Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 170 of 211
Found at i:52974366 original size:44 final size:45
Alignment explanation
Indices: 52974315--52974589 Score: 184
Period size: 44 Copynumber: 6.3 Consensus size: 45
52974305 GATCGCATCT
* *
52974315 AGTCTTATCTCCCTGAAATTACAGTAGAGCAGACT-AAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAAGTAAGCA
* * * *
52974359 AGTCTTATC-CTCCTGAAGTTACAGT-GAGGCAGGCTGAAG-ATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTAGA-GCAGACTAAAGTA-AGCA
* ** * **
52974404 AATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTAAAG-CCGACA
1 AGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAAGTAAG-CA
* * **
52974449 A-TCCTATCTCCCTGAAGTTGCAGTAGAG-AGGATTAAAGT-CTC-
1 AGTCTTATCTCCCTGAAGTTGCAGTAGAGCA-GACTAAAGTAAGCA
* * * * *
52974491 AGATCTTATCTCTCTGAAGTTGCAG-ACAGCAGA-T--CGT-ATCT
1 AG-TCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAAGTAAGCA
*
52974532 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAAGTAAGCA
*
52974576 GGTCTTATCTCCCT
1 AGTCTTATCTCCCT
52974590 AAGCAGTAGT
Statistics
Matches: 187, Mismatches: 27, Indels: 34
0.75 0.11 0.14
Matches are distributed among these distances:
40 25 0.13
41 8 0.04
42 3 0.02
43 12 0.06
44 99 0.53
45 37 0.20
46 3 0.02
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (45 bp):
AGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAAGTAAGCA
Found at i:52978122 original size:42 final size:41
Alignment explanation
Indices: 52978033--52978180 Score: 188
Period size: 42 Copynumber: 3.6 Consensus size: 41
52978023 AAATAAACGT
* * * *
52978033 CGCTAAAGGTCATGTTGTTTAACGGCGCTTAGAAAAAATGC
1 CGCTAAAGATCATGTTCTTTAGCGGCGCTTAAAAAAAATGC
* *
52978074 CGCTAAAGATCGTGTTCTTTAGCGGTGCTTAAAAAAAGATGC
1 CGCTAAAGATCATGTTCTTTAGCGGCGCTTAAAAAAA-ATGC
* * * *
52978116 CGCTAAAGATCATGTTCTTTAGCAGCGCTCGAAGAAAAACGC
1 CGCTAAAGATCATGTTCTTTAGCGGCGCT-TAAAAAAAATGC
52978158 CGCTAAAGATCATGTTCTTTAGC
1 CGCTAAAGATCATGTTCTTTAGC
52978181 AACAAATAAA
Statistics
Matches: 93, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
41 31 0.33
42 56 0.60
43 6 0.06
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (41 bp):
CGCTAAAGATCATGTTCTTTAGCGGCGCTTAAAAAAAATGC
Found at i:52978282 original size:20 final size:20
Alignment explanation
Indices: 52978257--52978320 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 20
52978247 AAATTAAACG
52978257 AATAAAATAATATTAATATC
1 AATAAAATAATATTAATATC
* *
52978277 AAT-AAAT-A-A--AA-GTG
1 AATAAAATAATATTAATATC
52978291 AATAAAATAATATTAATATC
1 AATAAAATAATATTAATATC
52978311 AATAAAATAA
1 AATAAAATAA
52978321 AATATTATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
14 4 0.12
15 6 0.18
16 1 0.03
17 2 0.06
18 1 0.03
19 6 0.18
20 14 0.41
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (20 bp):
AATAAAATAATATTAATATC
Found at i:52978299 original size:34 final size:35
Alignment explanation
Indices: 52978256--52978322 Score: 127
Period size: 34 Copynumber: 1.9 Consensus size: 35
52978246 CAAATTAAAC
52978256 GAATAAAATAATATTAATATCAAT-AAATAAAAGT
1 GAATAAAATAATATTAATATCAATAAAATAAAAGT
52978290 GAATAAAATAATATTAATATCAATAAAATAAAA
1 GAATAAAATAATATTAATATCAATAAAATAAAA
52978323 TATTATTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 24 0.75
35 8 0.25
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.28
Consensus pattern (35 bp):
GAATAAAATAATATTAATATCAATAAAATAAAAGT
Found at i:52978554 original size:21 final size:21
Alignment explanation
Indices: 52978528--52978599 Score: 99
Period size: 21 Copynumber: 3.4 Consensus size: 21
52978518 TTCTTTTGAA
*
52978528 CCTCTGTTTCTCTCGCTGCAG
1 CCTCTGCTTCTCTCGCTGCAG
52978549 CCTCTGCTTCTCTCGCTGCAG
1 CCTCTGCTTCTCTCGCTGCAG
* * * *
52978570 CCTCTACTTCCCTCGTTGCCG
1 CCTCTGCTTCTCTCGCTGCAG
52978591 CCTCTGCTT
1 CCTCTGCTT
52978600 TAAGTTGTAG
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.04, C:0.43, G:0.17, T:0.36
Consensus pattern (21 bp):
CCTCTGCTTCTCTCGCTGCAG
Found at i:52980298 original size:9 final size:9
Alignment explanation
Indices: 52980219--52980685 Score: 269
Period size: 9 Copynumber: 52.3 Consensus size: 9
52980209 ACAGCACATA
*
52980219 TAAGTTATA
1 TAAGTTATG
52980228 TAAGTTATG
1 TAAGTTATG
*
52980237 TAAGTTATA
1 TAAGTTATG
*
52980246 TAAGCTATG
1 TAAGTTATG
52980255 TAAGTTATTATG
1 TAAG---TTATG
*
52980267 TAAGTTAAG
1 TAAGTTATG
*
52980276 ATATAATATATG
1 -TA-AGT-TATG
52980288 TAAGTTATG
1 TAAGTTATG
*
52980297 T-A-TTAAG
1 TAAGTTATG
*
52980304 TAAATTATG
1 TAAGTTATG
52980313 TAAGTTATG
1 TAAGTTATG
*
52980322 T-A-TTAAG
1 TAAGTTATG
*
52980329 TAAATTATG
1 TAAGTTATG
52980338 TAAGTTATG
1 TAAGTTATG
* *
52980347 TATATATTATA
1 TA-A-GTTATG
* *
52980358 AAAGATATG
1 TAAGTTATG
52980367 TAAGTTATG
1 TAAGTTATG
52980376 T-A-TTATG
1 TAAGTTATG
*
52980383 TAAGTTATA
1 TAAGTTATG
52980392 TAAGTTATG
1 TAAGTTATG
52980401 T-A-TTATG
1 TAAGTTATG
*
52980408 TAAGTTATA
1 TAAGTTATG
*
52980417 TAAGCTATG
1 TAAGTTATG
*
52980426 TAA-TTAAG
1 TAAGTTATG
*
52980434 TTA-TTATG
1 TAAGTTATG
*
52980442 TAAGTTAAG
1 TAAGTTATG
*
52980451 ATATAATATATG
1 -TA-AGT-TATG
*
52980463 T-TGATTATG
1 TAAG-TTATG
*
52980472 T-A-TTAAG
1 TAAGTTATG
*
52980479 TAAATTATG
1 TAAGTTATG
52980488 TAAGTTATG
1 TAAGTTATG
52980497 T-A-TTATG
1 TAAGTTATG
*
52980504 TAAGTTATA
1 TAAGTTATG
*
52980513 TTAGTTATG
1 TAAGTTATG
*
52980522 TAAGTTATA
1 TAAGTTATG
*
52980531 TAAGCTATG
1 TAAGTTATG
52980540 TAAGTTATTATG
1 TAAG---TTATG
*
52980552 TAAGTTAAG
1 TAAGTTATG
*
52980561 ATATAATATATG
1 -TA-AGT-TATG
*
52980573 T-TGATTATG
1 TAAG-TTATG
*
52980582 T-A-TTAAG
1 TAAGTTATG
*
52980589 TAAATTATG
1 TAAGTTATG
52980598 TAAGTTATG
1 TAAGTTATG
* *
52980607 T-ATTTATT
1 TAAGTTATG
52980615 TAAGTTATG
1 TAAGTTATG
52980624 T-A-TTATG
1 TAAGTTATG
*
52980631 TAAGTTATA
1 TAAGTTATG
52980640 TAAGTTATG
1 TAAGTTATG
*
52980649 TAGGTTATG
1 TAAGTTATG
52980658 T-A-TTATG
1 TAAGTTATG
*
52980665 TAGGTTATG
1 TAAGTTATG
52980674 TAAGTTATG
1 TAAGTTATG
52980683 TAA
1 TAA
52980686 TGTGTCAATA
Statistics
Matches: 350, Mismatches: 69, Indels: 78
0.70 0.14 0.16
Matches are distributed among these distances:
7 50 0.14
8 31 0.09
9 217 0.62
10 12 0.03
11 15 0.04
12 25 0.07
ACGTcount: A:0.38, C:0.01, G:0.16, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:52980313 original size:25 final size:25
Alignment explanation
Indices: 52980284--52980448 Score: 181
Period size: 25 Copynumber: 6.4 Consensus size: 25
52980274 AGATATAATA
52980284 TATGTAAGTTATGTATTAAGTAAAT
1 TATGTAAGTTATGTATTAAGTAAAT
52980309 TATGTAAGTTATGTATTAAGTAAAT
1 TATGTAAGTTATGTATTAAGTAAAT
*
52980334 TATGTAAGTTATGTATATATTA-TAAAAGA
1 TATGTAAGTTATGTAT-TA--AGT-AAA-T
* *
52980363 TATGTAAGTTATGTATTATGTAAGT
1 TATGTAAGTTATGTATTAAGTAAAT
* * *
52980388 TATATAAGTTATGTATTATGTAAGT
1 TATGTAAGTTATGTATTAAGTAAAT
* * *
52980413 TATATAAGCTATGTAATTAAGT-TAT
1 TATGTAAGTTATGT-ATTAAGTAAAT
52980438 TATGTAAGTTA
1 TATGTAAGTTA
52980449 AGATATAATA
Statistics
Matches: 122, Mismatches: 11, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
25 88 0.72
26 10 0.08
27 2 0.02
28 6 0.05
29 16 0.13
ACGTcount: A:0.39, C:0.01, G:0.16, T:0.45
Consensus pattern (25 bp):
TATGTAAGTTATGTATTAAGTAAAT
Found at i:52980346 original size:34 final size:34
Alignment explanation
Indices: 52980223--52980686 Score: 222
Period size: 34 Copynumber: 13.3 Consensus size: 34
52980213 CACATATAAG
* * *
52980223 TTATATAAGTTATGTAAGTTATATAAGCTATGT-A
1 TTATGTAA-TTATGTAAGTTATGTAAGTTATGTAA
* * *
52980257 --A-GTTATTATGTAAGTTAAGATATAATATATGTAA
1 TTATGTAATTATGTAAGTTATG-TA-AGT-TATGTAA
* *
52980291 GTTATGT-ATTAAGTAAATTATGTAAGTTATGT-A
1 -TTATGTAATTATGTAAGTTATGTAAGTTATGTAA
* * **
52980324 TTAAGTAAATTATGTAAGTTATGTATATATTATAAAA
1 TTATGT-AATTATGTAAGTTATGTA-A-GTTATGTAA
* *
52980361 GATATGTAAGTTATGT-A-TTATGTAAGTTATATAA
1 -TTATGTAA-TTATGTAAGTTATGTAAGTTATGTAA
* *
52980395 GTTATGT-ATTATGTAAGTTATATAAGCTATGTAA
1 -TTATGTAATTATGTAAGTTATGTAAGTTATGTAA
* * * * *
52980429 TTAAGTTATTATGTAAGTTAAGATATAATATATGTTGA
1 TTATGTAATTATGTAAGTTATG-TA-AGT-TATG-TAA
* *
52980467 TTATGT-ATTAAGTAAATTATGTAAGTTATGT-A
1 TTATGTAATTATGTAAGTTATGTAAGTTATGTAA
* * *
52980499 TTATGTAAGTTATATTAGTTATGTAAGTTATATAA
1 TTATGTAA-TTATGTAAGTTATGTAAGTTATGTAA
* * * *
52980534 GCTATGTAAGTTATTATGTAAGTTAAGATATAATATATGTTGA
1 -TTATGT-A---ATTATGTAAGTTATG-TA-AGT-TATG-TAA
* * *
52980577 TTATGT-ATTAAGTAAATTATGTAAGTTATGTAT
1 TTATGTAATTATGTAAGTTATGTAAGTTATGTAA
* *
52980610 TTATTTAAGTTATGT-A-TTATGTAAGTTATATAA
1 TTATGTAA-TTATGTAAGTTATGTAAGTTATGTAA
* *
52980643 GTTATGTAGGTTATGT-A-TTATGTAGGTTATGTAA
1 -TTATGTA-ATTATGTAAGTTATGTAAGTTATGTAA
52980677 GTTATGTAAT
1 -TTATGTAAT
52980687 GTGTCAATAT
Statistics
Matches: 329, Mismatches: 63, Indels: 77
0.70 0.13 0.16
Matches are distributed among these distances:
30 12 0.04
31 4 0.01
32 20 0.06
33 37 0.11
34 126 0.38
35 16 0.05
36 23 0.07
37 46 0.14
38 19 0.06
39 11 0.03
40 3 0.01
41 2 0.01
42 8 0.02
43 2 0.01
ACGTcount: A:0.38, C:0.01, G:0.16, T:0.45
Consensus pattern (34 bp):
TTATGTAATTATGTAAGTTATGTAAGTTATGTAA
Found at i:52980488 original size:25 final size:26
Alignment explanation
Indices: 52980363--52980637 Score: 119
Period size: 25 Copynumber: 10.4 Consensus size: 26
52980353 TTATAAAAGA
* *
52980363 TATGTAAGTTATGT--ATTATGTAAGT
1 TATGTAAGTTAAGTAAATTATGTTA-T
* * *
52980388 TATATAAGTTATGT--ATTATGTAAGT
1 TATGTAAGTTAAGTAAATTATGTTA-T
* * * *
52980413 TATATAAGCTATGT-AATTAAGTTAT
1 TATGTAAGTTAAGTAAATTATGTTAT
52980438 TATGTAAGTTAAGATATAATATATGTTGAT
1 TATGTAAGTTAAG-TA-AAT-TATGTT-AT
*
52980468 TATGT-A-TTAAGTAAATTATGTAAGT
1 TATGTAAGTTAAGTAAATTATGTTA-T
* * *
52980493 TATGT-A-TTATGTAAGTTATATTAGT
1 TATGTAAGTTAAGTAAATTATGTTA-T
*
52980518 TATGTAAGTTATA-TAAGCTATGTAAGTTAT
1 TATGTAAGTTA-AGTAA---AT-TATGTTAT
52980548 TATGTAAGTTAAGATATAATATATGTTGAT
1 TATGTAAGTTAAG-TA-AAT-TATGTT-AT
*
52980578 TATGT-A-TTAAGTAAATTATGTAAGT
1 TATGTAAGTTAAGTAAATTATGTTA-T
* ** *
52980603 TATGT-ATTTATTTAAGTTATG-TAT
1 TATGTAAGTTAAGTAAATTATGTTAT
52980627 TATGTAAGTTA
1 TATGTAAGTTA
52980638 TATAAGTTAT
Statistics
Matches: 204, Mismatches: 25, Indels: 42
0.75 0.09 0.15
Matches are distributed among these distances:
24 8 0.04
25 97 0.48
26 26 0.13
27 10 0.05
28 13 0.06
29 15 0.07
30 27 0.13
31 7 0.03
32 1 0.00
ACGTcount: A:0.37, C:0.01, G:0.16, T:0.47
Consensus pattern (26 bp):
TATGTAAGTTAAGTAAATTATGTTAT
Found at i:52980521 original size:175 final size:171
Alignment explanation
Indices: 52980216--52980547 Score: 499
Period size: 175 Copynumber: 1.9 Consensus size: 171
52980206 ATAACAGCAC
52980216 ATATAAGTTATATAAGTTATGTAAGTTATATAAGCTATGTAAGTTATTATGTAAGTTAAGATATA
1 ATATAAGTTATATAAGTTATGTAAGTTATATAAGCTATGTAAGTTATTATGTAAGTTAAGATATA
*
52980281 ATATATGTAAGTTATGTATTAAGTAAATTATGTAAGTTATGTATTAAGTAAATTATGTAAGTTAT
66 ATATATGTAAGTTATGTATTAAGTAAATTATGTAAGTTATGTATTAAGTAAATTATATAAGTTAT
52980346 GTATATATTATAAAAGATATGTAAGTTATGTATTATGTAAGTT
131 GTA-A-ATTATAAAAGATATGTAAGTTATGTATTATGTAAGTT
*
52980389 ATATAAGTTATGT-A-TTATGTAAGTTATATAAGCTATGTAATTAAGTTATTATGTAAGTTAAGA
1 ATATAAGTTATATAAGTTATGTAAGTTATATAAGCTATG----TAAGTTATTATGTAAGTTAAGA
* * * *
52980452 TATAATATATGT-TGATTATGTATTAAGTAAATTATGTAAGTTATGTATTATGTAAGTTATATTA
62 TATAATATATGTAAG-TTATGTATTAAGTAAATTATGTAAGTTATGTATTAAGTAAATTATATAA
* * *
52980516 GTTATGTAAGTTATATAAGCTATGTAAGTTAT
126 GTTATGTAAATTATAAAAGATATGTAAGTTAT
52980548 TATGTAAGTT
Statistics
Matches: 145, Mismatches: 9, Indels: 10
0.88 0.05 0.06
Matches are distributed among these distances:
171 23 0.16
172 1 0.01
173 32 0.22
174 2 0.01
175 87 0.60
ACGTcount: A:0.39, C:0.01, G:0.16, T:0.44
Consensus pattern (171 bp):
ATATAAGTTATATAAGTTATGTAAGTTATATAAGCTATGTAAGTTATTATGTAAGTTAAGATATA
ATATATGTAAGTTATGTATTAAGTAAATTATGTAAGTTATGTATTAAGTAAATTATATAAGTTAT
GTAAATTATAAAAGATATGTAAGTTATGTATTATGTAAGTT
Found at i:52980643 original size:25 final size:25
Alignment explanation
Indices: 52980467--52980685 Score: 125
Period size: 25 Copynumber: 8.6 Consensus size: 25
52980457 TATATGTTGA
* * *
52980467 TTATGTATTAAGTAAATTATGTAAG
1 TTATGTATTATGTAAGTTATATAAG
*
52980492 TTATGTATTATGTAAGTTATATTAG
1 TTATGTATTATGTAAGTTATATAAG
* * *
52980517 TTATGTAAGTTATATAAGCTATGTAAG
1 TTATGT-A-TTATGTAAGTTATATAAG
*
52980544 TTAT-TATGTAAGTTAAG--ATATAA-
1 TTATGTAT-TATG-TAAGTTATATAAG
*
52980567 TATATGTTGATTATGT-A-TTA-AGTAAA
1 T-TATG-T-ATTATGTAAGTTATA-TAAG
* *
52980593 TTATGTAAGTTATGT-ATTTATTTAAG
1 TTATGT-A-TTATGTAAGTTATATAAG
52980619 TTATGTATTATGTAAGTTATATAAG
1 TTATGTATTATGTAAGTTATATAAG
* *
52980644 TTATGTAGGTTATGT-A-TTATGTAGG
1 TTATGTA--TTATGTAAGTTATATAAG
52980669 TTATGTAAGTTATGTAA
1 TTATGT-A-TTATGTAA
52980686 TGTGTCAATA
Statistics
Matches: 155, Mismatches: 19, Indels: 39
0.73 0.09 0.18
Matches are distributed among these distances:
23 1 0.01
24 19 0.12
25 83 0.54
26 26 0.17
27 26 0.17
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.47
Consensus pattern (25 bp):
TTATGTATTATGTAAGTTATATAAG
Found at i:52980683 original size:110 final size:111
Alignment explanation
Indices: 52980366--52980671 Score: 426
Period size: 110 Copynumber: 2.7 Consensus size: 111
52980356 TAAAAGATAT
* *
52980366 GTAAGTTATGT-A-TTATGTAAGTTATATAAGTTATGTATTATGTAAGTTATATAAGCTATGTAA
1 GTAAATTATGTAAGTTATGT-A-TTATATAAGTTATGTATTATGTAAGTTATATAAGCTATGTAG
*
52980429 TTAAGTTATTATGTAAGTTAAGATATAATATATGTTGATTATGTATTAA
64 TTATG-TATTATGTAAGTTAAGATATAATATATGTTGATTATGTATTAA
* *
52980478 GTAAATTATGTAAGTTATGTATTATGTAAGTTATATTAGTTATGTAAGTTATATAAGCTATGTA-
1 GTAAATTATGTAAGTTATGTATTATATAAGTTAT-GTA-TTATGTAAGTTATATAAGCTATGTAG
52980542 --A-GTTATTATGTAAGTTAAGATATAATATATGTTGATTATGTATTAA
64 TTATG-TATTATGTAAGTTAAGATATAATATATGTTGATTATGTATTAA
* *
52980588 GTAAATTATGTAAGTTATGTATTTATTTAAGTTATGTATTATGTAAGTTATATAAGTTATGTAGG
1 GTAAATTATGTAAGTTATGTA-TTATATAAGTTATGTATTATGTAAGTTATATAAGCTATGTA-G
*
52980653 TTATGTATTATGTAGGTTA
64 TTATGTATTATGTAAGTTA
52980672 TGTAAGTTAT
Statistics
Matches: 177, Mismatches: 7, Indels: 19
0.87 0.03 0.09
Matches are distributed among these distances:
109 24 0.14
110 68 0.38
111 13 0.07
112 22 0.12
113 18 0.10
114 32 0.18
ACGTcount: A:0.36, C:0.01, G:0.17, T:0.46
Consensus pattern (111 bp):
GTAAATTATGTAAGTTATGTATTATATAAGTTATGTATTATGTAAGTTATATAAGCTATGTAGTT
ATGTATTATGTAAGTTAAGATATAATATATGTTGATTATGTATTAA
Found at i:52983004 original size:20 final size:21
Alignment explanation
Indices: 52982966--52983017 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
52982956 TCTTCAATTT
52982966 CCAAACT-AAACCTTAAAACC
1 CCAAACTCAAACCTTAAAACC
**
52982986 TTAAACTCAAACCTT-AAACC
1 CCAAACTCAAACCTTAAAACC
52983006 CCAAACTCAAAC
1 CCAAACTCAAAC
52983018 TCTAACACAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 20 0.74
21 7 0.26
ACGTcount: A:0.48, C:0.35, G:0.00, T:0.17
Consensus pattern (21 bp):
CCAAACTCAAACCTTAAAACC
Found at i:52983090 original size:35 final size:36
Alignment explanation
Indices: 52983025--52983114 Score: 87
Period size: 35 Copynumber: 2.6 Consensus size: 36
52983015 AACTCTAACA
* *
52983025 CATAAACACTT-AA-CCTAAATTAATAAACATTATAC
1 CATAAAC-CTTAAACCCTAAACTAATAAACATTAAAC
* *
52983060 CATAAACCTTAAACCCTAAACT-ATAGACATTAAAT
1 CATAAACCTTAAACCCTAAACTAATAAACATTAAAC
* **
52983095 CTTAAATTTTAAACCCTAAA
1 CATAAACCTTAAACCCTAAA
52983115 ACCTAAAATA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
34 3 0.07
35 36 0.78
36 7 0.15
ACGTcount: A:0.49, C:0.21, G:0.01, T:0.29
Consensus pattern (36 bp):
CATAAACCTTAAACCCTAAACTAATAAACATTAAAC
Found at i:52983738 original size:114 final size:113
Alignment explanation
Indices: 52983485--52984064 Score: 687
Period size: 114 Copynumber: 5.1 Consensus size: 113
52983475 TAAATTATTT
* * * * *
52983485 TAAATCCCTGACCATTAGCGGCGCTTTATTAAAAACGCCGCTAAATCCCCCGAAAGCTCCGAAAA
1 TAAATCCCT-AACATTAGCGGCGCTTTCTTAAAAACGCCGCTAAAT-CCCCAAAATCTCAGAAAA
* * * * *
52983550 CGGCGCTGTTGGGCTTAGGTTTTTTTTGTGGCGCTTTCCCCAAAACGCC-A
64 CGGCACCGTTGGGCTTAGG-TTTTTTAGCGGCGCTTTCCCAAAAACGCCGA
* * * * *
52983600 CTAAAGCCCTGAACATTAGCGGCGCTTTCTTCAAAACGCCGCAAAATTCCTAAAATCTCAGAAAA
1 -TAAATCCCT-AACATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAATCTCAGAAAA
* * * **
52983665 CGACACCGTTGTGCTTAGGTTCTTTAGCATCGCTTTCCCAAAAACGCCGA
64 CGGCACCGTTGGGCTTAGGTTTTTTAGCGGCGCTTTCCCAAAAACGCCGA
* *
52983715 TAAATCCCTAAGCATTAGTGGCGCTTTCCTAAAAACGCCGCTAAATCCCCAAAATCTCAGAAAAC
1 TAAATCCCTAA-CATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAATCTCAGAAAAC
* * * * *
52983780 GGCACTGTTGTGCTTAGGTTTTTTCGCGGCGCTTTCTCAAAAACGCCGC
65 GGCACCGTTGGGCTTAGGTTTTTTAGCGGCGCTTTCCCAAAAACGCCGA
* * * * * *
52983829 TAAAGCCCTTAACATTAGCGGCGCTTTCTTCAAAACGCCGCTAAATCTCCGAAAGCTCACAAAAC
1 TAAATCCC-TAACATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAATCTCAGAAAAC
** *
52983894 GGCGTCGTTGGGCTTAGGTTTTTTAGCGGCGCTTTCCCAAAAACGCCAA
65 GGCACCGTTGGGCTTAGGTTTTTTAGCGGCGCTTTCCCAAAAACGCCGA
*
52983943 TAAATCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAA-CTCAGAAAA
1 TAAATCCCT-AACATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCC-AAAATCTCAGAAAA
** * * *
52984007 CGGTGCCGTTGGGCTTAGGTTTTTTAGCGGCGCTTTCTCAAAAATGCCGC
64 CGGCACCGTTGGGCTTAGGTTTTTTAGCGGCGCTTTCCCAAAAACGCCGA
52984057 TAAATCCC
1 TAAATCCC
52984065 CAAAAGCTCG
Statistics
Matches: 396, Mismatches: 63, Indels: 12
0.84 0.13 0.03
Matches are distributed among these distances:
113 3 0.01
114 317 0.80
115 35 0.09
116 41 0.10
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.25
Consensus pattern (113 bp):
TAAATCCCTAACATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAATCTCAGAAAACG
GCACCGTTGGGCTTAGGTTTTTTAGCGGCGCTTTCCCAAAAACGCCGA
Found at i:52983911 original size:228 final size:227
Alignment explanation
Indices: 52983485--52984060 Score: 812
Period size: 228 Copynumber: 2.5 Consensus size: 227
52983475 TAAATTATTT
* * * *
52983485 TAAATCCCTGACCATTAGCGGCGCTTTATTAAAAACGCCGCTAAATCCCCCGAAAGCTCCGAAAA
1 TAAATCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAAT-CCCC-AAAACTCAGAAAA
* * * * *
52983550 CGGCGCTGTTGGGCTTAGGTTTTTTTTGTGGCGCTTTCCCCAAAACGCCACTAAAGCCCTGAACA
64 CGGCGCTGTTGGGCTTAGG-TTTTTTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAACA
* * *
52983615 TTAGCGGCGCTTTCTTCAAAACGCCGCAAAATTCCTAAAATCTCAGAAAACGACACCGTTGTGCT
128 TTAGCGGCGCTTTCTTCAAAACGCCGCAAAATTCCTAAAAGCTCACAAAACGACACCGTTGGGCT
* *
52983680 TAGGTTCTTTAGCATCGCTTTCCCAAAAACGCCGA
193 TAGGTTCTTTAGCAGCGCTTTCCCAAAAACGCCAA
* * *
52983715 TAAATCCCTAAGCATTAGTGGCGCTTTCCTAAAAACGCCGCTAAATCCCCAAAATCTCAGAAAAC
1 TAAATCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAA-CTCAGAAAAC
* * * *
52983780 GGCACTGTTGTGCTTAGGTTTTTTCGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTTAACATT
65 GGCGCTGTTGGGCTTAGGTTTTTTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAACATT
* * * **
52983845 AGCGGCGCTTTCTTCAAAACGCCGCTAAATCTCC-GAAAGCTCACAAAACGGCGTCGTTGGGCTT
130 AGCGGCGCTTTCTTCAAAACGCCGCAAAAT-TCCTAAAAGCTCACAAAACGACACCGTTGGGCTT
* *
52983909 AGGTTTTTTAGCGGCGCTTTCCCAAAAACGCCAA
194 AGGTTCTTTAGCAGCGCTTTCCCAAAAACGCCAA
52983943 TAAATCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAACTCAGAAAAC
1 TAAATCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCC-AAAACTCAGAAAAC
* * *
52984008 GGTGCCGTTGGGCTTAGGTTTTTTAGCGGCGCTTTCTCAAAAATGCCGCTAAA
65 GGCGCTGTTGGGCTTAGGTTTTTTAGCGGCGCTTTCTCAAAAACGCCGCTAAA
52984061 TCCCCAAAAG
Statistics
Matches: 307, Mismatches: 36, Indels: 8
0.87 0.10 0.02
Matches are distributed among these distances:
228 230 0.75
229 36 0.12
230 41 0.13
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.25
Consensus pattern (227 bp):
TAAATCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAACTCAGAAAACG
GCGCTGTTGGGCTTAGGTTTTTTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAACATTA
GCGGCGCTTTCTTCAAAACGCCGCAAAATTCCTAAAAGCTCACAAAACGACACCGTTGGGCTTAG
GTTCTTTAGCAGCGCTTTCCCAAAAACGCCAA
Found at i:52984081 original size:73 final size:73
Alignment explanation
Indices: 52983957--52984130 Score: 219
Period size: 73 Copynumber: 2.4 Consensus size: 73
52983947 TCCCTGAGCA
* * *
52983957 TTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAACTCAGAAAACGGTGCCGTTGGGCT
1 TTAGCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCGAAAACTCAGAAAACGGCGCCGTTGAGCT
*
52984022 TAGGTTTT
66 TAGGTTCT
* * * *
52984030 TTAGCGGCGCTTTCTCAAAAATGCCGCTAAATCCCC-AAAAGCTCGGTAAACGGCGTCGTTGAGC
1 TTAGCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCGAAAA-CTCAGAAAACGGCGCCGTTGAGC
52984094 TTAGGTTCT
65 TTAGGTTCT
***
52984103 TT-GCGGCGC-TTCTGGGAAACGCCGCTAA
1 TTAGCGGCGCTTTCTCAAAAACGCCGCTAA
52984131 TGCTTATTTT
Statistics
Matches: 88, Mismatches: 12, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
71 15 0.17
72 11 0.12
73 62 0.70
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.25
Consensus pattern (73 bp):
TTAGCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCGAAAACTCAGAAAACGGCGCCGTTGAGCT
TAGGTTCT
Found at i:52990600 original size:15 final size:16
Alignment explanation
Indices: 52990575--52990604 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
52990565 CTATTTCATC
52990575 CCTATTTCTTTTCTTT
1 CCTATTTCTTTTCTTT
52990591 CCTA-TTCTTTTCTT
1 CCTATTTCTTTTCTT
52990605 CAAAATTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.07, C:0.27, G:0.00, T:0.67
Consensus pattern (16 bp):
CCTATTTCTTTTCTTT
Found at i:52992135 original size:40 final size:39
Alignment explanation
Indices: 52992043--52992137 Score: 109
Period size: 40 Copynumber: 2.4 Consensus size: 39
52992033 ATTTGGACAA
* *
52992043 AAAACGCCACTAAAAGTCAAGCATTAGCGGCGCTTTTAT
1 AAAACGCCGCTAAAAGTCAAGCATTAGCGGCGCTTTTAG
* * * * *
52992082 AAAAGCGCTGCTAAAGGTCGAGCATTATCGGCGCCTTTTGG
1 AAAA-CGCCGCTAAAAGTCAAGCATTAGCGGCG-CTTTTAG
52992123 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
52992138 ATAATAATAA
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
39 4 0.09
40 32 0.71
41 9 0.20
ACGTcount: A:0.34, C:0.23, G:0.22, T:0.21
Consensus pattern (39 bp):
AAAACGCCGCTAAAAGTCAAGCATTAGCGGCGCTTTTAG
Found at i:52992258 original size:41 final size:41
Alignment explanation
Indices: 52992213--52992618 Score: 524
Period size: 41 Copynumber: 9.9 Consensus size: 41
52992203 TGAGTTTTTT
* * * *
52992213 GGGCCTTTAGCGGCGTTTTTGAAGAACCGTCGCTAATTCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* * *
52992254 GGGCCTTTAGCGGTGTTTTTGAAAAAGCGCTGCTATTGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* * *
52992295 GGGCCTTTAGCGACGTTTTTAAAAAAGCACCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* ** *
52992336 TGGCCTTTAGCGGCAATTTTGAAGAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* * * *
52992377 GGGCTTTTAGCAGCATTTTTGAAGAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
** *
52992418 ATGCCTTTAGCGGCGTTTTTGAAAAAGCACCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* * *
52992459 AGGCCTTTAGCGGCGTTTTTGGAAAAGCACCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* *
52992500 GGGCCTTTAGCGGCGTTTTTGAAAAATCGCGGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* * * *
52992541 AGGCCTTTAGCGGCGTTTTTAAAAAATCACCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* *
52992582 GGGCCTTTAGTGGCGTTTTTTAAAAAGCGCCGCTAAT
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAAT
52992619 AATAATAAAA
Statistics
Matches: 318, Mismatches: 47, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 318 1.00
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.30
Consensus pattern (41 bp):
GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
Found at i:52996709 original size:15 final size:15
Alignment explanation
Indices: 52996689--52996721 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
52996679 CCGTATGAAT
52996689 GTTGGGCTAGGTGTA
1 GTTGGGCTAGGTGTA
*
52996704 GTTGGGGTAGGTGTA
1 GTTGGGCTAGGTGTA
52996719 GTT
1 GTT
52996722 TGGGTTTGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.03, G:0.48, T:0.36
Consensus pattern (15 bp):
GTTGGGCTAGGTGTA
Found at i:52996726 original size:15 final size:15
Alignment explanation
Indices: 52996690--52996726 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
52996680 CGTATGAATG
52996690 TTGGGCTAGGTGTAGT
1 TTGGG-TAGGTGTAGT
*
52996706 TGGGGTAGGTGTAGT
1 TTGGGTAGGTGTAGT
52996721 TTGGGT
1 TTGGGT
52996727 TTGTACTAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.11, C:0.03, G:0.49, T:0.38
Consensus pattern (15 bp):
TTGGGTAGGTGTAGT
Found at i:53007841 original size:19 final size:20
Alignment explanation
Indices: 53007814--53007854 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
53007804 TATTTATACA
*
53007814 AAATGTAATA-ATTAAGAAT
1 AAATGTAATATATTAAAAAT
*
53007833 AAATTTAATATATTAAAAAT
1 AAATGTAATATATTAAAAAT
53007853 AA
1 AA
53007855 TAGCTTATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (20 bp):
AAATGTAATATATTAAAAAT
Found at i:53008944 original size:20 final size:20
Alignment explanation
Indices: 53008907--53008945 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
53008897 TAGGTTTTAG
*
53008907 AAAATTTTAGAATTTTATGA
1 AAAATTTTAGAATCTTATGA
53008927 AAAATTTTAAGAA-CTTATG
1 AAAATTTT-AGAATCTTATG
53008946 CTTTTCTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.46, C:0.03, G:0.10, T:0.41
Consensus pattern (20 bp):
AAAATTTTAGAATCTTATGA
Found at i:53009057 original size:21 final size:21
Alignment explanation
Indices: 53009033--53009073 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
53009023 TAAGAAATAC
*
53009033 CATAAAATTCTTAAAATTTTT
1 CATAAAATTCTAAAAATTTTT
**
53009054 CATAATTTTCTAAAAATTTT
1 CATAAAATTCTAAAAATTTT
53009074 CTAAAAACAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (21 bp):
CATAAAATTCTAAAAATTTTT
Found at i:53020089 original size:45 final size:46
Alignment explanation
Indices: 53020031--53020129 Score: 130
Period size: 46 Copynumber: 2.2 Consensus size: 46
53020021 TATTTCTAAT
*
53020031 AATTATTTGAAATATT-TCACATATAAA-AATAATGATATTTGAAAC
1 AATTATTTAAAATATTAT-ACATATAAATAATAATGATATTTGAAAC
* * * *
53020076 AATTTTTTAAAATATTATATATATAAATAATAGTGATATTTGAAAT
1 AATTATTTAAAATATTATACATATAAATAATAATGATATTTGAAAC
53020122 AATTATTT
1 AATTATTT
53020130 GATTTTTTTA
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
45 22 0.48
46 24 0.52
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.43
Consensus pattern (46 bp):
AATTATTTAAAATATTATACATATAAATAATAATGATATTTGAAAC
Found at i:53030028 original size:23 final size:23
Alignment explanation
Indices: 53029998--53030041 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
53029988 TATTATAACT
53029998 TTTTTTTATTTACCAAAATATTA
1 TTTTTTTATTTACCAAAATATTA
*
53030021 TTTTTTTATTTACGAAAATAT
1 TTTTTTTATTTACCAAAATAT
53030042 ATCAAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (23 bp):
TTTTTTTATTTACCAAAATATTA
Found at i:53030401 original size:3 final size:3
Alignment explanation
Indices: 53030395--53030438 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
53030385 AGTATTATTA
53030395 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
53030439 AGTATTAAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:53040806 original size:13 final size:13
Alignment explanation
Indices: 53040767--53040808 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
53040757 CCTGGGGTAG
53040767 TGGGT-TTAGGTT
1 TGGGTATTAGGTT
*
53040779 TGGGTATTAGATT
1 TGGGTATTAGGTT
* *
53040792 TGGGTCTTTGGTT
1 TGGGTATTAGGTT
53040805 TGGG
1 TGGG
53040809 AATTTGGGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
12 5 0.20
13 20 0.80
ACGTcount: A:0.10, C:0.02, G:0.40, T:0.48
Consensus pattern (13 bp):
TGGGTATTAGGTT
Found at i:53040975 original size:27 final size:27
Alignment explanation
Indices: 53040945--53041008 Score: 62
Period size: 27 Copynumber: 2.3 Consensus size: 27
53040935 TTTTTTTCCC
53040945 TTTTTTTCCTTCC-TTCCTTCTTCTTT-T
1 TTTTTTTCC-TCCTTTCCTT-TTCTTTCT
53040972 TTTTCTCTT-CTCCTTTCCTTTTCTTTCT
1 TTTT-T-TTCCTCCTTTCCTTTTCTTTCT
53041000 TTCTTTTTC
1 TT-TTTTTC
53041009 TTTCTTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
27 15 0.48
28 12 0.39
29 4 0.13
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (27 bp):
TTTTTTTCCTCCTTTCCTTTTCTTTCT
Found at i:53040982 original size:14 final size:14
Alignment explanation
Indices: 53040963--53041083 Score: 61
Period size: 14 Copynumber: 8.1 Consensus size: 14
53040953 CTTCCTTCCT
53040963 TCTTCTTTTTTTTC
1 TCTTCTTTTTTTTC
53040977 TCTTCTCCTTTCCTTTTC
1 TCTTCT--TTT--TTTTC
53040995 T-TTCTTTCTTTTTC
1 TCTTCTTT-TTTTTC
53041009 T-TTCTTTTTTCTTC
1 TCTTCTTTTTT-TTC
* ** *
53041023 TCAT-TTCCTCTTC
1 TCTTCTTTTTTTTC
53041036 TTCTTCTTCTTTTTTC
1 -TCTTCTT-TTTTTTC
*
53041052 TCATTTCCTTTTCTTTC
1 TC--TT-CTTTTTTTTC
53041069 -CTTCTTTTTCTTTC
1 TCTTCTTTTT-TTTC
53041083 T
1 T
53041084 TTCCTCTCAT
Statistics
Matches: 82, Mismatches: 10, Indels: 29
0.68 0.08 0.24
Matches are distributed among these distances:
13 11 0.13
14 34 0.41
15 7 0.09
16 9 0.11
17 12 0.15
18 9 0.11
ACGTcount: A:0.02, C:0.28, G:0.00, T:0.70
Consensus pattern (14 bp):
TCTTCTTTTTTTTC
Found at i:53040986 original size:31 final size:31
Alignment explanation
Indices: 53040965--53041109 Score: 98
Period size: 31 Copynumber: 4.4 Consensus size: 31
53040955 TCCTTCCTTC
53040965 TTCTTT-TTTTTCTCTTCTCCTTTCCTTTTCT
1 TTCTTTCTTTTTCT-TTCTCCTTTCCTTTTCT
**
53040996 TTCTTTCTTTTTCTTTCTTTTTTCTTCTCATTTCCT
1 TTCTTTCTTTTTCTTTCTCCTTTC--CT--TTT-CT
*
53041032 CTTCTTCTTCTTCTTT-TTTCTCATTTCCTTTTCT
1 -TTC-T-TTCTT-TTTCTTTCTCCTTTCCTTTTCT
* * * *
53041066 TTCCTTCTTTTTCTTTCTTTCCTCT-CATTCCT
1 TTCTTTCTTTTTCTTTC--TCCTTTCCTTTTCT
53041098 TTCTTTCTTTTT
1 TTCTTTCTTTTT
53041110 TTCCCTCTCC
Statistics
Matches: 91, Mismatches: 10, Indels: 25
0.72 0.08 0.20
Matches are distributed among these distances:
30 3 0.03
31 23 0.25
32 23 0.25
33 9 0.10
34 2 0.02
35 6 0.07
36 2 0.02
37 5 0.05
38 1 0.01
39 14 0.15
40 3 0.03
ACGTcount: A:0.02, C:0.28, G:0.00, T:0.70
Consensus pattern (31 bp):
TTCTTTCTTTTTCTTTCTCCTTTCCTTTTCT
Found at i:53041000 original size:4 final size:4
Alignment explanation
Indices: 53040991--53041112 Score: 53
Period size: 4 Copynumber: 30.0 Consensus size: 4
53040981 CTCCTTTCCT
53040991 TTTC TTTC TTTC -TT- TTTC TTTC TTT- TTTC TTCTC ATTTCC TCTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT-TC -TTT-C T-TTC
* *
53041036 -TTC -TTC -TTC TTTT TTCTC ATTTCC TTTTC TTTC CTTC -TT- TTTC
1 TTTC TTTC TTTC TTTC TT-TC -TTT-C -TTTC TTTC TTTC TTTC TTTC
* * *
53041079 TTTC TTTCC TCTC ATTCC TTTC TTTC TTTT TTTC
1 TTTC TTT-C TTTC -TTTC TTTC TTTC TTTC TTTC
53041113 CCTCTCCTTC
Statistics
Matches: 93, Mismatches: 10, Indels: 30
0.70 0.08 0.23
Matches are distributed among these distances:
3 20 0.22
4 49 0.53
5 13 0.14
6 11 0.12
ACGTcount: A:0.02, C:0.28, G:0.00, T:0.70
Consensus pattern (4 bp):
TTTC
Found at i:53041008 original size:10 final size:10
Alignment explanation
Indices: 53040965--53041085 Score: 63
Period size: 9 Copynumber: 12.0 Consensus size: 10
53040955 TCCTTCCTTC
53040965 TTCTTT-TTT
1 TTCTTTCTTT
53040974 TTCTCTTCTCCTT
1 TTCT-TTCT--TT
* *
53040987 TCCTTT-TCT
1 TTCTTTCTTT
53040996 TTCTTTCTTT
1 TTCTTTCTTT
53041006 TTCTTTCTTTT
1 TTCTTTC-TTT
*
53041017 TTCTTCTCATT
1 TTCTT-TCTTT
* *
53041028 TCCTCTTCTTC
1 TTCT-TTCTTT
53041039 TTC-TTCTTT
1 TTCTTTCTTT
* *
53041048 TT-TCTCATT
1 TTCTTTCTTT
* *
53041057 TCCTTT-TCT
1 TTCTTTCTTT
*
53041066 TTCCTTCTTT
1 TTCTTTCTTT
53041076 TTCTTTCTTT
1 TTCTTTCTTT
53041086 CCTCTCATTC
Statistics
Matches: 81, Mismatches: 20, Indels: 21
0.66 0.16 0.17
Matches are distributed among these distances:
9 27 0.33
10 24 0.30
11 20 0.25
12 5 0.06
13 5 0.06
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.71
Consensus pattern (10 bp):
TTCTTTCTTT
Found at i:53041052 original size:29 final size:29
Alignment explanation
Indices: 53041001--53041090 Score: 96
Period size: 29 Copynumber: 3.1 Consensus size: 29
53040991 TTTCTTTCTT
*
53041001 TCTTTTTCTTTCTT-TTTTCTTCTCATTTCC
1 TCTTCTTC-TTCTTCTTTT-TTCTCATTTCC
53041031 TCTTCTTCTTCTTCTTTTTTCTCATTTCC
1 TCTTCTTCTTCTTCTTTTTTCTCATTTCC
* * *
53041060 TTTTCTT-TCCTTCTTTTTCTTTC-TTTCC
1 TCTTCTTCTTCTTCTTTTT-TCTCATTTCC
53041088 TCT
1 TCT
53041091 CATTCCTTTC
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
28 17 0.32
29 25 0.47
30 11 0.21
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.69
Consensus pattern (29 bp):
TCTTCTTCTTCTTCTTTTTTCTCATTTCC
Found at i:53045457 original size:43 final size:41
Alignment explanation
Indices: 53045323--53045465 Score: 135
Period size: 43 Copynumber: 3.4 Consensus size: 41
53045313 CGGCGTTTTT
** * * * *
53045323 AAAAACGCTACTAAAAATCATGACCTTTAACGGCGCTTTTAC
1 AAAAACGCCGCTAAAGATCATGATCTTTAACAGC-CTTCTAC
* * *
53045365 AAAAATGCCGCTAAAGGTCATGATCTTTAACGATGCC-TCTCCC
1 AAAAACGCCGCTAAAGATCATGATCTTTAAC-A-GCCTTCT-AC
*
53045408 ACAAACGCCGCTAAAGATCATGATCTTTAACAGCACTTCTAC
1 AAAAACGCCGCTAAAGATCATGATCTTTAACAGC-CTTCTAC
53045450 AATAAACGCCGCTAAA
1 AA-AAACGCCGCTAAA
53045466 AACATGACTT
Statistics
Matches: 81, Mismatches: 14, Indels: 11
0.76 0.13 0.10
Matches are distributed among these distances:
41 2 0.02
42 31 0.38
43 46 0.57
44 2 0.02
ACGTcount: A:0.36, C:0.27, G:0.13, T:0.24
Consensus pattern (41 bp):
AAAAACGCCGCTAAAGATCATGATCTTTAACAGCCTTCTAC
Found at i:53048658 original size:15 final size:15
Alignment explanation
Indices: 53048637--53048668 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
53048627 ATAAATGAAA
53048637 AATATATA-T-AATT
1 AATATATATTAAATT
53048650 AATATATATTAAATT
1 AATATATATTAAATT
53048665 AATA
1 AATA
53048669 ATAATACGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 1 0.06
15 8 0.47
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
AATATATATTAAATT
Found at i:53049405 original size:8 final size:7
Alignment explanation
Indices: 53049370--53049441 Score: 51
Period size: 7 Copynumber: 10.1 Consensus size: 7
53049360 ACTAGTTAAT
53049370 CTAAACC
1 CTAAACC
53049377 GC-AAACC
1 -CTAAACC
*
53049384 ATAAA-C
1 CTAAACC
53049390 CTAAACC
1 CTAAACC
53049397 CTAAAACC
1 CT-AAACC
53049405 CTAAACC
1 CTAAACC
* *
53049412 CTTAACA
1 CTAAACC
53049419 C-ATAACC
1 CTA-AACC
53049426 TCTAAACC
1 -CTAAACC
*
53049434 TTAAACC
1 CTAAACC
53049441 C
1 C
53049442 CAATCTTTAA
Statistics
Matches: 50, Mismatches: 8, Indels: 13
0.70 0.11 0.18
Matches are distributed among these distances:
6 5 0.10
7 31 0.62
8 13 0.26
9 1 0.02
ACGTcount: A:0.44, C:0.38, G:0.01, T:0.17
Consensus pattern (7 bp):
CTAAACC
Found at i:53050014 original size:41 final size:41
Alignment explanation
Indices: 53049868--53050017 Score: 178
Period size: 41 Copynumber: 3.7 Consensus size: 41
53049858 TTGCGGCACT
***
53049868 TTTTCAAAAACGCCGCTAAAGCTTTGAA-CATTAGCGGCG-C
1 TTTTCAAAAACGCCGCTAAAGC-CCCAAGCATTAGCGGCGCC
* * * ** *
53049908 TTATTTAAAAACGCTGCTAAAGACCTGAGCACTAGCGGCGCC
1 TT-TTCAAAAACGCCGCTAAAGCCCCAAGCATTAGCGGCGCC
53049950 TTTTCAAAAACGCCGCTAAAGCCCCAAGCATTAGCGGCGCC
1 TTTTCAAAAACGCCGCTAAAGCCCCAAGCATTAGCGGCGCC
*
53049991 TTTTCAAAAACGCCACTAAAGCCCCAA
1 TTTTCAAAAACGCCGCTAAAGCCCCAA
53050018 AGACTCACAA
Statistics
Matches: 92, Mismatches: 15, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
40 3 0.03
41 86 0.93
42 3 0.03
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (41 bp):
TTTTCAAAAACGCCGCTAAAGCCCCAAGCATTAGCGGCGCC
Found at i:53050180 original size:40 final size:40
Alignment explanation
Indices: 53050136--53050214 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 40
53050126 GCGTATTCTG
*
53050136 AAAAGCGCCGCTAAT-ACTCGATCTTTAGCGGTGTTTTTTT
1 AAAAGCGCCGCTAATGA-TCGATCTTTAGCGGCGTTTTTTT
* *
53050176 AAAAGCGCCGCTAATGATTGATTTTTAGCGGCGTTTTTT
1 AAAAGCGCCGCTAATGATCGATCTTTAGCGGCGTTTTTT
53050215 ATCTAAATGC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
40 34 0.97
41 1 0.03
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.38
Consensus pattern (40 bp):
AAAAGCGCCGCTAATGATCGATCTTTAGCGGCGTTTTTTT
Found at i:53051208 original size:19 final size:20
Alignment explanation
Indices: 53051184--53051229 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
53051174 TCATAATCTA
53051184 AAAAATA-TTAAAAACCAAT
1 AAAAATATTTAAAAACCAAT
**
53051203 AAAAATATTTAAAAATTAAT
1 AAAAATATTTAAAAACCAAT
53051223 AAAAATA
1 AAAAATA
53051230 CTTTTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (20 bp):
AAAAATATTTAAAAACCAAT
Found at i:53052382 original size:13 final size:13
Alignment explanation
Indices: 53052366--53052391 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
53052356 GGAATGATTT
53052366 TTTGAAAATTTCG
1 TTTGAAAATTTCG
53052379 TTTGAAAATTTCG
1 TTTGAAAATTTCG
53052392 ACGTTTGGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
TTTGAAAATTTCG
Found at i:53053342 original size:18 final size:17
Alignment explanation
Indices: 53053309--53053347 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
53053299 TTTTATAAAT
53053309 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
53053327 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
53053344 TGTG
1 TGTG
53053348 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:53053602 original size:23 final size:23
Alignment explanation
Indices: 53053573--53053669 Score: 149
Period size: 23 Copynumber: 4.2 Consensus size: 23
53053563 AGTGTTATTG
53053573 ATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACGT
* * * *
53053596 ATTAGTGGTAACTTCTGCTACAT
1 ATCAGTGGTAGCTTCGGCTACGT
53053619 ATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACGT
*
53053642 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACGT
53053665 ATCAG
1 ATCAG
53053670 CGTGGCACTT
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 65 1.00
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACGT
Found at i:53053626 original size:46 final size:46
Alignment explanation
Indices: 53053573--53053669 Score: 167
Period size: 46 Copynumber: 2.1 Consensus size: 46
53053563 AGTGTTATTG
* *
53053573 ATCAGTGGTAGCTTCGGCTACGTATTAGTGGTAACTTCTGCTACAT
1 ATCAGTGGTAGCTTCGGCTACGTATCAGTGGTAACTTCGGCTACAT
*
53053619 ATCAGTGGTAGCTTCGGCTACGTATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACGTATCAGTGGTAACTTCGGCTACAT
53053665 ATCAG
1 ATCAG
53053670 CGTGGCACTT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.32
Consensus pattern (46 bp):
ATCAGTGGTAGCTTCGGCTACGTATCAGTGGTAACTTCGGCTACAT
Found at i:53057485 original size:11 final size:11
Alignment explanation
Indices: 53057471--53057500 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
53057461 GATTTTTACG
53057471 TTTTGAATATA
1 TTTTGAATATA
53057482 TTTTGAATATA
1 TTTTGAATATA
53057493 TTTTGAAT
1 TTTTGAAT
53057501 GAAGTGTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (11 bp):
TTTTGAATATA
Found at i:53059923 original size:316 final size:316
Alignment explanation
Indices: 53059350--53059978 Score: 1179
Period size: 316 Copynumber: 2.0 Consensus size: 316
53059340 CACGTAATAA
53059350 GGATATGACACATTTCAAACATTCATCGGGTGTCATAACAGTTCTTCAAATACAAGGATAGTGTT
1 GGATATGACACATTTCAAACATTCATCGGGTGTCATAACAGTTCTTCAAATACAAGGATAGTGTT
*
53059415 ATCAAGCCAAAATTCAGCCCGCTCAGCATCATTATTAACTGTAGCCCTGAACTCTCCAGCCTCAT
66 ATCAAACCAAAATTCAGCCCGCTCAGCATCATTATTAACTGTAGCCCTGAACTCTCCAGCCTCAT
53059480 ATTTTTTAATTTTATCAACTGGGGGCTTACTAAACCTCATCGGAGGTATCCCAGGTAGTGAAGAT
131 ATTTTTTAATTTTATCAACTGGGGGCTTACTAAACCTCATCGGAGGTATCCCAGGTAGTGAAGAT
* *
53059545 AGATTAGTCGGGGGTGGAGGTTGTTGCGCAGCCTGATTTGTACGGATATATTGAGTAAACCAGTT
196 AGATTAGTCGGGGGTCGAGGTTGTTGCACAGCCTGATTTGTACGGATATATTGAGTAAACCAGTT
*
53059610 GTTCATCATTTGGAAAAAAGGCTTGTTTAGCCTCTCCCGCCTGGTTACTCAAGTAC
261 GTTCATCATTTGGAAAAAAGGCTTGTATAGCCTCTCCCGCCTGGTTACTCAAGTAC
* *
53059666 GGATATGACACATTTCAAACATTCTTCGGGTGTACATAACAGTTCTTCAAATACACGGATAGTGT
1 GGATATGACACATTTCAAACATTCATCGGGTGT-CATAACAGTTCTTCAAATACAAGGATAGTGT
53059731 TATCAAACCAAAATTCAGCCCGCTCAGCATCATTATTAACTGTAGCCCTGAACTCTCCAGCCTCA
65 TATCAAACCAAAATTCAGCCCGCTCAGCATCATTATTAACTGTAGCCCTGAACTCTCCAGCCTCA
*
53059796 TATTTTTTAATTTTATCAACT-GGGGCTTACTAAACCTCATCGGAGGTATCCCAGGTATTGAAGA
130 TATTTTTTAATTTTATCAACTGGGGGCTTACTAAACCTCATCGGAGGTATCCCAGGTAGTGAAGA
53059860 TAGATTAGTCGGGGGTCGAGGTTGTTGCACAGCCTGATTTGTACGGATATATTGAGTAAACCAGT
195 TAGATTAGTCGGGGGTCGAGGTTGTTGCACAGCCTGATTTGTACGGATATATTGAGTAAACCAGT
53059925 TGTTCATCATTTGGAAAAAAGGCTTGTATAGCCTCTCCCGCCTGGTTACTCAAG
260 TGTTCATCATTTGGAAAAAAGGCTTGTATAGCCTCTCCCGCCTGGTTACTCAAG
53059979 GTCGGTTTAT
Statistics
Matches: 305, Mismatches: 7, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
316 190 0.62
317 115 0.38
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (316 bp):
GGATATGACACATTTCAAACATTCATCGGGTGTCATAACAGTTCTTCAAATACAAGGATAGTGTT
ATCAAACCAAAATTCAGCCCGCTCAGCATCATTATTAACTGTAGCCCTGAACTCTCCAGCCTCAT
ATTTTTTAATTTTATCAACTGGGGGCTTACTAAACCTCATCGGAGGTATCCCAGGTAGTGAAGAT
AGATTAGTCGGGGGTCGAGGTTGTTGCACAGCCTGATTTGTACGGATATATTGAGTAAACCAGTT
GTTCATCATTTGGAAAAAAGGCTTGTATAGCCTCTCCCGCCTGGTTACTCAAGTAC
Found at i:53061302 original size:41 final size:40
Alignment explanation
Indices: 53061257--53061359 Score: 127
Period size: 41 Copynumber: 2.5 Consensus size: 40
53061247 AGATTCAGAA
* *
53061257 CACCGGCACTTAGCCTGCTAGACATATAGTTTGAA-ATGTTT
1 CACCGGCA-TTAGCCTGCTAGACATAAAGTCTGAATA-GTTT
53061298 CACCGGCATTAAGCCTGCTAGACATAAAGTCTGAATAGTTT
1 CACCGGCATT-AGCCTGCTAGACATAAAGTCTGAATAGTTT
* *
53061339 CACTGGCAATAAGCCTGCTAG
1 CACCGGC-ATTAGCCTGCTAG
53061360 GTGCTAAGCC
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
40 2 0.04
41 50 0.91
42 3 0.05
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.27
Consensus pattern (40 bp):
CACCGGCATTAGCCTGCTAGACATAAAGTCTGAATAGTTT
Found at i:53062153 original size:81 final size:81
Alignment explanation
Indices: 53061994--53062153 Score: 200
Period size: 79 Copynumber: 2.0 Consensus size: 81
53061984 ACAAATACAA
* * *
53061994 TATACATACCTTTAATCAAACCCAAAACTTTATTCATGTATATTTATATATATATATTCGAGCCT
1 TATACATACCTTTAATCAAACCCAAAACTTTATACATGTATA-TTACATATATATATTCGAACCT
*
53062059 TATGTATACATATATAC
65 TATATATACATATATAC
* * * *
53062076 TATACATACCTTTGATTAAA-CCAAGAA-TTTATACATGTATA-TACATATATGTATTCGAATCT
1 TATACATACCTTTAATCAAACCCAA-AACTTTATACATGTATATTACATATATATATTCGAACCT
*
53062138 TGTATATACATATATA
65 TATATATACATATATA
53062154 ACCCTCATAC
Statistics
Matches: 68, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
79 31 0.46
81 17 0.25
82 20 0.29
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.40
Consensus pattern (81 bp):
TATACATACCTTTAATCAAACCCAAAACTTTATACATGTATATTACATATATATATTCGAACCTT
ATATATACATATATAC
Found at i:53065544 original size:16 final size:16
Alignment explanation
Indices: 53065523--53065564 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
53065513 GCTAGGGTAG
53065523 GAAAAAGAAAAAAAAT
1 GAAAAAGAAAAAAAAT
**
53065539 GAAAAAGAGGAAAAAT
1 GAAAAAGAAAAAAAAT
53065555 GAAAAA-AAAA
1 GAAAAAGAAAA
53065565 GGAAAAAGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
15 2 0.09
16 20 0.91
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.05
Consensus pattern (16 bp):
GAAAAAGAAAAAAAAT
Found at i:53065549 original size:25 final size:27
Alignment explanation
Indices: 53065521--53065572 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
53065511 CAGCTAGGGT
*
53065521 AGGAAAAA-G-AAAAAAAATGAAAAAG
1 AGGAAAAATGAAAAAAAAAGGAAAAAG
53065546 AGGAAAAATGAAAAAAAAAGGAAAAAG
1 AGGAAAAATGAAAAAAAAAGGAAAAAG
53065573 CTGCAAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 8 0.33
26 1 0.04
27 15 0.62
ACGTcount: A:0.75, C:0.00, G:0.21, T:0.04
Consensus pattern (27 bp):
AGGAAAAATGAAAAAAAAAGGAAAAAG
Found at i:53069146 original size:18 final size:20
Alignment explanation
Indices: 53069119--53069160 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 20
53069109 ACTTATAATT
*
53069119 TTTTATAAA-TAGTTTG-AA
1 TTTTAAAAATTAGTTTGAAA
*
53069137 TTTTAAAAATTATTTTGAAA
1 TTTTAAAAATTAGTTTGAAA
53069157 TTTT
1 TTTT
53069161 TGTTGGGAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 8 0.40
19 6 0.30
20 6 0.30
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (20 bp):
TTTTAAAAATTAGTTTGAAA
Found at i:53070698 original size:61 final size:61
Alignment explanation
Indices: 53070603--53070724 Score: 217
Period size: 61 Copynumber: 2.0 Consensus size: 61
53070593 TGATTATGTT
*
53070603 TGCCAATCATTTCTTTTGATTGATAATCTAACAACTTTAACGAGACATTTACCACTTGTCA
1 TGCCAATCATTTCTTTTGATTGATAACCTAACAACTTTAACGAGACATTTACCACTTGTCA
* *
53070664 TGCCAATTATTTCTTTTGATTGATAACCTAACAACTTTAGCGAGACATTTACCACTTGTCA
1 TGCCAATCATTTCTTTTGATTGATAACCTAACAACTTTAACGAGACATTTACCACTTGTCA
53070725 CGGACATCTC
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.38
Consensus pattern (61 bp):
TGCCAATCATTTCTTTTGATTGATAACCTAACAACTTTAACGAGACATTTACCACTTGTCA
Found at i:53078537 original size:9 final size:9
Alignment explanation
Indices: 53078519--53078584 Score: 53
Period size: 9 Copynumber: 7.3 Consensus size: 9
53078509 TTATGGTTTT
53078519 TTTTTATAA
1 TTTTTATAA
*
53078528 TTTTTGTAA
1 TTTTTATAA
* *
53078537 TTTTAATTA
1 TTTTTATAA
53078546 TTTTTAT-A
1 TTTTTATAA
*
53078554 TTTTTCTAAA
1 TTTTTAT-AA
* *
53078564 ATTTTATGA
1 TTTTTATAA
*
53078573 CTTTTATAA
1 TTTTTATAA
53078582 TTT
1 TTT
53078585 CGGAATGAAT
Statistics
Matches: 43, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
8 7 0.16
9 30 0.70
10 6 0.14
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (9 bp):
TTTTTATAA
Found at i:53093538 original size:21 final size:20
Alignment explanation
Indices: 53093512--53093550 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
53093502 ACAAAATTTG
53093512 AAAGAAAAAGAAAGAAAAGAA
1 AAAGAAAAAGAAA-AAAAGAA
*
53093533 AAAGAAAAAGGAAAAAAG
1 AAAGAAAAAGAAAAAAAG
53093551 GAGACGCACG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (20 bp):
AAAGAAAAAGAAAAAAAGAA
Found at i:53098117 original size:27 final size:27
Alignment explanation
Indices: 53098068--53098120 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
53098058 AAATAAATTG
*
53098068 AATATCTAACAAGCTTAAAACATAATC
1 AATATCTAACAAGATTAAAACATAATC
*
53098095 AATATCTAACAA-ATTCAAGACATAAT
1 AATATCTAACAAGATT-AAAACATAAT
53098121 AATTTCAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 2 0.09
27 21 0.91
ACGTcount: A:0.53, C:0.17, G:0.04, T:0.26
Consensus pattern (27 bp):
AATATCTAACAAGATTAAAACATAATC
Found at i:53102219 original size:51 final size:50
Alignment explanation
Indices: 53102133--53102262 Score: 154
Period size: 51 Copynumber: 2.6 Consensus size: 50
53102123 TGGTCGCATG
** *
53102133 TGTAGTACTATGTGCAGGCTACTATACGTACCGGATAGCT-TCGATCACGTA
1 TGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAG-TAT-GATCACATA
* * * *
53102184 TGTAGTACTATGTGCAGGCTACTATGTGTATCGGATAGTGATGGTTACATG
1 TGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAGT-ATGATCACATA
*
53102235 TGTAGTACTATGTGTAGGCTACTATGTG
1 TGTAGTACTATGTGCAGGCTACTATGTG
53102263 AACCAGTATC
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
50 1 0.01
51 67 0.97
52 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (50 bp):
TGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAGTATGATCACATA
Found at i:53102258 original size:102 final size:101
Alignment explanation
Indices: 53102076--53102259 Score: 253
Period size: 101 Copynumber: 1.8 Consensus size: 101
53102066 AAAGTGATGG
* * * *
53102076 TCACGTGTGTAGTACTATTTTCAGGCTACTACATGTACCAGAATGATTGGTCGCATGTGTAGTAC
1 TCACGTATGTAGTACTATGTGCAGGCTACTACATGTACCAGAATGATTGGTCACATGTGTAGTAC
53102141 TATGTGCAGGCTACTATACGTACCGGATAGCTTCGA
66 TATGTGCAGGCTACTATACGTACCGGATAGCTTCGA
** * * *
53102177 TCACGTATGTAGTACTATGTGCAGGCTACTATGTGTATCGGATAGTGA-TGGTTACATGTGTAGT
1 TCACGTATGTAGTACTATGTGCAGGCTACTACATGTACCAGA-A-TGATTGGTCACATGTGTAGT
*
53102241 ACTATGTGTAGGCTACTAT
64 ACTATGTGCAGGCTACTAT
53102260 GTGAACCAGT
Statistics
Matches: 71, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
101 35 0.49
102 33 0.46
103 3 0.04
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (101 bp):
TCACGTATGTAGTACTATGTGCAGGCTACTACATGTACCAGAATGATTGGTCACATGTGTAGTAC
TATGTGCAGGCTACTATACGTACCGGATAGCTTCGA
Found at i:53104582 original size:4 final size:4
Alignment explanation
Indices: 53104573--53104632 Score: 111
Period size: 4 Copynumber: 14.8 Consensus size: 4
53104563 ATATATGTGA
53104573 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
53104621 ATGT AATGT ATG
1 ATGT -ATGT ATG
53104633 CTGCCCTTAC
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
4 51 0.93
5 4 0.07
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (4 bp):
ATGT
Found at i:53110173 original size:41 final size:41
Alignment explanation
Indices: 53110128--53110209 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
53110118 CAATGTAATG
53110128 ATAGAAAAAGAGGGAAATAATAATATTAGGACTTGTAGCAA
1 ATAGAAAAAGAGGGAAATAATAATATTAGGACTTGTAGCAA
*
53110169 ATAGAAAAAGAGGGAAATGATAATATTAGGACTTGTAGCAA
1 ATAGAAAAAGAGGGAAATAATAATATTAGGACTTGTAGCAA
53110210 CAACTGTCGT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.50, C:0.05, G:0.23, T:0.22
Consensus pattern (41 bp):
ATAGAAAAAGAGGGAAATAATAATATTAGGACTTGTAGCAA
Found at i:53119063 original size:5 final size:5
Alignment explanation
Indices: 53119053--53119085 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
53119043 TTCACAAATA
53119053 AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAA
1 AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAA
53119086 CGCAAAGTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:53121616 original size:13 final size:13
Alignment explanation
Indices: 53121598--53121622 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
53121588 ATCATATCAA
53121598 TAAAACACATAAT
1 TAAAACACATAAT
53121611 TAAAACACATAA
1 TAAAACACATAA
53121623 CTAATTTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.16, G:0.00, T:0.20
Consensus pattern (13 bp):
TAAAACACATAAT
Found at i:53122428 original size:23 final size:23
Alignment explanation
Indices: 53122351--53122434 Score: 73
Period size: 23 Copynumber: 3.6 Consensus size: 23
53122341 TGTACAAAAA
* *
53122351 TGGACAGCAATTAAGCACCAATT
1 TGGACAACAATTAAGCATCAATT
* * **
53122374 TGGACAA-GATTAATGCACTAAAAAA
1 TGGACAACAATTAA-GCA-T-CAATT
53122399 TGGACAACAATTAAGCATCAATT
1 TGGACAACAATTAAGCATCAATT
53122422 TGGACAAC-ATTAA
1 TGGACAACAATTAA
53122435 TATGCTCAAA
Statistics
Matches: 47, Mismatches: 10, Indels: 9
0.71 0.15 0.14
Matches are distributed among these distances:
22 10 0.21
23 19 0.40
24 1 0.02
25 12 0.26
26 5 0.11
ACGTcount: A:0.45, C:0.17, G:0.15, T:0.23
Consensus pattern (23 bp):
TGGACAACAATTAAGCATCAATT
Found at i:53122466 original size:101 final size:100
Alignment explanation
Indices: 53122346--53122528 Score: 278
Period size: 101 Copynumber: 1.8 Consensus size: 100
53122336 TGATTTGTAC
*
53122346 AAAAATGGACAGCAATTAAGCACCAATTTGGACAAG-ATTAATGCACTAAAAAATGGACAACAAT
1 AAAAATGGACAGCAATTAAGCACCAATTTGGAC-AGCATTAATACACTAAAAAATGGACAACAAT
*
53122410 TAAGCATCAATTTGGACAACATTAATATGCTCAAAA
65 TAAGCACCAATTTGGACAACATTAATATGCTCAAAA
* * ** *
53122446 AAAATATGGACAGCATTTAAGCACTAATTTGGACAGCATTAATATGCTAAAAAATGGACAGCAAT
1 AAAA-ATGGACAGCAATTAAGCACCAATTTGGACAGCATTAATACACTAAAAAATGGACAACAAT
53122511 TAAGCACCAATTTGGACA
65 TAAGCACCAATTTGGACA
53122529 GCATCTTATC
Statistics
Matches: 74, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
100 6 0.08
101 68 0.92
ACGTcount: A:0.46, C:0.16, G:0.15, T:0.23
Consensus pattern (100 bp):
AAAAATGGACAGCAATTAAGCACCAATTTGGACAGCATTAATACACTAAAAAATGGACAACAATT
AAGCACCAATTTGGACAACATTAATATGCTCAAAA
Found at i:53122482 original size:23 final size:23
Alignment explanation
Indices: 53122447--53122532 Score: 75
Period size: 23 Copynumber: 3.7 Consensus size: 23
53122437 TGCTCAAAAA
*
53122447 AAATATGGACAGCATTTAAGCAC
1 AAATTTGGACAGCATTTAAGCAC
* *
53122470 TAATTTGGACAGCATTAATATGCTA-
1 AAATTTGGACAGCATT--TAAGC-AC
** *
53122495 AAAAATGGACAGCAATTAAGCAC
1 AAATTTGGACAGCATTTAAGCAC
*
53122518 CAATTTGGACAGCAT
1 AAATTTGGACAGCAT
53122533 CTTATCATCA
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
22 1 0.02
23 29 0.62
25 16 0.34
26 1 0.02
ACGTcount: A:0.42, C:0.16, G:0.17, T:0.24
Consensus pattern (23 bp):
AAATTTGGACAGCATTTAAGCAC
Found at i:53122529 original size:48 final size:48
Alignment explanation
Indices: 53122346--53122532 Score: 241
Period size: 48 Copynumber: 3.8 Consensus size: 48
53122336 TGATTTGTAC
***
53122346 AAAAATGGACAGCAATTAAGCACCAATTTGGACAAG-ATTAATGCACTA
1 AAAAATGGACAGCAATTAAGCACCAATTTGGAC-AGCATTAATATGCTA
* * *
53122394 AAAAATGGACAACAATTAAGCATCAATTTGGACAACATTAATATGCTCAAAA
1 AAAAATGGACAGCAATTAAGCACCAATTTGGACAGCATTAATATGCT----A
* *
53122446 AAAATATGGACAGCATTTAAGCACTAATTTGGACAGCATTAATATGCTA
1 AAAA-ATGGACAGCAATTAAGCACCAATTTGGACAGCATTAATATGCTA
53122495 AAAAATGGACAGCAATTAAGCACCAATTTGGACAGCAT
1 AAAAATGGACAGCAATTAAGCACCAATTTGGACAGCAT
53122533 CTTATCATCA
Statistics
Matches: 120, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
47 1 0.01
48 71 0.59
49 5 0.04
52 5 0.04
53 38 0.32
ACGTcount: A:0.45, C:0.16, G:0.16, T:0.23
Consensus pattern (48 bp):
AAAAATGGACAGCAATTAAGCACCAATTTGGACAGCATTAATATGCTA
Found at i:53131783 original size:26 final size:26
Alignment explanation
Indices: 53131754--53131806 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
53131744 TGTGATCTCA
53131754 TGATTAACCTTATTGGGCAAAAACTT
1 TGATTAACCTTATTGGGCAAAAACTT
53131780 TGATTAACCTTATTGGGCAAAAACTT
1 TGATTAACCTTATTGGGCAAAAACTT
53131806 T
1 T
53131807 CTCTATGCCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (26 bp):
TGATTAACCTTATTGGGCAAAAACTT
Found at i:53139557 original size:412 final size:412
Alignment explanation
Indices: 53138793--53139618 Score: 1652
Period size: 412 Copynumber: 2.0 Consensus size: 412
53138783 TCATTGTTTT
53138793 ATTAATCGTATTTTACTATTGAGGTGAAAGTGAAATTAGTCAACGTGCTATGGGTGAATGTGAAA
1 ATTAATCGTATTTTACTATTGAGGTGAAAGTGAAATTAGTCAACGTGCTATGGGTGAATGTGAAA
53138858 CTTAGCCACCGAGCTTCAGTTTCGTTGAAATTTAACACTATACTTCCAGTTTGGTTGATTGTTCA
66 CTTAGCCACCGAGCTTCAGTTTCGTTGAAATTTAACACTATACTTCCAGTTTGGTTGATTGTTCA
53138923 ACAAAAATCAAGTTAAAAAAGCTATCTAGTGCTTGATATGTTTCCAGAAACAAAGACCAATTAAC
131 ACAAAAATCAAGTTAAAAAAGCTATCTAGTGCTTGATATGTTTCCAGAAACAAAGACCAATTAAC
53138988 AAAAGTCACAACTAAACAAAACCTAAAATAAACATAAAATCTGACACAATTAAATAATAACATGG
196 AAAAGTCACAACTAAACAAAACCTAAAATAAACATAAAATCTGACACAATTAAATAATAACATGG
53139053 ATAAAAAACAATGTAATGATAGAAAAAGAGGGAAATCATGAGATTAGGACCTGTAGCAACAACTG
261 ATAAAAAACAATGTAATGATAGAAAAAGAGGGAAATCATGAGATTAGGACCTGTAGCAACAACTG
53139118 TTGTAATGGAACCAACAAAGCCATAAACCTCGGAAGGCTTTGGACCATGTTCCCCGGAATTAGAT
326 TTGTAATGGAACCAACAAAGCCATAAACCTCGGAAGGCTTTGGACCATGTTCCCCGGAATTAGAT
53139183 TTTTCGTCATTTGGATCAACAA
391 TTTTCGTCATTTGGATCAACAA
53139205 ATTAATCGTATTTTACTATTGAGGTGAAAGTGAAATTAGTCAACGTGCTATGGGTGAATGTGAAA
1 ATTAATCGTATTTTACTATTGAGGTGAAAGTGAAATTAGTCAACGTGCTATGGGTGAATGTGAAA
53139270 CTTAGCCACCGAGCTTCAGTTTCGTTGAAATTTAACACTATACTTCCAGTTTGGTTGATTGTTCA
66 CTTAGCCACCGAGCTTCAGTTTCGTTGAAATTTAACACTATACTTCCAGTTTGGTTGATTGTTCA
53139335 ACAAAAATCAAGTTAAAAAAGCTATCTAGTGCTTGATATGTTTCCAGAAACAAAGACCAATTAAC
131 ACAAAAATCAAGTTAAAAAAGCTATCTAGTGCTTGATATGTTTCCAGAAACAAAGACCAATTAAC
53139400 AAAAGTCACAACTAAACAAAACCTAAAATAAACATAAAATCTGACACAATTAAATAATAACATGG
196 AAAAGTCACAACTAAACAAAACCTAAAATAAACATAAAATCTGACACAATTAAATAATAACATGG
53139465 ATAAAAAACAATGTAATGATAGAAAAAGAGGGAAATCATGAGATTAGGACCTGTAGCAACAACTG
261 ATAAAAAACAATGTAATGATAGAAAAAGAGGGAAATCATGAGATTAGGACCTGTAGCAACAACTG
53139530 TTGTAATGGAACCAACAAAGCCATAAACCTCGGAAGGCTTTGGACCATGTTCCCCGGAATTAGAT
326 TTGTAATGGAACCAACAAAGCCATAAACCTCGGAAGGCTTTGGACCATGTTCCCCGGAATTAGAT
53139595 TTTTCGTCATTTGGATCAACAA
391 TTTTCGTCATTTGGATCAACAA
53139617 AT
1 AT
53139619 GAGACGGAGG
Statistics
Matches: 414, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
412 414 1.00
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.27
Consensus pattern (412 bp):
ATTAATCGTATTTTACTATTGAGGTGAAAGTGAAATTAGTCAACGTGCTATGGGTGAATGTGAAA
CTTAGCCACCGAGCTTCAGTTTCGTTGAAATTTAACACTATACTTCCAGTTTGGTTGATTGTTCA
ACAAAAATCAAGTTAAAAAAGCTATCTAGTGCTTGATATGTTTCCAGAAACAAAGACCAATTAAC
AAAAGTCACAACTAAACAAAACCTAAAATAAACATAAAATCTGACACAATTAAATAATAACATGG
ATAAAAAACAATGTAATGATAGAAAAAGAGGGAAATCATGAGATTAGGACCTGTAGCAACAACTG
TTGTAATGGAACCAACAAAGCCATAAACCTCGGAAGGCTTTGGACCATGTTCCCCGGAATTAGAT
TTTTCGTCATTTGGATCAACAA
Found at i:53152010 original size:80 final size:78
Alignment explanation
Indices: 53151877--53152030 Score: 290
Period size: 80 Copynumber: 1.9 Consensus size: 78
53151867 TAAACGTACC
53151877 AACAACTGACTCAATCTAAATGCACCCACAAATGGCCTTCTTCTCCTTTTAACTTTATTATACAT
1 AACAACTGACTCAATCTAAATGCACCCACAAATGGCCTTCTTCTCCTTTTAACTTTATTAT--AT
53151942 ATACACACACACACA
64 ATACACACACACACA
53151957 AACAACTGACTCAATCTAAATGCACCCACAAATGGCCTTCTTCTCCTTTTAACTTTATTATATAT
1 AACAACTGACTCAATCTAAATGCACCCACAAATGGCCTTCTTCTCCTTTTAACTTTATTATATAT
53152022 ACACACACA
66 ACACACACA
53152031 ACAGCCTTCT
Statistics
Matches: 74, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
78 13 0.18
80 61 0.82
ACGTcount: A:0.36, C:0.29, G:0.05, T:0.30
Consensus pattern (78 bp):
AACAACTGACTCAATCTAAATGCACCCACAAATGGCCTTCTTCTCCTTTTAACTTTATTATATAT
ACACACACACACA
Found at i:53171545 original size:15 final size:14
Alignment explanation
Indices: 53171522--53171551 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
53171512 ATTTATATGC
53171522 TTTTAATTTATAAA
1 TTTTAATTTATAAA
53171536 TTTTATATTTATAAA
1 TTTTA-ATTTATAAA
53171551 T
1 T
53171552 AAGGATGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTTAATTTATAAA
Found at i:53178157 original size:14 final size:14
Alignment explanation
Indices: 53178074--53178159 Score: 57
Period size: 14 Copynumber: 6.1 Consensus size: 14
53178064 TCGAGGATCC
*
53178074 AAGGTTTTAAGATAT
1 AAGG-TTTAAGATTT
*
53178089 AAGGTTTAAAATTT
1 AAGGTTTAAGATTT
**
53178103 AAGGTTTGGGATTT
1 AAGGTTTAAGATTT
* * *
53178117 AAGATTCAA-AGTCT
1 AAGGTTTAAGA-TTT
* *
53178131 AAGATTTAGGATTT
1 AAGGTTTAAGATTT
*
53178145 AAGGTTCAAGATTT
1 AAGGTTTAAGATTT
53178159 A
1 A
53178160 GATAAAAAAA
Statistics
Matches: 53, Mismatches: 16, Indels: 5
0.72 0.22 0.07
Matches are distributed among these distances:
13 1 0.02
14 47 0.89
15 5 0.09
ACGTcount: A:0.37, C:0.03, G:0.21, T:0.38
Consensus pattern (14 bp):
AAGGTTTAAGATTT
Found at i:53179018 original size:14 final size:14
Alignment explanation
Indices: 53178995--53179034 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
53178985 ACAGAAAAAT
*
53178995 AAAATATTTTCCCG
1 AAAATATTTTACCG
* *
53179009 AAATTATTTTACGG
1 AAAATATTTTACCG
53179023 AAAATATTTTAC
1 AAAATATTTTAC
53179035 TGGCAATTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.40
Consensus pattern (14 bp):
AAAATATTTTACCG
Found at i:53179026 original size:34 final size:35
Alignment explanation
Indices: 53178960--53179026 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
53178950 TAAACACCAG
53178960 AAAATATTTTCCAGTAAATCATTTTACAGAAAAAT
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAAAT
* * *
53178995 AAAATATTTTCCCG-AAATTATTTTACGGAAAA
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAA
53179027 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.46, C:0.12, G:0.07, T:0.34
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAATCATTTTACAGAAAAAT
Found at i:53191974 original size:31 final size:31
Alignment explanation
Indices: 53191932--53192022 Score: 98
Period size: 31 Copynumber: 3.0 Consensus size: 31
53191922 CCCAAAATTT
53191932 AAAT-TTTTGAAAATTTTAATTAGACCCCAA
1 AAATGTTTTGAAAATTTTAATTAGACCCCAA
* ** * * *
53191962 AAATGTTTTGAAAATTCTCGTTAAATCACAA
1 AAATGTTTTGAAAATTTTAATTAGACCCCAA
*
53191993 AAA-G-TTTGAAAATTTTAATTGGACCCCAA
1 AAATGTTTTGAAAATTTTAATTAGACCCCAA
53192022 A
1 A
53192023 TCTTGAAAAT
Statistics
Matches: 47, Mismatches: 13, Indels: 3
0.75 0.21 0.05
Matches are distributed among these distances:
29 19 0.40
30 5 0.11
31 23 0.49
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.34
Consensus pattern (31 bp):
AAATGTTTTGAAAATTTTAATTAGACCCCAA
Found at i:53201565 original size:27 final size:27
Alignment explanation
Indices: 53201535--53201589 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
53201525 AAAAGAAGTT
53201535 AACCAAATCAATCATAATTAATCATGA
1 AACCAAATCAATCATAATTAATCATGA
53201562 AACCAAATCAATCATAATTAATCATGA
1 AACCAAATCAATCATAATTAATCATGA
53201589 A
1 A
53201590 TTAAAATTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.53, C:0.18, G:0.04, T:0.25
Consensus pattern (27 bp):
AACCAAATCAATCATAATTAATCATGA
Found at i:53202391 original size:20 final size:19
Alignment explanation
Indices: 53202361--53202399 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
53202351 TAATATTCTT
53202361 TTAGAAATTTTAAAAAAAA
1 TTAGAAATTTTAAAAAAAA
*
53202380 TTAGAAATTTTTAAAAAAA
1 TTAGAAATTTTAAAAAAAA
53202399 T
1 T
53202400 AATTAAATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (19 bp):
TTAGAAATTTTAAAAAAAA
Found at i:53208629 original size:32 final size:32
Alignment explanation
Indices: 53208592--53208668 Score: 111
Period size: 32 Copynumber: 2.4 Consensus size: 32
53208582 TTGTTTGAAC
* * *
53208592 CTTTAGAGCATTG-ACAATTAAGTAGAGATAAA
1 CTTTAGAGCATTGAAAAAGT-ACTAGAGATAAA
53208624 CTTTAGAGCATTGAAAAAGTACTAGAGATAAA
1 CTTTAGAGCATTGAAAAAGTACTAGAGATAAA
53208656 CTTTAGAGCATTG
1 CTTTAGAGCATTG
53208669 GTACAACCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
32 37 0.90
33 4 0.10
ACGTcount: A:0.42, C:0.10, G:0.19, T:0.29
Consensus pattern (32 bp):
CTTTAGAGCATTGAAAAAGTACTAGAGATAAA
Found at i:53213738 original size:59 final size:59
Alignment explanation
Indices: 53213635--53213775 Score: 169
Period size: 59 Copynumber: 2.4 Consensus size: 59
53213625 TTGAGGCCTG
* * **
53213635 AATTTTTTTTTTGTCCAAGTTAGGCTCTACACTTGACAATTGTTTTCACATTGGGGTTTA
1 AATTTTTTTTTT-TCCAAATTAGGCTCTACACTTGACAAATGTTTTCACATTGGGACTTA
* * *
53213695 AATTTTTTTTTTTCTAAATTAGG-TCCTGA-ACTTGGCAAATGTTTTCACATTGGGACTTC
1 AATTTTTTTTTTTCCAAATTAGGCT-CT-ACACTTGACAAATGTTTTCACATTGGGACTTA
*
53213754 AATTTTTTTTTATCCAAATTAG
1 AATTTTTTTTTTTCCAAATTAG
53213776 CCCTTGAAAA
Statistics
Matches: 70, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
58 1 0.01
59 56 0.80
60 13 0.19
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.48
Consensus pattern (59 bp):
AATTTTTTTTTTTCCAAATTAGGCTCTACACTTGACAAATGTTTTCACATTGGGACTTA
Found at i:53213763 original size:60 final size:59
Alignment explanation
Indices: 53213617--53213775 Score: 155
Period size: 59 Copynumber: 2.7 Consensus size: 59
53213607 TTGATAACTT
* * * * *
53213617 TTTTCGCATTGAGGCCTGAATTTTTTTTTTGTCCAAGTTAGGCTCTACACTTGACAATTG
1 TTTTCACATTG-GGCTTCAATTTTTTTTTTGTCCAAATTAGGCTCTACACTTGACAAATG
* * * *
53213677 TTTTCACATTGGGGTTTAAATTTTTTTTTT-TCTAAATTAGG-TCCTGA-ACTTGGCAAATG
1 TTTTCACATT-GGGCTTCAATTTTTTTTTTGTCCAAATTAGGCT-CT-ACACTTGACAAATG
*
53213736 TTTTCACATTGGGACTTCAA-TTTTTTTTTATCCAAATTAG
1 TTTTCACATTGGG-CTTCAATTTTTTTTTTGTCCAAATTAG
53213776 CCCTTGAAAA
Statistics
Matches: 83, Mismatches: 11, Indels: 11
0.79 0.10 0.10
Matches are distributed among these distances:
58 13 0.16
59 44 0.53
60 25 0.30
61 1 0.01
ACGTcount: A:0.23, C:0.15, G:0.16, T:0.47
Consensus pattern (59 bp):
TTTTCACATTGGGCTTCAATTTTTTTTTTGTCCAAATTAGGCTCTACACTTGACAAATG
Found at i:53215793 original size:22 final size:22
Alignment explanation
Indices: 53215768--53215815 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
53215758 TAAACAAATT
53215768 CTTTAAAAAGAATAAATATTCC
1 CTTTAAAAAGAATAAATATTCC
**
53215790 CTTTTTAAAGAATAAATATTCC
1 CTTTAAAAAGAATAAATATTCC
53215812 CTTT
1 CTTT
53215816 TTTTTTATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.42, C:0.15, G:0.04, T:0.40
Consensus pattern (22 bp):
CTTTAAAAAGAATAAATATTCC
Found at i:53215822 original size:26 final size:22
Alignment explanation
Indices: 53215774--53215817 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
53215764 AATTCTTTAA
53215774 AAAGAATAAATATTCCCTTTTT
1 AAAGAATAAATATTCCCTTTTT
53215796 AAAGAATAAATATTCCCTTTTT
1 AAAGAATAAATATTCCCTTTTT
53215818 TTTTATGTAT
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:0.05, T:0.41
Consensus pattern (22 bp):
AAAGAATAAATATTCCCTTTTT
Found at i:53226129 original size:25 final size:25
Alignment explanation
Indices: 53226088--53226202 Score: 85
Period size: 24 Copynumber: 4.7 Consensus size: 25
53226078 GCCATAAAAT
**
53226088 GGGAAGCTCATGTGAGCCATGTAA-C
1 GGGAAGCTCATAAGAGCCA-GTAATC
53226113 GGGAAGCTCATAAGAGCC-GTAATC
1 GGGAAGCTCATAAGAGCCAGTAATC
* * *
53226137 GGGAAGTTCA-AGTGAGCCAAT-ATC
1 GGGAAGCTCATA-AGAGCCAGTAATC
* *** *
53226161 TGGAAGCTCCGGAGAGCCATTAATC
1 GGGAAGCTCATAAGAGCCAGTAATC
*
53226186 GGGACGCTCATAAGAGC
1 GGGAAGCTCATAAGAGC
53226203 TGCGGTGTGT
Statistics
Matches: 69, Mismatches: 16, Indels: 10
0.73 0.17 0.11
Matches are distributed among these distances:
23 5 0.07
24 32 0.46
25 32 0.46
ACGTcount: A:0.30, C:0.21, G:0.30, T:0.18
Consensus pattern (25 bp):
GGGAAGCTCATAAGAGCCAGTAATC
Found at i:53229863 original size:12 final size:12
Alignment explanation
Indices: 53229846--53229880 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
53229836 AAAGTAACTT
53229846 TAATAATAATGA
1 TAATAATAATGA
*
53229858 TAATAATAAAGA
1 TAATAATAATGA
53229870 TAATAA-AATGA
1 TAATAATAATGA
53229881 AAAACATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 4 0.19
12 17 0.81
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.29
Consensus pattern (12 bp):
TAATAATAATGA
Found at i:53231110 original size:43 final size:43
Alignment explanation
Indices: 53231046--53231131 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
53231036 TATGTGATTG
53231046 ATATTGAAATGACAAAGATGAGAAATGAATATGAGATGAGAAA
1 ATATTGAAATGACAAAGATGAGAAATGAATATGAGATGAGAAA
* *
53231089 ATATTGAAATGACAAATATGAGAAATGATTATGAGATGAGAAA
1 ATATTGAAATGACAAAGATGAGAAATGAATATGAGATGAGAAA
53231132 TAAGATATGA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.52, C:0.02, G:0.22, T:0.23
Consensus pattern (43 bp):
ATATTGAAATGACAAAGATGAGAAATGAATATGAGATGAGAAA
Found at i:53231113 original size:16 final size:16
Alignment explanation
Indices: 53231051--53231116 Score: 54
Period size: 16 Copynumber: 4.4 Consensus size: 16
53231041 GATTGATATT
*
53231051 GAAATGACAAAGATGA
1 GAAATGACAAATATGA
53231067 GAAATG---AATATGA
1 GAAATGACAAATATGA
* *
53231080 G--ATGAGAAAATAT-T
1 GAAATGA-CAAATATGA
53231094 GAAATGACAAATATGA
1 GAAATGACAAATATGA
53231110 GAAATGA
1 GAAATGA
53231117 TTATGAGATG
Statistics
Matches: 39, Mismatches: 4, Indels: 14
0.68 0.07 0.25
Matches are distributed among these distances:
11 3 0.08
13 7 0.18
14 1 0.03
15 11 0.28
16 17 0.44
ACGTcount: A:0.55, C:0.03, G:0.23, T:0.20
Consensus pattern (16 bp):
GAAATGACAAATATGA
Found at i:53237219 original size:15 final size:15
Alignment explanation
Indices: 53237180--53237220 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
53237170 TTTTTGTATC
*
53237180 TAAAATAATTTTTTAA
1 TAAAATAA-TTATTAA
53237196 T-AAAT-ATTATTAA
1 TAAAATAATTATTAA
53237209 TAAAATAATTAT
1 TAAAATAATTAT
53237221 AGTTATTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
13 7 0.32
14 5 0.23
15 9 0.41
16 1 0.05
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
TAAAATAATTATTAA
Found at i:53237373 original size:31 final size:31
Alignment explanation
Indices: 53237311--53237374 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 31
53237301 AAAATAATAG
* * * *
53237311 TTGAGTTACCAAAATAGAACTAAAGATATAA
1 TTGAGTGACCAAAATAAAACCAAAGACATAA
* *
53237342 TTGAGTGACTAAAATAAAACCAAAGGCATAA
1 TTGAGTGACCAAAATAAAACCAAAGACATAA
53237373 TT
1 TT
53237375 AGGTGAATAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.50, C:0.11, G:0.14, T:0.25
Consensus pattern (31 bp):
TTGAGTGACCAAAATAAAACCAAAGACATAA
Found at i:53243237 original size:15 final size:15
Alignment explanation
Indices: 53243217--53243248 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
53243207 CTAGCAAGCA
53243217 AAAAGTAGAGAAGGG
1 AAAAGTAGAGAAGGG
53243232 AAAAGTAGAGAAGGG
1 AAAAGTAGAGAAGGG
53243247 AA
1 AA
53243249 GGGAGGAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.38, T:0.06
Consensus pattern (15 bp):
AAAAGTAGAGAAGGG
Found at i:53243846 original size:15 final size:16
Alignment explanation
Indices: 53243821--53243850 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
53243811 GCCGAATTTT
53243821 TTTTAAAATTTTAAAG
1 TTTTAAAATTTTAAAG
53243837 TTTT-AAATTTTAAA
1 TTTTAAAATTTTAAA
53243851 ACATCAGAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
TTTTAAAATTTTAAAG
Found at i:53244030 original size:16 final size:16
Alignment explanation
Indices: 53244009--53244039 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
53243999 GAGACTTGGC
53244009 CCATTCAAAATAAACG
1 CCATTCAAAATAAACG
53244025 CCATTCAAAATAAAC
1 CCATTCAAAATAAAC
53244040 TAAAACATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.26, G:0.03, T:0.19
Consensus pattern (16 bp):
CCATTCAAAATAAACG
Found at i:53252789 original size:11 final size:11
Alignment explanation
Indices: 53252775--53252800 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
53252765 TTTTTTTAAA
53252775 TTTTAAAATAC
1 TTTTAAAATAC
53252786 TTTTAAAATAC
1 TTTTAAAATAC
53252797 TTTT
1 TTTT
53252801 TTTAATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:53252821 original size:40 final size:40
Alignment explanation
Indices: 53252750--53252867 Score: 146
Period size: 40 Copynumber: 2.8 Consensus size: 40
53252740 GCCCGAATAC
*
53252750 AATAATTTTTTATTATTTTTTTAAATTTTAAAATACTTTTAA
1 AATAATTTTTT-TAATTTTTTT-AATTTTAAAATACTTTTAA
* *
53252792 AATACTTTTTTTAATTTTTTTAATTTTAAAATATTTTTAA
1 AATAATTTTTTTAATTTTTTTAATTTTAAAATACTTTTAA
* *
53252832 AATAAATTTTTTATTTTTGTTTTAATTTTTAAAATA
1 AATAATTTTTTTA-ATTT-TTTTAA-TTTTAAAATA
53252868 AATTTTTTGG
Statistics
Matches: 67, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
40 29 0.43
41 12 0.18
42 16 0.24
43 10 0.15
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.61
Consensus pattern (40 bp):
AATAATTTTTTTAATTTTTTTAATTTTAAAATACTTTTAA
Found at i:53252888 original size:32 final size:32
Alignment explanation
Indices: 53252824--53252888 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
53252814 ATTTTAAAAT
* *
53252824 ATTTTTAAAATAAATTTTTTATTTTTGTTTTA
1 ATTTTTAAAATAAATTTTTTATATTTGATTTA
*
53252856 ATTTTTAAAATAAATTTTTTGGTATTT-ATTTA
1 ATTTTTAAAATAAATTTTTT-ATATTTGATTTA
53252888 A
1 A
53252889 AAAACGGGCC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 25 0.86
33 4 0.14
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.62
Consensus pattern (32 bp):
ATTTTTAAAATAAATTTTTTATATTTGATTTA
Found at i:53256455 original size:31 final size:28
Alignment explanation
Indices: 53256380--53256456 Score: 68
Period size: 31 Copynumber: 2.6 Consensus size: 28
53256370 CAAATGTCTC
*
53256380 TAAAATAGTAGCAAAATTAACAATAAAA
1 TAAAATAGTAGCAATATTAACAATAAAA
*
53256408 TCAAGAGTTA-TA-CAATATTCAAACAATAACAA
1 T-AA-A-ATAGTAGCAATATT--AACAATAA-AA
53256440 TAAAATAGTAGCAATAT
1 TAAAATAGTAGCAATAT
53256457 AATAGCAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 13
0.70 0.06 0.24
Matches are distributed among these distances:
28 1 0.03
29 10 0.26
30 6 0.16
31 18 0.47
32 3 0.08
ACGTcount: A:0.57, C:0.10, G:0.08, T:0.25
Consensus pattern (28 bp):
TAAAATAGTAGCAATATTAACAATAAAA
Found at i:53257560 original size:10 final size:11
Alignment explanation
Indices: 53257519--53257565 Score: 58
Period size: 11 Copynumber: 4.1 Consensus size: 11
53257509 AATCATTAGT
*
53257519 TTTAAAAATAA
1 TTTAAAAATTA
53257530 TTTAAATTAATTA
1 TTTAAA--AATTA
53257543 TTTAAAAATTA
1 TTTAAAAATTA
*
53257554 TTTAAAATTTA
1 TTTAAAAATTA
53257565 T
1 T
53257566 ATTTCATATA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
11 22 0.69
13 10 0.31
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (11 bp):
TTTAAAAATTA
Found at i:53257619 original size:25 final size:24
Alignment explanation
Indices: 53257519--53257615 Score: 90
Period size: 24 Copynumber: 4.0 Consensus size: 24
53257509 AATCATTAGT
53257519 TTTAAAAATAATTTAAATTAATTA
1 TTTAAAAATAATTTAAATTAATTA
* *
53257543 TTTAAAAATTATTTAAAATTTA-TA
1 TTTAAAAATAATTT-AAATTAATTA
* * * *
53257567 TTT-CATATATTATTATATTAAATTA
1 TTTAAAAATAAT-TTAAATT-AATTA
*
53257592 TTTAAATATAATTTAAATTAATTA
1 TTTAAAAATAATTTAAATTAATTA
53257616 ATTTTTTTAA
Statistics
Matches: 57, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
23 8 0.14
24 26 0.46
25 17 0.30
26 6 0.11
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (24 bp):
TTTAAAAATAATTTAAATTAATTA
Found at i:53266923 original size:18 final size:18
Alignment explanation
Indices: 53266900--53266934 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
53266890 GCCAGGTGCA
*
53266900 TATCCTAGCCCTTATATG
1 TATCCTAACCCTTATATG
53266918 TATCCTAACCCTTATAT
1 TATCCTAACCCTTATAT
53266935 ATTTCATTTT
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:0.26, C:0.29, G:0.06, T:0.40
Consensus pattern (18 bp):
TATCCTAACCCTTATATG
Found at i:53267222 original size:21 final size:21
Alignment explanation
Indices: 53267182--53267222 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
53267172 CCAACACCCA
**
53267182 CAACCACAACCCCCGTCGGAG
1 CAACCACAACCCCCACCGGAG
*
53267203 CAACCACAACCCTCACCGGA
1 CAACCACAACCCCCACCGGA
53267223 AGCTGAACCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.49, G:0.15, T:0.05
Consensus pattern (21 bp):
CAACCACAACCCCCACCGGAG
Found at i:53270638 original size:127 final size:125
Alignment explanation
Indices: 53270472--53270741 Score: 362
Period size: 127 Copynumber: 2.1 Consensus size: 125
53270462 GGCTAAACAT
* * *
53270472 GAACTATTGTAGAAAAAGAGCTTCCACGTGGGAGCTTTTTTCAATAATTTTGCTGACAGTGCATC
1 GAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAATAATTTTGCTGACAGTGCATC
* ** * *
53270537 TTACTTGAAGTGTTTTTGACACTAT-TTGTTCAGAACCGTCTTCTCAAAATTAATTTTTTCAA
66 CTACTTGAAGCATTTTTGAAACTATCTT-TTCAAAACCGTCTTCTCAAAATT-ATTTTTTC-A
* *
53270599 GAACTACTATAGAAAATGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
1 GAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAATAATTTTGCTGACAGTGCATC
* * * *
53270664 CTGCTTGAAGCATTTTTTAAATTATCTTTTCAAAACTGTCTTCTCAAAATTATTTTTTCA
66 CTACTTGAAGCATTTTTGAAACTATCTTTTCAAAACCGTCTTCTCAAAATTATTTTTTCA
*
53270724 GAAACTACTATAAAAAAA
1 G-AACTACTATAGAAAAA
53270742 ATAAAAGTTT
Statistics
Matches: 125, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
125 2 0.02
126 22 0.18
127 99 0.79
128 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (125 bp):
GAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAATAATTTTGCTGACAGTGCATC
CTACTTGAAGCATTTTTGAAACTATCTTTTCAAAACCGTCTTCTCAAAATTATTTTTTCA
Found at i:53270839 original size:34 final size:32
Alignment explanation
Indices: 53270801--53270909 Score: 101
Period size: 34 Copynumber: 3.2 Consensus size: 32
53270791 TTAAAAAAAA
53270801 CTAAACTATAATTTAATTGATTTTCTTAAAAACC
1 CTAAACTATAATTTAATT-ATTTT-TTAAAAACC
* * *
53270835 CTAAACTTTAATTTAATTAATTTATTTTAAACCC
1 CTAAACTATAATTTAATT-ATTT-TTTAAAAACC
* * * *
53270869 CAAAAATCTAATTTAATTATTTTTAAAAAAAACC
1 CTAAACTATAATTTAATTATTTTT--TAAAAACC
53270903 CTAAACT
1 CTAAACT
53270910 TATCAAAAAC
Statistics
Matches: 60, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
32 2 0.03
33 4 0.07
34 53 0.88
35 1 0.02
ACGTcount: A:0.44, C:0.15, G:0.01, T:0.40
Consensus pattern (32 bp):
CTAAACTATAATTTAATTATTTTTTAAAAACC
Found at i:53275702 original size:25 final size:25
Alignment explanation
Indices: 53275674--53275729 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
53275664 TAAGCTTCTC
*
53275674 CGAGCTGAATAACAGTAAGCTCATG
1 CGAGCTGAATAACAGTAAGCTCATA
* **
53275699 CGAGCTGAGTAATGGTAAGCTCATA
1 CGAGCTGAATAACAGTAAGCTCATA
53275724 CGAGCT
1 CGAGCT
53275730 AAAATTGGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.21
Consensus pattern (25 bp):
CGAGCTGAATAACAGTAAGCTCATA
Found at i:53278569 original size:14 final size:15
Alignment explanation
Indices: 53278518--53278572 Score: 51
Period size: 14 Copynumber: 3.8 Consensus size: 15
53278508 TATATTTGGT
*
53278518 TTAAATCTTAATTAA
1 TTAAACCTTAATTAA
***
53278533 -TAAAAAATAATTAA
1 TTAAACCTTAATTAA
*
53278547 TTAAACCTTAATTAC
1 TTAAACCTTAATTAA
53278562 TT-AACCTTAAT
1 TTAAACCTTAAT
53278573 CACAATTAAC
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
14 20 0.62
15 12 0.38
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (15 bp):
TTAAACCTTAATTAA
Found at i:53278916 original size:15 final size:15
Alignment explanation
Indices: 53278896--53278927 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
53278886 CTTTTCACTA
*
53278896 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
53278911 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
53278926 TT
1 TT
53278928 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:53282082 original size:18 final size:18
Alignment explanation
Indices: 53282061--53282120 Score: 102
Period size: 18 Copynumber: 3.3 Consensus size: 18
53282051 TTATGATTTT
53282061 TTTTTTGTTGAGATATGA
1 TTTTTTGTTGAGATATGA
* *
53282079 TTTTCTGTTGATATATGA
1 TTTTTTGTTGAGATATGA
53282097 TTTTTTGTTGAGATATGA
1 TTTTTTGTTGAGATATGA
53282115 TTTTTT
1 TTTTTT
53282121 CTATTGAGAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.20, C:0.02, G:0.18, T:0.60
Consensus pattern (18 bp):
TTTTTTGTTGAGATATGA
Found at i:53282127 original size:20 final size:19
Alignment explanation
Indices: 53282060--53282130 Score: 92
Period size: 18 Copynumber: 3.8 Consensus size: 19
53282050 GTTATGATTT
*
53282060 TTTTTTTGTTGAGATATGA
1 TTTTTCTGTTGAGATATGA
*
53282079 -TTTTCTGTTGATATATGA
1 TTTTTCTGTTGAGATATGA
53282097 TTTTT-TGTTGAGATATGA
1 TTTTTCTGTTGAGATATGA
*
53282115 TTTTTTCTATTGAGAT
1 -TTTTTCTGTTGAGAT
53282131 TTGTTGCTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
18 28 0.62
19 9 0.20
20 8 0.18
ACGTcount: A:0.21, C:0.03, G:0.18, T:0.58
Consensus pattern (19 bp):
TTTTTCTGTTGAGATATGA
Found at i:53286019 original size:18 final size:18
Alignment explanation
Indices: 53285996--53286060 Score: 112
Period size: 18 Copynumber: 3.6 Consensus size: 18
53285986 CTGTTTTTTT
53285996 TATGATTTTTTGTTGAGA
1 TATGATTTTTTGTTGAGA
*
53286014 TATGATTTTCTGTTGAGA
1 TATGATTTTTTGTTGAGA
*
53286032 TATAATTTTTTGTTGAGA
1 TATGATTTTTTGTTGAGA
53286050 TATGATTTTTT
1 TATGATTTTTT
53286061 TATTGAGATT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 43 1.00
ACGTcount: A:0.23, C:0.02, G:0.18, T:0.57
Consensus pattern (18 bp):
TATGATTTTTTGTTGAGA
Found at i:53294653 original size:10 final size:10
Alignment explanation
Indices: 53294640--53294677 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
53294630 AAATATTTAC
*
53294640 AAATTTATTT
1 AAATTTAATT
53294650 AAATTTAATT
1 AAATTTAATT
53294660 AAATTTAATT
1 AAATTTAATT
53294670 ATAATTTA
1 A-AATTTA
53294678 TCAACTTCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
10 20 0.77
11 6 0.23
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
AAATTTAATT
Found at i:53295487 original size:31 final size:29
Alignment explanation
Indices: 53295452--53295528 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
53295442 CTAACGGCTC
* *
53295452 AGTGACTAAAATGTTACAACATGATAACATA
1 AGTGACTAAAATGTAAC-ACATCA-AACATA
* **
53295483 AGTGACTAAAACGTAACATTTCAAACATA
1 AGTGACTAAAATGTAACACATCAAACATA
53295512 AGTGACTAAAATGTAAC
1 AGTGACTAAAATGTAAC
53295529 TTGAGCCAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
29 22 0.55
30 3 0.08
31 15 0.38
ACGTcount: A:0.48, C:0.14, G:0.13, T:0.25
Consensus pattern (29 bp):
AGTGACTAAAATGTAACACATCAAACATA
Found at i:53297272 original size:16 final size:16
Alignment explanation
Indices: 53297251--53297281 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
53297241 ACTGGGTTGA
*
53297251 GAAAATTATTTAATTG
1 GAAAATTAATTAATTG
53297267 GAAAATTAATTAATT
1 GAAAATTAATTAATT
53297282 AATTTAATTT
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:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (16 bp):
GAAAATTAATTAATTG
Found at i:53298949 original size:43 final size:42
Alignment explanation
Indices: 53298893--53299034 Score: 169
Period size: 43 Copynumber: 3.4 Consensus size: 42
53298883 GTGGTACATG
*
53298893 ACATGTATAATATTTGTTAGTTTCACCGACCAGTGTTGGGTAC
1 ACATGTATAATATTTGTCAGTTTCACCGACCAGTGTTGGG-AC
* * *
53298936 ACATGTATAATATTTGTCATTTTCACCAACTAGTGTTGGGCAC
1 ACATGTATAATATTTGTCAGTTTCACCGACCAGTGTTGGG-AC
* * * * *
53298979 ACATGTATAATATTTATCGGTTTTATCGACCAGTGTTAGG-C
1 ACATGTATAATATTTGTCAGTTTCACCGACCAGTGTTGGGAC
*
53299020 ACATATATAATATTT
1 ACATGTATAATATTT
53299035 TTCGATTTTA
Statistics
Matches: 85, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
41 15 0.18
43 70 0.82
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (42 bp):
ACATGTATAATATTTGTCAGTTTCACCGACCAGTGTTGGGAC
Found at i:53299055 original size:34 final size:35
Alignment explanation
Indices: 53299010--53299080 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 35
53299000 TTTATCGACC
*
53299010 AGTGTTAGGCAC-ATATATAATATTTTTCGATTTT
1 AGTGTTAGGCACAATATATAATATTTATCGATTTT
* *
53299044 AGTGTTGGGCACATATATATAATATTTATCGGTTTT
1 AGTGTTAGGCACA-ATATATAATATTTATCGATTTT
53299080 A
1 A
53299081 TCGACCAACG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
34 11 0.34
36 21 0.66
ACGTcount: A:0.30, C:0.08, G:0.17, T:0.45
Consensus pattern (35 bp):
AGTGTTAGGCACAATATATAATATTTATCGATTTT
Found at i:53302175 original size:3 final size:3
Alignment explanation
Indices: 53302167--53302242 Score: 143
Period size: 3 Copynumber: 25.3 Consensus size: 3
53302157 TGAATCTTCA
53302167 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
53302215 TAT TAT TAT TAT TAT TTT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
53302243 TTGTCATGAG
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:53306769 original size:14 final size:14
Alignment explanation
Indices: 53306743--53306807 Score: 73
Period size: 14 Copynumber: 4.7 Consensus size: 14
53306733 CAGATTCAAT
53306743 AAAAAATCAAAAATC
1 AAAAAATC-AAAATC
53306758 AAAAAATCAAAATC
1 AAAAAATCAAAATC
53306772 AAAAAGA--AAAAT-
1 AAAAA-ATCAAAATC
* *
53306784 AAAAAATAAAAATA
1 AAAAAATCAAAATC
53306798 AAAAAATCAA
1 AAAAAATCAA
53306808 TCAAAATAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
11 1 0.02
12 5 0.11
13 10 0.22
14 20 0.44
15 9 0.20
ACGTcount: A:0.78, C:0.08, G:0.02, T:0.12
Consensus pattern (14 bp):
AAAAAATCAAAATC
Found at i:53306833 original size:6 final size:6
Alignment explanation
Indices: 53306744--53306833 Score: 83
Period size: 6 Copynumber: 14.2 Consensus size: 6
53306734 AGATTCAATA
* *
53306744 AAAAAT CAAAAAT CAAAAAAT CAAAAT CAAAAAG AAAAAT AAAAAAT AAAAAT
1 AAAAAT -AAAAAT --AAAAAT AAAAAT -AAAAAT AAAAAT -AAAAAT AAAAAT
* *
53306797 AAAAA- AATCAAT CAAAAT AAAAAT AAAAAT AAAAAT A
1 AAAAAT AA-AAAT AAAAAT AAAAAT AAAAAT AAAAAT A
53306834 TGAGAATGAT
Statistics
Matches: 69, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
5 2 0.03
6 44 0.64
7 17 0.25
8 6 0.09
ACGTcount: A:0.78, C:0.07, G:0.01, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:53306855 original size:36 final size:36
Alignment explanation
Indices: 53306744--53306833 Score: 108
Period size: 40 Copynumber: 2.4 Consensus size: 36
53306734 AGATTCAATA
*
53306744 AAAAATCAAAAATCAAAAAATCAAAATCAAAAAGAAAAAT
1 AAAAAT-AAAAATAAAAAAATC--AAT-AAAAAGAAAAAT
* *
53306784 AAAAAATAAAAATAAAAAAATCAATCAAAATAAAAAT
1 -AAAAATAAAAATAAAAAAATCAATAAAAAGAAAAAT
53306821 AAAAATAAAAATA
1 AAAAATAAAAATA
53306834 TGAGAATGAT
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
36 13 0.28
37 10 0.22
38 3 0.07
40 14 0.30
41 6 0.13
ACGTcount: A:0.78, C:0.07, G:0.01, T:0.14
Consensus pattern (36 bp):
AAAAATAAAAATAAAAAAATCAATAAAAAGAAAAAT
Found at i:53306861 original size:36 final size:36
Alignment explanation
Indices: 53306743--53306861 Score: 105
Period size: 36 Copynumber: 3.2 Consensus size: 36
53306733 CAGATTCAAT
*
53306743 AAAAAATCAAAAATCAAAAAATCAAAATCAAAAAGAAAAA
1 AAAAAAT-AAAAATAAAAAAATC--AAT-AAAAAGAAAAA
* *
53306783 TAAAAAATAAAAATAAAAAAATCAATCAAAATAAAAA
1 -AAAAAATAAAAATAAAAAAATCAATAAAAAGAAAAA
* ** * *
53306820 TAAAAATAAAAATATGAGAAT-GATAAAAAGAAAAA
1 AAAAAATAAAAATAAAAAAATCAATAAAAAGAAAAA
53306855 AGAAAAA
1 A-AAAAA
53306862 GAGAAAAAAG
Statistics
Matches: 66, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
35 11 0.17
36 22 0.33
37 9 0.14
38 3 0.05
40 14 0.21
41 7 0.11
ACGTcount: A:0.76, C:0.05, G:0.05, T:0.13
Consensus pattern (36 bp):
AAAAAATAAAAATAAAAAAATCAATAAAAAGAAAAA
Found at i:53309165 original size:44 final size:44
Alignment explanation
Indices: 53309047--53309167 Score: 179
Period size: 44 Copynumber: 2.8 Consensus size: 44
53309037 TGAAGTTATA
* *
53309047 AATCCTATCTCCCTGGTCAGCAGTGGAATAAGTTGAAGATGGTG
1 AATCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATGGTG
* * *
53309091 AATCCTATCTTCCTGGACAGCAATGGAATAGGTTGAAGATTGTG
1 AATCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATGGTG
**
53309135 AATCCTATCTCCCTGGACAATAGTGGAATAGGT
1 AATCCTATCTCCCTGGACAGCAGTGGAATAGGT
53309168 AAAAAATTAC
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 68 1.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (44 bp):
AATCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATGGTG
Found at i:53309237 original size:43 final size:43
Alignment explanation
Indices: 53309182--53309860 Score: 236
Period size: 43 Copynumber: 15.3 Consensus size: 43
53309172 AATTACAGAT
*
53309182 CTTATCTCCCTGAGCAGTAGTGGAGCAGATCAAAGACCTCAGC
1 CTTATCTCCCTGAGCAGTAGTGGAGTAGATCAAAGACCTCAGC
* * * * ** * *
53309225 CTTGTCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAAAAATTACGGAT
1 CTTATCTCCCTGAGCAGTAGTGGAGTA-GAT-CAAAGACCT-CAG-C
* * * *
53309272 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCCAGC
1 CTTATCTCCCTGAGCAGTAGTGGAGTAGATCAAAGACCTCAGC
* ** * ** *
53309315 CTTGTCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAAAAAAATTACAGAT
1 CTTATCTCCCTGAGCAGTAGTGGAGTA----GATCAAAGACCT-CAG-C
* * * *
53309364 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAA-ACCCCAAC
1 CTTATCTCCCTGAGCAGTAGTGGAGTAGATC-AAAGACCTCAGC
* * * * ** *
53309407 CTTATCTCCCTGAGCAGCAGTGGAATAGGTTAAA-AATTACAGAT
1 CTTATCTCCCTGAGCAGTAGTGGAGTAGATCAAAGACCT-CAG-C
* * * ** * *
53309451 CTTATCTCCCTAAGTAGTAGTGGAGCAGATTGAAGTCCCCAGC
1 CTTATCTCCCTGAGCAGTAGTGGAGTAGATCAAAGACCTCAGC
* * * * ** * *
53309494 CTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAA-AATTATAGAT
1 CTTATCTCCCTGAGCAGTAGTGGAGTA-GATCAAAGACCT-CAG-C
* * * *
53309539 CTTATCTCCCTAAGTAGTAGTGGAGTAGATCGAAGACCCCAGC
1 CTTATCTCCCTGAGCAGTAGTGGAGTAGATCAAAGACCTCAGC
* ** * ** * *
53309582 CTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAAAAAATTATAGAT
1 CTTATCTCCCTGAGCAGTAGTGGAGTA----GATCAAAGACCT-CAG-C
* * * * * *
53309631 ATTATCTCTCTAAGCAGTAGTGGAGCAGATCGAAGACCCCAGC
1 CTTATCTCCCTGAGCAGTAGTGGAGTAGATCAAAGACCTCAGC
** * * **
53309674 CTTATCTCCCTGAGCAACAGTGGAGTAGATTGAAA-A-TTACAAAT
1 CTTATCTCCCTGAGCAGTAGTGGAGTAGA-TCAAAGACCT-C-AGC
* * * * ** *
53309718 CTTATCTCCCTAAGCAATAGTGGAGCAAATTGAAGTCCTCAGC
1 CTTATCTCCCTGAGCAGTAGTGGAGTAGATCAAAGACCTCAGC
* * ** * * ** *
53309761 CTTGTCTCCCTAAGCAACAGTGGAGTAGGTTGAAA-AATTGCAGAT
1 CTTATCTCCCTGAGCAGTAGTGGAGTA-GATCAAAGACCT-CAG-C
* * * *
53309806 CTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAATACCCCAGC
1 CTTATCTCCCTGAGCAGTAGTGGAGTAGATCAAAGACCTCAGC
**
53309849 CTTGCCTCCCTG
1 CTTATCTCCCTG
53309861 GTTTGCAGCA
Statistics
Matches: 440, Mismatches: 163, Indels: 66
0.66 0.24 0.10
Matches are distributed among these distances:
42 4 0.01
43 185 0.42
44 93 0.21
45 66 0.15
46 7 0.02
47 34 0.08
48 5 0.01
49 46 0.10
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (43 bp):
CTTATCTCCCTGAGCAGTAGTGGAGTAGATCAAAGACCTCAGC
Found at i:53309403 original size:92 final size:88
Alignment explanation
Indices: 53309156--53309860 Score: 966
Period size: 87 Copynumber: 7.9 Consensus size: 88
53309146 CCTGGACAAT
* * * *
53309156 AGTGGAATAGG-TAAAAAATTACAGATCTTATCTCCCTGAGCAGTAGTGGAGCAGATCAAAGACC
1 AGTGGAGTAGGTTGAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACC
* *
53309220 TCAGCCTTGTCTCCCTGAGCAGT
66 CCAGCCTTGTCTCCCTGAGCAGC
*
53309243 AGTGGAGTAGGTTGAAAAAAATTACGGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA
1 AGTGGAGTAGGTTG--AAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA
*
53309308 CCCCAGCCTTGTCTCCCTGAGCAGT
64 CCCCAGCCTTGTCTCCCTGAGCAGC
53309333 AGTGGAGTAGGTTGAAAAAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAA
1 AGTGGAGTAGGTTG----AAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAA
* * *
53309398 AACCCCAACCTTATCTCCCTGAGCAGC
62 GACCCCAGCCTTGTCTCCCTGAGCAGC
* * * *
53309425 AGTGGAATAGGTT-AAAAATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATTGAAGTCC
1 AGTGGAGTAGGTTGAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACC
53309489 CCAGCCTTGTCTCCCTGAGCAGC
66 CCAGCCTTGTCTCCCTGAGCAGC
* * *
53309512 AGTGGAGTAGGTTGAAAAATTATAGATCTTATCTCCCTAAGTAGTAGTGGAGTAGATCGAAGACC
1 AGTGGAGTAGGTTGAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACC
*
53309577 CCAGCCTTATCTCCCTGAGCAGC
66 CCAGCCTTGTCTCCCTGAGCAGC
* * *
53309600 AGTGGAGTAGGTTGAAAAAAAAATTATAGATATTATCTCTCTAAGCAGTAGTGGAGCAGATCGAA
1 AGTGGAGTAGGTTG----AAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAA
* *
53309665 GACCCCAGCCTTATCTCCCTGAGCAAC
62 GACCCCAGCCTTGTCTCCCTGAGCAGC
* * * * * *
53309692 AGTGGAGTAGATTG-AAAATTACAAATCTTATCTCCCTAAGCAATAGTGGAGCAAATTGAAGTCC
1 AGTGGAGTAGGTTGAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACC
* * *
53309756 TCAGCCTTGTCTCCCTAAGCAAC
66 CCAGCCTTGTCTCCCTGAGCAGC
* * *
53309779 AGTGGAGTAGGTTGAAAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAATACC
1 AGTGGAGTAGGTTGAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACC
*
53309844 CCAGCCTTGCCTCCCTG
66 CCAGCCTTGTCTCCCTG
53309861 GTTTGCAGCA
Statistics
Matches: 554, Mismatches: 53, Indels: 21
0.88 0.08 0.03
Matches are distributed among these distances:
87 165 0.30
88 140 0.25
90 84 0.15
92 165 0.30
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.25
Consensus pattern (88 bp):
AGTGGAGTAGGTTGAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACC
CCAGCCTTGTCTCCCTGAGCAGC
Found at i:53309646 original size:267 final size:267
Alignment explanation
Indices: 53309140--53309860 Score: 1120
Period size: 267 Copynumber: 2.7 Consensus size: 267
53309130 TTGTGAATCC
* * *
53309140 TATCTCCCTG-GACAATAGTGGAATAGGTAAAAAATTACAGATCTTATCTCCCTGAGCAGTAGTG
1 TATCTCCCTGAG-CAACAGTGGAATAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTG
** * * *
53309204 GAGCAGATCAAAGACCTCAGCCTTGTCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAAAAATTACG
65 GAGCAGATTGAAGTCCTCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTG--AAAAATTACA
* *
53309269 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCCAGCCTTGTCTCCCTGAGCAGTA
128 GATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACCCCAGCCTTGTCTCCCTGAGCAGCA
*
53309334 GTGGAGTAGGTTGAAAAAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAA
193 GTGGAGTAGGTTGAAAAAAAAATTACAGATATTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAA
53309399 ACCCCAACCT
258 ACCCCAACCT
* *
53309409 TATCTCCCTGAGCAGCAGTGGAATAGGTTAAAAATTACAGATCTTATCTCCCTAAGTAGTAGTGG
1 TATCTCCCTGAGCAACAGTGGAATAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGG
* *
53309474 AGCAGATTGAAGTCCCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAATTATAGAT
66 AGCAGATTGAAGTCCTCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAATTACAGAT
* *
53309539 CTTATCTCCCTAAGTAGTAGTGGAGTAGATCGAAGACCCCAGCCTTATCTCCCTGAGCAGCAGTG
131 CTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACCCCAGCCTTGTCTCCCTGAGCAGCAGTG
* * *
53309604 GAGTAGGTTGAAAAAAAAATTATAGATATTATCTCTCTAAGCAGTAGTGGAGCAGATCGAAGACC
196 GAGTAGGTTGAAAAAAAAATTACAGATATTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAACC
*
53309669 CCAGCCT
261 CCAACCT
* * * * *
53309676 TATCTCCCTGAGCAACAGTGGAGTAGATTGAAAATTACAAATCTTATCTCCCTAAGCAATAGTGG
1 TATCTCCCTGAGCAACAGTGGAATAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGG
* * * *
53309741 AGCAAATTGAAGTCCTCAGCCTTGTCTCCCTAAGCAACAGTGGAGTAGGTTGAAAAATTGCAGAT
66 AGCAGATTGAAGTCCTCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAATTACAGAT
* *
53309806 CTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAATACCCCAGCCTTGCCTCCCTG
131 CTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACCCCAGCCTTGTCTCCCTG
53309861 GTTTGCAGCA
Statistics
Matches: 413, Mismatches: 38, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
267 307 0.74
269 105 0.25
270 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (267 bp):
TATCTCCCTGAGCAACAGTGGAATAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGG
AGCAGATTGAAGTCCTCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAATTACAGAT
CTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACCCCAGCCTTGTCTCCCTGAGCAGCAGTG
GAGTAGGTTGAAAAAAAAATTACAGATATTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAACC
CCAACCT
Done.