Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
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: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 84 of 210
Found at i:24812357 original size:41 final size:40
Alignment explanation
Indices: 24812271--24812347 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 40
24812261 TTTGATACAT
* *
24812271 TAATATGACATTATTTTTAATTGTTAAATTTTTATAATTTT
1 TAATATGACATTA-TTTTAATTGTTAAATTTTTAAAATTTA
*
24812312 TAATATGACATTA-TTTAATTGTTCAA-TTTTAAAATT
1 TAATATGACATTATTTTAATTGTTAAATTTTTAAAATT
24812348 GAATATAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
38 9 0.26
39 12 0.35
41 13 0.38
ACGTcount: A:0.36, C:0.04, G:0.05, T:0.55
Consensus pattern (40 bp):
TAATATGACATTATTTTAATTGTTAAATTTTTAAAATTTA
Found at i:24812535 original size:29 final size:28
Alignment explanation
Indices: 24812492--24812555 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 28
24812482 AATCCAAAAC
**
24812492 CCCTAAACCATAAACTTTAAAC-CATAAT
1 CCCTAAACCATAAACACTAAACAC-TAAT
24812520 CCCTAAACCACTAAACACTAAACACTAAT
1 CCCTAAACCA-TAAACACTAAACACTAAT
24812549 CCCTAAA
1 CCCTAAA
24812556 TCAAAAACCC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
28 10 0.31
29 21 0.66
30 1 0.03
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.20
Consensus pattern (28 bp):
CCCTAAACCATAAACACTAAACACTAAT
Found at i:24812554 original size:7 final size:7
Alignment explanation
Indices: 24812477--24812674 Score: 71
Period size: 7 Copynumber: 28.0 Consensus size: 7
24812467 ACAAAAAAAC
24812477 CCCTAAA
1 CCCTAAA
* *
24812484 TCCAAAA
1 CCCTAAA
24812491 CCCCTAAA
1 -CCCTAAA
*
24812499 CCATAAA
1 CCCTAAA
**
24812506 CTTTAAA
1 CCCTAAA
* *
24812513 CCATAAT
1 CCCTAAA
24812520 CCCTAAA
1 CCCTAAA
24812527 CCACTAAA
1 CC-CTAAA
*
24812535 CACTAAA
1 CCCTAAA
* *
24812542 CACTAAT
1 CCCTAAA
24812549 CCCTAAA
1 CCCTAAA
* **
24812556 TCAAAAA
1 CCCTAAA
*
24812563 CCCAAAA
1 CCCTAAA
24812570 CCCTAAA
1 CCCTAAA
*
24812577 --GTACAA
1 CCCTA-AA
* *
24812583 ACCTACA
1 CCCTAAA
**
24812590 CTGTAAA
1 CCCTAAA
*
24812597 CACTAAA
1 CCCTAAA
*
24812604 CTCTAAA
1 CCCTAAA
*
24812611 CCTTAAAA
1 CCCT-AAA
24812619 CCCTAAAA
1 CCCT-AAA
24812627 CCCTAAA
1 CCCTAAA
*
24812634 CCTTAAA
1 CCCTAAA
*
24812641 -TCTCAAA
1 CCCT-AAA
*
24812648 CCATAAA
1 CCCTAAA
* *
24812655 -CATACA
1 CCCTAAA
24812661 CCCTAAA
1 CCCTAAA
24812668 CCCTAAA
1 CCCTAAA
24812675 TATATATTAC
Statistics
Matches: 139, Mismatches: 43, Indels: 18
0.69 0.22 0.09
Matches are distributed among these distances:
5 2 0.01
6 8 0.06
7 101 0.73
8 28 0.20
ACGTcount: A:0.48, C:0.33, G:0.01, T:0.18
Consensus pattern (7 bp):
CCCTAAA
Found at i:24813007 original size:21 final size:20
Alignment explanation
Indices: 24812973--24813052 Score: 70
Period size: 21 Copynumber: 3.8 Consensus size: 20
24812963 CATAAACTAC
24812973 AAACCTTAAACCCCTAACCCTT
1 AAACCTT-AACCCCTAACCC-T
* *
24812995 GACCCTTAACCCCTAACACCT
1 AAACCTTAACCCCTAAC-CCT
* *
24813016 AAACCTTAAACCCTAACCATT
1 AAACCTTAACCCCTAACC-CT
* *
24813037 AAACCCTAAACCCTAA
1 AAACCTTAACCCCTAA
24813053 ACCCCTAACC
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
20 1 0.02
21 41 0.84
22 7 0.14
ACGTcount: A:0.39, C:0.40, G:0.01, T:0.20
Consensus pattern (20 bp):
AAACCTTAACCCCTAACCCT
Found at i:24813062 original size:7 final size:7
Alignment explanation
Indices: 24812981--24813063 Score: 58
Period size: 7 Copynumber: 11.7 Consensus size: 7
24812971 ACAAACCTTA
24812981 AACCCCT
1 AACCCCT
*
24812988 AACCCTT
1 AACCCCT
* *
24812995 GACCCTT
1 AACCCCT
24813002 AACCCCT
1 AACCCCT
*
24813009 AACACCT
1 AACCCCT
* *
24813016 AAACCTT
1 AACCCCT
*
24813023 AAACCCT
1 AACCCCT
**
24813030 AACCATT
1 AACCCCT
*
24813037 AAACCCT
1 AACCCCT
*
24813044 AAACCCT
1 AACCCCT
24813051 AAACCCCT
1 -AACCCCT
24813059 AACCC
1 AACCC
24813064 ATATCCCCAT
Statistics
Matches: 59, Mismatches: 16, Indels: 2
0.77 0.21 0.03
Matches are distributed among these distances:
7 53 0.90
8 6 0.10
ACGTcount: A:0.36, C:0.45, G:0.01, T:0.18
Consensus pattern (7 bp):
AACCCCT
Found at i:24813175 original size:15 final size:15
Alignment explanation
Indices: 24813151--24813184 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
24813141 CAATAAGCAA
*
24813151 TAAA-CCATAATTCC
1 TAAACCCATAATCCC
24813165 TAAACCCATAATCCC
1 TAAACCCATAATCCC
24813180 TAAAC
1 TAAAC
24813185 TGCTAATGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.44, C:0.32, G:0.00, T:0.24
Consensus pattern (15 bp):
TAAACCCATAATCCC
Found at i:24814302 original size:30 final size:31
Alignment explanation
Indices: 24814253--24814314 Score: 99
Period size: 30 Copynumber: 2.0 Consensus size: 31
24814243 CAAAATGATT
24814253 ATTGAACTATTCAAAAGTTTTCATTTAAGTC
1 ATTGAACTATTCAAAAGTTTTCATTTAAGTC
* *
24814284 ATTGAACTTTTC-AAAGTTTTTATTTAAGTC
1 ATTGAACTATTCAAAAGTTTTCATTTAAGTC
24814314 A
1 A
24814315 CATGGTTGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 18 0.62
31 11 0.38
ACGTcount: A:0.34, C:0.11, G:0.10, T:0.45
Consensus pattern (31 bp):
ATTGAACTATTCAAAAGTTTTCATTTAAGTC
Found at i:24816394 original size:6 final size:6
Alignment explanation
Indices: 24816379--24816414 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
24816369 TAAATCAGAT
* *
24816379 CCAAAA CCAAAT CCAAAT CCAAAA CCAAAA CCAAAA
1 CCAAAA CCAAAA CCAAAA CCAAAA CCAAAA CCAAAA
24816415 AGTCCAGAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.61, C:0.33, G:0.00, T:0.06
Consensus pattern (6 bp):
CCAAAA
Found at i:24816398 original size:18 final size:18
Alignment explanation
Indices: 24816377--24816413 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
24816367 CTTAAATCAG
*
24816377 ATCCAAAACCAAATCCAA
1 ATCCAAAACCAAAACCAA
24816395 ATCCAAAACCAAAACCAA
1 ATCCAAAACCAAAACCAA
24816413 A
1 A
24816414 AAGTCCAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.59, C:0.32, G:0.00, T:0.08
Consensus pattern (18 bp):
ATCCAAAACCAAAACCAA
Found at i:24823940 original size:21 final size:21
Alignment explanation
Indices: 24823915--24823963 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
24823905 GTGACTGGGC
24823915 ACACGCCTGTATGATTGAGGG
1 ACACGCCTGTATGATTGAGGG
* *
24823936 ACACGCCTGTGTGGTTGAGGG
1 ACACGCCTGTATGATTGAGGG
24823957 ACACGCC
1 ACACGCC
24823964 CATTTGAGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.20, C:0.24, G:0.35, T:0.20
Consensus pattern (21 bp):
ACACGCCTGTATGATTGAGGG
Found at i:24824101 original size:21 final size:21
Alignment explanation
Indices: 24824023--24824098 Score: 89
Period size: 21 Copynumber: 3.6 Consensus size: 21
24824013 CATGACTGTA
* *
24824023 TGGCCAAGACATACGCCCGTG
1 TGGCCAAGACACACGCTCGTG
** *
24824044 TGGTAAAGACACACACTCGTG
1 TGGCCAAGACACACGCTCGTG
* *
24824065 TGGACAAGACACATGCTCGTG
1 TGGCCAAGACACACGCTCGTG
24824086 TGGCCAAGACACA
1 TGGCCAAGACACA
24824099 TGCCCATATG
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
TGGCCAAGACACACGCTCGTG
Found at i:24826710 original size:34 final size:36
Alignment explanation
Indices: 24826655--24826723 Score: 97
Period size: 34 Copynumber: 2.0 Consensus size: 36
24826645 TGTGAAAGAT
*
24826655 AATATATAGGTATATTATTCATGCCATGTAACAGTA
1 AATATATAGGTATATTATTCATACCATGTAACAGTA
* *
24826691 AATATATGGGTAT-TT-TTCATACCATGTGACAGT
1 AATATATAGGTATATTATTCATACCATGTAACAGT
24826724 GATTATAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 16 0.53
35 2 0.07
36 12 0.40
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.38
Consensus pattern (36 bp):
AATATATAGGTATATTATTCATACCATGTAACAGTA
Found at i:24830092 original size:35 final size:34
Alignment explanation
Indices: 24830020--24830096 Score: 86
Period size: 35 Copynumber: 2.2 Consensus size: 34
24830010 GTATATATAT
*
24830020 ATATATATATATAAATATACACTTAAGAAGATGAA
1 ATATATATATATAAATATACACTAAAGAAGA-GAA
*
24830055 ATATATATGTATAAATATTACAACCTAAAGAA-A-AA
1 ATATATATATATAAATA-TAC-A-CTAAAGAAGAGAA
24830090 ATATATA
1 ATATATA
24830097 GGAAGAATGT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
35 25 0.68
36 3 0.08
37 2 0.05
38 7 0.19
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.31
Consensus pattern (34 bp):
ATATATATATATAAATATACACTAAAGAAGAGAA
Found at i:24830237 original size:2 final size:2
Alignment explanation
Indices: 24830155--24830219 Score: 53
Period size: 2 Copynumber: 32.0 Consensus size: 2
24830145 AATAAGATAA
* * *
24830155 AT AT AT AT AT AT AT AT AT AT AT A- AA AGG ACT AT AT TT CA- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A-T A-T AT AT AT -AT AT
*
24830196 AT AT AT AA AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT
24830220 GAGAATGTAT
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
1 2 0.04
2 48 0.92
3 2 0.04
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (2 bp):
AT
Found at i:24830279 original size:16 final size:16
Alignment explanation
Indices: 24830258--24830293 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
24830248 AAATGGAAAG
24830258 TATATAGATATACATA
1 TATATAGATATACATA
24830274 TATATAGATATACATA
1 TATATAGATATACATA
24830290 TATA
1 TATA
24830294 AAAAAAGAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.39
Consensus pattern (16 bp):
TATATAGATATACATA
Found at i:24830477 original size:3 final size:3
Alignment explanation
Indices: 24830437--24830541 Score: 122
Period size: 3 Copynumber: 34.7 Consensus size: 3
24830427 AGGTATAAAT
* * * * * * *
24830437 ATA ATG ATA GTA ATA GTA ATA TTA GTA ATA ATA CTA ATA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
24830485 A-A GATA ATA ATAA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA -ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
24830531 ATA ATA ATA AT
1 ATA ATA ATA AT
24830542 GAAATAGCTA
Statistics
Matches: 86, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
2 1 0.01
3 81 0.94
4 4 0.05
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:24830827 original size:69 final size:68
Alignment explanation
Indices: 24830688--24830829 Score: 266
Period size: 68 Copynumber: 2.1 Consensus size: 68
24830678 AAACCTCCAA
*
24830688 TTTGATAAAATGGAGCAACGAACATGAGAGGAAAAAAAAAGGAAAACAGAATGTGAGCGAAGTTT
1 TTTGATAAAATGGAGCAACGAACATGAGAGGAAAAAAAAAGGAAAACAGAATGTGAGCGAAGTTA
24830753 TTG
66 TTG
24830756 TTTGATAAAATGGAGCAACGAACATGAGAGGAAAAAAATAAGGAAAACAGAATGTGAGCGAAGTT
1 TTTGATAAAATGGAGCAACGAACATGAGAGGAAAAAAA-AAGGAAAACAGAATGTGAGCGAAGTT
24830821 ATTG
65 ATTG
24830825 TTTGA
1 TTTGA
24830830 AAACTCCCTT
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
68 38 0.53
69 34 0.47
ACGTcount: A:0.46, C:0.07, G:0.26, T:0.20
Consensus pattern (68 bp):
TTTGATAAAATGGAGCAACGAACATGAGAGGAAAAAAAAAGGAAAACAGAATGTGAGCGAAGTTA
TTG
Found at i:24831264 original size:59 final size:59
Alignment explanation
Indices: 24831172--24831295 Score: 239
Period size: 59 Copynumber: 2.1 Consensus size: 59
24831162 TGTTTTTTAT
24831172 ATTAAATATGAAAAATTGAATACTATGGGACGTCATAGGAAAGTCAAATATATTAATCA
1 ATTAAATATGAAAAATTGAATACTATGGGACGTCATAGGAAAGTCAAATATATTAATCA
*
24831231 ATTAAATATGAAAAATTGAATACTATGGTACGTCATAGGAAAGTCAAATATATTAATCA
1 ATTAAATATGAAAAATTGAATACTATGGGACGTCATAGGAAAGTCAAATATATTAATCA
24831290 ATTAAA
1 ATTAAA
24831296 GCTGGTGTGT
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 64 1.00
ACGTcount: A:0.48, C:0.08, G:0.14, T:0.30
Consensus pattern (59 bp):
ATTAAATATGAAAAATTGAATACTATGGGACGTCATAGGAAAGTCAAATATATTAATCA
Found at i:24831658 original size:21 final size:22
Alignment explanation
Indices: 24831620--24831668 Score: 75
Period size: 21 Copynumber: 2.3 Consensus size: 22
24831610 TTATACACAT
24831620 TTCT-TTCAATTACAATTTCTA
1 TTCTATTCAATTACAATTTCTA
*
24831641 TTCTATTCAATTA-TATTTCTA
1 TTCTATTCAATTACAATTTCTA
24831662 TTCTATT
1 TTCTATT
24831669 ACAGTGAATC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 18 0.69
22 8 0.31
ACGTcount: A:0.27, C:0.16, G:0.00, T:0.57
Consensus pattern (22 bp):
TTCTATTCAATTACAATTTCTA
Found at i:24832212 original size:20 final size:21
Alignment explanation
Indices: 24832142--24832215 Score: 60
Period size: 20 Copynumber: 3.4 Consensus size: 21
24832132 GAGGTGGAGG
*
24832142 AATTTTTATTTTATTTAATATTA
1 AATTTTTAATTTA-TTAATA-TA
**
24832165 ATATGATTATATTTATTAATATA
1 A-ATTTTTA-ATTTATTAATATA
*
24832188 AATTTTTAATTT-TTAATATT
1 AATTTTTAATTTATTAATATA
*
24832208 TATTTTTA
1 AATTTTTA
24832216 TATATTTTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
20 14 0.33
21 4 0.10
22 5 0.12
23 4 0.10
24 11 0.26
25 4 0.10
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.62
Consensus pattern (21 bp):
AATTTTTAATTTATTAATATA
Found at i:24832239 original size:32 final size:30
Alignment explanation
Indices: 24832173--24832248 Score: 73
Period size: 31 Copynumber: 2.5 Consensus size: 30
24832163 TAATATGATT
** **
24832173 ATATTTATTAATATAAATTTTTAATTTTTA
1 ATATTTATTTTTATAAATTTTTAAAATTTA
*
24832203 ATATTTATTTTTATATATTTTTTAAAATTTA
1 ATATTTATTTTTATA-AATTTTTAAAATTTA
24832234 GATA-TTATTATTTAT
1 -ATATTTATT-TTTAT
24832249 TGTCAACAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
30 13 0.34
31 17 0.45
32 8 0.21
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (30 bp):
ATATTTATTTTTATAAATTTTTAAAATTTA
Found at i:24832320 original size:20 final size:20
Alignment explanation
Indices: 24832271--24832324 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
24832261 TCTTTTTATT
**
24832271 TTTATGTATTTTTAAATTTA
1 TTTATGTATTTTTAAAAATA
*
24832291 -TTATTATATTTTTAAAAATA
1 TTTA-TGTATTTTTAAAAATA
24832311 TTTATGTATTTTTA
1 TTTATGTATTTTTA
24832325 TACATTTCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.11
20 22 0.79
21 3 0.11
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (20 bp):
TTTATGTATTTTTAAAAATA
Found at i:24841887 original size:20 final size:20
Alignment explanation
Indices: 24841849--24841887 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
24841839 TTCCGTAAGT
* *
24841849 TAAATTATTATTTATTATAC
1 TAAATTATTATTAAATATAC
*
24841869 TAAATTTTTATTAAATATA
1 TAAATTATTATTAAATATA
24841888 ATAATTGATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (20 bp):
TAAATTATTATTAAATATAC
Found at i:24841900 original size:26 final size:25
Alignment explanation
Indices: 24841871--24841937 Score: 82
Period size: 25 Copynumber: 2.6 Consensus size: 25
24841861 TATTATACTA
*
24841871 AATTTTTATTAAATATAATAATTGAT
1 AATTTTTATTAAA-ATAATAATTGAC
24841897 AA-TTTTATCTAAAATAATAATTGAC
1 AATTTTTAT-TAAAATAATAATTGAC
*
24841922 AATTATTTTTTAAAAT
1 AATT-TTTATTAAAAT
24841938 TTAATGTGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
25 19 0.53
26 13 0.36
27 4 0.11
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (25 bp):
AATTTTTATTAAAATAATAATTGAC
Found at i:24853684 original size:309 final size:302
Alignment explanation
Indices: 24853126--24853739 Score: 1048
Period size: 309 Copynumber: 2.0 Consensus size: 302
24853116 ATCGGATTTT
*
24853126 TGGTCCCAAAACCACTATTTTTGACACCACTAGAAAACAGGTTGTTATAAGTACTCGAAGAACTT
1 TGGTCCCAAAACCACTATTTCTGACACCACTAGAAAACAGGTTGTTATAAGTACTCGAAGAACTT
*
24853191 TTGGGAGTTGTAGAAAAAGTTCAATTCTAGAGAAAATTGTAGAAAGACTTGTAAATAATCAATAG
66 TTGGGAGTTGTAGAAAAAGTTCAATTCTAAAGAAAATTGTAGAAAGACTTGTAAATAATCAATAG
* * *
24853256 TATAGGGGAATCCATCGTAGTGGGAGAGTTTCTAAGAAACTAAATTTCTTCATCTATGATGGTAG
131 CATAGGGGAATCCATCGTAGTGGGAGACTTTCTAAGAAACTAAATTTCTTCATCTATGATAGTAG
*
24853321 TAATTATAATACGAAAGTCAATCATGAGGATGATGATCCCCTCACTTACGAGGAGGTTATGAAAA
196 TAATTATAATACAAAAGTCAATCATGAGGATGATGATCCCCTCACTTACGAGGAGGTTATGAAAA
24853386 ACGTTGATTCCAAACTCTAGAAATAGGCCATGGATGCCGAAG
261 ACGTTGATTCCAAACTCTAGAAATAGGCCATGGATGCCGAAG
* * *
24853428 TGGTCCCAAAACCACTATTTCTGACACCGCTAGAAAACAGGTTGTTATAGGTACTCGAGGAACTT
1 TGGTCCCAAAACCACTATTTCTGACACCACTAGAAAACAGGTTGTTATAAGTACTCGAAGAACTT
24853493 TTGGGAGTTGTAGAACAATCACCAAGTTCAATTCTAAAGAAAATTGTAGAAAGACTTGTAAATAA
66 TTGGGAGTTGTAG---AA--A--AAGTTCAATTCTAAAGAAAATTGTAGAAAGACTTGTAAATAA
24853558 TCAATAGCATAGGGGAATCCATCGTAGTGGGAGACTTTCTAAGAAACTAAATTTCTTCATCTATG
124 TCAATAGCATAGGGGAATCCATCGTAGTGGGAGACTTTCTAAGAAACTAAATTTCTTCATCTATG
*
24853623 ATAGTAGTAATTATAATACAAAAGTCAATCATGAGGATGATGATCCCCTCACTTGCGAGGAGGTT
189 ATAGTAGTAATTATAATACAAAAGTCAATCATGAGGATGATGATCCCCTCACTTACGAGGAGGTT
* * *
24853688 ATGCAAAACGTTGATTCCAAACTCTAGAAATAGGCCATGTATGCCGATG
254 ATGAAAAACGTTGATTCCAAACTCTAGAAATAGGCCATGGATGCCGAAG
24853737 TGG
1 TGG
24853740 ACCGGTTGGG
Statistics
Matches: 292, Mismatches: 13, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
302 74 0.25
305 2 0.01
307 1 0.00
309 215 0.74
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.28
Consensus pattern (302 bp):
TGGTCCCAAAACCACTATTTCTGACACCACTAGAAAACAGGTTGTTATAAGTACTCGAAGAACTT
TTGGGAGTTGTAGAAAAAGTTCAATTCTAAAGAAAATTGTAGAAAGACTTGTAAATAATCAATAG
CATAGGGGAATCCATCGTAGTGGGAGACTTTCTAAGAAACTAAATTTCTTCATCTATGATAGTAG
TAATTATAATACAAAAGTCAATCATGAGGATGATGATCCCCTCACTTACGAGGAGGTTATGAAAA
ACGTTGATTCCAAACTCTAGAAATAGGCCATGGATGCCGAAG
Found at i:24855390 original size:63 final size:62
Alignment explanation
Indices: 24855304--24855499 Score: 210
Period size: 63 Copynumber: 3.2 Consensus size: 62
24855294 CCAAAAATAA
* * *
24855304 TATTATTTTAAT-AGATTTAATATTAAATTTAATTTAATATTTATC-T-TA-AT-AGTATTT
1 TATTAATTTAATAAGATTTAATATTAAATTTAATTTAATATTTATCTTGTAGATAAATATTC
** *
24855361 TATTAATATTAAAGTGATTATCTTAATATTAAATTTAATTCAATATTTATCTTGTAGATAAATAT
1 TATTAAT-TT-AA-T-AAGAT-TTAATATTAAATTTAATTTAATATTTATCTTGTAGATAAATAT
24855426 TC
61 TC
* * *
24855428 TATTAATTTAATAAGATTTAATATTAAATTTAATCTAATATTTAT-TT-T-GAAAAATATTA
1 TATTAATTTAATAAGATTTAATATTAAATTTAATTTAATATTTATCTTGTAGATAAATATTC
24855487 TATTAATTTAATA
1 TATTAATTTAATA
24855500 TTAAAGTGAT
Statistics
Matches: 117, Mismatches: 12, Indels: 18
0.80 0.08 0.12
Matches are distributed among these distances:
57 6 0.05
58 2 0.02
59 24 0.21
60 2 0.02
61 2 0.02
62 28 0.24
63 31 0.26
64 2 0.02
65 4 0.03
66 4 0.03
67 12 0.10
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (62 bp):
TATTAATTTAATAAGATTTAATATTAAATTTAATTTAATATTTATCTTGTAGATAAATATTC
Found at i:24857911 original size:2 final size:2
Alignment explanation
Indices: 24857906--24857931 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
24857896 TTATATAAAC
24857906 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
24857932 GTACTTAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24858738 original size:29 final size:29
Alignment explanation
Indices: 24858676--24858790 Score: 131
Period size: 29 Copynumber: 4.0 Consensus size: 29
24858666 AAAGCTAAAT
* * ** *
24858676 GATGGTTGTAACCATCCCTTTTTTTAATC
1 GATGGTCGAAACCATCCCTTTTCATATTC
*
24858705 AATGGTCGAAACCATCCCTTTTCATATTC
1 GATGGTCGAAACCATCCCTTTTCATATTC
** * *
24858734 GATGGTCGTCACTATCCCTTTTCATATTT
1 GATGGTCGAAACCATCCCTTTTCATATTC
*
24858763 GATGATCGAAACCATCCCTTTTCATATT
1 GATGGTCGAAACCATCCCTTTTCATATT
24858791 AAAGGGTTGT
Statistics
Matches: 71, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 71 1.00
ACGTcount: A:0.23, C:0.24, G:0.12, T:0.40
Consensus pattern (29 bp):
GATGGTCGAAACCATCCCTTTTCATATTC
Found at i:24873135 original size:9 final size:9
Alignment explanation
Indices: 24873121--24873160 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
24873111 AAGTTTAACT
24873121 CTTAATTAA
1 CTTAATTAA
24873130 CTTAATTAA
1 CTTAATTAA
24873139 C-TAA-TAA
1 CTTAATTAA
24873146 -TTAATTAA
1 CTTAATTAA
24873154 CATTAAT
1 C-TTAAT
24873161 CTTAATTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
7 6 0.22
8 6 0.22
9 10 0.37
10 5 0.19
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.42
Consensus pattern (9 bp):
CTTAATTAA
Found at i:24873140 original size:20 final size:21
Alignment explanation
Indices: 24873115--24873170 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 21
24873105 TATACTAAGT
24873115 TTAACTCTTAATTAACTT-A-A
1 TTAACTCTTAATTAA-TTAACA
**
24873135 TTAACTAATAATTAATTAACA
1 TTAACTCTTAATTAATTAACA
24873156 TTAA-TCTTAATTAAT
1 TTAACTCTTAATTAAT
24873171 CACTTTGGGG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
19 2 0.07
20 23 0.77
21 5 0.17
ACGTcount: A:0.45, C:0.11, G:0.00, T:0.45
Consensus pattern (21 bp):
TTAACTCTTAATTAATTAACA
Found at i:24877566 original size:18 final size:18
Alignment explanation
Indices: 24877525--24877566 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
24877515 CCTATATCCA
* *
24877525 CCTCTACCTCTACCTGTT
1 CCTCTTCCTCTACCTCTT
*
24877543 CCTCTTCCTCTGCCTCTT
1 CCTCTTCCTCTACCTCTT
24877561 CCTCTT
1 CCTCTT
24877567 GCACCAAAGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.05, C:0.48, G:0.05, T:0.43
Consensus pattern (18 bp):
CCTCTTCCTCTACCTCTT
Found at i:24888218 original size:16 final size:16
Alignment explanation
Indices: 24888197--24888227 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
24888187 TCCCTCCTTA
24888197 TATTAATGTATTTTTG
1 TATTAATGTATTTTTG
24888213 TATTAATGTATTTTT
1 TATTAATGTATTTTT
24888228 TTTAGTAAAA
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:0.26, C:0.00, G:0.10, T:0.65
Consensus pattern (16 bp):
TATTAATGTATTTTTG
Found at i:24888790 original size:3 final size:3
Alignment explanation
Indices: 24888784--24888815 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
24888774 TATTAACATA
24888784 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
24888816 GAACGGGGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:24890121 original size:3 final size:3
Alignment explanation
Indices: 24890094--24890164 Score: 92
Period size: 3 Copynumber: 23.0 Consensus size: 3
24890084 GTGCAATTTG
24890094 TAA TAA -AA TACA TAAA TAGA TAA TAA TAA TAGA TAA -AA TAA TAA TAA
1 TAA TAA TAA TA-A T-AA TA-A TAA TAA TAA TA-A TAA TAA TAA TAA TAA
24890141 TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
24890165 AGGAACAACA
Statistics
Matches: 62, Mismatches: 0, Indels: 12
0.84 0.00 0.16
Matches are distributed among these distances:
2 4 0.06
3 47 0.76
4 10 0.16
5 1 0.02
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:24891843 original size:51 final size:51
Alignment explanation
Indices: 24891766--24891863 Score: 126
Period size: 51 Copynumber: 1.9 Consensus size: 51
24891756 GATAAAATTA
* * *
24891766 GTAGCTTCAAGCTGCTCCACTGCAACTT-TAGGGAGATAAGATTTGTAACTT
1 GTAGCTTCAAGCCGCTCCACTGCAACTTCAAGGCA-ATAAGATTTGTAACTT
* * *
24891817 GTAGCTTCAATCCGTTCCACTTCAACTTCAAGGCAATAAGATTTGTA
1 GTAGCTTCAAGCCGCTCCACTGCAACTTCAAGGCAATAAGATTTGTA
24891864 GCTTTAATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
51 36 0.90
52 4 0.10
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (51 bp):
GTAGCTTCAAGCCGCTCCACTGCAACTTCAAGGCAATAAGATTTGTAACTT
Found at i:24891968 original size:44 final size:43
Alignment explanation
Indices: 24891832--24891988 Score: 151
Period size: 44 Copynumber: 3.7 Consensus size: 43
24891822 TTCAATCCGT
* * * *
24891832 TCCACTTCAACTTCAAGGCA-ATAAGATTTGTAGCTTTAATTTGC
1 TCCACTGCAACTTC-AGGGAGATAAGA-TTGTAACTTTAATATGC
* **
24891876 TCCACTGCAACTT-AGGGAGATGAA-ATT-TAACTTTAATCTTT
1 TCCACTGCAACTTCAGGGAGAT-AAGATTGTAACTTTAATATGC
* *
24891917 TCCACTGCTACTTCAGGGAGATAAGATTCGTAACTTCAATATGC
1 TCCACTGCAACTTCAGGGAGATAAGATT-GTAACTTTAATATGC
* *
24891961 TCAACTGCAACTTCAGAGAGATAAGATT
1 TCCACTGCAACTTCAGGGAGATAAGATT
24891989 AGTTTTCCAA
Statistics
Matches: 93, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
41 24 0.26
42 17 0.18
43 3 0.03
44 49 0.53
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (43 bp):
TCCACTGCAACTTCAGGGAGATAAGATTGTAACTTTAATATGC
Found at i:24892532 original size:45 final size:45
Alignment explanation
Indices: 24892303--24892607 Score: 213
Period size: 45 Copynumber: 6.7 Consensus size: 45
24892293 TTTAATCTAT
* * *
24892303 TCCACTGTAACTTCAGGGAAATAAGATTCGCTATCTTCAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTGC
* * * * * * *
24892348 TCCACTGCATCTTTAAGGAGATAAAATTTGTAACTTGTAGCTTTAATCTGT
1 TCCACTGCAACTTCAGGGAGATAAGATTTG---C---TATCTTCAATCTGC
* * *
24892399 TCCACTGCAACTTCAGGGAAATAAGATTCGCTATATTCAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTGC
* * * ** * * * **
24892444 TCCAATACAAATTTTTGGGAGATAAGACTT-ATAGCTTTGATCTGC
1 TCCACTGC-AACTTCAGGGAGATAAGATTTGCTATCTTCAATCTGC
* * *
24892489 TCTACTACAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTGC
* * *
24892534 TCCGCTGCAACTTCAGGGAGATAAAATTTG-TGA-CTTTAATCT-C
1 TCCACTGCAACTTCAGGGAGATAAGATTTGCT-ATCTTCAATCTGC
* * *
24892577 TTCCATTGCCATTTCAGGGAGATAAGATTTG
1 -TCCACTGCAACTTCAGGGAGATAAGATTTG
24892608 TCACGGTGAC
Statistics
Matches: 195, Mismatches: 55, Indels: 21
0.72 0.20 0.08
Matches are distributed among these distances:
43 1 0.01
44 50 0.26
45 92 0.47
46 15 0.08
48 2 0.01
51 35 0.18
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.34
Consensus pattern (45 bp):
TCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTGC
Found at i:24899293 original size:3 final size:3
Alignment explanation
Indices: 24899285--24899349 Score: 112
Period size: 3 Copynumber: 21.7 Consensus size: 3
24899275 TAACAATTTG
**
24899285 ATA ATA ATA ATA GCA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
24899333 ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA AT
24899350 GGGGGTGACA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:24899427 original size:4 final size:4
Alignment explanation
Indices: 24899418--24899454 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
24899408 AAGGACAAGG
* *
24899418 AAAT AAAT AAAT AAAT AAAT ACAT AAAT AATT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
24899455 TAGAGGAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (4 bp):
AAAT
Found at i:24899569 original size:24 final size:25
Alignment explanation
Indices: 24899532--24899579 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
24899522 GTGCAATTTG
24899532 TAATAAATACAT-AAATAGATAATAA
1 TAATAAATACATAAAATA-ATAATAA
*
24899557 TAAT-AATAGATAAAATAATAATA
1 TAATAAATACATAAAATAATAATA
24899580 GTAAGAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (25 bp):
TAATAAATACATAAAATAATAATAA
Found at i:24899573 original size:15 final size:16
Alignment explanation
Indices: 24899545--24899580 Score: 65
Period size: 15 Copynumber: 2.3 Consensus size: 16
24899535 TAAATACATA
24899545 AATAGATAATAATAAT
1 AATAGATAATAATAAT
24899561 AATAGATAA-AATAAT
1 AATAGATAATAATAAT
24899576 AATAG
1 AATAG
24899581 TAAGAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (16 bp):
AATAGATAATAATAAT
Found at i:24899652 original size:4 final size:4
Alignment explanation
Indices: 24899603--24899658 Score: 51
Period size: 4 Copynumber: 14.2 Consensus size: 4
24899593 AACAACACAA
* * * * * *
24899603 AAAT AAA- AAAG AAAT AAAT AGAT AAAT GAGT AAAT ATAT GAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
24899650 AAAT AAAT A
1 AAAT AAAT A
24899659 CAAAGGAAAA
Statistics
Matches: 40, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
3 3 0.08
4 37 0.93
ACGTcount: A:0.68, C:0.00, G:0.09, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:24906401 original size:23 final size:21
Alignment explanation
Indices: 24906349--24906402 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 21
24906339 AGCATGATTT
24906349 TAAAAAATACTCATATTTATA
1 TAAAAAATACTCATATTTATA
**
24906370 TAATTAAAATGTTCATAATTTACTA
1 TAA--AAAATACTCAT-ATTTA-TA
24906395 TAAAAAAT
1 TAAAAAAT
24906403 TTATTATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
21 3 0.11
23 14 0.52
24 5 0.19
25 5 0.19
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.39
Consensus pattern (21 bp):
TAAAAAATACTCATATTTATA
Found at i:24906555 original size:33 final size:33
Alignment explanation
Indices: 24906522--24906582 Score: 92
Period size: 30 Copynumber: 1.9 Consensus size: 33
24906512 GTAAAATTTA
24906522 TTATTAAAAT--TAAATTAAA-TATTAAATAAT
1 TTATTAAAATAATAAATTAAATTATTAAATAAT
*
24906552 TTATTAAAATAATAGATTAAATTATTAAATA
1 TTATTAAAATAATAAATTAAATTATTAAATA
24906583 TAAATAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 10 0.37
32 8 0.30
33 9 0.33
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (33 bp):
TTATTAAAATAATAAATTAAATTATTAAATAAT
Found at i:24906585 original size:22 final size:21
Alignment explanation
Indices: 24906552--24906595 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 21
24906542 ATTAAATAAT
24906552 TTATTAAAAT-AATAGATTAAA
1 TTATTAAAATAAATA-ATTAAA
24906573 TTATTAAATATAAATAATTAAA
1 TTATTAAA-ATAAATAATTAAA
24906595 T
1 T
24906596 ATGTATGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 8 0.38
22 9 0.43
23 4 0.19
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (21 bp):
TTATTAAAATAAATAATTAAA
Found at i:24909967 original size:12 final size:12
Alignment explanation
Indices: 24909939--24910018 Score: 53
Period size: 11 Copynumber: 6.8 Consensus size: 12
24909929 TTCTTAAACG
24909939 TTTTT-CTTTTC
1 TTTTTCCTTTTC
24909950 TCTTTTCCTTTTC
1 T-TTTTCCTTTTC
*
24909963 TTTTTCC-TTCC
1 TTTTTCCTTTTC
*
24909974 TTTTTCTTCTTTTG
1 TTTTTC--CTTTTC
*
24909988 TTCTT-CTTTTC
1 TTTTTCCTTTTC
24909999 --TTTCCTCTTTC
1 TTTTTCCT-TTTC
*
24910010 ATTTTCCTT
1 TTTTTCCTT
24910019 CTTTTTGCTT
Statistics
Matches: 54, Mismatches: 6, Indels: 17
0.70 0.08 0.22
Matches are distributed among these distances:
9 2 0.04
10 2 0.04
11 19 0.35
12 11 0.20
13 14 0.26
14 6 0.11
ACGTcount: A:0.01, C:0.26, G:0.01, T:0.71
Consensus pattern (12 bp):
TTTTTCCTTTTC
Found at i:24914174 original size:17 final size:17
Alignment explanation
Indices: 24914154--24914216 Score: 54
Period size: 17 Copynumber: 3.4 Consensus size: 17
24914144 TTAAGCATGT
24914154 ATCACATTACACATATA
1 ATCACATTACACATATA
*
24914171 ATCACATAACATTCAAGTATA
1 ATCACATTACA--C-A-TATA
* *
24914192 TATCACAATACTCATATA
1 -ATCACATTACACATATA
24914210 ATCACAT
1 ATCACAT
24914217 AATGTTTAGG
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
17 16 0.44
18 4 0.11
19 2 0.06
20 2 0.06
21 4 0.11
22 8 0.22
ACGTcount: A:0.46, C:0.22, G:0.02, T:0.30
Consensus pattern (17 bp):
ATCACATTACACATATA
Found at i:24914196 original size:39 final size:39
Alignment explanation
Indices: 24914146--24914322 Score: 237
Period size: 39 Copynumber: 4.5 Consensus size: 39
24914136 ATTCACTTTT
* * *
24914146 AAGCATGTATCACATTACACATATAATCACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* ** *
24914185 AAGTATATATCACAATACTCATATAATCACATAATGTTT
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* * *
24914224 AGGCATATATCACAATACTCATATAATCACATAAGATTT
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* *
24914263 AATCATATATCACAATATTCATATAATCACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
*
24914302 AAGCATATATCAAAATACTCA
1 AAGCATATATCACAATACTCA
24914323 AAAACATGTT
Statistics
Matches: 119, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 119 1.00
ACGTcount: A:0.45, C:0.19, G:0.05, T:0.31
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATATAATCACATAACATTC
Found at i:24915523 original size:7 final size:7
Alignment explanation
Indices: 24915511--24915685 Score: 224
Period size: 7 Copynumber: 24.3 Consensus size: 7
24915501 TACTCAAAAT
24915511 CCTAAAC
1 CCTAAAC
24915518 CCTAAAC
1 CCTAAAC
24915525 CCTAAAC
1 CCTAAAC
24915532 CCTAAAC
1 CCTAAAC
24915539 CCTAAAAC
1 CCT-AAAC
*
24915547 CATAAAC
1 CCTAAAC
24915554 CCTAAAC
1 CCTAAAC
*
24915561 ACTAAAAC
1 CCT-AAAC
24915569 CCTAAAAC
1 CCT-AAAC
*
24915577 TCTAAAC
1 CCTAAAC
24915584 CCTAAAC
1 CCTAAAC
24915591 CCTAAAC
1 CCTAAAC
24915598 CCTAAAC
1 CCTAAAC
* *
24915605 CTTAAAT
1 CCTAAAC
24915612 CCTAAAAC
1 CCT-AAAC
*
24915620 CATAAAC
1 CCTAAAC
24915627 CCTAAAAC
1 CCT-AAAC
*
24915635 CATAAAC
1 CCTAAAC
24915642 CCTAAAC
1 CCTAAAC
24915649 CCTAAAC
1 CCTAAAC
24915656 CCTAAAC
1 CCTAAAC
24915663 CCTAAAC
1 CCTAAAC
**
24915670 TGTAAAC
1 CCTAAAC
24915677 CCTAAAC
1 CCTAAAC
24915684 CC
1 CC
24915686 AAGAATTTGA
Statistics
Matches: 146, Mismatches: 18, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
7 116 0.79
8 30 0.21
ACGTcount: A:0.46, C:0.37, G:0.01, T:0.16
Consensus pattern (7 bp):
CCTAAAC
Found at i:24915552 original size:15 final size:15
Alignment explanation
Indices: 24915514--24915661 Score: 173
Period size: 15 Copynumber: 10.1 Consensus size: 15
24915504 TCAAAATCCT
*
24915514 AAACCCTAAACCCT-
1 AAACCATAAACCCTA
*
24915528 AAACCCTAAACCCTA
1 AAACCATAAACCCTA
24915543 AAACCATAAACCCTA
1 AAACCATAAACCCTA
*
24915558 AACACTA-AAACCCTA
1 AA-ACCATAAACCCTA
24915573 AAACTC-TAAACCCT-
1 AAAC-CATAAACCCTA
*
24915587 AAACCCTAAACCCT-
1 AAACCATAAACCCTA
* *
24915601 AAACCTTAAATCCTA
1 AAACCATAAACCCTA
24915616 AAACCATAAACCCTA
1 AAACCATAAACCCTA
24915631 AAACCATAAACCCT-
1 AAACCATAAACCCTA
*
24915645 AAACCCTAAACCCTA
1 AAACCATAAACCCTA
24915660 AA
1 AA
24915662 CCCTAAACTG
Statistics
Matches: 119, Mismatches: 8, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
13 1 0.01
14 53 0.45
15 62 0.52
16 3 0.03
ACGTcount: A:0.49, C:0.36, G:0.00, T:0.16
Consensus pattern (15 bp):
AAACCATAAACCCTA
Found at i:24917960 original size:15 final size:15
Alignment explanation
Indices: 24917942--24917971 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
24917932 AACCCTAATC
*
24917942 CTATTAGACACATCA
1 CTATCAGACACATCA
24917957 CTATCAGACACATCA
1 CTATCAGACACATCA
24917972 AAATTAGATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.30, G:0.07, T:0.23
Consensus pattern (15 bp):
CTATCAGACACATCA
Found at i:24918084 original size:30 final size:30
Alignment explanation
Indices: 24918050--24918108 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
24918040 TCAATAAAGG
24918050 TAGGCAA-CAACTAAACAATTTAATACAACA
1 TAGGCAATCAAC-AAACAATTTAATACAACA
* * *
24918080 TAGGCAATGAGCGAACAATTTAATACAAC
1 TAGGCAATCAACAAACAATTTAATACAAC
24918109 GTGAAAAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 23 0.92
31 2 0.08
ACGTcount: A:0.49, C:0.19, G:0.12, T:0.20
Consensus pattern (30 bp):
TAGGCAATCAACAAACAATTTAATACAACA
Found at i:24918686 original size:16 final size:16
Alignment explanation
Indices: 24918665--24918706 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
24918655 TTTCAAATTT
*
24918665 TAAATCTAAACAACCC
1 TAAATCAAAACAACCC
*
24918681 TAAATCAAAATAACCC
1 TAAATCAAAACAACCC
24918697 TAAATACAAA
1 TAAAT-CAAA
24918707 GAAGCTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 19 0.83
17 4 0.17
ACGTcount: A:0.57, C:0.24, G:0.00, T:0.19
Consensus pattern (16 bp):
TAAATCAAAACAACCC
Found at i:24923667 original size:42 final size:42
Alignment explanation
Indices: 24923602--24923785 Score: 235
Period size: 42 Copynumber: 4.4 Consensus size: 42
24923592 TTTTAAAAAT
** **
24923602 AAACGCCGCTAAAGGTCGTGACCTTTAGCGACGCTTTCCCAA
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGACGCTTTCCCAA
*
24923644 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTCCCAA
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGACGCTTTCCCAA
* * * *
24923686 AGACGCCGCTGAAGAATAAGACCTTTAGCGACGCTTTTCCAA
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGACGCTTTCCCAA
* **
24923728 AAACGTCGCTAAAGAACAAGACCTTTAGC-AGCGCTTTTTTCAA
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGA-CGC-TTTCCCAA
24923771 AAACGCCGCTAAAGA
1 AAACGCCGCTAAAGA
24923786 TCATGGAAAA
Statistics
Matches: 124, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
41 1 0.01
42 102 0.82
43 21 0.17
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.20
Consensus pattern (42 bp):
AAACGCCGCTAAAGAACAAGACCTTTAGCGACGCTTTCCCAA
Found at i:24924712 original size:23 final size:23
Alignment explanation
Indices: 24924649--24924706 Score: 82
Period size: 23 Copynumber: 2.5 Consensus size: 23
24924639 AATGGAAAGT
*
24924649 AGCACTTTAACACTTCAAGTTAC
1 AGCACTTTAACACTTCAACTTAC
*
24924672 AGCA-TTTAAACACTTCAACTTGC
1 AGCACTTT-AACACTTCAACTTAC
24924695 AGCACTTTAACA
1 AGCACTTTAACA
24924707 TATCAATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 3 0.10
23 25 0.81
24 3 0.10
ACGTcount: A:0.36, C:0.26, G:0.09, T:0.29
Consensus pattern (23 bp):
AGCACTTTAACACTTCAACTTAC
Found at i:24926741 original size:10 final size:10
Alignment explanation
Indices: 24926726--24926777 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
24926716 AAAATTTAAA
24926726 TTTAAAATTT
1 TTTAAAATTT
*
24926736 TTTAAAA-AT
1 TTTAAAATTT
* *
24926745 TTTGAAATAT
1 TTTAAAATTT
24926755 TTTAAAATTCAT
1 TTTAAAATT--T
24926767 TTTAAAATTT
1 TTTAAAATTT
24926777 T
1 T
24926778 GAAGCATGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
9 7 0.20
10 18 0.51
12 10 0.29
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (10 bp):
TTTAAAATTT
Found at i:24927058 original size:22 final size:22
Alignment explanation
Indices: 24927031--24927122 Score: 80
Period size: 22 Copynumber: 4.2 Consensus size: 22
24927021 AACCCGACCT
24927031 TTAAATCCCTAAATCCTAACCC
1 TTAAATCCCTAAATCCTAACCC
* *
24927053 TTAAATCCCTAACTCTTAACCC
1 TTAAATCCCTAAATCCTAACCC
* * * *
24927075 CT-AACCCCTAACTACTAACCC
1 TTAAATCCCTAAATCCTAACCC
* * *
24927096 CTAAA-CCTTTAAATCCCAACCC
1 TTAAATCC-CTAAATCCTAACCC
24927118 TTAAA
1 TTAAA
24927123 CCATAATCCC
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
21 20 0.35
22 37 0.65
ACGTcount: A:0.36, C:0.38, G:0.00, T:0.26
Consensus pattern (22 bp):
TTAAATCCCTAAATCCTAACCC
Found at i:24927059 original size:14 final size:14
Alignment explanation
Indices: 24927037--24927100 Score: 56
Period size: 14 Copynumber: 4.5 Consensus size: 14
24927027 ACCTTTAAAT
24927037 CCCTAAATCCTAAC
1 CCCTAAATCCTAAC
*
24927051 CCTTAAATCCCTAAC
1 CCCTAAAT-CCTAAC
* * **
24927066 TCTTAACCCCTAAC
1 CCCTAAATCCTAAC
* *
24927080 CCCTAACTACTAAC
1 CCCTAAATCCTAAC
24927094 CCCTAAA
1 CCCTAAA
24927101 CCTTTAAATC
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
14 29 0.73
15 11 0.28
ACGTcount: A:0.34, C:0.42, G:0.00, T:0.23
Consensus pattern (14 bp):
CCCTAAATCCTAAC
Found at i:24927085 original size:21 final size:21
Alignment explanation
Indices: 24927059--24927099 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
24927049 ACCCTTAAAT
24927059 CCCTAACT-CTTAACCCCTAAC
1 CCCTAACTAC-TAACCCCTAAC
24927080 CCCTAACTACTAACCCCTAA
1 CCCTAACTACTAACCCCTAA
24927100 ACCTTTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.32, C:0.46, G:0.00, T:0.22
Consensus pattern (21 bp):
CCCTAACTACTAACCCCTAAC
Found at i:24930043 original size:73 final size:73
Alignment explanation
Indices: 24929953--24930116 Score: 222
Period size: 73 Copynumber: 2.2 Consensus size: 73
24929943 CTGAGCATTA
* * ***
24929953 GCGGCGCTTTCCTAAAAACGCCGCTAAATCCCCGAAAGCTCATAAAACGGTGTCGTTTTGGCTTA
1 GCGGCGCTTTCCTAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACCACGTCGTTTTGGCTTA
*
24930018 GGTTTTTT
66 GGTTCTTT
*
24930026 GCGGCGC-TTCCTCAAAAACGTCGCTAAATCCCCCAAAGCTCACAAAACCACGTCGTTTTGGCTT
1 GCGGCGCTTTCCT-AAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACCACGTCGTTTTGGCTT
24930090 AGGTTCTTT
65 AGGTTCTTT
* * *
24930099 GCGACTCTTTCTTAAAAA
1 GCGGCGCTTTCCTAAAAA
24930117 TGACGTTAAA
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
72 5 0.06
73 70 0.89
74 4 0.05
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (73 bp):
GCGGCGCTTTCCTAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACCACGTCGTTTTGGCTTA
GGTTCTTT
Found at i:24930043 original size:114 final size:114
Alignment explanation
Indices: 24929843--24930053 Score: 350
Period size: 114 Copynumber: 1.9 Consensus size: 114
24929833 NNNNNNACGA
* * * *
24929843 CGCTTTCCTAAAAATGCTGCTAAATCCCCGAAAGGTCACAAAACGGCGTTGTTTTGGCTTAGGTT
1 CGCTTTCCTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTTTGGCTTAGGTT
*
24929908 TTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGG
66 TTTTGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGG
* *
24929957 CGCTTTCCTAAAAACGCCGCTAAATCCCCGAAAGCTCATAAAACGGTGTCGTTTTGGCTTAGGTT
1 CGCTTTCCTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTTTGGCTTAGGTT
*
24930022 TTTTGCGGCGCTTCCTCAAAAACGTCGCTAAA
66 TTTTGCGGCGCTTCCTCAAAAACGCCGCTAAA
24930054 TCCCCCAAAG
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
114 89 1.00
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.27
Consensus pattern (114 bp):
CGCTTTCCTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTTTGGCTTAGGTT
TTTTGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGG
Found at i:24930259 original size:72 final size:72
Alignment explanation
Indices: 24930140--24930289 Score: 201
Period size: 72 Copynumber: 2.1 Consensus size: 72
24930130 CTGAGCATTA
** *
24930140 GCGGCGCTTTCTTAAAAATGCCAATAAATCCCCAAAATCTCACAAAACGACATCGTTGAGCTTAG
1 GCGGCGCTTTCACAAAAATGCCAATAAATCCCCAAAAGCTCACAAAACGACATCGTTGAGCTTAG
24930205 GTTTTTT
66 GTTTTTT
** * * * * * *
24930212 GCGGCGCTTTCACAAAAATGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAT
1 GCGGCGCTTTCACAAAAATGCCAATAAATCCCCAAAAGCTCACAAAACGACATCGTTGAGCTTAG
24930277 GTTTTTT
66 GTTTTTT
24930284 GCGGCG
1 GCGGCG
24930290 GTTTTTAGAA
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
72 67 1.00
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (72 bp):
GCGGCGCTTTCACAAAAATGCCAATAAATCCCCAAAAGCTCACAAAACGACATCGTTGAGCTTAG
GTTTTTT
Found at i:24934339 original size:48 final size:48
Alignment explanation
Indices: 24934283--24934381 Score: 189
Period size: 48 Copynumber: 2.1 Consensus size: 48
24934273 GTTATAATTG
24934283 TAATATTGTGATAAGAAAGACAAAAGGAGAACAAAATGATAGTTTTAT
1 TAATATTGTGATAAGAAAGACAAAAGGAGAACAAAATGATAGTTTTAT
*
24934331 TAATATTGTGATAAGAAAGACAAAGGGAGAACAAAATGATAGTTTTAT
1 TAATATTGTGATAAGAAAGACAAAAGGAGAACAAAATGATAGTTTTAT
24934379 TAA
1 TAA
24934382 AAAGATTGAA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.49, C:0.04, G:0.19, T:0.27
Consensus pattern (48 bp):
TAATATTGTGATAAGAAAGACAAAAGGAGAACAAAATGATAGTTTTAT
Found at i:24935645 original size:26 final size:26
Alignment explanation
Indices: 24935600--24935672 Score: 96
Period size: 26 Copynumber: 2.8 Consensus size: 26
24935590 CTCTCACCCC
* *
24935600 AATTTTAACCCT-ATAAAATTTTGAT
1 AATTTTACCCCTGGTAAAATTTTGAT
24935625 AATTTTACCTCC-GGTAAAATTTTGAT
1 AATTTTACC-CCTGGTAAAATTTTGAT
*
24935651 GATTTTACCCCTGGTAAAATTT
1 AATTTTACCCCTGGTAAAATTT
24935673 CGAGAAAATT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
25 10 0.24
26 32 0.76
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (26 bp):
AATTTTACCCCTGGTAAAATTTTGAT
Found at i:24935827 original size:6 final size:6
Alignment explanation
Indices: 24935816--24935842 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
24935806 GGATTGCAAG
24935816 TTTTAA TTTTAA TTTTAA TTTTAA TTT
1 TTTTAA TTTTAA TTTTAA TTTTAA TTT
24935843 CCATTTTTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (6 bp):
TTTTAA
Found at i:24938420 original size:28 final size:27
Alignment explanation
Indices: 24938380--24938456 Score: 102
Period size: 26 Copynumber: 2.9 Consensus size: 27
24938370 GCATTAGAGA
* *
24938380 GTCCTGGTAGACTTCCACAGTTAAGATC
1 GTCCTGATGGACTTCCACA-TTAAGATC
24938408 GTCCTGATGGACTTCCACATT-AGATC
1 GTCCTGATGGACTTCCACATTAAGATC
* *
24938434 GTCGTGACGGACTTCCACATTAA
1 GTCCTGATGGACTTCCACATTAA
24938457 TGGTAATGCC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 24 0.55
27 3 0.07
28 17 0.39
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.29
Consensus pattern (27 bp):
GTCCTGATGGACTTCCACATTAAGATC
Found at i:24943149 original size:15 final size:14
Alignment explanation
Indices: 24943125--24943164 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
24943115 ATGAATTAGG
24943125 TTAATTAATTAAAC
1 TTAATTAATTAAAC
24943139 TTAAGTTAATTAAAC
1 TTAA-TTAATTAAAC
**
24943154 CAAATTAATTA
1 TTAATTAATTA
24943165 TGAATTAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (14 bp):
TTAATTAATTAAAC
Found at i:24945569 original size:17 final size:17
Alignment explanation
Indices: 24945528--24945571 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
24945518 TTTATATCTA
*
24945528 TATACATTTTCTATTTT
1 TATATATTTTCTATTTT
*
24945545 TATTTATTTTCTTATTTT
1 TATATATTTTC-TATTTT
24945563 T-TATATTTT
1 TATATATTTT
24945572 TTCAAACACA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 16 0.70
18 7 0.30
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (17 bp):
TATATATTTTCTATTTT
Found at i:24947517 original size:28 final size:28
Alignment explanation
Indices: 24947433--24947527 Score: 111
Period size: 28 Copynumber: 3.4 Consensus size: 28
24947423 TATTCAGTAG
*
24947433 CAGT-ACAGTGTGGGCCTTAGCCTAATA
1 CAGTAACAGTGTGGGCCTTAGCCCAATA
* * *
24947460 TAGTAGCAGTGTGTGGGCCTTAACCCAATA
1 CAGTAACA--GTGTGGGCCTTAGCCCAATA
*
24947490 CAGTAACAGTGTGGGCCTTAGCCGAATA
1 CAGTAACAGTGTGGGCCTTAGCCCAATA
*
24947518 CAATAACAGT
1 CAGTAACAGT
24947528 ACAATGTAGT
Statistics
Matches: 56, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
27 3 0.05
28 29 0.52
30 24 0.43
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.24
Consensus pattern (28 bp):
CAGTAACAGTGTGGGCCTTAGCCCAATA
Found at i:24948089 original size:81 final size:80
Alignment explanation
Indices: 24947890--24948158 Score: 330
Period size: 81 Copynumber: 3.3 Consensus size: 80
24947880 AGGGGTATAA
* * * * *
24947890 CAGTTATTTTACGCTTCGGGGGTATTTC-AGTTATTTTACCCTTCGAGGGTATTTCAGACATTTT
1 CAGTCATTTTAC-CTTCGGGGGTATTTCGA-TCATTTTACCTTTCGAGGGTATTTCGGTCATTTT
24947954 ACCCTTCGAGGGTATTT
64 ACCCTTCGAGGGTATTT
* * *
24947971 -GGTCATTTTACCTTTTGGGGGTATTTCGGTCATTTTACCTTTCGAGGGTATTTCGGTCATTTTA
1 CAGTCATTTTACC-TTCGGGGGTATTTCGATCATTTTACCTTTCGAGGGTATTTCGGTCATTTTA
* * *
24948035 CCTTTTGAGGGAATTT
65 CCCTTCGAGGGTATTT
*
24948051 CAGTCATTTTACCTTTCGGGGGTATTTCGATCATTTTACCCTTT-G-GGAGTATTTCGATCATTT
1 CAGTCATTTTACC-TTCGGGGGTATTTCGATCATTTTA-CCTTTCGAGG-GTATTTCGGTCATTT
24948114 TACCCTTCGAGGGTATTT
63 TACCCTTCGAGGGTATTT
*
24948132 CAGTCATTTTAACCTTCGAGGGTATTT
1 CAGTCATTTT-ACCTTCGGGGGTATTT
24948159 TGGTCACTCT
Statistics
Matches: 163, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
79 1 0.01
80 68 0.42
81 86 0.53
82 8 0.05
ACGTcount: A:0.17, C:0.18, G:0.21, T:0.43
Consensus pattern (80 bp):
CAGTCATTTTACCTTCGGGGGTATTTCGATCATTTTACCTTTCGAGGGTATTTCGGTCATTTTAC
CCTTCGAGGGTATTT
Found at i:24948164 original size:27 final size:26
Alignment explanation
Indices: 24947895--24948164 Score: 283
Period size: 27 Copynumber: 10.0 Consensus size: 26
24947885 TATAACAGTT
* * *
24947895 ATTTTACGCTTCGGGGGTATTTCAGTT
1 ATTTTAC-CTTCGAGGGTATTTCGGTC
* *
24947922 ATTTTACCCTTCGAGGGTATTTCAGAC
1 ATTTTA-CCTTCGAGGGTATTTCGGTC
24947949 ATTTTACCCTTCGAGGGTATTT-GGTC
1 ATTTTA-CCTTCGAGGGTATTTCGGTC
* *
24947975 ATTTTACCTTTTGGGGGTATTTCGGTC
1 ATTTTACC-TTCGAGGGTATTTCGGTC
24948002 ATTTTACCTTTCGAGGGTATTTCGGTC
1 ATTTTACC-TTCGAGGGTATTTCGGTC
* * *
24948029 ATTTTACCTTTTGAGGGAATTTCAGTC
1 ATTTTACC-TTCGAGGGTATTTCGGTC
* *
24948056 ATTTTACCTTTCGGGGGTATTTCGATC
1 ATTTTACC-TTCGAGGGTATTTCGGTC
* *
24948083 ATTTTACCCTTTG-GGAGTATTTCGATC
1 ATTTTA-CCTTCGAGG-GTATTTCGGTC
*
24948110 ATTTTACCCTTCGAGGGTATTTCAGTC
1 ATTTTA-CCTTCGAGGGTATTTCGGTC
*
24948137 ATTTTAACCTTCGAGGGTATTTTGGTC
1 ATTTT-ACCTTCGAGGGTATTTCGGTC
24948164 A
1 A
24948165 CTCTTCGGGG
Statistics
Matches: 213, Mismatches: 23, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
25 2 0.01
26 21 0.10
27 184 0.86
28 6 0.03
ACGTcount: A:0.17, C:0.18, G:0.21, T:0.43
Consensus pattern (26 bp):
ATTTTACCTTCGAGGGTATTTCGGTC
Found at i:24948186 original size:22 final size:22
Alignment explanation
Indices: 24948118--24948186 Score: 57
Period size: 27 Copynumber: 2.9 Consensus size: 22
24948108 TCATTTTACC
*
24948118 CTTCGAGGGTATTTCAGTCATTTT
1 CTTCGAGGGTATTTCAGTCA--CT
**
24948142 AACCTTCGAGGGTATTTTGGTCACT
1 ---CTTCGAGGGTATTTCAGTCACT
*
24948167 CTTCGGGGGTATTTCAGTCA
1 CTTCGAGGGTATTTCAGTCA
24948187 TTTTAGACCC
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
22 17 0.47
25 1 0.03
27 18 0.50
ACGTcount: A:0.17, C:0.19, G:0.25, T:0.39
Consensus pattern (22 bp):
CTTCGAGGGTATTTCAGTCACT
Found at i:24948961 original size:287 final size:288
Alignment explanation
Indices: 24948412--24948992 Score: 1101
Period size: 287 Copynumber: 2.0 Consensus size: 288
24948402 GCCCACCTAG
*
24948412 AATCAAACATGGCCCAAAGTTAGTTCATTATGGCTAGAGTAAAATGCCCTCTTAATAGCACTAAA
1 AATCAAACATGGCCCAAAGTTAGTTCATTACGGCTAGAGTAAAATGCCCTCTTAATAGCACTAAA
* *
24948477 ACCAAACACCTTCCTTACCTTGATTGATAGAGGGTGGCTTAACTCCTCCAAAACCCCAACCAGAA
66 ACCAAACACCCTCCTTACCTTGATTGATAGAGGGTGGCTTAACTCCTCCAAAACCCCAACCAAAA
*
24948542 ATGATCACCCACTTATCGATTACCTACACCACAATGCAAATCTTCATAAACTAAATTAGGCCATC
131 ATGACCACCCACTTATCGATTACCTACACCACAATGCAAATCTTCATAAACTAAATTAGGCCATC
*
24948607 ACAGTGGCCAAGAGGGGTATTCAATTTTAATGAAAAAGAAAGGAAGAGAATCGATTTTAAAGAAA
196 ACAGTGGCCAAGAGGGGTATTCAATTTTAATGAAAAAGAAAGGAAGAGAACCGATTTTAAAGAAA
24948672 AAGTAAAGAGTATTCATAGTTTATCGGT
261 AAGTAAAGAGTATTCATAGTTTATCGGT
*
24948700 AATCAAACATGGCCCAAAGTTAGTTCATTACGGCTAGAGTAAAATGCCCTCTTAATAGCACTTAA
1 AATCAAACATGGCCCAAAGTTAGTTCATTACGGCTAGAGTAAAATGCCCTCTTAATAGCACTAAA
24948765 ACCAAACACCCTCCTTACCTTGATTGATAGAGGGTGGCTTAACTCCTCCAAAACCCCAACCAAAA
66 ACCAAACACCCTCCTTACCTTGATTGATAGAGGGTGGCTTAACTCCTCCAAAACCCCAACCAAAA
24948830 ATGACCA-CCACTTATCGATTACCTACACCACAATGCAAATCTTCATAAACTAAATTAGGCCATC
131 ATGACCACCCACTTATCGATTACCTACACCACAATGCAAATCTTCATAAACTAAATTAGGCCATC
24948894 ACAGTGGCCAAGAGGGGTATTCAATTTTAATGAAAAAGAAAGGAAGAGAACCGATTTTAAAGAAA
196 ACAGTGGCCAAGAGGGGTATTCAATTTTAATGAAAAAGAAAGGAAGAGAACCGATTTTAAAGAAA
24948959 AAGTAAAGAGTATTCATAGTTTATCGGT
261 AAGTAAAGAGTATTCATAGTTTATCGGT
24948987 AATCAA
1 AATCAA
24948993 CAATACTTAC
Statistics
Matches: 287, Mismatches: 6, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
287 155 0.54
288 132 0.46
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.24
Consensus pattern (288 bp):
AATCAAACATGGCCCAAAGTTAGTTCATTACGGCTAGAGTAAAATGCCCTCTTAATAGCACTAAA
ACCAAACACCCTCCTTACCTTGATTGATAGAGGGTGGCTTAACTCCTCCAAAACCCCAACCAAAA
ATGACCACCCACTTATCGATTACCTACACCACAATGCAAATCTTCATAAACTAAATTAGGCCATC
ACAGTGGCCAAGAGGGGTATTCAATTTTAATGAAAAAGAAAGGAAGAGAACCGATTTTAAAGAAA
AAGTAAAGAGTATTCATAGTTTATCGGT
Found at i:24950218 original size:16 final size:16
Alignment explanation
Indices: 24950181--24950220 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
24950171 TTAATAAAAT
* *
24950181 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
24950197 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
24950213 TAAAATTA
1 TAAAATTA
24950221 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:24950305 original size:9 final size:9
Alignment explanation
Indices: 24950293--24950329 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
24950283 TTTATCAAAT
24950293 TATTAATTG
1 TATTAATTG
24950302 TATTAATTG
1 TATTAATTG
24950311 TATTAATTG
1 TATTAATTG
*
24950320 AATTAATTG
1 TATTAATTG
24950329 T
1 T
24950330 TGTAACAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (9 bp):
TATTAATTG
Found at i:24953477 original size:27 final size:27
Alignment explanation
Indices: 24953447--24953520 Score: 96
Period size: 27 Copynumber: 2.7 Consensus size: 27
24953437 TAACGATAAT
*
24953447 TTTACCCTTCGAGGGTATTTTGGTAAG
1 TTTACCCTTTGAGGGTATTTTGGTAAG
* *
24953474 TTTA-CCTTTTAGGGGTATTTTGGTAAT
1 TTTACCCTTTGA-GGGTATTTTGGTAAG
*
24953501 TTTACTCTTTGAGGGTATTT
1 TTTACCCTTTGAGGGTATTT
24953521 CAGTCATTCT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 5 0.12
27 30 0.75
28 5 0.12
ACGTcount: A:0.18, C:0.11, G:0.23, T:0.49
Consensus pattern (27 bp):
TTTACCCTTTGAGGGTATTTTGGTAAG
Found at i:24953557 original size:54 final size:54
Alignment explanation
Indices: 24953487--24953617 Score: 172
Period size: 54 Copynumber: 2.4 Consensus size: 54
24953477 ACCTTTTAGG
* * * * *
24953487 GGTATTTTGGTAATTTTACTCTTTGAGGGTATTTCAGTCATTCTACCCTATGGC
1 GGTATTTCGGTCATTTTACCCTATGAGGGTATTTCAGTCATTCTACCCTATAGC
* * * * *
24953541 GGTGTTTCGGTCATTTTACCCTATGGGGGTATTTCAGTTATTCTACCTTATAGT
1 GGTATTTCGGTCATTTTACCCTATGAGGGTATTTCAGTCATTCTACCCTATAGC
24953595 GGTATTTCGGTCATTTTACCCTA
1 GGTATTTCGGTCATTTTACCCTA
24953618 AACCCTACGG
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 66 1.00
ACGTcount: A:0.18, C:0.18, G:0.21, T:0.44
Consensus pattern (54 bp):
GGTATTTCGGTCATTTTACCCTATGAGGGTATTTCAGTCATTCTACCCTATAGC
Found at i:24953560 original size:27 final size:27
Alignment explanation
Indices: 24953514--24953617 Score: 118
Period size: 27 Copynumber: 3.9 Consensus size: 27
24953504 ACTCTTTGAG
24953514 GGTATTTCAGTCATTCTACCCTATGGC
1 GGTATTTCAGTCATTCTACCCTATGGC
* * * *
24953541 GGTGTTTCGGTCATTTTACCCTATGGG
1 GGTATTTCAGTCATTCTACCCTATGGC
* * * *
24953568 GGTATTTCAGTTATTCTACCTTATAGT
1 GGTATTTCAGTCATTCTACCCTATGGC
* *
24953595 GGTATTTCGGTCATTTTACCCTA
1 GGTATTTCAGTCATTCTACCCTA
24953618 AACCCTACGG
Statistics
Matches: 62, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 62 1.00
ACGTcount: A:0.17, C:0.20, G:0.20, T:0.42
Consensus pattern (27 bp):
GGTATTTCAGTCATTCTACCCTATGGC
Found at i:24971509 original size:24 final size:25
Alignment explanation
Indices: 24971472--24971538 Score: 82
Period size: 24 Copynumber: 2.7 Consensus size: 25
24971462 TATTGTTATT
* * *
24971472 TAGCTCAGAGGAGCTTACCAATT-A
1 TAGCTCATATGAGCATACCAATTCA
* *
24971496 TAGCTCGTATGAGCATACCGATTCA
1 TAGCTCATATGAGCATACCAATTCA
24971521 TAGCTCATATGAGCATAC
1 TAGCTCATATGAGCATAC
24971539 ATGTACAGGA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
24 18 0.50
25 18 0.50
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.27
Consensus pattern (25 bp):
TAGCTCATATGAGCATACCAATTCA
Found at i:24985845 original size:102 final size:102
Alignment explanation
Indices: 24985656--24985853 Score: 308
Period size: 102 Copynumber: 1.9 Consensus size: 102
24985646 TGACAAAATC
* * *
24985656 TCAATACCAAACTCAACCTCCCTATCTGAAGGCATACCCAGCAACTTCTCGGGAAAAACATTCGA
1 TCAATACCAAACTCAACCTCCCTAACTGAAGCCATACCCAGCAACTTCTCGGGAAAAACATTCAA
*
24985721 AAATTCTCTAATTGTCAAAATATCCCCAACAAAAGAT
66 AAATTCTCAAATTGTCAAAATATCCCCAACAAAAGAT
*
24985758 TCAATACCAAACTCAACCTCCCTAACTGAAGCCA-ACCCCGGCAACTTCTCGGGAAAAACATTCA
1 TCAATACCAAACTCAACCTCCCTAACTGAAGCCATA-CCCAGCAACTTCTCGGGAAAAACATTCA
* * *
24985822 AAAATTCTCAAATTTTTAGAATATCCCCAACA
65 AAAATTCTCAAATTGTCAAAATATCCCCAACA
24985854 GAAAAGTCCA
Statistics
Matches: 87, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
101 1 0.01
102 86 0.99
ACGTcount: A:0.39, C:0.30, G:0.09, T:0.22
Consensus pattern (102 bp):
TCAATACCAAACTCAACCTCCCTAACTGAAGCCATACCCAGCAACTTCTCGGGAAAAACATTCAA
AAATTCTCAAATTGTCAAAATATCCCCAACAAAAGAT
Found at i:24988748 original size:21 final size:21
Alignment explanation
Indices: 24988722--24988785 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
24988712 ACAACAGATT
24988722 CAAATCATGCTTAGCAAATAA
1 CAAATCATGCTTAGCAAATAA
* * *
24988743 CAAATCATGTTTA-AAAAAATA
1 CAAATCATGCTTAGCAAATA-A
* *
24988764 CAAATCATACTTAGCATATAA
1 CAAATCATGCTTAGCAAATAA
24988785 C
1 C
24988786 GTACTAATCA
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
20 4 0.12
21 26 0.79
22 3 0.09
ACGTcount: A:0.50, C:0.17, G:0.06, T:0.27
Consensus pattern (21 bp):
CAAATCATGCTTAGCAAATAA
Found at i:24989045 original size:29 final size:29
Alignment explanation
Indices: 24989008--24989123 Score: 128
Period size: 29 Copynumber: 4.0 Consensus size: 29
24988998 TAACGCACAA
*
24989008 TCTCACACATGCCTGTGTGGCCTACATGG
1 TCTCACACATGCCTGTGTGGCCCACATGG
* *
24989037 TCTTACACATGTCC-GTGTAGCCCACATGG
1 TCTCACACATG-CCTGTGTGGCCCACATGG
* * * * *
24989066 ACTCACACATGCCCGTATGGTCCACATAG
1 TCTCACACATGCCTGTGTGGCCCACATGG
24989095 TCTCACACATG-CTCGTGTGGCCCACATGG
1 TCTCACACATGCCT-GTGTGGCCCACATGG
24989124 CCCAATTAAC
Statistics
Matches: 70, Mismatches: 14, Indels: 6
0.78 0.16 0.07
Matches are distributed among these distances:
28 3 0.04
29 65 0.93
30 2 0.03
ACGTcount: A:0.21, C:0.33, G:0.22, T:0.25
Consensus pattern (29 bp):
TCTCACACATGCCTGTGTGGCCCACATGG
Found at i:24989104 original size:58 final size:58
Alignment explanation
Indices: 24989009--24989123 Score: 153
Period size: 58 Copynumber: 2.0 Consensus size: 58
24988999 AACGCACAAT
* * * *
24989009 CTCACACATGCCTGTGTGGCCTACATGGTCTTACACATG-TCCGTGTAGCCCACATGGA
1 CTCACACATGCCCGTATGGCCTACATAGTCTCACACATGCT-CGTGTAGCCCACATGGA
*
24989067 CTCACACATGCCCGTATGGTCC-ACATAGTCTCACACATGCTCGTGTGGCCCACATGG
1 CTCACACATGCCCGTATGG-CCTACATAGTCTCACACATGCTCGTGTAGCCCACATGG
24989124 CCCAATTAAC
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
58 47 0.94
59 3 0.06
ACGTcount: A:0.21, C:0.33, G:0.22, T:0.24
Consensus pattern (58 bp):
CTCACACATGCCCGTATGGCCTACATAGTCTCACACATGCTCGTGTAGCCCACATGGA
Found at i:24990412 original size:30 final size:30
Alignment explanation
Indices: 24990375--24990459 Score: 100
Period size: 30 Copynumber: 2.8 Consensus size: 30
24990365 TAACCTCGAT
24990375 ATAATGTCAGCTTGTGTGAGCAACTCT-AC
1 ATAATGTCAGCTTGTGTGAGCAACTCTAAC
* * *
24990404 GGTAATGTCAGGTTGTGTGAGCAACCCTAAC
1 -ATAATGTCAGCTTGTGTGAGCAACTCTAAC
* * *
24990435 ATACTATCAGCTTGTGTGAGTAACT
1 ATAATGTCAGCTTGTGTGAGCAACT
24990460 TATTCCCAAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
30 43 0.96
31 2 0.04
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.31
Consensus pattern (30 bp):
ATAATGTCAGCTTGTGTGAGCAACTCTAAC
Found at i:24996840 original size:12 final size:12
Alignment explanation
Indices: 24996823--24996847 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24996813 TTAAATTTCG
24996823 TTTATTTATATA
1 TTTATTTATATA
24996835 TTTATTTATATA
1 TTTATTTATATA
24996847 T
1 T
24996848 ATTTATTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTATTTATATA
Found at i:24996848 original size:14 final size:14
Alignment explanation
Indices: 24996829--24996855 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
24996819 TTCGTTTATT
24996829 TATATATTTATTTA
1 TATATATTTATTTA
24996843 TATATATTTATTT
1 TATATATTTATTT
24996856 TTATTTGTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TATATATTTATTTA
Found at i:24999026 original size:21 final size:21
Alignment explanation
Indices: 24998982--24999027 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
24998972 CATAATTTCA
*
24998982 AATT-TTATAAAAAAAATATT
1 AATTATTATAAAAAAAATATC
24999002 AATTATTATAAAAAAAATGA-C
1 AATTATTATAAAAAAAAT-ATC
24999023 AATTA
1 AATTA
24999028 AAATCCATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 4 0.17
21 18 0.78
22 1 0.04
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (21 bp):
AATTATTATAAAAAAAATATC
Found at i:25008104 original size:51 final size:51
Alignment explanation
Indices: 25008028--25008126 Score: 162
Period size: 51 Copynumber: 1.9 Consensus size: 51
25008018 GGTCCTCCAG
* * *
25008028 AACATAAGAAAATGCCAGTGTGGCATATATGTGGAATGATTATGATCAATA
1 AACATAAGAAAATGCCAATGTGGCATATATGTAGAATGACTATGATCAATA
*
25008079 AACATGAGAAAATGCCAATGTGGCATATATGTAGAATGACTATGATCA
1 AACATAAGAAAATGCCAATGTGGCATATATGTAGAATGACTATGATCA
25008127 TGATACATTC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.41, C:0.11, G:0.21, T:0.26
Consensus pattern (51 bp):
AACATAAGAAAATGCCAATGTGGCATATATGTAGAATGACTATGATCAATA
Found at i:25008327 original size:50 final size:50
Alignment explanation
Indices: 25008252--25008496 Score: 296
Period size: 49 Copynumber: 4.9 Consensus size: 50
25008242 CAAACACGAC
* *
25008252 ATTATCTAGGAAGCTTTTGTGGCTAATCTTTTGAAAACCCTCTGTGGCGT
1 ATTATCTAGGAAGCCTTTGTGGCTAATCTTTTGAAAAGCCTCTGTGGCGT
* * * * * *
25008302 ATTATTTGGGAAGCCTTTGCGGCTAAT-GTTTGAAAAGCCTTTCTGGCGT
1 ATTATCTAGGAAGCCTTTGTGGCTAATCTTTTGAAAAGCCTCTGTGGCGT
* * * * * * *
25008351 ATTGTCTGGGAAGCCTTTGTTGTTAATCTTTTGAAAAGACTCTGTGGTGC
1 ATTATCTAGGAAGCCTTTGTGGCTAATCTTTTGAAAAGCCTCTGTGGCGT
*
25008401 ATTATCTAGGAAGCATTTGTGGCTAATC-TTTGAAAAGCCTCTGTGGCGT
1 ATTATCTAGGAAGCCTTTGTGGCTAATCTTTTGAAAAGCCTCTGTGGCGT
* * * *
25008450 ATTATCTAGGAAGCCTTTTTGGCTAATCTCTTGAAAATCCTTTGTGG
1 ATTATCTAGGAAGCCTTTGTGGCTAATCTTTTGAAAAGCCTCTGTGG
25008497 GTAAGTATCA
Statistics
Matches: 161, Mismatches: 32, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
49 84 0.52
50 77 0.48
ACGTcount: A:0.22, C:0.16, G:0.24, T:0.38
Consensus pattern (50 bp):
ATTATCTAGGAAGCCTTTGTGGCTAATCTTTTGAAAAGCCTCTGTGGCGT
Found at i:25008333 original size:24 final size:26
Alignment explanation
Indices: 25008296--25008369 Score: 73
Period size: 24 Copynumber: 3.0 Consensus size: 26
25008286 AAACCCTCTG
* *
25008296 TGGCGTATTATTTGGGAAGCCTTTGC
1 TGGCGTAATGTTTGGGAAGCCTTTGC
**
25008322 -GGC-TAATGTTTGAAAAGCCTTT-C
1 TGGCGTAATGTTTGGGAAGCCTTTGC
* *
25008345 TGGCGTATTGTCTGGGAAGCCTTTG
1 TGGCGTAATGTTTGGGAAGCCTTTG
25008370 TTGTTAATCT
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
23 1 0.03
24 18 0.49
25 18 0.49
ACGTcount: A:0.18, C:0.16, G:0.30, T:0.36
Consensus pattern (26 bp):
TGGCGTAATGTTTGGGAAGCCTTTGC
Found at i:25008496 original size:99 final size:99
Alignment explanation
Indices: 25008252--25008496 Score: 305
Period size: 99 Copynumber: 2.5 Consensus size: 99
25008242 CAAACACGAC
* * *
25008252 ATTATCTAGGAAG-CTTTTGTGGCTAATCTTTTGAAAACCCTCTGTGGCGTATTATTTGGGAAGC
1 ATTATCTAGGAAGCCTTTT-TGGCTAATCTTTTGAAAACCCTCTGTGGCGCATTATCTAGGAAGC
* * *
25008316 CTTTGCGGCTAATGTTTGAAAAGCCTTTCTGGCGT
65 ATTTGCGGCTAATCTTTGAAAAGCCTCTCTGGCGT
* * * ** *
25008351 ATTGTCTGGGAAGCCTTTGTT-GTTAATCTTTTGAAAAGACTCTGTGGTGCATTATCTAGGAAGC
1 ATTATCTAGGAAGCCTTT-TTGGCTAATCTTTTGAAAACCCTCTGTGGCGCATTATCTAGGAAGC
* *
25008415 ATTTGTGGCTAATCTTTGAAAAGCCTCTGTGGCGT
65 ATTTGCGGCTAATCTTTGAAAAGCCTCTCTGGCGT
* * *
25008450 ATTATCTAGGAAGCCTTTTTGGCTAATCTCTTGAAAATCCTTTGTGG
1 ATTATCTAGGAAGCCTTTTTGGCTAATCTTTTGAAAACCCTCTGTGG
25008497 GTAAGTATCA
Statistics
Matches: 122, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
98 2 0.02
99 114 0.93
100 5 0.04
101 1 0.01
ACGTcount: A:0.22, C:0.16, G:0.24, T:0.38
Consensus pattern (99 bp):
ATTATCTAGGAAGCCTTTTTGGCTAATCTTTTGAAAACCCTCTGTGGCGCATTATCTAGGAAGCA
TTTGCGGCTAATCTTTGAAAAGCCTCTCTGGCGT
Found at i:25017449 original size:15 final size:16
Alignment explanation
Indices: 25017419--25017453 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
25017409 ATTTATCAAT
*
25017419 TTTAATATTGATAGTA
1 TTTAATATTGAGAGTA
25017435 TTTAA-ATTGAGAGTA
1 TTTAATATTGAGAGTA
25017450 TTTA
1 TTTA
25017454 TAAATTTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (16 bp):
TTTAATATTGAGAGTA
Found at i:25020588 original size:21 final size:21
Alignment explanation
Indices: 25020551--25020601 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
25020541 CTACAACTTA
* * *
25020551 AAGCAGACGCGGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGAG
*
25020572 AAGTAGAGGCTGCAGCGAGAG
1 AAGCAGAGGCTGCAGCGAGAG
25020593 AAGCAGAGG
1 AAGCAGAGG
25020602 TTCAAAAGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.33, C:0.18, G:0.45, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGAG
Found at i:25021093 original size:42 final size:42
Alignment explanation
Indices: 25020984--25021271 Score: 252
Period size: 42 Copynumber: 6.8 Consensus size: 42
25020974 GTTATTGTAC
* *
25020984 AAAAGCGCCGTTAAAGAACATGTTCTTTAGCGGCGCTTAATAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTT-ATAA
* * * * *
25021027 AAAAACGCCACTAAAGATCATGTTCTTTAGCAGTGCTTATAG
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTATAA
* * * *
25021069 AAAAACGCCGTTAAAGAACCTGTTCTTCAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTATAA
* * ** *
25021111 AAAAACGCTGCTAAAGACCATGTTCTTTAGCGGAACTTATAT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTATAA
* * * * * * * **
25021153 AAAAACACTGCTAAAGACCATGTTCTTCAGTGGCGTTTTTCT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTATAA
* * * * * **
25021195 CAAAGCGCCGCTAAAGAACATGTTCTGTAGCGGCGTTTTTTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTATAA
* **
25021237 ATAAACGCCGCTAAAGAACATGACCTTTAGCGGCG
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG
25021272 TTTTTGGTTG
Statistics
Matches: 197, Mismatches: 48, Indels: 1
0.80 0.20 0.00
Matches are distributed among these distances:
42 165 0.84
43 32 0.16
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTATAA
Found at i:25021856 original size:20 final size:20
Alignment explanation
Indices: 25021833--25021883 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
25021823 ATTGCTTCAA
25021833 GTATCGATACACGACTTGAT
1 GTATCGATACACGACTTGAT
* * * *
25021853 GTATCGATATATGATTTTAT
1 GTATCGATACACGACTTGAT
25021873 GTATCGATACA
1 GTATCGATACA
25021884 TTGGTGTTAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (20 bp):
GTATCGATACACGACTTGAT
Found at i:25022671 original size:2 final size:2
Alignment explanation
Indices: 25022664--25022714 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
25022654 ATTAAGATCC
25022664 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
25022706 AT AT AT AT A
1 AT AT AT AT A
25022715 ATTAAAAATA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:25024249 original size:10 final size:9
Alignment explanation
Indices: 25024168--25024248 Score: 60
Period size: 9 Copynumber: 8.7 Consensus size: 9
25024158 GATTATTTTT
*
25024168 TAAAAATTT
1 TAAAAATTA
25024177 TAAAAATTCA
1 TAAAAATT-A
25024187 -AAAAAGTTAA
1 TAAAAA-TT-A
25024197 TAAAAATTA
1 TAAAAATTA
*
25024206 TTTTAAAA-T-
1 --TAAAAATTA
25024215 TAAAAATTA
1 TAAAAATTA
*
25024224 TTAAAATGTA
1 TAAAAAT-TA
25024234 TAAAAATTA
1 TAAAAATTA
25024243 TAAAAA
1 TAAAAA
25024249 AATTTTAATT
Statistics
Matches: 58, Mismatches: 6, Indels: 16
0.73 0.08 0.20
Matches are distributed among these distances:
7 5 0.09
8 1 0.02
9 28 0.48
10 14 0.24
11 10 0.17
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.35
Consensus pattern (9 bp):
TAAAAATTA
Found at i:25024610 original size:5 final size:5
Alignment explanation
Indices: 25024600--25024625 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
25024590 ATAAATAATA
25024600 TTTAT TTTAT TTTAT TTTAT TTTAT T
1 TTTAT TTTAT TTTAT TTTAT TTTAT T
25024626 AAATAATTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:25026327 original size:19 final size:19
Alignment explanation
Indices: 25026295--25026333 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
25026285 CCAGGTTAAG
*
25026295 ATTTTTAGGGTTTTTAGGA
1 ATTTTAAGGGTTTTTAGGA
* *
25026314 ATTTTAAGGTTTTTTGGGA
1 ATTTTAAGGGTTTTTAGGA
25026333 A
1 A
25026334 AAAAGTAAAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.51
Consensus pattern (19 bp):
ATTTTAAGGGTTTTTAGGA
Found at i:25026650 original size:125 final size:126
Alignment explanation
Indices: 25026442--25026760 Score: 426
Period size: 125 Copynumber: 2.5 Consensus size: 126
25026432 AGATAAAATC
** * * * * * * *
25026442 AAAGCAGGATAATTTATCAGAAGGATTTTTGAAGTTGCGCCCACGTGTACGCGCTTTTGCTATAG
1 AAAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAG
* * * *
25026507 TAGGTTCTTGAAAAATAATTTCGAATTGACGTTTCTGAGAAAATAGTTTAAAA-AATGCTT
66 TAGGTTCCTGAAAAATAATTTCGAATTGACGTTTCTGAGAAAATAGTATAAAACAACGCTG
*
25026567 AAAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGATGCGCTTTTGCTACAG
1 AAAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAG
* * *
25026632 TAGG-TCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAACAACGCTG
66 TAGGTTCCTG-AAAAATAATTTCGAATTGACGTTTCTGAGAAAATAGTATAAAACAACGCTG
* * * *
25026693 CAAGCAGGATGCTATATGAGAAGAATTTGTGAAATCTCGCCCACGTGGACGTGCTTTTGCTACAG
1 AAAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAG
25026758 TAG
66 TAG
25026761 CATGTTTGGG
Statistics
Matches: 170, Mismatches: 22, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
124 4 0.02
125 98 0.58
126 68 0.40
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (126 bp):
AAAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAG
TAGGTTCCTGAAAAATAATTTCGAATTGACGTTTCTGAGAAAATAGTATAAAACAACGCTG
Found at i:25029958 original size:21 final size:21
Alignment explanation
Indices: 25029932--25030298 Score: 208
Period size: 21 Copynumber: 16.7 Consensus size: 21
25029922 TCAAATTATA
25029932 TTTAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
*
25029953 TTTAAGTTAAGTGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* * *
25029974 TTTTATTTAAGGGTT-GCGATT
1 TTTAAGTTAAGGGTTAG-GGTT
* *
25029995 TTAAAGTTAAGGGTTTAGGGTA
1 TTTAAGTTAAGGG-TTAGGGTT
* **
25030017 TTTAATTTAAGGGTTACAGTT
1 TTTAAGTTAAGGGTTAGGGTT
25030038 TTTAAGTTAAGGGTTTAGGG-T
1 TTTAAGTTAAGGG-TTAGGGTT
* * *
25030059 TTAAAGTTAATGGTTATGGTT
1 TTTAAGTTAAGGGTTAGGGTT
25030080 TTTAAGTTAAGGGTTTAGGG-T
1 TTTAAGTTAAGGG-TTAGGGTT
* * *
25030101 TTTAGGGTTCTAGGGTTTAAAGG--
1 TTTA-AGTT-AAGGG-TT-AGGGTT
* *
25030124 TTTAAGGTTTTTAA--TTTAAAGGTT
1 TTTAA-G---TTAAGGGTT-AGGGTT
*** *
25030148 TATTGTTTTTAAGTTAAGGGTTTAAGGTT
1 T-TT-AAGTT-A----AGGG-TTAGGGTT
*
25030177 TTAAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* ***
25030198 TTTAATTTAAGGGTTACATTT
1 TTTAAGTTAAGGGTTAGGGTT
*
25030219 TTTAAGTTAAGGGTTTAGGATT
1 TTTAAGTTAAGGG-TTAGGGTT
*
25030241 TTAAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
*
25030262 TTTAAGTTAAGGGTTTAGAGTT
1 TTTAAGTTAAGGG-TTAGGGTT
*
25030284 TTTAAGTTAAAGGTT
1 TTTAAGTTAAGGGTT
25030299 TATCAGTTCT
Statistics
Matches: 266, Mismatches: 53, Indels: 54
0.71 0.14 0.14
Matches are distributed among these distances:
20 6 0.02
21 147 0.55
22 76 0.29
23 14 0.05
24 4 0.02
25 3 0.01
26 3 0.01
27 3 0.01
28 1 0.00
29 7 0.03
30 2 0.01
ACGTcount: A:0.26, C:0.01, G:0.27, T:0.46
Consensus pattern (21 bp):
TTTAAGTTAAGGGTTAGGGTT
Found at i:25030027 original size:43 final size:43
Alignment explanation
Indices: 25029932--25030298 Score: 344
Period size: 43 Copynumber: 8.3 Consensus size: 43
25029922 TCAAATTATA
* *
25029932 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGTG-TTAGGGTT
1 TTTAAGTTAAGGGTTACGGTTTTTAAGTTAAGGGTTTAGGGTT
* * * * * *
25029974 TTTTATTTAAGGGTTGCGATTTTAAAGTTAAGGGTTTAGGGTA
1 TTTAAGTTAAGGGTTACGGTTTTTAAGTTAAGGGTTTAGGGTT
* *
25030017 TTTAATTTAAGGGTTACAGTTTTTAAGTTAAGGGTTTAGGG-T
1 TTTAAGTTAAGGGTTACGGTTTTTAAGTTAAGGGTTTAGGGTT
* * *
25030059 TTAAAGTTAATGGTTATGGTTTTTAAGTTAAGGGTTTAGGGTTTT
1 TTTAAGTTAAGGGTTACGGTTTTTAAGTTAAGGGTTTAGGG--TT
* * * * * **
25030104 AGGGTTCTAGGGTTTAAAGGTTTAAGGTTTTTAATTTAAAGGTTTATTGTT
1 ----TT-TA-AG-TT-AAGGGTTACGGTTTTTAAGTTAAGGGTTTAGGGTT
* *
25030155 TTTAAGTTAAGGGTTTAAGGTTTTAAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGG-TTACGGTTTTTAAGTTAAGGGTTTAGGGTT
* ** *
25030198 TTTAATTTAAGGGTTACATTTTTTAAGTTAAGGGTTTAGGATT
1 TTTAAGTTAAGGGTTACGGTTTTTAAGTTAAGGGTTTAGGGTT
* * *
25030241 TTAAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGAGTT
1 TTTAAGTTAAGGGTTACGGTTTTTAAGTTAAGGGTTTAGGGTT
*
25030284 TTTAAGTTAAAGGTT
1 TTTAAGTTAAGGGTT
25030299 TATCAGTTCT
Statistics
Matches: 261, Mismatches: 50, Indels: 27
0.77 0.15 0.08
Matches are distributed among these distances:
42 80 0.31
43 121 0.46
44 20 0.08
45 2 0.01
46 2 0.01
47 2 0.01
49 2 0.01
50 1 0.00
51 3 0.01
52 2 0.01
53 26 0.10
ACGTcount: A:0.26, C:0.01, G:0.27, T:0.46
Consensus pattern (43 bp):
TTTAAGTTAAGGGTTACGGTTTTTAAGTTAAGGGTTTAGGGTT
Found at i:25030116 original size:16 final size:15
Alignment explanation
Indices: 25030089--25030134 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
25030079 TTTTAAGTTA
25030089 AGGGTTTAGGGTTTT
1 AGGGTTTAGGGTTTT
*
25030104 AGGGTTCTAGGGTTTA
1 AGGGTT-TAGGGTTTT
* *
25030120 AAGGTTTAAGGTTTT
1 AGGGTTTAGGGTTTT
25030135 TAATTTAAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
15 13 0.50
16 13 0.50
ACGTcount: A:0.20, C:0.02, G:0.35, T:0.43
Consensus pattern (15 bp):
AGGGTTTAGGGTTTT
Found at i:25030144 original size:22 final size:22
Alignment explanation
Indices: 25030117--25030300 Score: 164
Period size: 22 Copynumber: 8.5 Consensus size: 22
25030107 GTTCTAGGGT
*
25030117 TTAAAGGTTTAAGGTTTTTAAT
1 TTAAAGGTTTAAGGTTTTTAAG
**
25030139 TTAAAGGTTTATTGTTTTTAAG
1 TTAAAGGTTTAAGGTTTTTAAG
* *
25030161 TTAAGGGTTTAAGGTTTTAAAG
1 TTAAAGGTTTAAGGTTTTTAAG
* *
25030183 TT-AAGGGTTAGGGTTTTTAA-
1 TTAAAGGTTTAAGGTTTTTAAG
* * *
25030203 TTTAAGGGTTACA-TTTTTTAAG
1 TTAAAGGTTTA-AGGTTTTTAAG
* *
25030225 TTAAGGGTTT-AGGATTTTAAAG
1 TTAAAGGTTTAAGG-TTTTTAAG
* *
25030247 TT-AAGGGTTAGGGTTTTTAAG
1 TTAAAGGTTTAAGGTTTTTAAG
*
25030268 TTAAGGGTTT-AGAGTTTTTAAG
1 TTAAAGGTTTAAG-GTTTTTAAG
25030290 TTAAAGGTTTA
1 TTAAAGGTTTA
25030301 TCAGTTCTTA
Statistics
Matches: 127, Mismatches: 26, Indels: 17
0.75 0.15 0.10
Matches are distributed among these distances:
20 3 0.02
21 44 0.35
22 80 0.63
ACGTcount: A:0.29, C:0.01, G:0.24, T:0.46
Consensus pattern (22 bp):
TTAAAGGTTTAAGGTTTTTAAG
Found at i:25031124 original size:40 final size:42
Alignment explanation
Indices: 25031079--25031180 Score: 120
Period size: 42 Copynumber: 2.5 Consensus size: 42
25031069 CAGTAAATGT
* *
25031079 CATGTTCTTTAGCGGTGCTTAA-AA-AAATGTCGCTAAAGAA
1 CATGTTCTTTAGCGGCGCTTAACAACAAATGCCGCTAAAGAA
* * *
25031119 CATGTTCTTTAGTGGCGC-AAACCAACAAATGCCGCTAAAGCA
1 CATGTTCTTTAGCGGCGCTTAA-CAACAAATGCCGCTAAAGAA
*
25031161 CATTTTCTTTAGCGGCGCTT
1 CATGTTCTTTAGCGGCGCTT
25031181 TCTTCACAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
39 2 0.04
40 16 0.32
41 2 0.04
42 30 0.60
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (42 bp):
CATGTTCTTTAGCGGCGCTTAACAACAAATGCCGCTAAAGAA
Found at i:25033497 original size:15 final size:15
Alignment explanation
Indices: 25033477--25033507 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
25033467 CCGTTTTACA
25033477 TAATTTTAAACACAT
1 TAATTTTAAACACAT
25033492 TAATTTTAAACACAT
1 TAATTTTAAACACAT
25033507 T
1 T
25033508 TTTGTGGCGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (15 bp):
TAATTTTAAACACAT
Found at i:25034226 original size:39 final size:40
Alignment explanation
Indices: 25034140--25034227 Score: 137
Period size: 39 Copynumber: 2.2 Consensus size: 40
25034130 TCAGCCATAT
*
25034140 TCCTTAAACCTTAAATCATAAAACATATATAAACCTTAAA
1 TCCTTAAACCCTAAATCATAAAACATATATAAACCTTAAA
25034180 TCC-TAAACCCTAAATCATAAAACATATATAAA-CTATAAA
1 TCCTTAAACCCTAAATCATAAAACATATATAAACCT-TAAA
25034219 -CCTTAAACC
1 TCCTTAAACC
25034228 TCAACCCTTA
Statistics
Matches: 45, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
38 4 0.09
39 38 0.84
40 3 0.07
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (40 bp):
TCCTTAAACCCTAAATCATAAAACATATATAAACCTTAAA
Found at i:25041304 original size:21 final size:21
Alignment explanation
Indices: 25041267--25041312 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
25041257 TTAGACTCTA
* *
25041267 AAATTTTTTTAAAAATAT-AT
1 AAATATTTTAAAAAATATAAT
25041287 AAATATTTTAAAATAATATAAT
1 AAATATTTTAAAA-AATATAAT
25041309 AAAT
1 AAAT
25041313 TTGAATTCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 11 0.50
21 5 0.23
22 6 0.27
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
AAATATTTTAAAAAATATAAT
Found at i:25041928 original size:30 final size:30
Alignment explanation
Indices: 25041894--25042003 Score: 202
Period size: 30 Copynumber: 3.7 Consensus size: 30
25041884 AATATCTCGG
*
25041894 TACCCATATCTTTGACTTTCTAATATTTGA
1 TACCCATATCTTTGACTTTCTATTATTTGA
25041924 TACCCATATCTTTGACTTTCTATTATTTGA
1 TACCCATATCTTTGACTTTCTATTATTTGA
25041954 TACCCATATCTTTGACTTTCTATTATTTGA
1 TACCCATATCTTTGACTTTCTATTATTTGA
*
25041984 TACCCATATCTTTGATTTTC
1 TACCCATATCTTTGACTTTC
25042004 CATAAATATG
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
30 78 1.00
ACGTcount: A:0.24, C:0.21, G:0.06, T:0.49
Consensus pattern (30 bp):
TACCCATATCTTTGACTTTCTATTATTTGA
Found at i:25041937 original size:15 final size:15
Alignment explanation
Indices: 25041919--25041999 Score: 58
Period size: 15 Copynumber: 5.4 Consensus size: 15
25041909 CTTTCTAATA
25041919 TTTGATACCCATATC
1 TTTGATACCCATATC
** * *
25041934 TTTGACTTTCTAT-TA
1 TTTGA-TACCCATATC
25041949 TTTGATACCCATATC
1 TTTGATACCCATATC
** * *
25041964 TTTGACTTTCTAT-TA
1 TTTGA-TACCCATATC
25041979 TTTGATACCCATATC
1 TTTGATACCCATATC
25041994 TTTGAT
1 TTTGAT
25042000 TTTCCATAAA
Statistics
Matches: 46, Mismatches: 16, Indels: 8
0.66 0.23 0.11
Matches are distributed among these distances:
14 8 0.17
15 30 0.65
16 8 0.17
ACGTcount: A:0.23, C:0.20, G:0.07, T:0.49
Consensus pattern (15 bp):
TTTGATACCCATATC
Found at i:25046625 original size:30 final size:30
Alignment explanation
Indices: 25046589--25046670 Score: 128
Period size: 30 Copynumber: 2.7 Consensus size: 30
25046579 AATATCTCAG
*
25046589 TACCCATATCTTTGGCTTTCCAATATTTGA
1 TACCCATATCTTTGACTTTCCAATATTTGA
* *
25046619 TACCCATATCTTTGACTTTCTATTATTTGA
1 TACCCATATCTTTGACTTTCCAATATTTGA
*
25046649 TACCCATATCTTTGATTTTCCA
1 TACCCATATCTTTGACTTTCCA
25046671 TAAATATGGA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.23, C:0.23, G:0.07, T:0.46
Consensus pattern (30 bp):
TACCCATATCTTTGACTTTCCAATATTTGA
Found at i:25046632 original size:15 final size:15
Alignment explanation
Indices: 25046614--25046664 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
25046604 CTTTCCAATA
25046614 TTTGATACCCATATC
1 TTTGATACCCATATC
** * *
25046629 TTTGACTTTCTAT-TA
1 TTTGA-TACCCATATC
25046644 TTTGATACCCATATC
1 TTTGATACCCATATC
25046659 TTTGAT
1 TTTGAT
25046665 TTTCCATAAA
Statistics
Matches: 26, Mismatches: 8, Indels: 4
0.68 0.21 0.11
Matches are distributed among these distances:
14 4 0.15
15 18 0.69
16 4 0.15
ACGTcount: A:0.24, C:0.20, G:0.08, T:0.49
Consensus pattern (15 bp):
TTTGATACCCATATC
Found at i:25051417 original size:13 final size:12
Alignment explanation
Indices: 25051394--25051422 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
25051384 GCAAATATTT
25051394 ATATTTA-AAAA
1 ATATTTATAAAA
25051405 ATATTTATAAAA
1 ATATTTATAAAA
25051417 ATATTT
1 ATATTT
25051423 TAACAATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 7 0.41
12 10 0.59
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
ATATTTATAAAA
Found at i:25058440 original size:22 final size:22
Alignment explanation
Indices: 25058414--25058466 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
25058404 CCGTTAGGCT
25058414 ACTAAGCTTTCAACAAATGTAA
1 ACTAAGCTTTCAACAAATGTAA
25058436 ACTAAGCTTTCAACAAATGTAA
1 ACTAAGCTTTCAACAAATGTAA
*
25058458 ACAAAGCTT
1 ACTAAGCTT
25058467 GTTAGGCTCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.45, C:0.19, G:0.09, T:0.26
Consensus pattern (22 bp):
ACTAAGCTTTCAACAAATGTAA
Found at i:25063992 original size:3 final size:3
Alignment explanation
Indices: 25063984--25064060 Score: 100
Period size: 3 Copynumber: 25.7 Consensus size: 3
25063974 AATCATTAAA
* * *
25063984 AAT AAT AAT AAT AAT AAT AAT TAT ATT AAC AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
25064032 AAT TAT ATT AAC AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
25064061 AATTCTTATT
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:25064012 original size:30 final size:30
Alignment explanation
Indices: 25063978--25064064 Score: 158
Period size: 30 Copynumber: 2.9 Consensus size: 30
25063968 AATTACAATC
*
25063978 ATTAAAAATAATAATAATAATAATAATTAT
1 ATTAACAATAATAATAATAATAATAATTAT
25064008 ATTAACAATAATAATAATAATAATAATTAT
1 ATTAACAATAATAATAATAATAATAATTAT
25064038 ATTAACAATAATAATAATAATAA-AATT
1 ATTAACAATAATAATAATAATAATAATT
25064065 CTTATTCAAT
Statistics
Matches: 56, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
29 4 0.07
30 52 0.93
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (30 bp):
ATTAACAATAATAATAATAATAATAATTAT
Found at i:25064914 original size:5 final size:5
Alignment explanation
Indices: 25064906--25064970 Score: 80
Period size: 5 Copynumber: 13.2 Consensus size: 5
25064896 TTTTTTACTT
* *
25064906 ATATA ATATA ATACA ATACA ATATA ATATA ATATA ATATA ATAT- ATAATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA AT-ATA
*
25064956 AAATA ATAT- ATATA A
1 ATATA ATATA ATATA A
25064971 AACATAAAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
4 6 0.11
5 46 0.87
6 1 0.02
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (5 bp):
ATATA
Found at i:25065681 original size:18 final size:18
Alignment explanation
Indices: 25065655--25065694 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
25065645 AATGGGATCA
* *
25065655 CATGGCCGTGTCCCAGCC
1 CATGACCGTGCCCCAGCC
25065673 CATGACCGTGCCCCAGCC
1 CATGACCGTGCCCCAGCC
25065691 CATG
1 CATG
25065695 TCTGACCTCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.15, C:0.45, G:0.25, T:0.15
Consensus pattern (18 bp):
CATGACCGTGCCCCAGCC
Found at i:25072930 original size:17 final size:17
Alignment explanation
Indices: 25072908--25072964 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
25072898 AAAGAAGCCC
25072908 TTAAATTATTTTTATAG
1 TTAAATTATTTTTATAG
* ** * **
25072925 TTAAATAAGCATCTATCT
1 TTAAATTA-TTTTTATAG
25072943 TTAAATTATTTTTATAG
1 TTAAATTATTTTTATAG
25072960 TTAAA
1 TTAAA
25072965 CAAGCATCTA
Statistics
Matches: 27, Mismatches: 12, Indels: 2
0.66 0.29 0.05
Matches are distributed among these distances:
17 16 0.59
18 11 0.41
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.51
Consensus pattern (17 bp):
TTAAATTATTTTTATAG
Found at i:25072954 original size:35 final size:35
Alignment explanation
Indices: 25072908--25072978 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
25072898 AAAGAAGCCC
*
25072908 TTAAATTATTTTTATAGTTAAATAAGCATCTATCT
1 TTAAATTATTTTTATAGTTAAACAAGCATCTATCT
25072943 TTAAATTATTTTTATAGTTAAACAAGCATCTATCT
1 TTAAATTATTTTTATAGTTAAACAAGCATCTATCT
25072978 T
1 T
25072979 ATGATCTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.37, C:0.10, G:0.06, T:0.48
Consensus pattern (35 bp):
TTAAATTATTTTTATAGTTAAACAAGCATCTATCT
Done.