284 91 0.33
285 2 0.01
288 2 0.01
289 90 0.33
290 88 0.32
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (284 bp):
AATCATTCACAAGAATCTAAGATAAAATGTGGTTTTAGAAGTACTACTGCAAGTCATATAAGCAC
CCATACAAATACTAGGATCAAGTAGTTTTCAAAGGTAACAACACTGGTGTAACTAAATATGTCCT
AATTGAGACATAGCAAAAGCCACCATAGATACAGAACAAATTCTAATTACCCTTTAAATTTAGAC
AGTATCAATGATATCCAATATATTAAGACTGTTTAAGTCATATATGTAGGTTTTCTCTTGCAAAA
CCACAAGAAGTCTGCAATTATACA
Found at i:625213 original size:12 final size:12
Alignment explanation
Indices: 625196--625221 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
625186 CTTAGGTTGG
625196 TCCACCGTGATA
1 TCCACCGTGATA
625208 TCCACCGTGATA
1 TCCACCGTGATA
625220 TC
1 TC
625222 TAACAATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.35, G:0.15, T:0.27
Consensus pattern (12 bp):
TCCACCGTGATA
Found at i:625424 original size:23 final size:22
Alignment explanation
Indices: 625390--625436 Score: 76
Period size: 23 Copynumber: 2.1 Consensus size: 22
625380 TTTGGAGGTA
625390 TATTAATAAATTATTTTTATTT
1 TATTAATAAATTATTTTTATTT
*
625412 TATTTATATAATTATTTTTATTT
1 TATTAATA-AATTATTTTTATTT
625435 TA
1 TA
625437 AAATAATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (22 bp):
TATTAATAAATTATTTTTATTT
Found at i:625426 original size:17 final size:17
Alignment explanation
Indices: 625406--625458 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 17
625396 TAAATTATTT
*
625406 TTATTTTATTTATATAA
1 TTATTTTATTTAAATAA
625423 TTATTTTTATTTTAAAATAA
1 TTA-TTTTA-TTT-AAATAA
*
625443 TTATTATATTTAAATA
1 TTATTTTATTTAAATA
625459 TAATAATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
17 8 0.26
18 8 0.26
19 7 0.23
20 8 0.26
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTATTTTATTTAAATAA
Found at i:625448 original size:23 final size:23
Alignment explanation
Indices: 625398--625471 Score: 68
Period size: 23 Copynumber: 3.3 Consensus size: 23
625388 TATATTAATA
**
625398 AATTATTTTTATTTTATTTATAT
1 AATTATTTTTATTTTAAATATAT
625421 AATTATTTTTATTTT-AA-A-AT
1 AATTATTTTTATTTTAAATATAT
*
625441 AATTA-TTATA-TTTAAATATAAT
1 AATTATTTTTATTTTAAATAT-AT
625463 AATATATTT
1 AAT-TATTT
625472 ATACATTTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
18 3 0.07
19 6 0.14
20 8 0.19
21 1 0.02
22 5 0.12
23 17 0.40
24 2 0.05
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (23 bp):
AATTATTTTTATTTTAAATATAT
Found at i:625456 original size:18 final size:18
Alignment explanation
Indices: 625406--625472 Score: 57
Period size: 18 Copynumber: 3.7 Consensus size: 18
625396 TAAATTATTT
* *
625406 TTATTTTATTT-ATATAA
1 TTATTATATTTAAAATAA
*
625423 TTATTTTTATTTTAAAATAA
1 TTA-TTATA-TTTAAAATAA
625443 TTATTATATTTAAATATAA
1 TTATTATATTTAAA-ATAA
*
625462 -TAATATATTTA
1 TTATTATATTTA
625473 TACATTTTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
17 3 0.07
18 21 0.49
19 11 0.26
20 8 0.19
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TTATTATATTTAAAATAA
Found at i:626890 original size:28 final size:30
Alignment explanation
Indices: 626836--626894 Score: 77
Period size: 32 Copynumber: 2.0 Consensus size: 30
626826 ATGATTTATT
*
626836 TTTATTTATATAAGTTTGAATTTATTTTTTAG
1 TTTAATTATATAAGTTTGAA--TATTTTTTAG
626868 TTTAATTATATAAGTTT-AA-ATTTTTTA
1 TTTAATTATATAAGTTTGAATATTTTTTA
626895 AGGTATAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 8 0.31
31 2 0.08
32 16 0.62
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (30 bp):
TTTAATTATATAAGTTTGAATATTTTTTAG
Found at i:626914 original size:6 final size:6
Alignment explanation
Indices: 626903--626930 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
626893 TAAGGTATAA
626903 TTTATT TTTATT TTTATT TTTATT TTTA
1 TTTATT TTTATT TTTATT TTTATT TTTA
626931 AATGTTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTATT
Found at i:626943 original size:85 final size:85
Alignment explanation
Indices: 626830--627000 Score: 227
Period size: 85 Copynumber: 2.0 Consensus size: 85
626820 TAAGATATGA
* * * * *
626830 TTTATTTTTATTTATATAAGTTTGAATTTATTTTTTAGTTTAATTATATAAGTTTAAATTTTTTA
1 TTTATTTTTATTTATATAAGTTTAAATTTATTTTTGAGGTTAATTATAGAAGTTAAAATTTTTTA
626895 AGGTATAATTTATTTTTATT
66 AGGTATAATTTATTTTTATT
* * * * *
626915 TTTATTTTTATTTTTA-AATGTTTAAATTTGTTTTTGGGGTTGATTATAGGAGTTAAAATTTTTT
1 TTTATTTTTATTTATATAA-GTTTAAATTTATTTTTGAGGTTAATTATAGAAGTTAAAATTTTTT
*
626979 AATGTATAATTTATTTTTATT
65 AAGGTATAATTTATTTTTATT
627000 T
1 T
627001 GTAAGATTAA
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
84 2 0.03
85 72 0.97
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (85 bp):
TTTATTTTTATTTATATAAGTTTAAATTTATTTTTGAGGTTAATTATAGAAGTTAAAATTTTTTA
AGGTATAATTTATTTTTATT
Found at i:627332 original size:75 final size:73
Alignment explanation
Indices: 627139--627475 Score: 345
Period size: 75 Copynumber: 4.6 Consensus size: 73
627129 TCTTTAGGCA
* * *
627139 TGATTATACGAGTTTAAA-TTTTTAAGGTATAATTTATTTTTATTTGTAGAAATTTAAATTTATA
1 TGATTATAGGAGTTTAAATTTTTTAAAGTATGATTTATTTTTATTTGTAGAAATTTAAATTTAT-
*
627203 TTTTGAT-T
65 TTTTCATGT
* * * *
627211 TGATTCTAGGAGTTTAAA-TTTTTAAGGTATTA-TTA--TTT-TTTGTAGAAGTTTAAATTTATT
1 TGATTATAGGAGTTTAAATTTTTTAAAGTATGATTTATTTTTATTTGTAGAAATTTAAATTTATT
*
627271 TTCTAATGT
66 TT-TCATGT
* * *
627280 ATAATTATCA-GAGTTTAAATTTTTTAAAGTATGATTTATTCTTATTTGTAGAAATTCAAATTTA
1 -TGATTAT-AGGAGTTTAAATTTTTTAAAGTATGATTTATTTTTATTTGTAGAAATTTAAATTTA
627344 TTTTTCA-GTT
64 TTTTTCATG-T
** * * *
627354 TGATTATACAATTTTTAATTTTTTTAAAGATATGATTTATTTTTATTTAT-GAAAGTTTAAATTT
1 TGATTATAGGA-GTTTAAATTTTTTAAAG-TATGATTTATTTTTATTTGTAGAAA-TTTAAATTT
627418 ATTTTTCATGT
63 ATTTTTCATGT
*
627429 TGATTATAGGAG-TTAAAGTTTTTTTAAGATATGATTTATTTTTATTT
1 TGATTATAGGAGTTTAAA-TTTTTTAAAG-TATGATTTATTTTTATTT
627476 ATTTGTAAGA
Statistics
Matches: 224, Mismatches: 25, Indels: 30
0.80 0.09 0.11
Matches are distributed among these distances:
67 3 0.01
68 23 0.10
69 4 0.02
70 14 0.06
71 16 0.07
72 33 0.15
73 12 0.05
74 52 0.23
75 66 0.29
76 1 0.00
ACGTcount: A:0.32, C:0.03, G:0.11, T:0.54
Consensus pattern (73 bp):
TGATTATAGGAGTTTAAATTTTTTAAAGTATGATTTATTTTTATTTGTAGAAATTTAAATTTATT
TTTCATGT
Found at i:627332 original size:143 final size:148
Alignment explanation
Indices: 627141--627475 Score: 386
Period size: 143 Copynumber: 2.3 Consensus size: 148
627131 TTTAGGCATG
* * * *
627141 ATTATACGAGTTTAAA-TTTTTAAGGTATAATTTATTTTTATTTGTAGAAATTTAAATTTATATT
1 ATTATAGGAGTTTAAATTTTTTAAAGTATGATTTATTTTTATTTGTAGAAATTCAAATTTAT-TT
* * ** * *
627205 TTGA-TTTGATTCTAGGA-GTTTAA-ATTTTT-AAGGTATTA-TTATTTTT-TGTA-G-AAGTTT
65 TTCAGTTTGATTATACAATGTTTAATATTTTTAAAGATATGATTTATTTTTATGTATGAAAGTTT
627262 AAATTTATTTTCTAATGTATA
130 AAATTTATTTT-TAATGT-TA
*
627283 ATTATCA-GAGTTTAAATTTTTTAAAGTATGATTTATTCTTATTTGTAGAAATTCAAATTTATTT
1 ATTAT-AGGAGTTTAAATTTTTTAAAGTATGATTTATTTTTATTTGTAGAAATTCAAATTTATTT
* * *
627347 TTCAGTTTGATTATACAATTTTTAATTTTTTTAAAGATATGATTTATTTTTATTTATGAAAGTTT
65 TTCAGTTTGATTATACAATGTTTAATATTTTTAAAGATATGATTTATTTTTATGTATGAAAGTTT
* *
627412 AAATTTATTTTTCATGTTG
130 AAATTTATTTTTAATGTTA
*
627431 ATTATAGGAG-TTAAAGTTTTTTTAAGATATGATTTATTTTTATTT
1 ATTATAGGAGTTTAAA-TTTTTTAAAG-TATGATTTATTTTTATTT
627476 ATTTGTAAGA
Statistics
Matches: 163, Mismatches: 17, Indels: 19
0.82 0.09 0.10
Matches are distributed among these distances:
142 19 0.12
143 52 0.32
144 5 0.03
145 5 0.03
146 7 0.04
147 14 0.09
148 21 0.13
149 23 0.14
150 17 0.10
ACGTcount: A:0.32, C:0.03, G:0.11, T:0.54
Consensus pattern (148 bp):
ATTATAGGAGTTTAAATTTTTTAAAGTATGATTTATTTTTATTTGTAGAAATTCAAATTTATTTT
TCAGTTTGATTATACAATGTTTAATATTTTTAAAGATATGATTTATTTTTATGTATGAAAGTTTA
AATTTATTTTTAATGTTA
Found at i:627519 original size:479 final size:475
Alignment explanation
Indices: 626915--627979 Score: 1387
Period size: 485 Copynumber: 2.2 Consensus size: 475
626905 TATTTTTATT
* * *
626915 TTTATTTTTATTTTTAAATGTTTAAATTTGTTTTTGGGGTTGATTATAGGAGTTAAAATTTTTTA
1 TTTATTTTTA-TTTTAAAAGTTTAAATTTGTTTTTCGGGTTGATTATAGGAGTTAAATTTTTTTA
* * *
626980 ATGTATAATTTATTTTTATTTGTAAGATTAATTGGATTTTTGGGATATTTTATCTAAATATGATT
65 A-GTATAATTTATTTTTATTTGTAAGATTAGTTTGATTTTTGGGATATTTTATCTAAATATGACT
* *
627045 AAAATTTAGTTTGATTGCATTATTATATTTTTGTTGAAATATTAAGTAATTAGTATT-TGAAATG
129 AAAATTTAGTTTGATTGCATTAATATATTTTTATTGAAATATTAAGTAATTAGTATTAT-AAATG
* * *
627109 AAAATA-TTTT-TTTGTAAAAGT-CTTTAGG-CATGATTATACGAGTTTAAATTTTTAAGGTATA
193 AAAATATTTTTATTTGTAAAAATACTTTAGGACATAATTATACGAGTTTAAATTTTTAAAGTATA
*
627170 ATTTATTTTTATTTGTAGAAA-TTTAAA-TT-TA-TATTTTGATTTGATTCTAGGAGTTTAAATT
258 ATTTATTTTTATTTGTA-AAAGTTTAAATTTGTATTATTTTGATTTGATTATAGGAGTTT-AATT
* * * * *
627231 TTTAAGGTATTA-TTATTTTTTGTAGAAGTTTAAATTTATTTTCTAATGTATAATTATCAGAGTT
321 TTTAAGGTATTATTTATTTTTTATAAAAG-TTAAAATT-TTTT-TAATGTATAATTATAAGAATT
* *
627295 TAAATTTTTTAAAGTATGATTTATTCTTATTTGTAGAAA-TTCAAATTTATTTTTCAGTTTGATT
383 TAAATTTTTT-AAGTATAATTTATTCTTATTTGTA-AAAGTTCAAATTTATTTTTCAGCTTGATT
* * *
627359 ATACAATTTTTAATTTTTTTAAAGATATGA
446 AAACAAGTTTAAATTTTTTTAAAGATATGA
* * **
627389 TTTATTTTTATTTATGAAAGTTTAAATTTATTTTTCATGTTGATTATAGGAGTTAAAGTTTTTTT
1 TTTATTTTTATTT-TAAAAGTTTAAATTTGTTTTTCGGGTTGATTATAGGAGTTAAA-TTTTTTT
* *
627454 AAGATATGATTTATTTTTATTTATTTGTAAGATTAGTTTGATTTTTGGTATATTTTATCTAAATA
64 AAG-TATAATTTA---TT-TTTATTTGTAAGATTAGTTTGATTTTTGGGATATTTTATCTAAATA
*
627519 TGACTAAAATTTAGTTTGATTGCATTAATATATTTTTATTGAAATATTAGGTAATTAGTATTATA
124 TGACTAAAATTTAGTTTGATTGCATTAATATATTTTTATTGAAATATTAAGTAATTAGTATTATA
* * * *
627584 AATGAAAATATTTTTTATTTTTAAAAATATTTTTGGATATAATTATACGAGTTTAAATTTTTAAA
189 AATGAAAATA-TTTTTATTTGTAAAAATACTTTAGGACATAATTATACGAGTTTAAATTTTTAAA
* *
627649 GTATAATTTATTTTTATTTGTAAAAGTTTAAATTTGTATTTTGTTTTGGTTTGATTATAGGAGTT
253 GTATAATTTATTTTTATTTGTAAAAGTTTAAATTTGTA--TTATTTTGATTTGATTATAGGAGTT
** *
627714 TAATTTTTAAGGTATTATTTATTTTTTATAAAAGTTAAAATTTTTTTGGTGTATAATTGTAAGAA
316 TAATTTTTAAGGTATTATTTATTTTTTATAAAAGTTAAAATTTTTTTAATGTATAATTATAAGAA
* * **
627779 TTTAAATTTTTTAAGTATAATTTATTTTTATTTGTAAAAGTTTAAATTTATTTTTTGGCTTGATT
381 TTTAAATTTTTTAAGTATAATTTATTCTTATTTGTAAAAGTTCAAATTTATTTTTCAGCTTGATT
** *
627844 AAATGAGTTTAAATTTTTTTTAAGATATGA
446 AAACAAGTTTAAATTTTTTTAAAGATATGA
* * * * **
627874 TTTATTTTTAATTTTAAAATTTTTAATTTGTTTTTTGGGTTAATTATACAAGTTAAAATTTTTTT
1 TTTATTTTT-ATTTTAAAAGTTTAAATTTGTTTTTCGGGTTGATTATAGGAGTT-AAATTTTTTT
*
627939 ATGTATAATTTATTTTTATTTGTAAGATTAGTTTGATTTTT
64 AAGTATAATTTATTTTTATTTGTAAGATTAGTTTGATTTTT
627980 ATTTTAATTG
Statistics
Matches: 511, Mismatches: 57, Indels: 40
0.84 0.09 0.07
Matches are distributed among these distances:
473 3 0.01
474 48 0.09
475 16 0.03
478 2 0.00
479 112 0.22
480 28 0.05
481 6 0.01
482 9 0.02
483 8 0.02
484 64 0.13
485 117 0.23
486 35 0.07
487 4 0.01
488 23 0.05
489 36 0.07
ACGTcount: A:0.32, C:0.02, G:0.12, T:0.54
Consensus pattern (475 bp):
TTTATTTTTATTTTAAAAGTTTAAATTTGTTTTTCGGGTTGATTATAGGAGTTAAATTTTTTTAA
GTATAATTTATTTTTATTTGTAAGATTAGTTTGATTTTTGGGATATTTTATCTAAATATGACTAA
AATTTAGTTTGATTGCATTAATATATTTTTATTGAAATATTAAGTAATTAGTATTATAAATGAAA
ATATTTTTATTTGTAAAAATACTTTAGGACATAATTATACGAGTTTAAATTTTTAAAGTATAATT
TATTTTTATTTGTAAAAGTTTAAATTTGTATTATTTTGATTTGATTATAGGAGTTTAATTTTTAA
GGTATTATTTATTTTTTATAAAAGTTAAAATTTTTTTAATGTATAATTATAAGAATTTAAATTTT
TTAAGTATAATTTATTCTTATTTGTAAAAGTTCAAATTTATTTTTCAGCTTGATTAAACAAGTTT
AAATTTTTTTAAAGATATGA
Found at i:627769 original size:144 final size:143
Alignment explanation
Indices: 627607--627963 Score: 402
Period size: 144 Copynumber: 2.5 Consensus size: 143
627597 TTTATTTTTA
* * *
627607 AAAATATTTTTGGATATAATTATACGAGTTTAAATTTTTAAAGTATAATTTATTTTTATTTGTAA
1 AAAATTTTTTTGGGTATAATTATACGAGTTTAAATTTTTTAAGTATAATTTATTTTTATTTGTAA
* * * *
627672 AAGTTTAAATTTGTATTTTGTTTTGGTTTGATTATAGGAGTTT-AA-TTTTTAAGGTATTATTTA
66 AAGTTTAAA-TT-TA--TT-TTTTGGCTTGATTAAAGGAGTTTAAATTTTTTAAGATATGATTTA
627735 -TTTT-TTATAAAA-GTT
126 TTTTTATTATAAAATGTT
* * *
627750 AAAATTTTTTTGGTGTATAATTGTAAGAATTTAAATTTTTTAAGTATAATTTATTTTTATTTGTA
1 AAAATTTTTTTGG-GTATAATTATACGAGTTTAAATTTTTTAAGTATAATTTATTTTTATTTGTA
*
627815 AAAGTTTAAATTTATTTTTTGGCTTGATTAAATGAGTTTAAATTTTTTTTAAGATATGATTTATT
65 AAAGTTTAAATTTATTTTTTGGCTTGATTAAAGGAGTTTAAA--TTTTTTAAGATATGATTTATT
* *
627880 TTTAATTTTAAAATTTTT
128 TTT-ATTATAAAA-TGTT
** * * *
627898 AATTTGTTTTTTGGGT-TAATTATACAAGTTAAAATTTTTTTATGTATAATTTATTTTTATTTGT
1 AAAAT-TTTTTTGGGTATAATTATACGAGTTTAAA-TTTTTTAAGTATAATTTATTTTTATTTGT
627962 AA
64 AA
627964 GATTAGTTTG
Statistics
Matches: 181, Mismatches: 21, Indels: 19
0.82 0.10 0.09
Matches are distributed among these distances:
139 20 0.11
140 4 0.02
142 2 0.01
143 30 0.17
144 60 0.33
146 7 0.04
147 13 0.07
148 37 0.20
149 8 0.04
ACGTcount: A:0.32, C:0.01, G:0.11, T:0.55
Consensus pattern (143 bp):
AAAATTTTTTTGGGTATAATTATACGAGTTTAAATTTTTTAAGTATAATTTATTTTTATTTGTAA
AAGTTTAAATTTATTTTTTGGCTTGATTAAAGGAGTTTAAATTTTTTAAGATATGATTTATTTTT
ATTATAAAATGTT
Found at i:627892 original size:75 final size:74
Alignment explanation
Indices: 627785--627963 Score: 220
Period size: 75 Copynumber: 2.4 Consensus size: 74
627775 AGAATTTAAA
* **
627785 TTTTTTAAGTATAATTTATTTTT-ATTTGTAAAAGTTTAAATTTATTTTTTGGCTTGATTAAATG
1 TTTTTTAAGTATAATTTATTTTTAATTTGTAAAAGTTTAAATTTATTTTTTGGCTTAATTAAACA
*
627849 AGTTTAAATT
66 AG-TTAAAAT
* * * * * *
627859 TTTTTTAAGATATGATTTATTTTTAATTT-TAAAATTTTTAATTTGTTTTTTGGGTTAATTATAC
1 TTTTTTAAG-TATAATTTATTTTTAATTTGTAAAAGTTTAAATTTATTTTTTGGCTTAATTAAAC
627923 AAGTTAAAAT
65 AAGTTAAAAT
*
627933 TTTTTTATGTATAATTTATTTTT-ATTTGTAA
1 TTTTTTAAGTATAATTTATTTTTAATTTGTAA
627964 GATTAGTTTG
Statistics
Matches: 90, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
72 4 0.04
73 16 0.18
74 23 0.26
75 43 0.48
76 4 0.04
ACGTcount: A:0.31, C:0.01, G:0.09, T:0.59
Consensus pattern (74 bp):
TTTTTTAAGTATAATTTATTTTTAATTTGTAAAAGTTTAAATTTATTTTTTGGCTTAATTAAACA
AGTTAAAAT
Found at i:629176 original size:73 final size:73
Alignment explanation
Indices: 629079--629425 Score: 369
Period size: 73 Copynumber: 4.8 Consensus size: 73
629069 CTAATCTTAT
* * * * * *
629079 AAATAAAAATAAATTATGCCTTAAAAAATTTCAACTCCTATAATCAACCCAAAAAATACATTTAA
1 AAATAAAAATAAATCATACTTTAAAAAATTTAAACTCCTATAATCAAACCAAAAAATAAATTTAA
*
629144 ATTTTTAC
66 ATTTCTAC
* * * *
629152 AAATAAAAATAAATCATACTTTAAAAATTTTAAACTCGTATAATTAAACAAAAAAATAAATTTAA
1 AAATAAAAATAAATCATACTTTAAAAAATTTAAACTCCTATAATCAAACCAAAAAATAAATTTAA
629217 ACTTT-TAC
66 A-TTTCTAC
* * * * *
629225 TAATAAAAATAAATCATATCTTGAAAAAAATTAAACTCATATAATCAAACCCAAAAAATAAATCT
1 AAATAAAAATAAATCATA-CTTTAAAAAATTTAAACTCCTATAATCAAA-CCAAAAAATAAATTT
* *
629290 AAATTTCAAT
64 AAATTTCTAC
* * * *
629300 AAATAAAAATAAATAATACTTT-AAAAATTTAAACTCCTAGAATCAAACCAAAATACAAATTT-A
1 AAATAAAAATAAATCATACTTTAAAAAATTTAAACTCCTATAATCAAACCAAAAAATAAATTTAA
629363 ATTTCTAC
66 ATTTCTAC
* * ** * **
629371 AAATAAAACTAAATTATA-TTTTGAAAATTTAAATTTGTATAATCATAACCAAAAA
1 AAATAAAAATAAATCATACTTTAAAAAATTTAAACTCCTATAATCA-AACCAAAAA
629426 TATTTTTACA
Statistics
Matches: 229, Mismatches: 39, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
70 3 0.01
71 41 0.18
72 20 0.09
73 98 0.43
74 34 0.15
75 33 0.14
ACGTcount: A:0.55, C:0.12, G:0.02, T:0.31
Consensus pattern (73 bp):
AAATAAAAATAAATCATACTTTAAAAAATTTAAACTCCTATAATCAAACCAAAAAATAAATTTAA
ATTTCTAC
Found at i:629293 original size:148 final size:145
Alignment explanation
Indices: 629079--629397 Score: 399
Period size: 147 Copynumber: 2.2 Consensus size: 145
629069 CTAATCTTAT
** * * * * *
629079 AAATAAAAATAAATTATGCCTT-AAAAAATTTCAACTCCTATAATCAACCCAAAAAATACATTTA
1 AAATAAAAATAAATTATATCTTGAAAAAAATTAAACTCATATAATCAACCCAAAAAATAAATCTA
** * * * *
629143 AATTTTTACAAATAAAAATAAATCATACTTTAAAAATTTTAAACTCGTATAATTAAACAAAAAAA
66 AATTTCAACAAATAAAAATAAATAATACTTTAAAAA-TTTAAACTCCTAGAATCAAACAAAAAAA
*
629208 TAAATTTAAACTTT-TAC
130 CAAATTT-AA-TTTCTAC
* *
629225 TAATAAAAATAAATCATATCTTGAAAAAAATTAAACTCATATAATCAAACCCAAAAAATAAATCT
1 AAATAAAAATAAATTATATCTTGAAAAAAATTAAACTCATATAATC-AACCCAAAAAATAAATCT
* * *
629290 AAATTTCAATAAATAAAAATAAATAATACTTTAAAAATTTAAACTCCTAGAATCAAACCAAAATA
65 AAATTTCAACAAATAAAAATAAATAATACTTTAAAAATTTAAACTCCTAGAATCAAACAAAAAAA
629355 CAAATTTAATTTCTAC
130 CAAATTTAATTTCTAC
* *
629371 AAATAAAACTAAATTATATTTTGAAAA
1 AAATAAAAATAAATTATATCTTGAAAA
629398 TTTAAATTTG
Statistics
Matches: 147, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
145 3 0.02
146 46 0.31
147 49 0.33
148 49 0.33
ACGTcount: A:0.55, C:0.13, G:0.02, T:0.31
Consensus pattern (145 bp):
AAATAAAAATAAATTATATCTTGAAAAAAATTAAACTCATATAATCAACCCAAAAAATAAATCTA
AATTTCAACAAATAAAAATAAATAATACTTTAAAAATTTAAACTCCTAGAATCAAACAAAAAAAC
AAATTTAATTTCTAC
Found at i:629847 original size:45 final size:44
Alignment explanation
Indices: 629765--629850 Score: 129
Period size: 45 Copynumber: 1.9 Consensus size: 44
629755 ACTTACACAA
629765 AAAAATAAATAATACTTTAAAATTTTAAACTTCTATAATCAAACC
1 AAAAATAAATAATACTTTAAAATTTTAAAC-TCTATAATCAAACC
*
629810 AAAAATAAATTATACTTTAAAAATTTTAAA-TCATATAATCA
1 AAAAATAAATAATACTTT-AAAATTTTAAACTC-TATAATCA
629851 TACAATTTAT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
44 2 0.05
45 25 0.66
46 11 0.29
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (44 bp):
AAAAATAAATAATACTTTAAAATTTTAAACTCTATAATCAAACC
Found at i:630052 original size:74 final size:72
Alignment explanation
Indices: 629961--630145 Score: 205
Period size: 73 Copynumber: 2.5 Consensus size: 72
629951 AAATTAACCT
* *
629961 TACAAAT-AAAAAAATCATACCTTAAAATAATTTATAATCCTATAATCAACCCAAAAAACAAATT
1 TACAAATAAAAAAAATCATACCTTAAAA-AATTTATAATCCTATAATCAAACAAAAAAACAAATT
630025 TAAACTTT-
65 TAAA-TTTA
* * ** * *
630033 TATAAATAAAAACAAATCATACCTTAAAAAA-TTAAAATTAGTATAATCAAATAAAAAAATAAAT
1 TACAAATAAAAA-AAATCATACCTTAAAAAATTTATAA-TCCTATAATCAAACAAAAAAACAAAT
630097 TTAAATTTA
64 TTAAATTTA
** *
630106 TACAAATAAAAATAAATCATATTTTAAAAAATATATAATC
1 TACAAATAAAAA-AAATCATACCTTAAAAAATTTATAATC
630146 ATACCCAAAA
Statistics
Matches: 93, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
72 14 0.15
73 59 0.63
74 20 0.22
ACGTcount: A:0.58, C:0.11, G:0.01, T:0.30
Consensus pattern (72 bp):
TACAAATAAAAAAAATCATACCTTAAAAAATTTATAATCCTATAATCAAACAAAAAAACAAATTT
AAATTTA
Found at i:631438 original size:17 final size:17
Alignment explanation
Indices: 631413--631446 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
631403 TACGAGTTTT
*
631413 AAATAAAAAATATAAAA
1 AAATAAAAAAGATAAAA
*
631430 AAATTAAAAAGATAAAA
1 AAATAAAAAAGATAAAA
631447 TTTTTTCCTT
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:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (17 bp):
AAATAAAAAAGATAAAA
Found at i:631674 original size:29 final size:28
Alignment explanation
Indices: 631607--631664 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
631597 AAATTACAAC
*
631607 ATATCATA-AAAAATAAAATAAAATTTTT
1 ATAT-ATATAAAAATAAAAGAAAATTTTT
*
631635 ATTTATATAAAAATAAAAGATAAATTTTT
1 ATATATATAAAAATAAAAGA-AAATTTTT
631664 A
1 A
631665 ATACTTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 3 0.12
28 14 0.54
29 9 0.35
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (28 bp):
ATATATATAAAAATAAAAGAAAATTTTT
Found at i:632906 original size:2 final size:2
Alignment explanation
Indices: 632899--632934 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
632889 CAGAACCAAA
632899 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
632935 GTATGTATGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:639886 original size:15 final size:15
Alignment explanation
Indices: 639863--639907 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 15
639853 AAAAAATATA
639863 TTATAAATTTAATTT
1 TTATAAATTTAATTT
*
639878 TTTTAAATTCATAATTT
1 TTATAAATT--TAATTT
*
639895 TTAAAAATTTAAT
1 TTATAAATTTAAT
639908 AATAATATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
15 12 0.48
17 13 0.52
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (15 bp):
TTATAAATTTAATTT
Found at i:640565 original size:2 final size:2
Alignment explanation
Indices: 640558--640582 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
640548 ATGTTTTTCG
640558 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
640583 AACATATTTG
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:641147 original size:66 final size:66
Alignment explanation
Indices: 641062--641185 Score: 239
Period size: 66 Copynumber: 1.9 Consensus size: 66
641052 AACCAATTAG
641062 TATGTAGAAAGGATCAACTTGAATATAATACCATATTCAACTTAAAATTTAATCGATAATTAGTA
1 TATGTAGAAAGGATCAACTTGAATATAATACCATATTCAACTTAAAATTTAATCGATAATTAGTA
641127 A
66 A
*
641128 TATGTAGAAAGGATTAACTTGAATATAATACCATATTCAACTTAAAATTTAATCGATA
1 TATGTAGAAAGGATCAACTTGAATATAATACCATATTCAACTTAAAATTTAATCGATA
641186 TAAGATAAGG
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 57 1.00
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.34
Consensus pattern (66 bp):
TATGTAGAAAGGATCAACTTGAATATAATACCATATTCAACTTAAAATTTAATCGATAATTAGTA
A
Found at i:642167 original size:24 final size:23
Alignment explanation
Indices: 642115--642167 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
642105 TATATATATG
*
642115 TTCATCTT-TATTATGTTTTATCT
1 TTCAT-TTATATTATGTTTAATCT
642138 TTCATTTATATTAGTGTTTAAT-T
1 TTCATTTATATTA-TGTTTAATCT
642161 TTGCATT
1 TT-CATT
642168 GTTTCAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 2 0.08
23 13 0.50
24 11 0.42
ACGTcount: A:0.21, C:0.09, G:0.08, T:0.62
Consensus pattern (23 bp):
TTCATTTATATTATGTTTAATCT
Found at i:643204 original size:155 final size:156
Alignment explanation
Indices: 642944--643240 Score: 411
Period size: 155 Copynumber: 1.9 Consensus size: 156
642934 GTATCATTTG
** * *
642944 ATTATGTTATATTTTTAAATTTATTTTTTATAATTTATTGATAAGCAAAAATTAATTCATATTCA
1 ATTATGTTATACCTTTAAATTTAGTTTTTATAATTTATTGATAAGCAAAAATTAATCCATATTCA
* * * * *
643009 CAAAAAACGTGGATAAAATATTTATCTTAGTTACTATTTTACGTTTTATGTTAT-CATTAAAGTA
66 CAAAAAACGAGGATAAAACATTTATCTTAATTACTATTTTACGCTTTATGTTATACATTAAAATA
*
643073 AAGTAATTAACTGCATCTTTTTTATA
131 AAATAATTAACTGCATCTTTTTTATA
*
643099 ATTATGTTATACCTTTAAATTTTAGTTTTTATAATTTATTGA-AGAGCAAAAGTTAATCCATATT
1 ATTATGTTATACCTTTAAA-TTTAGTTTTTATAATTTATTGATA-AGCAAAAATTAATCCATATT
* * * *
643163 CA-TAAAATCGAGTATAAAACATTTATCTTAATTACTTTTTTACGCTTTATGTTATACATTAAAA
64 CACAAAAAACGAGGATAAAACATTTATCTTAATTACTATTTTACGCTTTATGTTATACATTAAAA
*
643227 TAAAATATTTAACT
129 TAAAATAATTAACT
643241 AAATATTTTT
Statistics
Matches: 123, Mismatches: 16, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
155 63 0.51
156 60 0.49
ACGTcount: A:0.38, C:0.09, G:0.07, T:0.46
Consensus pattern (156 bp):
ATTATGTTATACCTTTAAATTTAGTTTTTATAATTTATTGATAAGCAAAAATTAATCCATATTCA
CAAAAAACGAGGATAAAACATTTATCTTAATTACTATTTTACGCTTTATGTTATACATTAAAATA
AAATAATTAACTGCATCTTTTTTATA
Found at i:643491 original size:24 final size:23
Alignment explanation
Indices: 643450--643497 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
643440 TATTATATAT
* *
643450 ATATAAATTTTAATACATCATTA
1 ATATAAATTTTAAAACATAATTA
*
643473 ATATAATTATTTAAAACATAATTA
1 ATATAAAT-TTTAAAACATAATTA
643497 A
1 A
643498 AATACAACGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (23 bp):
ATATAAATTTTAAAACATAATTA
Found at i:645088 original size:17 final size:17
Alignment explanation
Indices: 645037--645077 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
645027 ATTATAACTT
*
645037 AAAAACTATAAAAATAA
1 AAAAATTATAAAAATAA
645054 AAAAATTATAAAAATAA
1 AAAAATTATAAAAATAA
645071 AAAAATT
1 AAAAATT
645078 TAACAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (17 bp):
AAAAATTATAAAAATAA
Found at i:648196 original size:2 final size:2
Alignment explanation
Indices: 648146--648184 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
648136 ATTTCTACAT
* *
648146 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA AA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
648185 GCATTTTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:648383 original size:18 final size:18
Alignment explanation
Indices: 648357--648391 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
648347 CATGGTGAAG
648357 ATATATATATAAATATAA
1 ATATATATATAAATATAA
*
648375 ATATGTATATAAATATA
1 ATATATATATAAATATA
648392 TATCATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (18 bp):
ATATATATATAAATATAA
Found at i:649079 original size:16 final size:16
Alignment explanation
Indices: 649058--649095 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
649048 CTTGAATTAG
*
649058 ATTATTTTAAATTTAA
1 ATTATTTTAAATTCAA
*
649074 ATTATTTTAGATTCAA
1 ATTATTTTAAATTCAA
649090 A-TATTT
1 ATTATTT
649096 GAGTTATTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (16 bp):
ATTATTTTAAATTCAA
Found at i:649868 original size:279 final size:281
Alignment explanation
Indices: 649317--649882 Score: 743
Period size: 287 Copynumber: 2.0 Consensus size: 281
649307 TTCTTTTAAA
*
649317 ATTTTAAATTTAACACTCTTTTAAACTTCTACTATGTTTTACTTAAAAAAATTATTTAGTTATTA
1 ATTTTAAATTTAACACTCTTTTAAACTTCTACTATGTTTTACTTAAAAAAATTATTTAGTTACTA
* * * * *
649382 GAATTTATCACATTCATAAAGTGATTGAAAATTTTGTATATTTTAAAATTTAAATTAAAATAAAT
66 GAATTTATCACATTCATAAAGTAAGTGAAAAATATGTATATTTTAAAATTTAAATAAAAATAAAT
* * * *
649447 AATTTTTTTTATATGTAGATACTTTTTAAAAATAAAAATATAAGTAAAAACTAAAAAGTTATGAG
131 AATTTTTTTTACAAGTAGATACTTTTTAAAAATAAAAAGATAAGTAAAAACTAAAAAGTAATGAG
* * * *
649512 TAGTTTTTGGGTAGTTTTTAGTGGATAGTTAATTGTTTTAATAGATAATTTTTTATTCAAATTAA
196 TAATTTTT--GTAG---TTA-TGGATAGTTAAGTGTTTTAATAAATAATTTTTTATTCAAAGTAA
* *
649577 AAGATTTAAATATTTCTAAATTCATTT
255 AAGATATAAATATCTCTAAATTCATTT
* * * *
649604 ATTTTAAATTTGACTCTCTTTTAAACTTCTACTATGTTTTACTTATAAATATTA-TTAGTTACTA
1 ATTTTAAATTTAACACTCTTTTAAACTTCTACTATGTTTTACTTAAAAAAATTATTTAGTTACTA
649668 GAATTTATCACATT-ATAAAGTAAGTGAAAAATATGTATATTTTAAAAAATATTAAAATAAAAAT
66 GAATTTATCACATTCATAAAGTAAGTGAAAAATATGTATATTTT--AAAAT-TT-AAATAAAAAT
* *
649732 AAATAA-TTTTTTTACAAGTAGATATTTTTTAAAAAAATTAAAAGATAAGTAAAAACTAAAAAGT
127 AAATAATTTTTTTTACAAGTAGATACTTTTT--AAAAATAAAAAGATAAGTAAAAACTAAAAAGT
* *
649796 AATGTGTAATTTTT-TAG-T-T-GATAGTTAAGT-TTTTAATAAATAGTTTTTTATTCAAAGTAA
190 AATGAGTAATTTTTGTAGTTATGGATAGTTAAGTGTTTTAATAAATAATTTTTTATTCAAAGTAA
*
649856 AAGATATAAATATCTCTAAATTTATTT
255 AAGATATAAATATCTCTAAATTCATTT
649883 TAGTAGTATA
Statistics
Matches: 248, Mismatches: 25, Indels: 20
0.85 0.09 0.07
Matches are distributed among these distances:
279 51 0.21
280 10 0.04
281 1 0.00
283 1 0.00
285 25 0.10
286 23 0.09
287 58 0.23
288 23 0.09
289 15 0.06
290 41 0.17
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.44
Consensus pattern (281 bp):
ATTTTAAATTTAACACTCTTTTAAACTTCTACTATGTTTTACTTAAAAAAATTATTTAGTTACTA
GAATTTATCACATTCATAAAGTAAGTGAAAAATATGTATATTTTAAAATTTAAATAAAAATAAAT
AATTTTTTTTACAAGTAGATACTTTTTAAAAATAAAAAGATAAGTAAAAACTAAAAAGTAATGAG
TAATTTTTGTAGTTATGGATAGTTAAGTGTTTTAATAAATAATTTTTTATTCAAAGTAAAAGATA
TAAATATCTCTAAATTCATTT
Found at i:650335 original size:24 final size:25
Alignment explanation
Indices: 650279--650335 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 25
650269 TATATGATAT
650279 AAAT-TATATAATATATAAACATAA
1 AAATATATATAATATATAAACATAA
* **
650303 AAATAATATATATTATATAATTA-AA
1 AAAT-ATATATAATATATAAACATAA
650328 AAATATAT
1 AAATATAT
650336 TAAGTTAGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
24 8 0.29
25 6 0.21
26 14 0.50
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (25 bp):
AAATATATATAATATATAAACATAA
Found at i:650655 original size:20 final size:20
Alignment explanation
Indices: 650626--650666 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
650616 AATTGAACCT
650626 AAGCTGACCTACTAACTCTA
1 AAGCTGACCTACTAACTCTA
*
650646 AAGCTTACCTACTAACTCTA
1 AAGCTGACCTACTAACTCTA
650666 A
1 A
650667 TTTATTCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (20 bp):
AAGCTGACCTACTAACTCTA
Found at i:651146 original size:24 final size:23
Alignment explanation
Indices: 651080--651155 Score: 88
Period size: 24 Copynumber: 3.4 Consensus size: 23
651070 CATGAACACG
* *
651080 ATATATTTATAAATATTAAAATA
1 ATATATTTAAAAATATTAATATA
*
651103 ATATA---ATAAATA-TAATATA
1 ATATATTTAAAAATATTAATATA
651122 ATATATTTAAAAATAATTAATATA
1 ATATATTTAAAAAT-ATTAATATA
651146 ATATATTTAA
1 ATATATTTAA
651156 TATATTGATA
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
19 11 0.24
20 7 0.15
22 5 0.11
23 6 0.13
24 17 0.37
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
ATATATTTAAAAATATTAATATA
Found at i:651157 original size:14 final size:14
Alignment explanation
Indices: 651101--651159 Score: 72
Period size: 14 Copynumber: 4.5 Consensus size: 14
651091 AATATTAAAA
* *
651101 TAATATAATAAATA
1 TAATATAATATATT
651115 TAATATAATATATT
1 TAATATAATATATT
651129 TAA-A-AATA-A-T
1 TAATATAATATATT
651139 TAATATAATATATT
1 TAATATAATATATT
651153 TAATATA
1 TAATATA
651160 TTGATATTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
10 4 0.10
11 2 0.05
12 8 0.21
13 2 0.05
14 23 0.59
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
TAATATAATATATT
Found at i:652075 original size:2 final size:2
Alignment explanation
Indices: 652068--652092 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
652058 TAATGTTTAT
652068 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
652093 GTATTATAGT
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:652794 original size:21 final size:23
Alignment explanation
Indices: 652742--652794 Score: 67
Period size: 21 Copynumber: 2.4 Consensus size: 23
652732 TTAATATAAT
652742 AATTAAATTTTAATATATTTTTA
1 AATTAAATTTTAATATATTTTTA
*
652765 ACAAT-AATTTTAA-AT-TTTTTA
1 A-ATTAAATTTTAATATATTTTTA
652786 AATTAAATT
1 AATTAAATT
652795 AAGAAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 2 0.08
21 11 0.42
22 2 0.08
23 9 0.35
24 2 0.08
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
AATTAAATTTTAATATATTTTTA
Found at i:652872 original size:17 final size:17
Alignment explanation
Indices: 652850--652883 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
652840 AAAACGAATC
652850 TAAATCTAAC-TCATTAA
1 TAAATCT-ACTTCATTAA
652867 TAAATCTACTTCATTAA
1 TAAATCTACTTCATTAA
652884 ATACTAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 14 0.88
ACGTcount: A:0.44, C:0.18, G:0.00, T:0.38
Consensus pattern (17 bp):
TAAATCTACTTCATTAA
Found at i:653282 original size:2 final size:2
Alignment explanation
Indices: 653275--653299 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
653265 TCTTATCCCC
653275 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
653300 CATGGAAAAA
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:654181 original size:14 final size:14
Alignment explanation
Indices: 654134--654185 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 14
654124 CAAATAGATG
*
654134 AATATTTTAAAATT
1 AATATATTAAAATT
* *
654148 TATATAATACAAATATT
1 AATAT-AT-TAAA-ATT
654165 AATATATTAAAATT
1 AATATATTAAAATT
654179 AATATAT
1 AATATAT
654186 ACGCAATACA
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
14 14 0.47
15 4 0.13
16 5 0.17
17 7 0.23
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (14 bp):
AATATATTAAAATT
Found at i:655618 original size:21 final size:22
Alignment explanation
Indices: 655594--655635 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
655584 TGTGTTTGGT
*
655594 AAGATTAAAAA-AAATAGAAAG
1 AAGAGTAAAAATAAATAGAAAG
*
655615 AAGAGTAAAAATAAGTAGAAA
1 AAGAGTAAAAATAAATAGAAA
655636 TGTAAAAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (22 bp):
AAGAGTAAAAATAAATAGAAAG
Found at i:661472 original size:18 final size:18
Alignment explanation
Indices: 661448--661497 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
661438 TTTATTAATT
*
661448 AATTTTATTTGTAAAA-A
1 AATTTTATTTATAAAATA
661465 ATATTTTAATTTATAAAATA
1 A-ATTTT-ATTTATAAAATA
661485 AATTATTATTTAT
1 AATT-TTATTTAT
661498 TTTTTTATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
17 1 0.04
18 5 0.18
19 18 0.64
20 4 0.14
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (18 bp):
AATTTTATTTATAAAATA
Found at i:666903 original size:2 final size:2
Alignment explanation
Indices: 666896--666921 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
666886 ATTCTCTGTG
666896 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
666922 TGTCCTTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:667115 original size:11 final size:11
Alignment explanation
Indices: 667086--667139 Score: 58
Period size: 11 Copynumber: 4.9 Consensus size: 11
667076 TAAATAATTA
*
667086 TATAATAT-TT
1 TATAATATAAT
667096 TAT-ATATAAT
1 TATAATATAAT
667106 TATAATATAAT
1 TATAATATAAT
667117 AATATAATATAAT
1 --TATAATATAAT
*
667130 TACAATATAA
1 TATAATATAA
667140 ATTACTCTGC
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
9 4 0.11
10 7 0.18
11 16 0.42
13 11 0.29
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (11 bp):
TATAATATAAT
Found at i:667122 original size:13 final size:14
Alignment explanation
Indices: 667085--667129 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 14
667075 TTAAATAATT
*
667085 ATATAAT-ATT-TT
1 ATATAATAATTATA
667097 ATAT-ATAATTATA
1 ATATAATAATTATA
667110 ATATAATAA-TATA
1 ATATAATAATTATA
667123 ATATAAT
1 ATATAAT
667130 TACAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
11 2 0.07
12 7 0.24
13 16 0.55
14 4 0.14
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
ATATAATAATTATA
Found at i:667131 original size:24 final size:25
Alignment explanation
Indices: 667085--667139 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 25
667075 TTAAATAATT
* * *
667085 ATATAATATTTTATATATAATTATA
1 ATATAATAATATATATATAATTACA
667110 ATATAATAATATA-ATATAATTACA
1 ATATAATAATATATATATAATTACA
667134 ATATAA
1 ATATAA
667140 ATTACTCTGC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 16 0.59
25 11 0.41
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (25 bp):
ATATAATAATATATATATAATTACA
Found at i:667499 original size:21 final size:23
Alignment explanation
Indices: 667475--667532 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 23
667465 TTATAATTTA
667475 ATATAAATATA-T-ATTTAAAAG
1 ATATAAATATATTAATTTAAAAG
*
667496 ATATAAA-ATATTAATTTAAAAT
1 ATATAAATATATTAATTTAAAAG
*
667518 ATATAAATATTTTAA
1 ATATAAATATATTAA
667533 ATTCATCCCT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 3 0.09
21 8 0.25
22 15 0.47
23 6 0.19
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (23 bp):
ATATAAATATATTAATTTAAAAG
Found at i:668378 original size:3 final size:3
Alignment explanation
Indices: 668372--668397 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
668362 ACCAAAAACT
668372 GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GA
668398 TCAAAGAGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:669976 original size:18 final size:18
Alignment explanation
Indices: 669945--669982 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
669935 TTATATTTAT
669945 ATTTAAATATATAATTAA
1 ATTTAAATATATAATTAA
669963 ATTT-AATATCATAATTAA
1 ATTTAAATAT-ATAATTAA
669981 AT
1 AT
669983 AACATTAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (18 bp):
ATTTAAATATATAATTAA
Found at i:670090 original size:47 final size:47
Alignment explanation
Indices: 670039--670132 Score: 120
Period size: 47 Copynumber: 2.0 Consensus size: 47
670029 TATAAAGTAT
*
670039 TTTAATTTTTAAAAA-AAGTATTAAAAAATTATT-AATTTTTTAATATC
1 TTTAA-TTTAAAAAATAAGTATTAAAAAA-TATTAAATTTTTTAATATC
* **
670086 TTTAATTTAAAAAATAATTATTATTAAATATTAAATTTTTTAATATC
1 TTTAATTTAAAAAATAAGTATTAAAAAATATTAAATTTTTTAATATC
670133 GATGGATTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
46 12 0.29
47 29 0.71
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.50
Consensus pattern (47 bp):
TTTAATTTAAAAAATAAGTATTAAAAAATATTAAATTTTTTAATATC
Found at i:670903 original size:49 final size:49
Alignment explanation
Indices: 670831--670927 Score: 149
Period size: 49 Copynumber: 2.0 Consensus size: 49
670821 TCAGTTTAAA
* *
670831 AGCTTCTTTGTTCGAGACAGAAAGGGAGAGTATGAAAGCATATAACTTG
1 AGCTTCTTTGTTCGAGAAAGAAAGGGAGAGTATGAAAACATATAACTTG
* * *
670880 AGCTTCTTTGTTCGAGAAAGAAAGGTAGTGTATGAAAATATATAACTT
1 AGCTTCTTTGTTCGAGAAAGAAAGGGAGAGTATGAAAACATATAACTT
670928 AGGCTATATA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.30
Consensus pattern (49 bp):
AGCTTCTTTGTTCGAGAAAGAAAGGGAGAGTATGAAAACATATAACTTG
Found at i:671753 original size:17 final size:16
Alignment explanation
Indices: 671719--671775 Score: 51
Period size: 16 Copynumber: 3.3 Consensus size: 16
671709 TTCATCCTTC
*
671719 TTTTTTTTTTATTTAA
1 TTTTTTTTGTATTTAA
*
671735 TTTTTTTTGTGTTTAAA
1 TTTTTTTTGTATTT-AA
*
671752 TTTTATTTTAAGTTTTTAA
1 TTTT-TTTT--GTATTTAA
671771 TTTTT
1 TTTTT
671776 ATTTAAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
16 12 0.35
17 6 0.18
18 5 0.15
19 6 0.18
20 5 0.15
ACGTcount: A:0.19, C:0.00, G:0.05, T:0.75
Consensus pattern (16 bp):
TTTTTTTTGTATTTAA
Found at i:671780 original size:19 final size:19
Alignment explanation
Indices: 671730--671781 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
671720 TTTTTTTTTA
671730 TTTAATTTTT-TTT--GTG
1 TTTAATTTTTATTTAAGTG
* *
671746 TTTAAATTTTATTTTAAGTT
1 TTTAATTTTTA-TTTAAGTG
671766 TTTAATTTTTATTTAA
1 TTTAATTTTTATTTAA
671782 AAATTAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
16 9 0.31
18 3 0.10
19 5 0.17
20 12 0.41
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (19 bp):
TTTAATTTTTATTTAAGTG
Found at i:672164 original size:31 final size:31
Alignment explanation
Indices: 672128--672190 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
672118 AATATAAAGT
*
672128 ATTAATATAAAAAT-ATATTTTAAAATTTTTA
1 ATTAATATAAAAATAATA-ATTAAAATTTTTA
* **
672159 ATTAATTTATTAATAATAATTAAAATTTTTA
1 ATTAATATAAAAATAATAATTAAAATTTTTA
672190 A
1 A
672191 ATTGGATCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
31 24 0.89
32 3 0.11
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (31 bp):
ATTAATATAAAAATAATAATTAAAATTTTTA
Found at i:672253 original size:22 final size:23
Alignment explanation
Indices: 672228--672277 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
672218 TGAAAATTTT
672228 ATATAATATAAATAAA-AAATTA
1 ATATAATATAAATAAATAAATTA
* *
672250 ATAT-ATATTATTAAATAAATTA
1 ATATAATATAAATAAATAAATTA
672272 AT-TAAT
1 ATATAAT
672278 TTTTTATTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 10 0.42
22 14 0.58
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
ATATAATATAAATAAATAAATTA
Found at i:672256 original size:26 final size:26
Alignment explanation
Indices: 672227--672277 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
672217 TTGAAAATTT
672227 TATATAATATAAATAAA-AAATTAATA
1 TATATAAT-TAAATAAATAAATTAATA
* *
672253 TATATTATTAAATAAATTAATTAAT
1 TATATAATTAAATAAATAAATTAAT
672278 TTTTTATTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (26 bp):
TATATAATTAAATAAATAAATTAATA
Found at i:672267 original size:29 final size:30
Alignment explanation
Indices: 672209--672269 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
672199 AAGCTAAGGT
*
672209 ATAAAAAATTGAAAATTTTATATAATATAA
1 ATAAAAAATTGAAAATATTATATAATATAA
672239 ATAAAAAATT-AATATATATTAT-TAA-ATAA
1 ATAAAAAATTGAA-A-ATATTATATAATATAA
672268 AT
1 AT
672270 TAATTAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
29 8 0.29
30 14 0.50
31 6 0.21
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (30 bp):
ATAAAAAATTGAAAATATTATATAATATAA
Found at i:672639 original size:21 final size:22
Alignment explanation
Indices: 672597--672646 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
672587 AAATTTTTAA
672597 AATTTTTTAATTAATAATAAAT
1 AATTTTTTAATTAATAATAAAT
*
672619 AATTTTTTAATTAATTA-AAAT
1 AATTTTTTAATTAATAATAAAT
*
672640 AAATTTT
1 AATTTTT
672647 ATTTCAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 10 0.38
22 16 0.62
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
AATTTTTTAATTAATAATAAAT
Found at i:672655 original size:25 final size:25
Alignment explanation
Indices: 672603--672664 Score: 74
Period size: 25 Copynumber: 2.4 Consensus size: 25
672593 TTAAAATTTT
672603 TTAATTAATAATAAATAATTTTTTAA
1 TTAATTAATAATAAAT-ATTTTTTAA
672629 TTAATTAA-AATAAAT-TTTATTTCAA
1 TTAATTAATAATAAATATTT-TTT-AA
672654 TTAATTTAATA
1 TTAA-TTAATA
672665 CAATTAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
23 3 0.09
24 3 0.09
25 13 0.41
26 12 0.38
27 1 0.03
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (25 bp):
TTAATTAATAATAAATATTTTTTAA
Found at i:676236 original size:22 final size:22
Alignment explanation
Indices: 676211--676281 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 22
676201 AAATATAAAT
*
676211 TTAAACTTAAACCCAAACCCAA
1 TTAAACTTAAACCCAAACTCAA
* * * *
676233 TTAAAATCT-AA-CAAAAATCTA
1 TTAAACT-TAAACCCAAACTCAA
676254 TATAAACTTAAACCCAAACTCAA
1 T-TAAACTTAAACCCAAACTCAA
676277 TTAAA
1 TTAAA
676282 AAAATAACAA
Statistics
Matches: 36, Mismatches: 9, Indels: 8
0.68 0.17 0.15
Matches are distributed among these distances:
21 8 0.22
22 19 0.53
23 9 0.25
ACGTcount: A:0.54, C:0.23, G:0.00, T:0.24
Consensus pattern (22 bp):
TTAAACTTAAACCCAAACTCAA
Found at i:676411 original size:24 final size:24
Alignment explanation
Indices: 676383--676481 Score: 90
Period size: 24 Copynumber: 3.9 Consensus size: 24
676373 AACCTAACAG
*
676383 CAACAGCAACCAAAAGCAGATTGA
1 CAACAGCAACCAGAAGCAGATTGA
* * *
676407 CAACAGCAACTAGAATCAGATCGA
1 CAACAGCAACCAGAAGCAGATTGA
* *
676431 CAATAACAACCAGAAGCAGATTGGAAATA
1 CAACAGCAACCAGAAGCAGATT-G----A
676460 GCAACAGCAACCAGAAGCAGAT
1 -CAACAGCAACCAGAAGCAGAT
676482 CAGCAACCAA
Statistics
Matches: 58, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
24 37 0.64
25 1 0.02
29 1 0.02
30 19 0.33
ACGTcount: A:0.48, C:0.23, G:0.18, T:0.10
Consensus pattern (24 bp):
CAACAGCAACCAGAAGCAGATTGA
Found at i:676487 original size:18 final size:18
Alignment explanation
Indices: 676464--676500 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
676454 GAAATAGCAA
*
676464 CAGCAACCAGAAGCAGAT
1 CAGCAACCAAAAGCAGAT
676482 CAGCAACCAAAAGCAGAT
1 CAGCAACCAAAAGCAGAT
676500 C
1 C
676501 TATAACAATA
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:0.46, C:0.30, G:0.19, T:0.05
Consensus pattern (18 bp):
CAGCAACCAAAAGCAGAT
Found at i:677659 original size:19 final size:20
Alignment explanation
Indices: 677626--677665 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
677616 AACATTAATT
*
677626 AATGAAAAAGATAATTTTAC
1 AATGAAAAAGATAATGTTAC
*
677646 AATGAAAAA-TTAATGTTAC
1 AATGAAAAAGATAATGTTAC
677665 A
1 A
677666 CGTTTTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.55, C:0.05, G:0.10, T:0.30
Consensus pattern (20 bp):
AATGAAAAAGATAATGTTAC
Found at i:682287 original size:13 final size:13
Alignment explanation
Indices: 682269--682315 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
682259 CTATTAACAG
682269 TCAATTTTAAAAT
1 TCAATTTTAAAAT
* * *
682282 TTAATTTGAAACAG
1 TCAATTTTAAA-AT
682296 TCAATTTTAAAAT
1 TCAATTTTAAAAT
682309 TCAATTT
1 TCAATTT
682316 GAAACAGTGA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
13 17 0.63
14 10 0.37
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.45
Consensus pattern (13 bp):
TCAATTTTAAAAT
Found at i:682302 original size:27 final size:27
Alignment explanation
Indices: 682264--682323 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
682254 GTCAACTATT
*
682264 AACAGTCAATTTTAAAATTTAATTTGA
1 AACAGTCAATTTTAAAATTCAATTTGA
682291 AACAGTCAATTTTAAAATTCAATTTGA
1 AACAGTCAATTTTAAAATTCAATTTGA
682318 AACAGT
1 AACAGT
682324 GAAGGTTGCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.45, C:0.10, G:0.08, T:0.37
Consensus pattern (27 bp):
AACAGTCAATTTTAAAATTCAATTTGA
Found at i:682732 original size:44 final size:44
Alignment explanation
Indices: 682684--682804 Score: 224
Period size: 44 Copynumber: 2.8 Consensus size: 44
682674 GGTGTTTTTA
682684 TTATTTATTTTTCCGTGGATTGGCATAGCCACCCAATTACATAT
1 TTATTTATTTTTCCGTGGATTGGCATAGCCACCCAATTACATAT
* *
682728 TTATTTATTTTTTCGTGGATTGGCATAGCCACCCAATTGCATAT
1 TTATTTATTTTTCCGTGGATTGGCATAGCCACCCAATTACATAT
682772 TTATTTATTTTTCCGTGGATTGGCATAGCCACC
1 TTATTTATTTTTCCGTGGATTGGCATAGCCACC
682805 TAAATTCTAA
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 74 1.00
ACGTcount: A:0.22, C:0.20, G:0.16, T:0.42
Consensus pattern (44 bp):
TTATTTATTTTTCCGTGGATTGGCATAGCCACCCAATTACATAT
Found at i:687063 original size:27 final size:27
Alignment explanation
Indices: 687033--687092 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
687023 GCCAACTGTT
*
687033 AACAGTCAATTTTGAAATTTAATTTGA
1 AACAGTCAATTTTGAAATTCAATTTGA
*
687060 AACAGCCAATTTTGAAATTCAATTTGA
1 AACAGTCAATTTTGAAATTCAATTTGA
687087 AACAGT
1 AACAGT
687093 GAAGGTTGCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.35
Consensus pattern (27 bp):
AACAGTCAATTTTGAAATTCAATTTGA
Found at i:688987 original size:32 final size:32
Alignment explanation
Indices: 688951--689015 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 32
688941 AAATAAGTAC
* *
688951 AATACAATAAT-ATTAAACAAGTACAATATAAT
1 AATACAA-AATAACTAAACAAGTACAATACAAT
688983 AATACAAAATAACTAAACAAGTACAATACAAT
1 AATACAAAATAACTAAACAAGTACAATACAAT
689015 A
1 A
689016 GTGCATGGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 3 0.10
32 27 0.90
ACGTcount: A:0.62, C:0.12, G:0.03, T:0.23
Consensus pattern (32 bp):
AATACAAAATAACTAAACAAGTACAATACAAT
Found at i:688989 original size:19 final size:19
Alignment explanation
Indices: 688942--688989 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 19
688932 GATAAAGAGA
688942 AATAAGTACAATACAATAAT
1 AATAA-TACAATACAATAAT
*
688962 ATTAA-ACAAGTACAAT-AT
1 AATAATACAA-TACAATAAT
688980 AATAATACAA
1 AATAATACAA
688990 AATAACTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 10 0.42
19 10 0.42
20 4 0.17
ACGTcount: A:0.60, C:0.10, G:0.04, T:0.25
Consensus pattern (19 bp):
AATAATACAATACAATAAT
Found at i:698848 original size:12 final size:12
Alignment explanation
Indices: 698831--698855 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
698821 TAGATATTAA
698831 TAAAAAATAAAT
1 TAAAAAATAAAT
698843 TAAAAAATAAAT
1 TAAAAAATAAAT
698855 T
1 T
698856 TTAAATATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (12 bp):
TAAAAAATAAAT
Found at i:699327 original size:16 final size:15
Alignment explanation
Indices: 699308--699337 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
699298 TATTTATAAA
699308 TTAAATTATAATTTAT
1 TTAAATTA-AATTTAT
699324 TTAAATTAAATTTA
1 TTAAATTAAATTTA
699338 AATTAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TTAAATTAAATTTAT
Found at i:699341 original size:21 final size:22
Alignment explanation
Indices: 699290--699341 Score: 72
Period size: 21 Copynumber: 2.4 Consensus size: 22
699280 TACGGTCATG
699290 ATTAAATTTATTTATAAATTAA
1 ATTAAATTTATTTATAAATTAA
699312 ATTATAATTTA-TT-TAAATTAA
1 ATTA-AATTTATTTATAAATTAA
699333 ATTTAAATT
1 A-TTAAATT
699342 AATATAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
21 13 0.46
22 9 0.32
23 6 0.21
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
ATTAAATTTATTTATAAATTAA
Found at i:699349 original size:21 final size:21
Alignment explanation
Indices: 699302--699356 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
699292 TAAATTTATT
*
699302 TATAAATTAAATTATAATTTA
1 TATAAATTAAATTATAATTAA
*
699323 TTTAAATTAAATT-TAAATTAA
1 TATAAATTAAATTAT-AATTAA
699344 TATAAA--AAATTAT
1 TATAAATTAAATTAT
699357 TTTTTTAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 5 0.17
20 2 0.07
21 22 0.76
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TATAAATTAAATTATAATTAA
Found at i:699431 original size:28 final size:29
Alignment explanation
Indices: 699385--699441 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
699375 ATTATAAAAA
*
699385 TATTAAAATAATAT-TTTTATTTTAATAT
1 TATTAAAATAATATATTTAATTTTAATAT
**
699413 TATTAAAATTTTATATTTAAATTTTAATA
1 TATTAAAATAATATATTT-AATTTTAATA
699442 AAATATTACT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 12 0.50
29 3 0.12
30 9 0.38
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (29 bp):
TATTAAAATAATATATTTAATTTTAATAT
Found at i:699443 original size:24 final size:23
Alignment explanation
Indices: 699382--699445 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 23
699372 TATATTATAA
*
699382 AAATATTAAAATAATATTTTTATTT
1 AAATATT--AATAAAATTTTTATTT
* *
699407 TAATATTATTAAAATTTTATATTT
1 AAATATTAATAAAATTTT-TATTT
*
699431 AAATTTTAATAAAAT
1 AAATATTAATAAAAT
699446 ATTACTTTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
23 9 0.28
24 17 0.53
25 6 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
AAATATTAATAAAATTTTTATTT
Found at i:700245 original size:19 final size:18
Alignment explanation
Indices: 700216--700251 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
700206 TTACCATTTA
700216 TATTTTAAATTTGTAATC
1 TATTTTAAATTTGTAATC
*
700234 TATTTATAAATTTTTAAT
1 TATTT-TAAATTTGTAAT
700252 GATATAGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (18 bp):
TATTTTAAATTTGTAATC
Found at i:709872 original size:22 final size:22
Alignment explanation
Indices: 709844--709887 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
709834 GTTCATCAAT
709844 ATGTAGTAATCTTGAAAGCCAA
1 ATGTAGTAATCTTGAAAGCCAA
709866 ATGTAGTAATCTTGAAAGCCAA
1 ATGTAGTAATCTTGAAAGCCAA
709888 GCTTCCTAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (22 bp):
ATGTAGTAATCTTGAAAGCCAA
Found at i:710581 original size:3 final size:3
Alignment explanation
Indices: 710573--710600 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
710563 AAACCTTTAA
710573 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
710601 TTGCTTCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:714247 original size:23 final size:22
Alignment explanation
Indices: 714221--714277 Score: 53
Period size: 23 Copynumber: 2.5 Consensus size: 22
714211 GAATTAATTG
714221 AATATTAATTTAATTATTAAAAT
1 AATATTAATTTAATTA-TAAAAT
** *
714244 AATAAAAAATTAAATTATAAAAT
1 AAT-ATTAATTTAATTATAAAAT
714267 AA-ATTATATTT
1 AATATTA-ATTT
714278 TTTAAATTAT
Statistics
Matches: 26, Mismatches: 6, Indels: 5
0.70 0.16 0.14
Matches are distributed among these distances:
21 2 0.08
22 3 0.12
23 11 0.42
24 10 0.38
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
AATATTAATTTAATTATAAAAT
Found at i:714283 original size:14 final size:14
Alignment explanation
Indices: 714266--714313 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
714256 AATTATAAAA
714266 TAAATTATATTTTT
1 TAAATTATATTTTT
**
714280 TAAATTATATCTTAA
1 TAAATTATAT-TTTT
714295 TAATATTATAATTTTT
1 TAA-ATTAT-ATTTTT
714311 TAA
1 TAA
714314 TTTTTTATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
14 10 0.37
15 5 0.19
16 10 0.37
17 2 0.07
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (14 bp):
TAAATTATATTTTT
Found at i:714314 original size:16 final size:15
Alignment explanation
Indices: 714269--714325 Score: 53
Period size: 16 Copynumber: 3.7 Consensus size: 15
714259 TATAAAATAA
714269 ATTATATTTTTTAA-
1 ATTATATTTTTTAAT
**
714283 ATTATATCTTAATAAT
1 ATTATAT-TTTTTAAT
714299 ATTATAATTTTTTAAT
1 ATTAT-ATTTTTTAAT
* *
714315 TTTTTATTTTT
1 ATTATATTTTT
714326 CTAAAAAAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
14 7 0.21
15 11 0.32
16 14 0.41
17 2 0.06
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (15 bp):
ATTATATTTTTTAAT
Found at i:714618 original size:3 final size:3
Alignment explanation
Indices: 714610--714647 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
714600 TTTATAGCAG
714610 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
714648 CTAATTATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:716222 original size:19 final size:20
Alignment explanation
Indices: 716191--716242 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
716181 AAAAATAATT
716191 AAAATAT-AATATAAAT-AA
1 AAAATATAAATATAAATGAA
716209 AAAATATAAATAT-AATGAA
1 AAAATATAAATATAAATGAA
*
716228 AATATATAAATATAA
1 AAAATATAAATATAA
716243 TTTAATTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 10 0.33
19 19 0.63
20 1 0.03
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (20 bp):
AAAATATAAATATAAATGAA
Found at i:716223 original size:24 final size:25
Alignment explanation
Indices: 716192--716242 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
716182 AAAATAATTA
716192 AAATATAAT-ATAAATA-AAAAATAT
1 AAATATAATGA-AAATATAAAAATAT
*
716216 AAATATAATGAAAATATATAAATAT
1 AAATATAATGAAAATATAAAAATAT
716241 AA
1 AA
716243 TTTAATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 14 0.58
25 10 0.42
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (25 bp):
AAATATAATGAAAATATAAAAATAT
Found at i:716243 original size:19 final size:18
Alignment explanation
Indices: 716180--716285 Score: 73
Period size: 19 Copynumber: 6.1 Consensus size: 18
716170 TAGGGAAATT
* *
716180 TAAAAATAATTAAA-ATA
1 TAAATATAATAAAATATA
*
716197 T-AATATAAATAAAAAATA
1 TAAATAT-AATAAAATATA
716215 TAAATATAATGAAAATATA
1 TAAATATAAT-AAAATATA
**
716234 TAAATATAATTTAAT-T-
1 TAAATATAATAAAATATA
*
716250 T-TATATAATATAAAT-TA
1 TAAATATAATA-AAATATA
*
716267 T-AATATATTAAAATATA
1 TAAATATAATAAAATATA
716284 TA
1 TA
716286 TAAATATATA
Statistics
Matches: 71, Mismatches: 10, Indels: 15
0.74 0.10 0.16
Matches are distributed among these distances:
15 7 0.10
16 13 0.18
17 19 0.27
18 10 0.14
19 22 0.31
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (18 bp):
TAAATATAATAAAATATA
Found at i:716265 original size:21 final size:22
Alignment explanation
Indices: 716230--716270 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
716220 ATAATGAAAA
716230 TATATAAATATAATT-TAATTT
1 TATATAAATATAATTATAATTT
716251 TATAT-AATATAAATTATAAT
1 TATATAAATAT-AATTATAAT
716271 ATATTAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TATATAAATATAATTATAATTT
Found at i:716284 original size:12 final size:10
Alignment explanation
Indices: 716194--716295 Score: 63
Period size: 10 Copynumber: 10.3 Consensus size: 10
716184 AATAATTAAA
716194 ATAT-AATAT
1 ATATAAATAT
* *
716203 AAATAAA-AA
1 ATATAAATAT
716212 ATATAAATAT
1 ATATAAATAT
716222 A-ATGAAA-AT
1 ATAT-AAATAT
716231 ATATAAATAT
1 ATATAAATAT
* * *
716241 AATTTAATTTT
1 -ATATAAATAT
716252 ATAT-AATAT
1 ATATAAATAT
*
716261 AAATTATAATAT
1 ATA-TA-AATAT
716273 AT-TAAAATAT
1 ATAT-AAATAT
716283 ATATAAATAT
1 ATATAAATAT
716293 ATA
1 ATA
716296 ATATTTTATA
Statistics
Matches: 70, Mismatches: 12, Indels: 21
0.68 0.12 0.20
Matches are distributed among these distances:
9 23 0.33
10 32 0.46
11 9 0.13
12 6 0.09
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (10 bp):
ATATAAATAT
Found at i:716548 original size:22 final size:22
Alignment explanation
Indices: 716523--716570 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
716513 AAAAATTTAT
*
716523 TTAATTAATTTTAATGTTT-AAA
1 TTAATTAATATTAAT-TTTAAAA
716545 TTAATTAATATTAATTTTAAAA
1 TTAATTAATATTAATTTTAAAA
716567 TTAA
1 TTAA
716571 AATAATTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 3 0.12
22 21 0.88
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
TTAATTAATATTAATTTTAAAA
Found at i:716562 original size:28 final size:26
Alignment explanation
Indices: 716525--716585 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 26
716515 AAATTTATTT
** *
716525 AATTAATTTTAATGTTTAAATTAATTA
1 AATTAATTTTAA-AATTAAAATAATTA
716552 ATATTAATTTTAAAATTAAAATAATTA
1 A-ATTAATTTTAAAATTAAAATAATTA
716579 AATTAAT
1 AATTAAT
716586 ATCAAGATTG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
26 6 0.20
27 13 0.43
28 11 0.37
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (26 bp):
AATTAATTTTAAAATTAAAATAATTA
Found at i:716758 original size:5 final size:5
Alignment explanation
Indices: 716733--716780 Score: 64
Period size: 5 Copynumber: 9.6 Consensus size: 5
716723 TTGATACTTA
716733 TAAAT T-AAT TAAAATT TAAAT TAAAT T-AAT TAAAT TAAAT TAAAT TAA
1 TAAAT TAAAT T-AAA-T TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAA
716781 TTTTTTAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
4 8 0.21
5 24 0.62
6 5 0.13
7 2 0.05
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TAAAT
Found at i:716782 original size:14 final size:15
Alignment explanation
Indices: 716733--716780 Score: 64
Period size: 14 Copynumber: 3.2 Consensus size: 15
716723 TTGATACTTA
716733 TAAATT-AATTAAAATT
1 TAAATTAAATT-AAA-T
716749 TAAATTAAATT-AAT
1 TAAATTAAATTAAAT
716763 TAAATTAAATTAAAT
1 TAAATTAAATTAAAT
716778 TAA
1 TAA
716781 TTTTTTAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
14 12 0.40
15 8 0.27
16 6 0.20
17 4 0.13
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TAAATTAAATTAAAT
Found at i:716799 original size:9 final size:9
Alignment explanation
Indices: 716733--716782 Score: 64
Period size: 9 Copynumber: 5.1 Consensus size: 9
716723 TTGATACTTA
716733 TAAATTAAT
1 TAAATTAAT
716742 TAAAATTTAAAT
1 T-AAA-TT-AAT
716754 TAAATTAAT
1 TAAATTAAT
716763 TAAATTAAAT
1 TAAATT-AAT
716773 TAAATTAAT
1 TAAATTAAT
716782 T
1 T
716783 TTTTAATTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
9 14 0.38
10 14 0.38
11 5 0.14
12 4 0.11
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
TAAATTAAT
Found at i:716859 original size:3 final size:3
Alignment explanation
Indices: 716851--716890 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
716841 CTCTTACTTC
716851 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
716891 TTTGCCATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:717183 original size:20 final size:20
Alignment explanation
Indices: 717158--717210 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
717148 ATAAAATTAA
*
717158 ATATATATTAATTATTTATT
1 ATATATAATAATTATTTATT
*
717178 ATATATAATAGTTATTTA--
1 ATATATAATAATTATTTATT
717196 ATAT-TAA-AATTATTT
1 ATATATAATAATTATTT
717211 TTAAAATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 7 0.23
17 3 0.10
18 4 0.13
20 16 0.53
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (20 bp):
ATATATAATAATTATTTATT
Found at i:717498 original size:27 final size:26
Alignment explanation
Indices: 717447--717496 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
717437 TTATGTATGA
*
717447 TTTTCTTTTTTAAAAAATAATAAATT
1 TTTTCTATTTTAAAAAATAATAAATT
717473 TTTTCTATTTTAAATAAA-AATAAA
1 TTTTCTATTTTAAA-AAATAATAAA
717497 ATAAAAGTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 19 0.86
27 3 0.14
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (26 bp):
TTTTCTATTTTAAAAAATAATAAATT
Found at i:717946 original size:22 final size:21
Alignment explanation
Indices: 717899--717952 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
717889 TTGTTTACAT
** *
717899 TTTATATTAATTTATACTATAT
1 TTTAT-TTAATTTATAAAATAA
717921 TTTATTTAATTTATTAAAATAA
1 TTTATTTAATTTA-TAAAATAA
717943 TTTAATTTAA
1 TTT-ATTTAA
717953 AATTTAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 8 0.30
22 13 0.48
23 6 0.22
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTATTTAATTTATAAAATAA
Found at i:718034 original size:20 final size:19
Alignment explanation
Indices: 717976--718083 Score: 62
Period size: 18 Copynumber: 5.7 Consensus size: 19
717966 TTTACATTAT
*
717976 TTTTATATATT-TAAAATA
1 TTTTATATATTATAATATA
* * *
717994 TTATAAAT-TTAT-ATAAAA
1 TTTTATATATTATAAT-ATA
718012 TTTTATATATTAATAATATA
1 TTTTATATATT-ATAATATA
* *
718032 TTTTAATAAATTTTAATATA
1 TTTT-ATATATTATAATATA
* * *
718052 TATT-TATATTATATTATG
1 TTTTATATATTATAATATA
*
718070 TTATTTTATATTAT
1 TT-TTATATATTAT
718084 TTTTATTTAA
Statistics
Matches: 67, Mismatches: 15, Indels: 14
0.70 0.16 0.15
Matches are distributed among these distances:
17 3 0.04
18 26 0.39
19 4 0.06
20 26 0.39
21 8 0.12
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (19 bp):
TTTTATATATTATAATATA
Found at i:718037 original size:13 final size:12
Alignment explanation
Indices: 718015--718056 Score: 52
Period size: 13 Copynumber: 3.6 Consensus size: 12
718005 TATAAAATTT
*
718015 TATATATTAATAA
1 TATATTTTAAT-A
718028 TATATTTTAATA
1 TATATTTTAATA
718040 -A-ATTTTAATA
1 TATATTTTAATA
718050 TATATTT
1 TATATTT
718057 ATATTATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
10 9 0.35
11 2 0.08
12 5 0.19
13 10 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
TATATTTTAATA
Found at i:718084 original size:10 final size:10
Alignment explanation
Indices: 718041--718090 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
718031 ATTTTAATAA
718041 ATTTTA-ATAT
1 ATTTTATAT-T
718051 ATATTTATATT
1 AT-TTTATATT
* *
718062 ATATTATGTT
1 ATTTTATATT
718072 ATTTTATATT
1 ATTTTATATT
718082 ATTTT-TATT
1 ATTTTATATT
718091 TAATTTTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
9 4 0.12
10 21 0.62
11 7 0.21
12 2 0.06
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (10 bp):
ATTTTATATT
Found at i:718165 original size:14 final size:13
Alignment explanation
Indices: 718137--718169 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
718127 AAATCATATT
718137 TTAT-ATAATTTA
1 TTATAATAATTTA
718149 TTATAATAATTTAA
1 TTATAATAATTT-A
718163 TTATAAT
1 TTATAAT
718170 TATAAATTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 4 0.21
13 7 0.37
14 8 0.42
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TTATAATAATTTA
Found at i:718358 original size:2 final size:2
Alignment explanation
Indices: 718353--718377 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
718343 TCCAAAAAAC
718353 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
718378 GCAATCCCCT
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:718524 original size:28 final size:28
Alignment explanation
Indices: 718465--718532 Score: 68
Period size: 28 Copynumber: 2.5 Consensus size: 28
718455 GTAATTTTTT
* ** *
718465 TATTTTTATATTTAAATTATATTTGTAT
1 TATTTTTATATTTAAATTAAATTTAAAA
718493 TATTTTTATA-TTATAATTAAATTTAAAA
1 TATTTTTATATTTA-AATTAAATTTAAAA
*
718521 TA-TTATATATTT
1 TATTTTTATATTT
718533 TGATATATTA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
27 9 0.27
28 24 0.73
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (28 bp):
TATTTTTATATTTAAATTAAATTTAAAA
Found at i:718602 original size:22 final size:21
Alignment explanation
Indices: 718571--718617 Score: 53
Period size: 20 Copynumber: 2.2 Consensus size: 21
718561 TTTTATTACG
718571 TTTTTGTATTTATGTAATAT-ATA
1 TTTTTGTA-TTAT-T-ATATCATA
718594 TTTTT-TATTATTATATCATA
1 TTTTTGTATTATTATATCATA
718614 TTTT
1 TTTT
718618 AATTATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
19 4 0.17
20 8 0.35
21 4 0.17
22 2 0.09
23 5 0.22
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (21 bp):
TTTTTGTATTATTATATCATA
Found at i:718834 original size:30 final size:32
Alignment explanation
Indices: 718761--718836 Score: 84
Period size: 32 Copynumber: 2.4 Consensus size: 32
718751 ATATTCAAGA
718761 TATTATATATTTATATAAATTTTGATATATTAAT
1 TATT-TAT-TTTATATAAATTTTGATATATTAAT
* * * *
718795 AATTCATTTTATATATATTTTGATAT-TT-TT
1 TATTTATTTTATATAAATTTTGATATATTAAT
718825 TATTTATTTTAT
1 TATTTATTTTAT
718837 GTCCATGTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
30 11 0.31
31 2 0.06
32 18 0.50
33 2 0.06
34 3 0.08
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.62
Consensus pattern (32 bp):
TATTTATTTTATATAAATTTTGATATATTAAT
Found at i:719067 original size:11 final size:11
Alignment explanation
Indices: 719051--719091 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
719041 ACATGAACAG
719051 AAAATTATAAA
1 AAAATTATAAA
719062 AAAATTATAAA
1 AAAATTATAAA
*
719073 ATAATTA-AAA
1 AAAATTATAAA
719083 ATAAATTAT
1 A-AAATTAT
719092 TAATATTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
10 4 0.15
11 22 0.85
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
AAAATTATAAA
Found at i:720276 original size:13 final size:13
Alignment explanation
Indices: 720260--720310 Score: 59
Period size: 13 Copynumber: 3.9 Consensus size: 13
720250 ATGCAATTTT
720260 TTTATTTTATATA
1 TTTATTTTATATA
* *
720273 TTTATATTAT-TT
1 TTTATTTTATATA
720285 TATTATTTTATATA
1 T-TTATTTTATATA
*
720299 TTTATGTTATAT
1 TTTATTTTATAT
720311 TCGTGCTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
12 2 0.06
13 27 0.87
14 2 0.06
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (13 bp):
TTTATTTTATATA
Found at i:720284 original size:18 final size:18
Alignment explanation
Indices: 720261--720369 Score: 60
Period size: 20 Copynumber: 5.7 Consensus size: 18
720251 TGCAATTTTT
720261 TTATTTTATATATTTATA
1 TTATTTTATATATTTATA
720279 TTATTTTAT-TATTT-TA
1 TTATTTTATATATTTATA
* ** *
720295 TATATTTATGTTATATTCGTG
1 T-TATTT-T-ATATATTTATA
*
720316 CTATTGTATATATATTTATA
1 TTATT-T-TATATATTTATA
* *
720336 TAATTTTTAATATATTAATAA
1 TTA-TTTT-ATATATTTAT-A
720357 TTTATTTTATATA
1 -TTATTTTATATA
720370 AATTTTGACA
Statistics
Matches: 69, Mismatches: 12, Indels: 18
0.70 0.12 0.18
Matches are distributed among these distances:
16 3 0.04
17 10 0.14
18 10 0.14
19 2 0.03
20 31 0.45
21 11 0.16
22 2 0.03
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (18 bp):
TTATTTTATATATTTATA
Found at i:720290 original size:26 final size:26
Alignment explanation
Indices: 720255--720308 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
720245 TTTCTATGCA
*
720255 ATTTTTTTATTTTATATATTTATATT
1 ATTTTATTATTTTATATATTTATATT
*
720281 ATTTTATTATTTTATATATTTATGTT
1 ATTTTATTATTTTATATATTTATATT
720307 AT
1 AT
720309 ATTCGTGCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (26 bp):
ATTTTATTATTTTATATATTTATATT
Found at i:720369 original size:20 final size:20
Alignment explanation
Indices: 720324--720368 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 20
720314 TGCTATTGTA
720324 TATATATTTATATAATTTTT
1 TATATATTTATATAATTTTT
*
720344 AATATA-TTA-ATAATTTATT
1 TATATATTTATATAATTT-TT
720363 T-TATAT
1 TATATAT
720369 AAATTTTGAC
Statistics
Matches: 21, Mismatches: 2, Indels: 5
0.75 0.07 0.18
Matches are distributed among these distances:
18 11 0.52
19 5 0.24
20 5 0.24
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TATATATTTATATAATTTTT
Found at i:721174 original size:40 final size:40
Alignment explanation
Indices: 721119--721194 Score: 143
Period size: 40 Copynumber: 1.9 Consensus size: 40
721109 AGCCGGACTA
*
721119 ATATATATATATAATATCTTAATTACAATAACCAAAATAT
1 ATATATATATATAATATCTTAATCACAATAACCAAAATAT
721159 ATATATATATATAATATCTTAATCACAATAACCAAA
1 ATATATATATATAATATCTTAATCACAATAACCAAA
721195 CCTCAAACTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.36
Consensus pattern (40 bp):
ATATATATATATAATATCTTAATCACAATAACCAAAATAT
Found at i:722415 original size:22 final size:21
Alignment explanation
Indices: 722359--722421 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
722349 CTTACTAATT
722359 TTTTAATTTCTTTTAGTTTTAG
1 TTTTAATTT-TTTTAGTTTTAG
*
722381 TTTT--TTAAATTTTAGATTTTAG
1 TTTTAATT--TTTTTAG-TTTTAG
722403 TTTTAATTTTTTTA-TTTTA
1 TTTTAATTTTTTTAGTTTTA
722422 TAAATGATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
20 7 0.21
21 6 0.18
22 19 0.56
24 2 0.06
ACGTcount: A:0.22, C:0.02, G:0.06, T:0.70
Consensus pattern (21 bp):
TTTTAATTTTTTTAGTTTTAG
Found at i:723401 original size:24 final size:24
Alignment explanation
Indices: 723352--723403 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
723342 TTAATAATAT
**
723352 TTAATTTAAAATTATTATTATTAA
1 TTAATTTAAAATTATTATTAAAAA
*
723376 TTAA-TTAAAATTTTTATTAAAAAA
1 TTAATTTAAAATTATTATT-AAAAA
723400 TTAA
1 TTAA
723404 AAGACCCCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 13 0.54
24 11 0.46
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (24 bp):
TTAATTTAAAATTATTATTAAAAA
Found at i:723986 original size:127 final size:126
Alignment explanation
Indices: 723761--724019 Score: 464
Period size: 127 Copynumber: 2.0 Consensus size: 126
723751 TTTTGATTAA
* *
723761 GTGAATGATTAGAGGGTTATTTGTTGTCTAATCGTGTTGATTTTAGGCGTAGTTAGGAGACTCAT
1 GTGAATGATCAGAGGGTTATTTGTTGTCTAATCGTGTTGATTTTAGGAGTAGTTAGGAGACTCAT
723826 AAATGTTCATTTTGGATGGTTGAATTTGTCATCGAAGCACTTTAGCTTGCGGATTTGCTAT
66 AAATGTTCATTTTGGATGGTTGAATTTGTCATCGAAGCACTTTAGCTTGCGGATTTGCTAT
*
723887 GTGAATGATCAGAGGGTTATTTGTTGTCTAATCGTGTTGATTTTGGGTAGTAGTTAGGAGACTCA
1 GTGAATGATCAGAGGGTTATTTGTTGTCTAATCGTGTTGATTTTAGG-AGTAGTTAGGAGACTCA
* *
723952 TAAATGTTCATTTTGGATGGTTGAATTTGTCATCGAAGCATTTTTGCTTGCGGATTTGCTAT
65 TAAATGTTCATTTTGGATGGTTGAATTTGTCATCGAAGCACTTTAGCTTGCGGATTTGCTAT
724014 GTGAAT
1 GTGAAT
724020 AGTAACATCA
Statistics
Matches: 127, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
126 45 0.35
127 82 0.65
ACGTcount: A:0.23, C:0.10, G:0.27, T:0.41
Consensus pattern (126 bp):
GTGAATGATCAGAGGGTTATTTGTTGTCTAATCGTGTTGATTTTAGGAGTAGTTAGGAGACTCAT
AAATGTTCATTTTGGATGGTTGAATTTGTCATCGAAGCACTTTAGCTTGCGGATTTGCTAT
Found at i:724913 original size:188 final size:186
Alignment explanation
Indices: 724596--724960 Score: 615
Period size: 188 Copynumber: 1.9 Consensus size: 186
724586 TAATAGCTAA
* *
724596 AAGTAGAGTTGTGTGTTCATTGTGTTCAAGTCCCATTATTTTTACCTTTTATTTTAAGGGGTTTT
1 AAGTAGAGTTGTGTGTTCATTGTGCTCAAGTCCCATGATTTTTACCTTTTATTTTAAGGGGTTTT
* * *
724661 GAACGTAAAAATTTGTGTCTTATGTGATTGATTTTTTTGGCTTGCTTTGGATTGATTGTGTTGTT
66 G-ACATAAAAATTTGTATCTTATGTGATTGATTTTTTTGGCTTGCTTTGGATTGATTATGTTGTT
* *
724726 GGAAATTATTATTGTGCTATCGTGGTATTGTAATTACTCATTGTGCTCATTATACTT
130 GGAAATTATTATTATGCTATCATGGTATTGTAATTACTCATTGTGCTCATTATACTT
724783 AAGTAGAGTTGTGTGTTCATTGTGCTCAAGTCCCATGATTTTTACCTTTTATTTTAAGGGGGTTT
1 AAGTAGAGTTGTGTGTTCATTGTGCTCAAGTCCCATGATTTTTACCTTTTATTTTAA-GGGGTTT
*
724848 TG-CTATAAAAAATTTGTATCTTATGTGATTGATTTTTTTTGCTTGCTTTGGATTGATTATGTTG
65 TGAC-AT-AAAAATTTGTATCTTATGTGATTGATTTTTTTGGCTTGCTTTGGATTGATTATGTTG
724912 TTGGAAATTATTATTATGCTATCATGGTATTGTAATTACTCATTGTGCT
128 TTGGAAATTATTATTATGCTATCATGGTATTGTAATTACTCATTGTGCT
724961 TATTGGGTTA
Statistics
Matches: 167, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
186 1 0.01
187 56 0.34
188 110 0.66
ACGTcount: A:0.22, C:0.10, G:0.20, T:0.48
Consensus pattern (186 bp):
AAGTAGAGTTGTGTGTTCATTGTGCTCAAGTCCCATGATTTTTACCTTTTATTTTAAGGGGTTTT
GACATAAAAATTTGTATCTTATGTGATTGATTTTTTTGGCTTGCTTTGGATTGATTATGTTGTTG
GAAATTATTATTATGCTATCATGGTATTGTAATTACTCATTGTGCTCATTATACTT
Found at i:727407 original size:23 final size:23
Alignment explanation
Indices: 727372--727416 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
727362 ACCTCACAAT
*
727372 TTCTCTGAGAATTATACCCCAAA
1 TTCTCTGAGAATTATAACCCAAA
*
727395 TTCT-TGAGAAATTGTAACCCAA
1 TTCTCTGAG-AATTATAACCCAA
727417 GGTTGAATGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.36, C:0.22, G:0.11, T:0.31
Consensus pattern (23 bp):
TTCTCTGAGAATTATAACCCAAA
Done.