Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007773.1 Hibiscus syriacus cultivar Beakdansim tig00110054_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 557494
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 3
Found at i:400279 original size:20 final size:20
Alignment explanation
Indices: 400253--400360 Score: 110
Period size: 20 Copynumber: 5.3 Consensus size: 20
400243 GAAATTCAGT
400253 GTTGCGATAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
* *
400273 ATTGCGATAGTCAGAATCTC
1 GTTGCGATAGTCAGAATCGC
*
400293 GTTACGATAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
* **
400313 GTTGCGATTTTGT-ATTATCGC
1 GTTGCGA--TAGTCAGAATCGC
* * *
400334 GTTGCAATAGTCAAAATCAC
1 GTTGCGATAGTCAGAATCGC
400354 GTTGCGA
1 GTTGCGA
400361 ATCTGGAAAC
Statistics
Matches: 70, Mismatches: 15, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
19 3 0.04
20 52 0.74
21 12 0.17
22 3 0.04
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
GTTGCGATAGTCAGAATCGC
Found at i:400398 original size:20 final size:19
Alignment explanation
Indices: 400375--400420 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
400365 GGAAACTGAT
*
400375 TTGCGATACTGGAGATCGCG
1 TTGCGAT-CTAGAGATCGCG
*
400395 TTGCGATTTAGAGATCGCG
1 TTGCGATCTAGAGATCGCG
400414 TTGCGAT
1 TTGCGAT
400421 TTTGTTGGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.20, C:0.17, G:0.33, T:0.30
Consensus pattern (19 bp):
TTGCGATCTAGAGATCGCG
Found at i:400410 original size:19 final size:19
Alignment explanation
Indices: 400386--400422 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
400376 TGCGATACTG
400386 GAGATCGCGTTGCGATTTA
1 GAGATCGCGTTGCGATTTA
400405 GAGATCGCGTTGCGATTT
1 GAGATCGCGTTGCGATTT
400423 TGTTGGTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.19, C:0.16, G:0.32, T:0.32
Consensus pattern (19 bp):
GAGATCGCGTTGCGATTTA
Found at i:400606 original size:20 final size:21
Alignment explanation
Indices: 400581--400627 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
400571 AATAGAAAAA
*
400581 TTTATT-AAATATATTT-TAAC
1 TTTATTAAAATAGATTTCT-AC
400601 TTTATTAAAATAGATTTCTAC
1 TTTATTAAAATAGATTTCTAC
400622 TTTATT
1 TTTATT
400628 TAGTTGTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 6 0.25
21 17 0.71
22 1 0.04
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.55
Consensus pattern (21 bp):
TTTATTAAAATAGATTTCTAC
Found at i:404718 original size:60 final size:60
Alignment explanation
Indices: 404625--404751 Score: 191
Period size: 60 Copynumber: 2.1 Consensus size: 60
404615 GTAATAAAGT
* * **
404625 GTGGATCGTCATCCGCGCGTTCAAGGGTTCTATCCGAGCTGGTTCCACGTAAGGAAAGGC
1 GTGGATCCTCATCCGCGCCTTCAAGGGTTCTATCCGAGCTGGCGCCACGTAAGGAAAGGC
**
404685 GTGGATCCTCATCCGCGCCTTCGCGGGTTCTATCCGAGCTGGCGCCACGTAAGGAAAGGC
1 GTGGATCCTCATCCGCGCCTTCAAGGGTTCTATCCGAGCTGGCGCCACGTAAGGAAAGGC
*
404745 GCGGATC
1 GTGGATC
404752 GCCTTCGCGT
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.18, C:0.28, G:0.32, T:0.21
Consensus pattern (60 bp):
GTGGATCCTCATCCGCGCCTTCAAGGGTTCTATCCGAGCTGGCGCCACGTAAGGAAAGGC
Found at i:408488 original size:24 final size:23
Alignment explanation
Indices: 408439--408498 Score: 70
Period size: 23 Copynumber: 2.6 Consensus size: 23
408429 TTAATGTATA
408439 TTTTATTATATTTAATATTTTAT
1 TTTTATTATATTTAATATTTTAT
408462 TTTTAATT-TATTTAAGTA-TTTAT
1 TTTT-ATTATATTTAA-TATTTTAT
*
408485 TTTTTTTAATATTT
1 TTTTATT-ATATTT
408499 TATTTAATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
22 2 0.06
23 20 0.62
24 10 0.31
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (23 bp):
TTTTATTATATTTAATATTTTAT
Found at i:409643 original size:24 final size:24
Alignment explanation
Indices: 409611--409660 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
409601 AGATTATAGT
409611 TATATAATTAGATTATTATTTTGA
1 TATATAATTAGATTATTATTTTGA
409635 TATATAATTAGATTATTATTTTGA
1 TATATAATTAGATTATTATTTTGA
409659 TA
1 TA
409661 AAAAAATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (24 bp):
TATATAATTAGATTATTATTTTGA
Found at i:410859 original size:34 final size:33
Alignment explanation
Indices: 410792--410879 Score: 106
Period size: 33 Copynumber: 2.6 Consensus size: 33
410782 TAATACTTAC
*
410792 TTTATTTCGTT-AATTTGGTTGGATTTATTTTAA
1 TTTATTTTGTTAAATTT-GTTGGATTTATTTTAA
*
410825 TTTATTTTGTTAAATTTGTTGGATTTTTTGTTAA
1 TTTATTTTGTTAAATTTGTTGGATTTATT-TTAA
* *
410859 TGTATTTTGGTTAATTTTGTT
1 TTTATTTT-GTTAAATTTGTT
410880 TATTACCATT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
33 21 0.44
34 16 0.33
35 11 0.23
ACGTcount: A:0.19, C:0.01, G:0.16, T:0.64
Consensus pattern (33 bp):
TTTATTTTGTTAAATTTGTTGGATTTATTTTAA
Found at i:414358 original size:16 final size:16
Alignment explanation
Indices: 414332--414368 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
414322 ATATTTTTTC
*
414332 AAATAATCATAATAAA
1 AAATAAGCATAATAAA
*
414348 TAATAAGCATAATAAA
1 AAATAAGCATAATAAA
414364 AAATA
1 AAATA
414369 TTATAACAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.24
Consensus pattern (16 bp):
AAATAAGCATAATAAA
Found at i:416742 original size:43 final size:43
Alignment explanation
Indices: 416690--416773 Score: 123
Period size: 43 Copynumber: 2.0 Consensus size: 43
416680 AATCTAATAC
* * *
416690 AATCGTTTTAAGAAATATTAATTCACCGCGTGGAAAATCATAA
1 AATCATTTTAAGAAATATTAATGCACCGCGTAGAAAATCATAA
* *
416733 AATCATTTTAAGAAATATTAGTGCACCGTGTAGAAAATCAT
1 AATCATTTTAAGAAATATTAATGCACCGCGTAGAAAATCAT
416774 GGTCATTTCT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.31
Consensus pattern (43 bp):
AATCATTTTAAGAAATATTAATGCACCGCGTAGAAAATCATAA
Found at i:428601 original size:14 final size:14
Alignment explanation
Indices: 428557--428601 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
428547 TATTTGAAAT
428557 AAAATGGAAAGTTG
1 AAAATGGAAAGTTG
*
428571 ATAAAT-GATAGTT-
1 A-AAATGGAAAGTTG
428584 AAAATGGAAAGTTG
1 AAAATGGAAAGTTG
428598 AAAA
1 AAAA
428602 ATATTATGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
12 4 0.15
13 7 0.27
14 11 0.42
15 4 0.15
ACGTcount: A:0.53, C:0.00, G:0.22, T:0.24
Consensus pattern (14 bp):
AAAATGGAAAGTTG
Found at i:430044 original size:19 final size:19
Alignment explanation
Indices: 430020--430114 Score: 102
Period size: 19 Copynumber: 5.0 Consensus size: 19
430010 TATGCATTGG
*
430020 GCTATGAATTTGAAAATAA
1 GCTATGAATATGAAAATAA
*
430039 GCTATGAATATGACAATAA
1 GCTATGAATATGAAAATAA
* *
430058 GCTATGAGTCTGAAAATAA
1 GCTATGAATATGAAAATAA
* *
430077 GTTATGAATATGGAAATAA
1 GCTATGAATATGAAAATAA
* *
430096 GTTCT-AATATAGAAAATAA
1 GCTATGAATAT-GAAAATAA
430115 ATTCTGAAAT
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
18 5 0.08
19 59 0.92
ACGTcount: A:0.47, C:0.06, G:0.17, T:0.29
Consensus pattern (19 bp):
GCTATGAATATGAAAATAA
Found at i:432017 original size:22 final size:22
Alignment explanation
Indices: 431990--432042 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
431980 TGACTCAGAT
431990 AGGAAGCTAGATGACTTGTTTA
1 AGGAAGCTAGATGACTTGTTTA
432012 AGGAAGCTAGATGACTTGTTTA
1 AGGAAGCTAGATGACTTGTTTA
432034 AGGAA-CTAG
1 AGGAAGCTAG
432043 TAGGCTGATA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 4 0.13
22 27 0.87
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.28
Consensus pattern (22 bp):
AGGAAGCTAGATGACTTGTTTA
Found at i:433574 original size:27 final size:27
Alignment explanation
Indices: 433526--433580 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
433516 TTGAGTAGGC
**
433526 TCTTAGGCCCCGAGATGTTCCCTTGGG
1 TCTTAGGCCCCGAGATACTCCCTTGGG
* *
433553 TCTTAGGCCCTGAGGTACTCCCTTGGG
1 TCTTAGGCCCCGAGATACTCCCTTGGG
433580 T
1 T
433581 AGGCTCTAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.11, C:0.29, G:0.29, T:0.31
Consensus pattern (27 bp):
TCTTAGGCCCCGAGATACTCCCTTGGG
Found at i:433608 original size:31 final size:31
Alignment explanation
Indices: 433573--433634 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
433563 TGAGGTACTC
*
433573 CCTTGGGTAGGCTCTAAGACCCCAAGGTATT
1 CCTTGGGTAGACTCTAAGACCCCAAGGTATT
* *
433604 CCTTGGGTAGACTCTAAGGCCTCAAGGTATT
1 CCTTGGGTAGACTCTAAGACCCCAAGGTATT
433635 TCCCTTAGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.23, C:0.24, G:0.26, T:0.27
Consensus pattern (31 bp):
CCTTGGGTAGACTCTAAGACCCCAAGGTATT
Found at i:433963 original size:32 final size:32
Alignment explanation
Indices: 433904--433982 Score: 86
Period size: 32 Copynumber: 2.5 Consensus size: 32
433894 GACCCTTACA
* * * *
433904 TAGGCTCTTAGACCCCGAGATATTCCCTTGGG
1 TAGGCTCTTAGGCCCCAAGATAGTCCCTTAGG
* *
433936 TAGGCTCTTAGGCCCTAAGGTAGTCCCTTAGG
1 TAGGCTCTTAGGCCCCAAGATAGTCCCTTAGG
* *
433968 TAGGTTCTAAGGCCC
1 TAGGCTCTTAGGCCC
433983 AACGGTATTT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.28
Consensus pattern (32 bp):
TAGGCTCTTAGGCCCCAAGATAGTCCCTTAGG
Found at i:437281 original size:16 final size:16
Alignment explanation
Indices: 437256--437286 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
437246 AAATTTTTAA
437256 TAGAAAATAATGAATT
1 TAGAAAATAATGAATT
*
437272 TAGAACATAATGAAT
1 TAGAAAATAATGAAT
437287 AGGCATGTGA
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:0.55, C:0.03, G:0.13, T:0.29
Consensus pattern (16 bp):
TAGAAAATAATGAATT
Found at i:440404 original size:15 final size:16
Alignment explanation
Indices: 440380--440412 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
440370 TTTATATAGA
440380 AAATAACCTTAAA-AT
1 AAATAACCTTAAACAT
*
440395 AAATATCCTTAAACAT
1 AAATAACCTTAAACAT
440411 AA
1 AA
440413 GGGCTAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (16 bp):
AAATAACCTTAAACAT
Found at i:443526 original size:35 final size:35
Alignment explanation
Indices: 443462--443534 Score: 94
Period size: 35 Copynumber: 2.1 Consensus size: 35
443452 ATTAATTAAT
* *
443462 ATCTGGTGTGGTAATCATTTAAATCAATCATTGAA
1 ATCTGGTGTGGTAATCATATAAATAAATCATTGAA
* *
443497 ATCTGGTGTGGTAATCA-ATCAATGAAATCATTTAA
1 ATCTGGTGTGGTAATCATATAAAT-AAATCATTGAA
443532 ATC
1 ATC
443535 AAGATATCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 4 0.12
35 29 0.88
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (35 bp):
ATCTGGTGTGGTAATCATATAAATAAATCATTGAA
Found at i:443549 original size:17 final size:18
Alignment explanation
Indices: 443513--443554 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
443503 TGTGGTAATC
*
443513 AATCAATGAAATCATTTA
1 AATCAATGAAATCATATA
*
443531 AATCAA-GATATCATATA
1 AATCAATGAAATCATATA
443548 AATCAAT
1 AATCAAT
443555 AATATTTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.52, C:0.12, G:0.05, T:0.31
Consensus pattern (18 bp):
AATCAATGAAATCATATA
Found at i:454182 original size:5 final size:5
Alignment explanation
Indices: 454172--454220 Score: 53
Period size: 5 Copynumber: 9.8 Consensus size: 5
454162 ATTTTGTTCT
* * * * *
454172 TTTTA TTTTA TTTTA TTTTA TTTCA ATTTC TTTTA ATGTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
454221 GAGTTTAGTC
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.73
Consensus pattern (5 bp):
TTTTA
Found at i:457479 original size:5 final size:5
Alignment explanation
Indices: 457469--457494 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
457459 TATTATTATT
457469 TCGGG TCGGG TCGGG TCGGG TCGGG T
1 TCGGG TCGGG TCGGG TCGGG TCGGG T
457495 TTCTAAGTCA
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:0.00, C:0.19, G:0.58, T:0.23
Consensus pattern (5 bp):
TCGGG
Found at i:458573 original size:32 final size:32
Alignment explanation
Indices: 458490--458583 Score: 100
Period size: 32 Copynumber: 2.9 Consensus size: 32
458480 GGGTCGGGTC
* * *
458490 AATTTTTGGGTCGGGTGATTATCAGATCTATT
1 AATTTTTGGGTCGGGTCAATATCAGATCGATT
* * * *
458522 ATTTTTTAGTTCGGATCAATATC-GAATCGATT
1 AATTTTTGGGTCGGGTCAATATCAG-ATCGATT
*
458554 AATTTTTGGGTCGGGTCAATATCAGGTCGA
1 AATTTTTGGGTCGGGTCAATATCAGATCGA
458584 GTCAATATTG
Statistics
Matches: 48, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
31 1 0.02
32 46 0.96
33 1 0.02
ACGTcount: A:0.24, C:0.12, G:0.23, T:0.40
Consensus pattern (32 bp):
AATTTTTGGGTCGGGTCAATATCAGATCGATT
Found at i:459132 original size:18 final size:18
Alignment explanation
Indices: 459091--459132 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
459081 ATAAATATAA
* *
459091 TATTA-TTTCTTTTGTTT
1 TATTATTTTCTATTATTT
459108 TAGTTATTTTCTATTATTT
1 TA-TTATTTTCTATTATTT
459127 TATTAT
1 TATTAT
459133 AAATATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 2 0.10
18 7 0.33
19 12 0.57
ACGTcount: A:0.19, C:0.05, G:0.05, T:0.71
Consensus pattern (18 bp):
TATTATTTTCTATTATTT
Found at i:463872 original size:114 final size:114
Alignment explanation
Indices: 463566--464454 Score: 1420
Period size: 114 Copynumber: 7.8 Consensus size: 114
463556 AATCTATCAT
*
463566 TTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATCAGCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
*
463631 AATTCATAATGAGAAGAACTTGTTCAACCTTTTACATGAATTCATC-AA
66 AATTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATTCATCAAA
463679 TTGATGGATCAG-TATTTCCAGAGAA-GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
1 TTGATGGATCAGCT-TTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
*
463742 AAATTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAA
65 AAATTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATTCATCAAA
*
463792 TTGATGGATTAGCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATCAGCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
*
463857 AATTCATAATGAGAAGAACTTGTTCAACCTTTTACATGAATTCATC-AA
66 AATTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATTCATCAAA
463905 TTGATGGATCAG-TATTTCCAGAGAA-GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
1 TTGATGGATCAGCT-TTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
*
463968 AAATTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAA
65 AAATTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATTCATCAAA
*
464018 TTGATGGATTAGCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATCAGCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
*
464083 AATTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAA
66 AATTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATTCATCAAA
*
464132 TTGATGGATTAGCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATCAGCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
*
464197 AATTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAA
66 AATTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATTCATCAAA
*
464246 TTGATGGATTAGCTTTTCCAGAG-A-GTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGA
1 TTGATGGATCAGCTTTTCCAGAGAAGGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGA
* * * *
464309 AGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATC-AT
63 AGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATTCATCAAA
* * * * * *
464360 TTGATGTATCAACATTGCCAG-GTAGAGTTCATAATAAGAAGAACTCGTCATCTGAAGAAGGAAG
1 TTGATGGATCAGCTTTTCCAGAGAAG-GTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAG
* *
464424 AAGAAGTTCATAATAAGAAGAACTTGTTCAA
62 AAGAAATTCATAATGAGAAGAACTTGTTCAA
464455 TAATTCTATC
Statistics
Matches: 741, Mismatches: 21, Indels: 25
0.94 0.03 0.03
Matches are distributed among these distances:
112 185 0.25
113 97 0.13
114 329 0.44
115 63 0.09
116 67 0.09
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.28
Consensus pattern (114 bp):
TTGATGGATCAGCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
AATTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATTCATCAAA
Found at i:463960 original size:226 final size:226
Alignment explanation
Indices: 463566--464454 Score: 1498
Period size: 226 Copynumber: 3.9 Consensus size: 226
463556 AATCTATCAT
* *
463566 TTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATTAGCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
463631 AATTCATAATGAGAAGAACTTGTTCAACCTTTTACATGAATTCATCAATTGATGGATCAGTATTT
66 AATTCATAATGAGAAGAACTTGTTCAACCTTTTACATGAATTCATCAATTGATGGATCAGTATTT
463696 CCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAA
131 CCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAA
463761 TTTGTTCAACCTTTTACCTGAATTCATCAAA
196 TTTGTTCAACCTTTTACCTGAATTCATCAAA
463792 TTGATGGATTAGCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATTAGCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
463857 AATTCATAATGAGAAGAACTTGTTCAACCTTTTACATGAATTCATCAATTGATGGATCAGTATTT
66 AATTCATAATGAGAAGAACTTGTTCAACCTTTTACATGAATTCATCAATTGATGGATCAGTATTT
463922 CCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAA
131 CCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAA
463987 TTTGTTCAACCTTTTACCTGAATTCATCAAA
196 TTTGTTCAACCTTTTACCTGAATTCATCAAA
464018 TTGATGGATTAGCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATTAGCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
* * *
464083 AATTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAATTGATGGATTAGCT-T
66 AATTCATAATGAGAAGAACTTGTTCAACCTTTTACATGAATTCATC-AATTGATGGATCAG-TAT
464147 TTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAA
129 TTCCAGAGAA-GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAA
464212 GAATTTGTTCAACCTTTTACCTGAATTCATCAAA
193 GAATTTGTTCAACCTTTTACCTGAATTCATCAAA
464246 TTGATGGATTAGCTTTTCCAGAG-A-GTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGA
1 TTGATGGATTAGCTTTTCCAGAGAAGGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGA
* * * * * **
464309 AGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCATTTGATGTATCAACA
63 AGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTACATGAATTCATCAATTGATGGATCAGTA
* * *
464374 TTGCCAG-GTAGAGTTCATAATAAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
128 TTTCCAGAG-A-AGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAATTCATAAT
* *
464438 AAGAAGAACTTGTTCAA
188 GAGAAGAATTTGTTCAA
464455 TAATTCTATC
Statistics
Matches: 632, Mismatches: 19, Indels: 19
0.94 0.03 0.03
Matches are distributed among these distances:
226 350 0.55
227 26 0.04
228 146 0.23
229 64 0.10
230 1 0.00
231 45 0.07
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.28
Consensus pattern (226 bp):
TTGATGGATTAGCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
AATTCATAATGAGAAGAACTTGTTCAACCTTTTACATGAATTCATCAATTGATGGATCAGTATTT
CCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAA
TTTGTTCAACCTTTTACCTGAATTCATCAAA
Found at i:464185 original size:340 final size:339
Alignment explanation
Indices: 463561--464454 Score: 1465
Period size: 340 Copynumber: 2.6 Consensus size: 339
463551 ATTTAAATCT
*
463561 ATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
1 ATCAATTGATGGATCAGCTTTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
463626 GAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTACATGAATTCATCAATTGATGGATCAG
65 GAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTACATGAATTCATCAATTGATGGATCAG
463691 -TATTTCCAGAGAA-GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
130 CT-TTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
463754 AGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAATTGATGGATTAGCTTTTCCAGAGAAGG
194 AGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAATTGATGGATTAGCTTTTCCAGAGAAGG
463819 TTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAA
259 TTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAA
463884 CCTTTTACATGAATTC
324 CCTTTTACATGAATTC
463900 ATCAATTGATGGATCAG-TATTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
1 ATCAATTGATGGATCAGCT-TTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* * *
463964 GAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAATTGATGGATTA
65 GAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTACATGAATTCATC-AATTGATGGATCA
464029 GCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
129 GCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
464094 AGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAATTGATGGATTAGCTTTTCCAGAGAAGG
194 AGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAATTGATGGATTAGCTTTTCCAGAGAAGG
*
464159 TTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAA
259 TTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAA
*
464224 CCTTTTACCTGAATTC
324 CCTTTTACATGAATTC
*
464240 ATCAAATTGATGGATTAGCTTTTCCAGAG-AGTTCATAATGAGAAGAACTCGTCATCTGAAGAAG
1 ATC-AATTGATGGATCAGCTTTTCCAGAGAAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAG
* * * * *
464304 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCATTTGATGTAT
62 GAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTACATGAATTCATCAATTGATGGAT
* * * * * *
464369 CAACATTGCCAG-GTAGAGTTCATAATAAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTC
127 CAGCTTTTCCAGAGAAG-GTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAATTC
* *
464433 ATAATAAGAAGAACTTGTTCAA
188 ATAATGAGAAGAATTTGTTCAA
464455 TAATTCTATC
Statistics
Matches: 520, Mismatches: 22, Indels: 20
0.93 0.04 0.04
Matches are distributed among these distances:
338 86 0.17
339 49 0.09
340 216 0.42
341 25 0.05
342 35 0.07
343 63 0.12
344 1 0.00
345 45 0.09
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.28
Consensus pattern (339 bp):
ATCAATTGATGGATCAGCTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
AAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTACATGAATTCATCAATTGATGGATCAGC
TTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAG
AAGAATTTGTTCAACCTTTTACCTGAATTCATCAAATTGATGGATTAGCTTTTCCAGAGAAGGTT
CATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACC
TTTTACATGAATTC
Found at i:464790 original size:3 final size:3
Alignment explanation
Indices: 464782--464845 Score: 110
Period size: 3 Copynumber: 21.3 Consensus size: 3
464772 ATATTAATTG
*
464782 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATA ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
464830 ATC ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT A
464846 AATATATTAA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:468686 original size:3 final size:3
Alignment explanation
Indices: 468678--468741 Score: 101
Period size: 3 Copynumber: 21.3 Consensus size: 3
468668 TTAATATATT
* *
468678 TAA TAA TAA TAA TGA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
468726 TTA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA T
468742 CAATTAATAT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:468687 original size:15 final size:17
Alignment explanation
Indices: 468678--468750 Score: 94
Period size: 18 Copynumber: 4.1 Consensus size: 17
468668 TTAATATATT
*
468678 TAATAATAATAATGATGA
1 TAATAATAATAAT-ATAA
468696 TAATAATAATAATAATAA
1 TAATAATAATAAT-ATAA
468714 TAATAATAATAATTATAA
1 TAATAATAATAA-TATAA
468732 TAATAATAATCAAT-TAA
1 TAATAATAAT-AATATAA
468749 TA
1 TA
468751 TGGGTAAAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 5
0.88 0.03 0.09
Matches are distributed among these distances:
17 5 0.10
18 43 0.84
19 3 0.06
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (17 bp):
TAATAATAATAATATAA
Found at i:469419 original size:114 final size:114
Alignment explanation
Indices: 469069--469731 Score: 1016
Period size: 114 Copynumber: 5.8 Consensus size: 114
469059 GATAGAATTA
* * * *
469069 TTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTTATTAT
1 TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTAT
* * * * * * * * *
469134 GAACTCTAC-CTGGCAATGTTGATACATCAA-ATGATGAATTCAAGCAAAAGG
63 GAAC-CTTCTCTGGAAAAGCTAATCCATCAATTTGATGAATTCAGGTAAAAGG
* *
469185 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
1 TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTAT
469250 GAA-C-TCTCTGGAAAAGCTAATCCATCAATTTGATGAATTCAGGTAAAAGG
63 GAACCTTCTCTGGAAAAGCTAATCCATCAATTTGATGAATTCAGGTAAAAGG
469300 TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
469365 CCTTCTCTGGAAAAGCTAATCCATCAATTTGATGAATTCAGGTAAAAGG
66 CCTTCTCTGGAAAAGCTAATCCATCAATTTGATGAATTCAGGTAAAAGG
469414 TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
*
469479 CATTCTCTGGAAAAGCTAATCCATCAATTTGATGAATTCAGGTAAAAGG
66 CCTTCTCTGGAAAAGCTAATCCATCAATTTGATGAATTCAGGTAAAAGG
469528 TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
* *
469593 -CTTCTCTGGAAATA-CTGATCCATCAA-TTGATGAATTCATGTAAAAGG
66 CCTTCTCTGGAAA-AGCTAATCCATCAATTTGATGAATTCAGGTAAAAGG
*
469640 TTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
* *
469705 CTTTCTCTGGAAAAGCTGATCCATCAA
66 CCTTCTCTGGAAAAGCTAATCCATCAA
469732 ATGATAGATT
Statistics
Matches: 521, Mismatches: 19, Indels: 17
0.94 0.03 0.03
Matches are distributed among these distances:
112 104 0.20
113 47 0.09
114 242 0.46
115 62 0.12
116 66 0.13
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (114 bp):
TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
CCTTCTCTGGAAAAGCTAATCCATCAATTTGATGAATTCAGGTAAAAGG
Found at i:469662 original size:340 final size:340
Alignment explanation
Indices: 469069--469731 Score: 1030
Period size: 340 Copynumber: 1.9 Consensus size: 340
469059 GATAGAATTA
* * *
469069 TTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTTATTAT
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT-A-GAGTTCTTCTCATTAT
* * * * *
469134 GAACTCTACCTGGCAATGTTGATACATCAAATGATGAATTCAAGCAAAAGGTTGAACAAGTTCTT
64 GAACTCTA-CTGGAAAAGCTAATACATCAAATGATGAATTCAAGCAAAAGGTTGAACAAATTCTT
469199 CTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTCTGGAAA
128 CTCATTATGAACTTCTTCTTCCTTCTTCAGAT-A-GAGTTCTTCTCATTATGAACTCTCTGGAAA
469264 AGCTAATCCATCAATTTGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAATTTC
191 AGCTAATCCATCAATTTGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAATTTC
469329 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGCTAATCCATCAATT
256 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGCTAATCCATCAATT
469394 TGATGAATTCAGGTAAAAGG
321 TGATGAATTCAGGTAAAAGG
*
469414 TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGAT-GAGTTCTTCTCATTATGA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAGAGTTCTTCTCATTATGA
* * * *
469478 ACATTCT-CTGGAAAAGCTAATCCATCAATTTGATGAATTCAGGTAAAAGGTTGAACAAATTCTT
66 AC--TCTACTGGAAAAGCTAATACATCAA-ATGATGAATTCAAGCAAAAGGTTGAACAAATTCTT
*
469542 CTCATTATGAATTTCTTCTTCCTTCTTCAGAT-GAGTTCTTCTCATTATGAACTTCTCTGGAAAT
128 CTCATTATGAACTTCTTCTTCCTTCTTCAGATAGAGTTCTTCTCATTATGAAC-TCTCTGGAAA-
* * *
469606 A-CTGATCCATCAA-TTGATGAATTCATGTAAAAGGTTGAACAAGTTCTTCTCATTATGAATTTC
191 AGCTAATCCATCAATTTGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAATTTC
* *
469669 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAA
256 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGCTAATCCATCAA
469732 ATGATAGATT
Statistics
Matches: 294, Mismatches: 19, Indels: 15
0.90 0.06 0.05
Matches are distributed among these distances:
340 129 0.44
341 21 0.07
342 36 0.12
343 62 0.21
344 3 0.01
345 43 0.15
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (340 bp):
TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAGAGTTCTTCTCATTATGA
ACTCTACTGGAAAAGCTAATACATCAAATGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTC
ATTATGAACTTCTTCTTCCTTCTTCAGATAGAGTTCTTCTCATTATGAACTCTCTGGAAAAGCTA
ATCCATCAATTTGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTT
CCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGCTAATCCATCAATTTGATG
AATTCAGGTAAAAGG
Found at i:470607 original size:83 final size:83
Alignment explanation
Indices: 470471--471027 Score: 1001
Period size: 83 Copynumber: 6.7 Consensus size: 83
470461 GTTCTTACCA
* *
470471 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCACATTCATCTTCCAAAT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-GCAAATTCATCTTCTAAAT
*
470535 TCAATGATTGGTTCTG-CC
65 TCAATGATTGGTTCTGTTC
470553 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAAT
1 -AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAAT
470618 TCAATGATTGGTTCTGTTC
65 TCAATGATTGGTTCTGTTC
*
470637 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTTTAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATT
470702 CAATGATTGGTTCTGTTC
66 CAATGATTGGTTCTGTTC
*
470720 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGAAAATTCATCTTCTAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATT
470785 CAATGATTGGTTCTGTTC
66 CAATGATTGGTTCTGTTC
* *
470803 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTTTAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATT
470868 CAATGATTGGTTCTGTTC
66 CAATGATTGGTTCTGTTC
*
470886 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATTTTCTAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATT
*
470951 CAATGATTGGTTCTGTTT
66 CAATGATTGGTTCTGTTC
470969 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTC
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTC
471028 CAGTTAATGT
Statistics
Matches: 458, Mismatches: 14, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
83 455 0.99
84 3 0.01
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.29
Consensus pattern (83 bp):
AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATT
CAATGATTGGTTCTGTTC
Found at i:471833 original size:16 final size:19
Alignment explanation
Indices: 471790--471829 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
471780 CATATAAAAG
*
471790 AATAAATTGAATTTCCAAT
1 AATAAATTGAATCTCCAAT
*
471809 AATAAATTGAATCTCAAAT
1 AATAAATTGAATCTCCAAT
471828 AA
1 AA
471830 ATTGGACTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.10, G:0.05, T:0.33
Consensus pattern (19 bp):
AATAAATTGAATCTCCAAT
Found at i:472186 original size:19 final size:17
Alignment explanation
Indices: 472163--472208 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
472153 CCTTGACCCC
*
472163 CCTTTTTTCTTTTTTTT
1 CCTTTTTTCTTTCTTTT
472180 CTTCTTTTTT-TTTCTTTT
1 C--CTTTTTTCTTTCTTTT
472198 CCTTTTTTCTT
1 CCTTTTTTCTT
472209 CAAGCATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
16 7 0.28
17 3 0.12
18 8 0.32
19 7 0.28
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (17 bp):
CCTTTTTTCTTTCTTTT
Found at i:472190 original size:13 final size:13
Alignment explanation
Indices: 472172--472209 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
472162 CCCTTTTTTC
472172 TTTTTTTTCTTCT
1 TTTTTTTTCTTCT
472185 TTTTTTTTCTT-T
1 TTTTTTTTCTTCT
*
472197 TCCTTTTTTCTTC
1 T-TTTTTTTCTTC
472210 AAGCATAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 2 0.09
13 20 0.91
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTTTTTCTTCT
Found at i:483541 original size:113 final size:114
Alignment explanation
Indices: 483014--483895 Score: 1348
Period size: 113 Copynumber: 7.8 Consensus size: 114
483004 AATCTATCAT
*
483014 TTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATCAGCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
* *
483079 AATTCATAATGAGAAGAACTTGTTCAACCTTTTACATGAATTCATC-GA
66 AATTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATTCATCAAA
483127 TTGATGGATCAG-TATTTCCAGAGAA-GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
1 TTGATGGATCAGCT-TTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
*
483190 AAATTCATAATGAGAAGAATTTGTTCAACC-TTTACCTGAATTCATCAAA
65 AAATTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATTCATCAAA
*
483239 TTGATGGATTAGCTTTTCCAGAGAAGGTTCATAATGAGAAGAA-TCATCTGAAGAAGGAAGAAGA
1 TTGATGGATCAGCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
*
483303 AATTCATAATGAGAAGAACTTGTTCAACCTTTTACATGAA-T--TC-AA
66 AATTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATTCATCAAA
483348 TTGATGGATCAG-TATTTCCAGAGAA-GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
1 TTGATGGATCAGCT-TTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
*
483411 AAATTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAA
65 AAATTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATTCATCAAA
*
483461 TTGATGGATTAGCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG-
1 TTGATGGATCAGCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
*
483525 AATTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAA
66 AATTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATTCATCAAA
*
483574 TTGATGGATTAGCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCAT-TGAAGAAGGAAGAAGA
1 TTGATGGATCAGCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
*
483638 AATTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAA
66 AATTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATTCATCAAA
*
483687 TTGATGGATTAGCTTTTCCAGAG-A-GTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGA
1 TTGATGGATCAGCTTTTCCAGAGAAGGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGA
* * * *
483750 AGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATC-AT
63 AGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATTCATCAAA
* * * * * *
483801 TTGATGTATCAACATTGCCAG-GTAGAGTTCATAATAAGAAGAACTCGTCATCTGAAGAAGGAAG
1 TTGATGGATCAGCTTTTCCAGAGAAG-GTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAG
* *
483865 AAGAAGTTCATAATAAGAAGAACTTGTTCAA
62 AAGAAATTCATAATGAGAAGAACTTGTTCAA
483896 TAATTCTATC
Statistics
Matches: 726, Mismatches: 22, Indels: 39
0.92 0.03 0.05
Matches are distributed among these distances:
108 18 0.02
109 83 0.11
110 3 0.00
111 32 0.04
112 159 0.22
113 245 0.34
114 61 0.08
115 58 0.08
116 67 0.09
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (114 bp):
TTGATGGATCAGCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
AATTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATTCATCAAA
Found at i:483628 original size:335 final size:336
Alignment explanation
Indices: 483014--483895 Score: 1386
Period size: 335 Copynumber: 2.6 Consensus size: 336
483004 AATCTATCAT
483014 TTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATCAGCTTTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
*
483079 AATTCATAATGAGAAGAACTTGTTCAACCTTTTACATGAATTCATCGATTGATGGATCAG-TATT
65 AATTCATAATGAGAAGAACTTGTTCAACCTTTTACATGAATTCATCAATTGATGGATCAGCT-TT
483143 TCCAGAGAA-GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAG
129 TCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG-AATTCATAATGAGAAG
483207 AATTTGTTCAACCTTTACCTGAATTCATCAAATTGATGGATTAGCTTTTCCAGAGAAGGTTCATA
193 AATTTGTTCAACCTTTACCTGAATTCATCAAATTGATGGATTAGCTTTTCCAGAGAAGGTTCATA
483272 ATGAGAAGAATCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTA
258 ATGAGAAGAATCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTA
483337 CATGAA-T-TC-AA
323 CATGAATTATCAAA
483348 TTGATGGATCAG-TATTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATCAGCT-TTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
* * *
483412 AATTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAATTGATGGATTAGCTTT
65 AATTCATAATGAGAAGAACTTGTTCAACCTTTTACATGAATTCATC-AATTGATGGATCAGCTTT
483477 TCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAATTCATAATGAGAAGA
129 TCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAATTCATAATGAGAAGA
483542 ATTTGTTCAACCTTTTACCTGAATTCATCAAATTGATGGATTAGCTTTTCCAGAGAAGGTTCATA
194 ATTTGTTCAACC-TTTACCTGAATTCATCAAATTGATGGATTAGCTTTTCCAGAGAAGGTTCATA
*
483607 ATGAGAAGAACTCAT-TGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTT
258 ATGAGAAGAA-TCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTT
*
483671 ACCTGAATTCATCAAA
322 ACATGAATT-ATCAAA
*
483687 TTGATGGATTAGCTTTTCCAGAG-AGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAA
1 TTGATGGATCAGCTTTTCCAGAGAAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAA
* * * * * * *
483751 GAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCATTTGATGTATCAACAT
63 GAAATTCATAATGAGAAGAACTTGTTCAACCTTTTACATGAATTCATCAATTGATGGATCAGCTT
* * * *
483816 TGCCAG-GTAGAGTTCATAATAAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATA
128 TTCCAGAGAAG-GTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAA-TTCATAATG
*
483880 AGAAGAACTTGTTCAA
188 AGAAGAATTTGTTCAA
483896 TAATTCTATC
Statistics
Matches: 508, Mismatches: 21, Indels: 28
0.91 0.04 0.05
Matches are distributed among these distances:
333 86 0.17
334 73 0.14
335 155 0.31
336 5 0.01
338 20 0.04
339 25 0.05
340 35 0.07
341 63 0.12
342 1 0.00
343 22 0.04
344 23 0.05
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (336 bp):
TTGATGGATCAGCTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
ATTCATAATGAGAAGAACTTGTTCAACCTTTTACATGAATTCATCAATTGATGGATCAGCTTTTC
CAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAATTCATAATGAGAAGAAT
TTGTTCAACCTTTACCTGAATTCATCAAATTGATGGATTAGCTTTTCCAGAGAAGGTTCATAATG
AGAAGAATCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTACAT
GAATTATCAAA
Found at i:484229 original size:3 final size:3
Alignment explanation
Indices: 484221--484284 Score: 101
Period size: 3 Copynumber: 21.3 Consensus size: 3
484211 ATATTAATTG
* *
484221 ATT ATT ATT ATT ATA ATT ATT ATT ATT ATT ATA ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
484269 ATC ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT A
484285 AATATATTAA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:484293 original size:18 final size:18
Alignment explanation
Indices: 484215--484284 Score: 122
Period size: 18 Copynumber: 3.8 Consensus size: 18
484205 TTACCCATAT
484215 TAATTGATTATTATTATTA
1 TAATT-ATTATTATTATTA
484234 TAATTATTATTATTATTA
1 TAATTATTATTATTATTA
484252 TAATTATTATTATTATTA
1 TAATTATTATTATTATTA
*
484270 TCATTATTATTATTA
1 TAATTATTATTATTA
484285 AATATATTAA
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
18 45 0.90
19 5 0.10
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (18 bp):
TAATTATTATTATTATTA
Found at i:487995 original size:3 final size:3
Alignment explanation
Indices: 487987--488053 Score: 107
Period size: 3 Copynumber: 22.3 Consensus size: 3
487977 TTAATATATT
* *
487987 TAA TAA TAA TAA TGA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
488035 TAA TAA TTA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA T
488054 CAATTAATAT
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:488726 original size:114 final size:114
Alignment explanation
Indices: 488377--489035 Score: 980
Period size: 114 Copynumber: 5.8 Consensus size: 114
488367 GATAGAATTA
* * * *
488377 TTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTT-TTCTTATTAT
1 TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTAT
* * * * * * * * *
488441 GAACTCTAC-CTGGCAATGTTGATACATCAA-ATGATGAATTCAAGCAAAAGG
63 GAAC-CTTCTCTGGAAAAGCTAATCCATCAATTTGATGAATTCAGGTAAAAGG
* *
488492 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
1 TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTAT
488557 GAA-C-TCTCTGGAAAAGCTAATCCATCAATTTGATGAATTCAGGTAAAAGG
63 GAACCTTCTCTGGAAAAGCTAATCCATCAATTTGATGAATTCAGGTAAAAGG
488607 TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
488672 CCTTCTCTGGAAAAGCTAATCCATCAATTTGATGAATTCAGGTAAAAGG
66 CCTTCTCTGGAAAAGCTAATCCATCAATTTGATGAATTCAGGTAAAAGG
488721 TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
*
488786 CATTCTCTGGAAAAGCTAATCCATCAATTTGATGAATTCAGGTAAAAGG
66 CCTTCTCTGGAAAAGCTAATCCATCAATTTGATGAATTCAGGTAAAAGG
488835 TTGAACAAATTCTTCTC---ATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
* *
488897 -CTTCTCTGGAAATA-CTGATCCATCAA-TTGATGAATTCATGTAAAAGG
66 CCTTCTCTGGAAA-AGCTAATCCATCAATTTGATGAATTCAGGTAAAAGG
*
488944 TTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
* *
489009 CTTTCTCTGGAAAAGCTGATCCATCAA
66 CCTTCTCTGGAAAAGCTAATCCATCAA
489036 ATGATAGATT
Statistics
Matches: 514, Mismatches: 19, Indels: 24
0.92 0.03 0.04
Matches are distributed among these distances:
109 36 0.07
110 22 0.04
111 46 0.09
112 65 0.13
113 25 0.05
114 193 0.38
115 115 0.22
116 12 0.02
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.39
Consensus pattern (114 bp):
TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
CCTTCTCTGGAAAAGCTAATCCATCAATTTGATGAATTCAGGTAAAAGG
Found at i:488942 original size:337 final size:337
Alignment explanation
Indices: 488377--489035 Score: 988
Period size: 337 Copynumber: 1.9 Consensus size: 337
488367 GATAGAATTA
* * *
488377 TTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTTTCTTATTATG
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT-A-GAGTTTTCTCATTATG
* * * * *
488442 AACTCTACCTGGCAATGTTGATACATCAAATGATGAATTCAAGCAAAAGGTTGAACAAGTTCTTC
64 AACTCTA-CTGGAAAAGCTAATACATCAAATGATGAATTCAAGCAAAAGGTTGAACAAATTCTTC
488507 TCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTCTGGAAAA
128 TC--TATGAACTTCTTCTTCCTTCTTCAGAT-A-GAGTTCTTCTCATTATGAACTCTCTGGAAAA
488572 GCTAATCCATCAATTTGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCT
189 GCTAATCCATCAATTTGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCT
488637 TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGCTAATCCATCAATTT
254 TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGCTAATCCATCAATTT
488702 GATGAATTCAGGTAAAAGG
319 GATGAATTCAGGTAAAAGG
*
488721 TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGAT-GAGTTCTTCTCATTATGA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAGAGTT-TTCTCATTATGA
* * * *
488785 ACATTCT-CTGGAAAAGCTAATCCATCAATTTGATGAATTCAGGTAAAAGGTTGAACAAATTCTT
65 AC--TCTACTGGAAAAGCTAATACATCAA-ATGATGAATTCAAGCAAAAGGTTGAACAAATTCTT
*
488849 CTC-ATGAATTTCTTCTTCCTTCTTCAGAT-GAGTTCTTCTCATTATGAACTTCTCTGGAAATA-
127 CTCTATGAACTTCTTCTTCCTTCTTCAGATAGAGTTCTTCTCATTATGAAC-TCTCTGGAAA-AG
* * *
488911 CTGATCCATCAA-TTGATGAATTCATGTAAAAGGTTGAACAAGTTCTTCTCATTATGAATTTCTT
190 CTAATCCATCAATTTGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTT
* *
488975 CTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAA
255 CTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGCTAATCCATCAA
489036 ATGATAGATT
Statistics
Matches: 290, Mismatches: 19, Indels: 19
0.88 0.06 0.06
Matches are distributed among these distances:
337 129 0.44
338 21 0.07
339 1 0.00
340 25 0.09
341 5 0.02
342 29 0.10
343 34 0.12
344 46 0.16
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.39
Consensus pattern (337 bp):
TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAGAGTTTTCTCATTATGAA
CTCTACTGGAAAAGCTAATACATCAAATGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCT
ATGAACTTCTTCTTCCTTCTTCAGATAGAGTTCTTCTCATTATGAACTCTCTGGAAAAGCTAATC
CATCAATTTGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCT
TCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGCTAATCCATCAATTTGATGAAT
TCAGGTAAAAGG
Found at i:488989 original size:223 final size:223
Alignment explanation
Indices: 488377--489035 Score: 986
Period size: 223 Copynumber: 2.9 Consensus size: 223
488367 GATAGAATTA
* * * *
488377 TTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTT-TTCTTATTAT
1 TTGAACAAATTCTTC-T-CTATGAATTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTAT
* ** * * *
488441 GAAC-TCTACCTGGCAATGTTGATACATCAAATGATGAATTCAAGCAAAAGGTTGAACAAGTTCT
61 GAACTTCT--CTGGAAATACTGATCCATCAATTGATGAATTCAAGTAAAAGGTTGAACAAGTTCT
*
488505 TCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAAC-TCTCTGGA
124 TCTCATTATGAATTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTTCTCTGGA
488569 AAAGCTAATCCATCAATTTGATGAATTCAGGTAAAAGG
186 AAAGCTAATCCATCAATTTGATGAATTCAGGTAAAAGG
488607 TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTC--TATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
* * *
488672 CCTTCTCTGGAAA-AGCTAATCCATCAATTTGATGAATTCAGGTAAAAGGTTGAACAAATTCTTC
64 -CTTCTCTGGAAATA-CTGATCCATCAA-TTGATGAATTCAAGTAAAAGGTTGAACAAGTTCTTC
488736 TCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACATTCTCTGGAAAAG
126 TCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TTCTCTGGAAAAG
488801 CTAATCCATCAATTTGATGAATTCAGGTAAAAGG
190 CTAATCCATCAATTTGATGAATTCAGGTAAAAGG
488835 TTGAACAAATTCTTCTC-ATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
1 TTGAACAAATTCTTCTCTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
*
488899 TCTCTGGAAATACTGATCCATCAATTGATGAATTCATGTAAAAGGTTGAACAAGTTCTTCTCATT
66 TCTCTGGAAATACTGATCCATCAATTGATGAATTCAAGTAAAAGGTTGAACAAGTTCTTCTCATT
*
488964 ATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGAT
131 ATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TTCTCTGGAAAAGCTAAT
489029 CCATCAA
195 CCATCAA
489036 ATGATAGATT
Statistics
Matches: 400, Mismatches: 19, Indels: 27
0.90 0.04 0.06
Matches are distributed among these distances:
223 109 0.27
224 23 0.06
225 46 0.12
226 20 0.05
227 5 0.01
228 90 0.22
229 64 0.16
230 43 0.11
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.39
Consensus pattern (223 bp):
TTGAACAAATTCTTCTCTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
TCTCTGGAAATACTGATCCATCAATTGATGAATTCAAGTAAAAGGTTGAACAAGTTCTTCTCATT
ATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGAAAAGCTAATC
CATCAATTTGATGAATTCAGGTAAAAGG
Found at i:489914 original size:83 final size:83
Alignment explanation
Indices: 489778--490334 Score: 992
Period size: 83 Copynumber: 6.7 Consensus size: 83
489768 GTTCTTACCA
* *
489778 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCACATTCATCTTCCAAAT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-GCAAATTCATCTTCTAAAT
*
489842 TCAATGATTGGTTCTG-CC
65 TCAATGATTGGTTCTGTTC
489860 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAAT
1 -AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAAT
489925 TCAATGATTGGTTCTGTTC
65 TCAATGATTGGTTCTGTTC
* *
489944 AACCAGATCAGATAACTCATAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTTTAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATT
490009 CAATGATTGGTTCTGTTC
66 CAATGATTGGTTCTGTTC
*
490027 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGAAAATTCATCTTCTAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATT
490092 CAATGATTGGTTCTGTTC
66 CAATGATTGGTTCTGTTC
* *
490110 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTTTAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATT
490175 CAATGATTGGTTCTGTTC
66 CAATGATTGGTTCTGTTC
*
490193 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATTTTCTAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATT
*
490258 CAATGATTGGTTCTGTTT
66 CAATGATTGGTTCTGTTC
490276 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTC
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTC
490335 CAGTTAATGT
Statistics
Matches: 456, Mismatches: 16, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
83 453 0.99
84 3 0.01
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.30
Consensus pattern (83 bp):
AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATT
CAATGATTGGTTCTGTTC
Found at i:491139 original size:16 final size:19
Alignment explanation
Indices: 491096--491135 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
491086 CATATAAAAG
*
491096 AATAAATTGAATTTCCAAT
1 AATAAATTGAATCTCCAAT
*
491115 AATAAATTGAATCTCAAAT
1 AATAAATTGAATCTCCAAT
491134 AA
1 AA
491136 ATTGGACTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.10, G:0.05, T:0.33
Consensus pattern (19 bp):
AATAAATTGAATCTCCAAT
Found at i:491492 original size:19 final size:17
Alignment explanation
Indices: 491469--491514 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
491459 CCTTGACCCC
*
491469 CCTTTTTTCTTTTTTTT
1 CCTTTTTTCTTTCTTTT
491486 CTTCTTTTTT-TTTCTTTT
1 C--CTTTTTTCTTTCTTTT
491504 CCTTTTTTCTT
1 CCTTTTTTCTT
491515 CAAGCATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
16 7 0.28
17 3 0.12
18 8 0.32
19 7 0.28
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (17 bp):
CCTTTTTTCTTTCTTTT
Found at i:491496 original size:13 final size:13
Alignment explanation
Indices: 491478--491515 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
491468 CCCTTTTTTC
491478 TTTTTTTTCTTCT
1 TTTTTTTTCTTCT
491491 TTTTTTTTCTT-T
1 TTTTTTTTCTTCT
*
491503 TCCTTTTTTCTTC
1 T-TTTTTTTCTTC
491516 AAGCATAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 2 0.09
13 20 0.91
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTTTTTCTTCT
Found at i:492164 original size:15 final size:13
Alignment explanation
Indices: 492132--492169 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 13
492122 TTTGACAGCA
492132 AAAT-AAATAATG
1 AAATAAAATAATG
492144 AAATAAAATAATTG
1 AAATAAAATAA-TG
492158 CAAATAAAATAA
1 -AAATAAAATAA
492170 AACATATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.17
13 6 0.26
14 2 0.09
15 11 0.48
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.24
Consensus pattern (13 bp):
AAATAAAATAATG
Found at i:494349 original size:3 final size:3
Alignment explanation
Indices: 494323--494395 Score: 112
Period size: 3 Copynumber: 24.3 Consensus size: 3
494313 TATATGTATT
*
494323 TAA TATA TAA T-A TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
494368 TAA TAA TAA TAA TTA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
494396 CAATTAATAT
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
2 2 0.03
3 59 0.92
4 3 0.05
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:495834 original size:23 final size:23
Alignment explanation
Indices: 495807--495850 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
495797 AAACTAATTT
* **
495807 ATAAAATTAAATTTATAAATAGG
1 ATAAAAATAAATAAATAAATAGG
495830 ATAAAAATAAATAAATAAATA
1 ATAAAAATAAATAAATAAATA
495851 AATAAATATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.30
Consensus pattern (23 bp):
ATAAAAATAAATAAATAAATAGG
Found at i:495843 original size:4 final size:4
Alignment explanation
Indices: 495834--495858 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
495824 AATAGGATAA
495834 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
495859 TTATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:497428 original size:3 final size:3
Alignment explanation
Indices: 497411--497476 Score: 89
Period size: 3 Copynumber: 22.0 Consensus size: 3
497401 TTGTAATATT
*
497411 TAA TAAA TAA T-A TAA TAA TAA TAA TAA TAA TAA TTA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
**
497456 TAA TTT TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
497477 ATTTAAATTT
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
2 2 0.04
3 50 0.91
4 3 0.05
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:497730 original size:46 final size:45
Alignment explanation
Indices: 497619--497767 Score: 253
Period size: 45 Copynumber: 3.3 Consensus size: 45
497609 GATGAAAATG
* *
497619 TTTGAAAACATCATGCACTGAAGGGCTTACAGATAACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGT
497664 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTT
1 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-T
* *
497710 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGC
1 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGT
497755 TTTGAAAACATCA
1 TTTGAAAACATCA
497768 AAAAGCTCCT
Statistics
Matches: 99, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
45 55 0.56
46 44 0.44
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.23
Consensus pattern (45 bp):
TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGT
Found at i:498072 original size:76 final size:76
Alignment explanation
Indices: 497941--498380 Score: 817
Period size: 76 Copynumber: 5.8 Consensus size: 76
497931 TCAAAATAAC
*
497941 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGAGTTACAGATGACCCT
1 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCT
498006 AAGGCTTTGAA
66 AAGGCTTTGAA
*
498017 AACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCT
1 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCT
498082 AAGGCTTTGAA
66 AAGGCTTTGAA
*
498093 AACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCT
1 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCT
498158 AAGGCTTTGAA
66 AAGGCTTTGAA
*
498169 AACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCT
1 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCT
498234 AAGGCTTTGAA
66 AAGGCTTTGAA
498245 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCT
1 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCT
498310 AAGGCTTTGAA
66 AAGGCTTTGAA
* * *
498321 AACATCAAAAAACTCCGGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATG
1 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATG
498381 TGGGAAATAG
Statistics
Matches: 356, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
76 356 1.00
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (76 bp):
AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCT
AAGGCTTTGAA
Found at i:498655 original size:164 final size:166
Alignment explanation
Indices: 498383--498705 Score: 542
Period size: 164 Copynumber: 2.0 Consensus size: 166
498373 TACAGATGTG
* * *
498383 GGAAATAGTTTACTAAGTAAAAAAACTAAGGAAATCGTTTTCTTACTTTTCAACAATTTCATTTT
1 GGAAATAGTTTACTAAGTAAAAAAACTAAGAAAATCATTTTCTTACTTTCCAACAATTTCATTTT
**
498448 AGAAAAGATTGAATGAGAAACTATGGAAATCGTTTTCTCATTA-TTTTTCAAAATAACATGTTGA
66 AGAAAAGATAAAATGAGAAACTATGGAAATCGTTTTCTCATTATTTTTTCAAAATAACATGTTGA
*
498512 TTAGGTAACATGCCCCAATCTTAAGATAAGGCTGTT
131 TTAGGTAACATGCCCCAATCGTAAGATAAGGCTGTT
498548 GGAAATAGTTTACTAAGT-AAAAAACTAAGAAAATCATTTTCTTACTTTCCAACAATTTCATTTT
1 GGAAATAGTTTACTAAGTAAAAAAACTAAGAAAATCATTTTCTTACTTTCCAACAATTTCATTTT
* **
498612 AGAAAAGATAAAATGAGAAACTATGGAAATTGTTTTCTCATTATTTTTTTGAAATAACATGTTGA
66 AGAAAAGATAAAATGAGAAACTATGGAAATCGTTTTCTCATTATTTTTTCAAAATAACATGTTGA
*
498677 TTGGGTAACATGCCCCAATCGTAAGATAA
131 TTAGGTAACATGCCCCAATCGTAAGATAA
498706 TGCTCATTTT
Statistics
Matches: 147, Mismatches: 10, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
164 83 0.56
165 64 0.44
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (166 bp):
GGAAATAGTTTACTAAGTAAAAAAACTAAGAAAATCATTTTCTTACTTTCCAACAATTTCATTTT
AGAAAAGATAAAATGAGAAACTATGGAAATCGTTTTCTCATTATTTTTTCAAAATAACATGTTGA
TTAGGTAACATGCCCCAATCGTAAGATAAGGCTGTT
Found at i:499246 original size:22 final size:22
Alignment explanation
Indices: 499218--499294 Score: 136
Period size: 22 Copynumber: 3.5 Consensus size: 22
499208 CATAAAGCTT
499218 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
* *
499240 TCATCTTTAAAAAGAGAATATA
1 TCATCTTTGAAAAGAGAATCTA
499262 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
499284 TCATCTTTGAA
1 TCATCTTTGAA
499295 GAGTGTAGAT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.34
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:499854 original size:50 final size:50
Alignment explanation
Indices: 499661--499852 Score: 348
Period size: 50 Copynumber: 3.8 Consensus size: 50
499651 TAACTGGTTC
* *
499661 GTAAAACATTTGACAACATATTCATCATTTCCCGTGGTTTCTACTCAGAT
1 GTAAAACATTTGACAACACATTCATCATTTCCTGTGGTTTCTACTCAGAT
499711 GTAAAACATTTGACAACACATTCATCATTTCCTGTGGTTTCTACTCAGAT
1 GTAAAACATTTGACAACACATTCATCATTTCCTGTGGTTTCTACTCAGAT
* *
499761 GTAAAACATTTGACAACACATTCATCCTTTCCTGTGGTTTCTGCTCAGAT
1 GTAAAACATTTGACAACACATTCATCATTTCCTGTGGTTTCTACTCAGAT
499811 GTAAAACATTTGACAACACATTCATCATTTCCTGTGGTTTCT
1 GTAAAACATTTGACAACACATTCATCATTTCCTGTGGTTTCT
499853 GCCAAGATTT
Statistics
Matches: 137, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 137 1.00
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.36
Consensus pattern (50 bp):
GTAAAACATTTGACAACACATTCATCATTTCCTGTGGTTTCTACTCAGAT
Found at i:502141 original size:114 final size:114
Alignment explanation
Indices: 501941--502160 Score: 343
Period size: 114 Copynumber: 1.9 Consensus size: 114
501931 GATCATGTAG
* * * * *
501941 TTCATCTTTTAATTCCAATGATTGGTTCTTGGGTTCCTACCGAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTCTTGGGTTCATACCAAACCAGATAAGATAACTCAAAGA
502006 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTATACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTATACTATGAGCAAA
* *
502055 TTCATCTTTCAAATCTAATGATTGGTT-TTGGGGTTCATACCAAATCAGATAAGATAACTCAAAG
1 TTCATCTTTCAAATCCAATGATTGGTTCTT-GGGTTCATACCAAACCAGATAAGATAACTCAAAG
* *
502119 AACACTTCCAGAAGATGCTATTGGGTCTCTTTATTTCTACTA
65 AACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTATACTA
502161 CGAGAACGTG
Statistics
Matches: 96, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
113 2 0.02
114 94 0.98
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATGATTGGTTCTTGGGTTCATACCAAACCAGATAAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTATACTATGAGCAAA
Found at i:504331 original size:7 final size:6
Alignment explanation
Indices: 504315--504391 Score: 83
Period size: 6 Copynumber: 13.5 Consensus size: 6
504305 TTTCTCCTTT
*
504315 TTTTTC TTTTTC ATTTTC -TTTTC TTTTTC -TTTTC -TTTTC TTTTTC
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
* *
504360 -TTTTC TTTCT- TTTTTC TTTTTCC TTCTTC TTT
1 TTTTTC TTTTTC TTTTTC TTTTT-C TTTTTC TTT
504392 CTTTGCTGGA
Statistics
Matches: 61, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
5 24 0.39
6 32 0.52
7 5 0.08
ACGTcount: A:0.01, C:0.19, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTTC
Found at i:504336 original size:5 final size:5
Alignment explanation
Indices: 504311--504379 Score: 77
Period size: 5 Copynumber: 13.0 Consensus size: 5
504301 TCAATTTCTC
504311 CTTTT -TTTT CTTTTT CATTTT CTTTT CTTTTT CTTTT CTTTT CTTTTT
1 CTTTT CTTTT C-TTTT C-TTTT CTTTT C-TTTT CTTTT CTTTT C-TTTT
*
504359 CTTTT CTTTCT TTTTT CTTTT
1 CTTTT CTTT-T CTTTT CTTTT
504380 TCCTTCTTCT
Statistics
Matches: 56, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
4 4 0.07
5 28 0.50
6 24 0.43
ACGTcount: A:0.01, C:0.17, G:0.00, T:0.81
Consensus pattern (5 bp):
CTTTT
Found at i:504341 original size:16 final size:16
Alignment explanation
Indices: 504311--504379 Score: 106
Period size: 16 Copynumber: 4.3 Consensus size: 16
504301 TCAATTTCTC
504311 CTTTT-TTTTCTTTTT
1 CTTTTCTTTTCTTTTT
504326 CATTTTCTTTTCTTTTT
1 C-TTTTCTTTTCTTTTT
504343 CTTTTCTTTTCTTTTT
1 CTTTTCTTTTCTTTTT
504359 CTTTTC-TTTCTTTTTT
1 CTTTTCTTTTC-TTTTT
504375 CTTTT
1 CTTTT
504380 TCCTTCTTCT
Statistics
Matches: 51, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
15 5 0.10
16 35 0.69
17 11 0.22
ACGTcount: A:0.01, C:0.17, G:0.00, T:0.81
Consensus pattern (16 bp):
CTTTTCTTTTCTTTTT
Found at i:504342 original size:11 final size:11
Alignment explanation
Indices: 504312--504395 Score: 88
Period size: 11 Copynumber: 7.7 Consensus size: 11
504302 CAATTTCTCC
504312 TTTT-TTTTCT
1 TTTTCTTTTCT
504322 TTTTCATTTTC-
1 TTTTC-TTTTCT
504333 TTTTCTTTT-T
1 TTTTCTTTTCT
504343 CTTTTCTTTTCT
1 -TTTTCTTTTCT
504355 TTTTCTTTTCT
1 TTTTCTTTTCT
504366 TTCTT-TTTTCT
1 TT-TTCTTTTCT
*
504377 TTTTC-CTTCT
1 TTTTCTTTTCT
504387 TCTTTCTTT
1 T-TTTCTTT
504396 GCTGGATGAG
Statistics
Matches: 63, Mismatches: 2, Indels: 16
0.78 0.02 0.20
Matches are distributed among these distances:
10 15 0.24
11 39 0.62
12 9 0.14
ACGTcount: A:0.01, C:0.19, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTCTTTTCT
Found at i:504380 original size:17 final size:17
Alignment explanation
Indices: 504311--504395 Score: 83
Period size: 16 Copynumber: 5.2 Consensus size: 17
504301 TCAATTTCTC
504311 CTTTTT-TTTC-TTTTT
1 CTTTTTCTTTCTTTTTT
*
504326 CATTTTCTTT-TCTTTTT
1 CTTTTTCTTTCT-TTTTT
504343 C-TTTTCTTT-TCTTTTT
1 CTTTTTCTTTCT-TTTTT
504359 C-TTTTCTTTCTTTTTT
1 CTTTTTCTTTCTTTTTT
* *
504375 CTTTTTCCTTCTTCTTT
1 CTTTTTCTTTCTTTTTT
504392 CTTT
1 CTTT
504396 GCTGGATGAG
Statistics
Matches: 62, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
15 5 0.08
16 33 0.53
17 24 0.39
ACGTcount: A:0.01, C:0.20, G:0.00, T:0.79
Consensus pattern (17 bp):
CTTTTTCTTTCTTTTTT
Found at i:507311 original size:36 final size:36
Alignment explanation
Indices: 507234--507323 Score: 101
Period size: 36 Copynumber: 2.5 Consensus size: 36
507224 TAAATGCGAA
* * *
507234 AAATGCATAAATGCAAAAATAAGAATGCAAACTGTG
1 AAATGCATAGATGCAAAAATAAGAATACAAAATGTG
* *
507270 TAATGCATAGATGTAAAAAGTAAGAATACAAAATG-G
1 AAATGCATAGATGCAAAAA-TAAGAATACAAAATGTG
* *
507306 AAATGCACAGATACAAAA
1 AAATGCATAGATGCAAAA
507324 TGTAAATGCA
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
36 31 0.70
37 13 0.30
ACGTcount: A:0.54, C:0.10, G:0.17, T:0.19
Consensus pattern (36 bp):
AAATGCATAGATGCAAAAATAAGAATACAAAATGTG
Found at i:509655 original size:11 final size:11
Alignment explanation
Indices: 509626--509678 Score: 54
Period size: 11 Copynumber: 4.6 Consensus size: 11
509616 TTAATACCTG
509626 AATAAAATAAAT
1 AATAAAAT-AAT
* *
509638 AAAAAAATATT
1 AATAAAATAAT
509649 AATAAAATAAT
1 AATAAAATAAT
509660 -ATAAAAATAAT
1 AAT-AAAATAAT
509671 AAGTAAAA
1 AA-TAAAA
509679 AAAATTTGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
10 2 0.06
11 19 0.56
12 12 0.35
13 1 0.03
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.25
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:509656 original size:23 final size:25
Alignment explanation
Indices: 509626--509671 Score: 78
Period size: 23 Copynumber: 1.9 Consensus size: 25
509616 TTAATACCTG
509626 AATAAAATAA-ATAAAAA-AATATT
1 AATAAAATAATATAAAAATAATATT
509649 AATAAAATAATATAAAAATAATA
1 AATAAAATAATATAAAAATAATA
509672 AGTAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 10 0.48
24 7 0.33
25 4 0.19
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (25 bp):
AATAAAATAATATAAAAATAATATT
Found at i:509671 original size:14 final size:13
Alignment explanation
Indices: 509629--509683 Score: 55
Period size: 14 Copynumber: 4.4 Consensus size: 13
509619 ATACCTGAAT
509629 AAAATAA-ATAAA
1 AAAATAATATAAA
*
509641 AAAAT-AT-TAAT
1 AAAATAATATAAA
509652 AAAATAATATAAA
1 AAAATAATATAAA
509665 AATAATAAGTA-AAA
1 AA-AATAA-TATAAA
509679 AAAAT
1 AAAAT
509684 TTGAAAGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
11 9 0.25
12 7 0.19
13 8 0.22
14 10 0.28
15 2 0.06
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.24
Consensus pattern (13 bp):
AAAATAATATAAA
Found at i:509677 original size:23 final size:23
Alignment explanation
Indices: 509626--509683 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 23
509616 TTAATACCTG
*
509626 AATAAAATAAATAAAAAAATATT
1 AATAAAATAAATAAAAAAATAAT
*
509649 AATAAAAT-AATATAAAAATAAT
1 AATAAAATAAATAAAAAAATAAT
*
509671 AAGTAAAAAAAAT
1 AA-TAAAATAAAT
509684 TTGAAAGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
22 14 0.47
23 13 0.43
24 3 0.10
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (23 bp):
AATAAAATAAATAAAAAAATAAT
Found at i:510470 original size:23 final size:23
Alignment explanation
Indices: 510443--510486 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
510433 AAACTAATTT
* **
510443 ATAAAATTAAATTTATAAATAGG
1 ATAAAAATAAATAAATAAATAGG
510466 ATAAAAATAAATAAATAAATA
1 ATAAAAATAAATAAATAAATA
510487 TTATTTATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.30
Consensus pattern (23 bp):
ATAAAAATAAATAAATAAATAGG
Found at i:512086 original size:3 final size:3
Alignment explanation
Indices: 512039--512122 Score: 78
Period size: 3 Copynumber: 27.0 Consensus size: 3
512029 TTGTAATATT
* * * *
512039 TAA TAAA TAA TATA TAA TAT TAA TAT TAA TAA TTAT TAA TTA TAA TAA
1 TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA
* **
512087 TAA TAT TAA TAA TAA TAA TTT TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
512123 ATTTAAAATG
Statistics
Matches: 64, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
3 56 0.88
4 8 0.12
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (3 bp):
TAA
Found at i:514224 original size:11 final size:11
Alignment explanation
Indices: 514208--514238 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
514198 CAACACCTTG
514208 CATTGCATTCA
1 CATTGCATTCA
*
514219 CATTGCATCCA
1 CATTGCATTCA
514230 CATTGCATT
1 CATTGCATT
514239 TACTTTTTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.26, C:0.29, G:0.10, T:0.35
Consensus pattern (11 bp):
CATTGCATTCA
Found at i:518520 original size:67 final size:67
Alignment explanation
Indices: 518411--518711 Score: 412
Period size: 67 Copynumber: 4.5 Consensus size: 67
518401 CACTCTTTTT
* * * *
518411 CAAGACTTGATATTCCC-T--GAGTGACAGTGGAACAAGTTTGTCCTGATTCAATGGATCAAACT
1 CAAGATTTGATATTCCCTTCAGAGT-A-AGTGGAACAAGTCTGCCCCGATTCAATGGATCAAACT
518473 CCTC
64 CCTC
* * *
518477 CAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGTCCTGATTCAATGGATCAAACTTC
1 CAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCCCCGATTCAATGGATCAAACTCC
518542 TC
66 TC
*
518544 CAATATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCCCCGATTCAATGGATCAAACTCC
1 CAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCCCCGATTCAATGGATCAAACTCC
518609 TC
66 TC
** * * *
518611 CAAGATTTGATATTCCCTTCAGAAAAAGTGGAACAAGTCTACCCCGATTCAAT-AATCAAAATCC
1 CAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCCCCGATTCAATGGATCAAACTCC
*
518675 TT
66 TC
* *
518677 CAAGATCTGATATTCCCTTCAGAGTAAGCGGAACA
1 CAAGATTTGATATTCCCTTCAGAGTAAGTGGAACA
518712 TGTCACTCTT
Statistics
Matches: 214, Mismatches: 18, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
66 57 0.27
67 152 0.71
68 1 0.00
69 4 0.02
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (67 bp):
CAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCCCCGATTCAATGGATCAAACTCC
TC
Found at i:518812 original size:48 final size:48
Alignment explanation
Indices: 518675--518812 Score: 222
Period size: 48 Copynumber: 2.9 Consensus size: 48
518665 ATCAAAATCC
* * *
518675 TTCAAGATCTGATATTCCCTTCAGAGTAAGCGGAACATGTCACTCTTT
1 TTCAAGATTTGATATTCCCTTCAGAGTAAGCGGAACAAGTCTCTCTTT
* *
518723 TCCAAGATTTGATATTCCCTTCAGAGTAAGCGAAACAAGTCTCTCTTT
1 TTCAAGATTTGATATTCCCTTCAGAGTAAGCGGAACAAGTCTCTCTTT
*
518771 TTCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCT
1 TTCAAGATTTGATATTCCCTTCAGAGTAAGCGGAACAAGTCT
518813 GCCCCGATTC
Statistics
Matches: 82, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 82 1.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (48 bp):
TTCAAGATTTGATATTCCCTTCAGAGTAAGCGGAACAAGTCTCTCTTT
Found at i:518901 original size:160 final size:160
Alignment explanation
Indices: 518611--518924 Score: 488
Period size: 160 Copynumber: 1.9 Consensus size: 160
518601 CAAACTCCTC
518611 CAAGATTTGATATTCCCTTCAGAAAAAGTGGAACAAGTCTACCCCGATTCAATAATCAAAATCCT
1 CAAGATTTGATATTCCCTTCAGAAAAAGTGGAACAAGTCTACCCCGATTCAATAATC-AAAT-CT
* *
518676 TCAAGATCTGATATTCCCTTCAGAGTAAGCGGAACATGTCACTCTTTTCCAAGATTTGATATTCC
64 TCAAGATCTGATATTCCCTTCAGAGTAAGCGGAACAAGTCACTCTTTCCCAAGATTTGATATTCC
518741 CTTCAGAGTAAGCGAAACAAGTCTCTCTTTTT
129 CTTCAGAGTAAGCGAAACAAGTCTCTCTTTTT
** *
518773 CAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCCCCGATTCAATGAATC-AAT-TT
1 CAAGATTTGATATTCCCTTCAGAAAAAGTGGAACAAGTCTACCCCGATTCAAT-AATCAAATCTT
* * *
518836 CTAAGATCTTATATTCCTTTCAGAGTAAGCGGAACAAGTCTCTCTTTCCCAAGATTTGATATTCC
65 C-AAGATCTGATATTCCCTTCAGAGTAAGCGGAACAAGTCACTCTTTCCCAAGATTTGATATTCC
* *
518901 CTTCAGAGTAAGTGGAACAAGTCT
129 CTTCAGAGTAAGCGAAACAAGTCT
518925 GCCCTGATTC
Statistics
Matches: 140, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
159 3 0.02
160 80 0.57
161 3 0.02
162 50 0.36
163 4 0.03
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (160 bp):
CAAGATTTGATATTCCCTTCAGAAAAAGTGGAACAAGTCTACCCCGATTCAATAATCAAATCTTC
AAGATCTGATATTCCCTTCAGAGTAAGCGGAACAAGTCACTCTTTCCCAAGATTTGATATTCCCT
TCAGAGTAAGCGAAACAAGTCTCTCTTTTT
Found at i:519017 original size:113 final size:113
Alignment explanation
Indices: 518721--519268 Score: 782
Period size: 113 Copynumber: 4.8 Consensus size: 113
518711 ATGTCACTCT
* *
518721 TTTCC-AAGATTTGATATTCCCTTCAGAGTAAGCGAAACAAGTCTCTCTTTTTCAAGATTTGATA
1 TTTCCTAAGATCTGATATTCCCTTCAGAGTAAGCGAAACAAGTCTCTCTTTTCCAAGATTTGATA
* *
518785 TTCCCTTCAGAGTAAGTGGAACAAGTCTGCCCCGATTCAATGAATCAA
66 TTCCCTTCAGAGTAAGTGGAACAAGTCTGCCCTGATTCAAGGAATCAA
* * * *
518833 TTT-CTAAGATCTTATATTCCTTTCAGAGTAAGCGGAACAAGTCTCTCTTTCCCAAGATTTGATA
1 TTTCCTAAGATCTGATATTCCCTTCAGAGTAAGCGAAACAAGTCTCTCTTTTCCAAGATTTGATA
518897 TTCCCTTCAGAGTAAGTGGAACAAGTCTGCCCTGATTCAAGGAATCAA
66 TTCCCTTCAGAGTAAGTGGAACAAGTCTGCCCTGATTCAAGGAATCAA
**
518945 TTTCCCCAGATCTGATATTCCCTTCAGAGTAAGCGAAACAAGTCTCTCTTTTCCAAGATTTGATA
1 TTTCCTAAGATCTGATATTCCCTTCAGAGTAAGCGAAACAAGTCTCTCTTTTCCAAGATTTGATA
*
519010 TTCCCTTCAGAGTAAGTGGAACAAGTCTACCTCT-ATTCAAGGAATCGAA
66 TTCCCTTCAGAGTAAGTGGAACAAGTCTGCC-CTGATTCAAGGAATC-AA
* *
519059 TTACTCTAAGATCTGATATTCCCTTCAGAGTAAGC-AGAACAAGTCTCTCTTTCCCAAGATTTGA
1 TTTC-CTAAGATCTGATATTCCCTTCAGAGTAAGCGA-AACAAGTCTCTCTTTTCCAAGATTTGA
* * ** *
519123 TATTCTCTTTAGAGTAAGTGGAACAAGTCTATCATGATTCAAGGAATCAA
64 TATTCCCTTCAGAGTAAGTGGAACAAGTCTGCCCTGATTCAAGGAATCAA
** * * * * *
519173 ACTCCTTCAGATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCT-TTTTTTTCAAGATTTGAT
1 TTTCC-TAAGATCTGATATTCCCTTCAGAGTAAGCGAAACAAGTCTCTCTTTTCCAAGATTTGAT
*
519237 ATTTCCTTCAGAGTAAGTGGAACAAGTCTGCC
65 ATTCCCTTCAGAGTAAGTGGAACAAGTCTGCC
519269 TCAATTCAAT
Statistics
Matches: 390, Mismatches: 37, Indels: 17
0.88 0.08 0.04
Matches are distributed among these distances:
111 1 0.00
112 105 0.27
113 140 0.36
114 48 0.12
115 96 0.25
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (113 bp):
TTTCCTAAGATCTGATATTCCCTTCAGAGTAAGCGAAACAAGTCTCTCTTTTCCAAGATTTGATA
TTCCCTTCAGAGTAAGTGGAACAAGTCTGCCCTGATTCAAGGAATCAA
Found at i:519150 original size:228 final size:226
Alignment explanation
Indices: 518727--519277 Score: 863
Period size: 228 Copynumber: 2.4 Consensus size: 226
518717 CTCTTTTCCA
*
518727 AGATTTGATATTCCCTTCAGAGTAAGCGAAACAAGTCTCTCTTTTTCAAGATTTGATATTCCCTT
1 AGATCTGATATTCCCTTCAGAGTAAGCGAAACAAGTCTCTCTTTTTCAAGATTTGATATTCCCTT
* * * * *
518792 CAGAGTAAGTGGAACAAGTCTGCCCCGATTCAATGAATCAATTTCTAAGATCTTATATTCCTTTC
66 CAGAGTAAGTGGAACAAGTCTGCCTCAATTCAAGGAATCAATTTCTAAGATCTGATATTCCCTTC
*
518857 AGAGTAAGCGGAACAAGTCTCTCTTTCCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAG
131 AGAGTAAGCAGAACAAGTCTCTCTTTCCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAG
* * **
518922 TCTGCCCTGATTCAAGGAATCAATTTCC-CC
196 TCTACCATGATTCAAGGAATCAAACTCCTCC
*
518952 AGATCTGATATTCCCTTCAGAGTAAGCGAAACAAGTCTCTCTTTTCCAAGATTTGATATTCCCTT
1 AGATCTGATATTCCCTTCAGAGTAAGCGAAACAAGTCTCTCTTTTTCAAGATTTGATATTCCCTT
* *
519017 CAGAGTAAGTGGAACAAGTCTACCTCTATTCAAGGAATCGAATTACTCTAAGATCTGATATTCCC
66 CAGAGTAAGTGGAACAAGTCTGCCTCAATTCAAGGAATC-AATT--TCTAAGATCTGATATTCCC
* *
519082 TTCAGAGTAAGCAGAACAAGTCTCTCTTTCCCAAGATTTGATATTCTCTTTAGAGTAAGTGGAAC
128 TTCAGAGTAAGCAGAACAAGTCTCTCTTTCCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAAC
* *
519147 AAGTCTATCATGATTCAAGGAATCAAACTCCTTC
193 AAGTCTACCATGATTCAAGGAATCAAACTCCTCC
* * * *
519181 AGATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCT-TTTTTTTCAAGATTTGATATTTCCTT
1 AGATCTGATATTCCCTTCAGAGTAAGCGAAACAAGTCTCTCTTTTTCAAGATTTGATATTCCCTT
519245 CAGAGTAAGTGGAACAAGTCTGCCTCAATTCAA
66 CAGAGTAAGTGGAACAAGTCTGCCTCAATTCAA
519278 TTTTCCCTGA
Statistics
Matches: 298, Mismatches: 24, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
225 98 0.33
226 4 0.01
228 159 0.53
229 37 0.12
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (226 bp):
AGATCTGATATTCCCTTCAGAGTAAGCGAAACAAGTCTCTCTTTTTCAAGATTTGATATTCCCTT
CAGAGTAAGTGGAACAAGTCTGCCTCAATTCAAGGAATCAATTTCTAAGATCTGATATTCCCTTC
AGAGTAAGCAGAACAAGTCTCTCTTTCCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAG
TCTACCATGATTCAAGGAATCAAACTCCTCC
Found at i:519544 original size:3 final size:3
Alignment explanation
Indices: 519536--519621 Score: 95
Period size: 3 Copynumber: 28.7 Consensus size: 3
519526 TCATTATTTA
* * *
519536 TAT TAT TAT TAT TA- TAT TAC AAT TAT TAT TAT TAT TAT TAA TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
519582 TAC AAT TAT TAT TAT TAT TAT TAT TAT ATATT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TA-T TAT TAT TA
519622 CAAATAATAC
Statistics
Matches: 70, Mismatches: 9, Indels: 8
0.80 0.10 0.09
Matches are distributed among these distances:
2 4 0.06
3 61 0.87
4 4 0.06
5 1 0.01
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:519570 original size:29 final size:29
Alignment explanation
Indices: 519528--519610 Score: 141
Period size: 29 Copynumber: 2.9 Consensus size: 29
519518 TTTTTCCATC
519528 ATTATT-TATATTATTATTATTATATTACA
1 ATTATTAT-TATTATTATTATTATATTACA
*
519557 ATTATTATTATTATTATTAATATATTACA
1 ATTATTATTATTATTATTATTATATTACA
519586 ATTATTATTATTATTATTATTATAT
1 ATTATTATTATTATTATTATTATAT
519611 ATTTATTATT
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
29 50 0.98
30 1 0.02
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (29 bp):
ATTATTATTATTATTATTATTATATTACA
Found at i:519618 original size:29 final size:29
Alignment explanation
Indices: 519528--519621 Score: 102
Period size: 29 Copynumber: 3.1 Consensus size: 29
519518 TTTTTCCATC
**
519528 ATTATT-TATATTATTATTATTATA-TTACA
1 ATTATTAT-TATTATTATTA-TATATTTATT
*
519557 ATTATTATTATTATTATTAATATATTACAATT
1 ATTATTATTATTATTATT-ATATATT--TATT
519589 ATTATTATTATTATTATTATATATTTATT
1 ATTATTATTATTATTATTATATATTTATT
519618 ATTA
1 ATTA
519622 CAAATAATAC
Statistics
Matches: 56, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
29 27 0.48
30 3 0.05
31 7 0.12
32 19 0.34
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (29 bp):
ATTATTATTATTATTATTATATATTTATT
Found at i:521298 original size:18 final size:18
Alignment explanation
Indices: 521275--521312 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
521265 TTCTTAACTG
521275 ATTAGGAAAGTATTTTAA
1 ATTAGGAAAGTATTTTAA
521293 ATTAGGAAAGTATTTTAA
1 ATTAGGAAAGTATTTTAA
521311 AT
1 AT
521313 GATTTGTTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.16, T:0.39
Consensus pattern (18 bp):
ATTAGGAAAGTATTTTAA
Found at i:525310 original size:7 final size:7
Alignment explanation
Indices: 525298--525338 Score: 57
Period size: 7 Copynumber: 6.0 Consensus size: 7
525288 ATGTTTTTTT
525298 GTGAATA
1 GTGAATA
525305 GTGAATA
1 GTGAATA
*
525312 GTGAACA
1 GTGAATA
*
525319 GT-AACA
1 GTGAATA
525325 GTGAATA
1 GTGAATA
525332 GTGAATA
1 GTGAATA
525339 ATGCACCGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 6 0.19
7 25 0.81
ACGTcount: A:0.44, C:0.05, G:0.27, T:0.24
Consensus pattern (7 bp):
GTGAATA
Found at i:525434 original size:21 final size:21
Alignment explanation
Indices: 525410--525470 Score: 113
Period size: 21 Copynumber: 2.9 Consensus size: 21
525400 AAAAATGTGT
525410 ATCGATGCACTGCTACAATGC
1 ATCGATGCACTGCTACAATGC
525431 ATCGATGCACTGCTACAATGC
1 ATCGATGCACTGCTACAATGC
*
525452 ATCGATGCACTGATACAAT
1 ATCGATGCACTGCTACAAT
525471 ACTGTTATAG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (21 bp):
ATCGATGCACTGCTACAATGC
Found at i:525954 original size:44 final size:44
Alignment explanation
Indices: 525886--525983 Score: 160
Period size: 44 Copynumber: 2.2 Consensus size: 44
525876 ATCAATAAAT
525886 TTACCATTTATCCCATAAGCTCGTAAGATTATTTTACCAATATAC
1 TTACCA-TTATCCCATAAGCTCGTAAGATTATTTTACCAATATAC
* *
525931 TTACCATTATTCCATAAGCTCGTAAGCTTATTTTACCAATATAC
1 TTACCATTATCCCATAAGCTCGTAAGATTATTTTACCAATATAC
*
525975 TTGCCATTA
1 TTACCATTA
525984 ACCTCATTTA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
44 44 0.88
45 6 0.12
ACGTcount: A:0.32, C:0.22, G:0.07, T:0.39
Consensus pattern (44 bp):
TTACCATTATCCCATAAGCTCGTAAGATTATTTTACCAATATAC
Found at i:526464 original size:117 final size:118
Alignment explanation
Indices: 526175--526657 Score: 666
Period size: 118 Copynumber: 4.1 Consensus size: 118
526165 ATTTTTTAAT
* * * ** * *
526175 CATTTTAGCACATGAAATGCCCTATGTGAAAATCCATACCATT-AGTATGATTTTCTTATCTTTG
1 CATTTTAGCACATAAAATGCCCTATCTGGAAATCCATA-TTTTCAATATGATTTCCTTATCTTTG
* * *
526239 TAGCACCCCTAGCGCTTTATCTGGAAATCCATACACTCGGTATGATTCCCTTAC
65 TAGCACCCTTAGTGCTTTATCTGGAAATCCATACACTCAGTATGATTCCCTTAC
* * * *
526293 CATTTTAACACAAAAAAATGCCCTATCTGGAAATCCATATTTTCAATATGATTTCTTTATCTTTA
1 CATTTTAGCAC-ATAAAATGCCCTATCTGGAAATCCATATTTTCAATATGATTTCCTTATCTTTG
* * *
526358 TAGCACCCTTAGTGC-TTATCTGGAAATCCATACACTCAATATTATTTCCTTAC
65 TAGCACCCTTAGTGCTTTATCTGGAAATCCATACACTCAGTATGATTCCCTTAC
*
526411 CATTTTAGCACATAAAATGCCCTATCTGGAAATCCATATTTTCAATATGATTTCCTTATATTTGT
1 CATTTTAGCACATAAAATGCCCTATCTGGAAATCCATATTTTCAATATGATTTCCTTATCTTTGT
* *
526476 AGCACCCTTAGTGCTTTATCTGGAAATCCATACACTCGGTATGATTCCCTTAT
66 AGCACCCTTAGTGCTTTATCTGGAAATCCATACACTCAGTATGATTCCCTTAC
*
526529 CATTTTAGCACATAAAATGCCCTATCTGGAAATCCATATTTTCAATATGATTTCCTTATCGTT-T
1 CATTTTAGCACATAAAATGCCCTATCTGGAAATCCATATTTTCAATATGATTTCCTTATCTTTGT
* * ** * * * *
526593 AGCACACTCAGTGCTCCATATGGAAATCTATACACTCAGTATGATTTCCTTAT
66 AGCACCCTTAGTGCTTTATCTGGAAATCCATACACTCAGTATGATTCCCTTAC
526646 CATTTTAGCACA
1 CATTTTAGCACA
526658 CATAGTGCCA
Statistics
Matches: 325, Mismatches: 37, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
117 122 0.38
118 150 0.46
119 53 0.16
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.37
Consensus pattern (118 bp):
CATTTTAGCACATAAAATGCCCTATCTGGAAATCCATATTTTCAATATGATTTCCTTATCTTTGT
AGCACCCTTAGTGCTTTATCTGGAAATCCATACACTCAGTATGATTCCCTTAC
Found at i:526683 original size:59 final size:59
Alignment explanation
Indices: 526111--526668 Score: 354
Period size: 59 Copynumber: 9.5 Consensus size: 59
526101 GTATACTTCC
** * *
526111 CCTT-TCATTTTAGCACACGA-AGTGCCATAT-TCAAAAATTCATAC-CATTAGTATGATTT
1 CCTTATCATTTTAGCACAC-ATAGTGCCATATCT-GGAAATCCATACAC-TCAGTATGATTT
* * * * * * *
526169 -TTTAATCATTTTAGCACATGA-AATGCCCTATGTGAAAATCCATAC-CATTAGTATGATTT
1 CCTT-ATCATTTTAGCACA-CATAGTGCCATATCTGGAAATCCATACAC-TCAGTATGATTT
* * * * ** * *
526228 TCTTATC-TTTGTAGCACCCCTAGCGCTTTATCTGGAAATCCATACACTCGGTATGATTC
1 CCTTATCATTT-TAGCACACATAGTGCCATATCTGGAAATCCATACACTCAGTATGATTT
* * * * * * *** *
526287 CCTTACCATTTTAACACAAAAAAATGCCCTATCTGGAAATCCATATTTTCAATATGATTT
1 CCTTATCATTTTAGCAC-ACATAGTGCCATATCTGGAAATCCATACACTCAGTATGATTT
* * * * * *
526347 CTTTATC-TTTATAGCACCCTTAGTG-CTTATCTGGAAATCCATACACTCAATATTATTT
1 CCTTATCATTT-TAGCACACATAGTGCCATATCTGGAAATCCATACACTCAGTATGATTT
* * * * * *** *
526405 CCTTACCATTTTAGCACATAAAATGCCCTATCTGGAAATCCATATTTTCAATATGATTT
1 CCTTATCATTTTAGCACACATAGTGCCATATCTGGAAATCCATACACTCAGTATGATTT
* * ** * *
526464 CCTTAT-ATTTGTAGCACCCTTAGTGCTTTATCTGGAAATCCATACACTCGGTATGATTC
1 CCTTATCATTT-TAGCACACATAGTGCCATATCTGGAAATCCATACACTCAGTATGATTT
* * * * *** *
526523 CCTTATCATTTTAGCACATAAAATGCCCTATCTGGAAATCCATATTTTCAATATGATTT
1 CCTTATCATTTTAGCACACATAGTGCCATATCTGGAAATCCATACACTCAGTATGATTT
* *
526582 CCTTATC-GTTTAGCACAC-TCAGTGCTCCATA--TGGAAATCTATACACTCAGTATGATTT
1 CCTTATCATTTTAGCACACAT-AGTG--CCATATCTGGAAATCCATACACTCAGTATGATTT
526640 CCTTATCATTTTAGCACACATAGTGCCAT
1 CCTTATCATTTTAGCACACATAGTGCCAT
526669 TCGGTAATCA
Statistics
Matches: 381, Mismatches: 99, Indels: 41
0.73 0.19 0.08
Matches are distributed among these distances:
57 6 0.02
58 90 0.24
59 231 0.61
60 54 0.14
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.37
Consensus pattern (59 bp):
CCTTATCATTTTAGCACACATAGTGCCATATCTGGAAATCCATACACTCAGTATGATTT
Found at i:528798 original size:19 final size:19
Alignment explanation
Indices: 528776--528812 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
528766 AAACACATCC
*
528776 AAATAGTTAAAGTTAAAAA
1 AAATAGATAAAGTTAAAAA
528795 AAATAGATAAAGTTAAAA
1 AAATAGATAAAGTTAAAA
528813 GGAAAGTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.11, T:0.24
Consensus pattern (19 bp):
AAATAGATAAAGTTAAAAA
Found at i:530752 original size:4 final size:4
Alignment explanation
Indices: 530739--530769 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
530729 CCGCTCACTG
530739 TAAA -AAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
530770 GCTTTTCTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
TAAA
Found at i:531011 original size:58 final size:59
Alignment explanation
Indices: 530937--531052 Score: 157
Period size: 59 Copynumber: 2.0 Consensus size: 59
530927 AACTGGTCCC
*
530937 CCAATTATAGAGTGCTAATTT-TTGAGTCC-CCGAATTACGAAAAGTTACAAAATGGTCT
1 CCAATTATAGAGTGCTAATTTGTTGAGTCCTCC-AACTACGAAAAGTTACAAAATGGTCT
* **
530995 CCAATTATA-AGATGCTATTTTGTTGAGTCCTCCAACTATTAAAAGTTACAAAATGGTC
1 CCAATTATAGAG-TGCTAATTTGTTGAGTCCTCCAACTACGAAAAGTTACAAAATGGTC
531053 ACTCATCTAT
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
57 2 0.04
58 17 0.33
59 30 0.59
60 2 0.04
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (59 bp):
CCAATTATAGAGTGCTAATTTGTTGAGTCCTCCAACTACGAAAAGTTACAAAATGGTCT
Found at i:531629 original size:14 final size:15
Alignment explanation
Indices: 531604--531636 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
531594 TTTAATTTGC
531604 TTAAATATTAAAATA
1 TTAAATATTAAAATA
*
531619 TTAAA-ATTAAATTA
1 TTAAATATTAAAATA
531633 TTAA
1 TTAA
531637 TTTTTTTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TTAAATATTAAAATA
Found at i:532236 original size:25 final size:25
Alignment explanation
Indices: 532205--532262 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
532195 ATATAATAAG
532205 GATAATTTGATAAAATATACTTTCC
1 GATAATTTGATAAAATATACTTTCC
* *
532230 GATAATTTGGTAAAATATACTTTGC
1 GATAATTTGATAAAATATACTTTCC
*
532255 AATAATTT
1 GATAATTT
532263 TTTATTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.41
Consensus pattern (25 bp):
GATAATTTGATAAAATATACTTTCC
Found at i:532368 original size:20 final size:20
Alignment explanation
Indices: 532332--532369 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
532322 TACAACATTC
**
532332 CTGGTAATCTTTTATTCCTG
1 CTGGTAATCTTACATTCCTG
532352 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
532370 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.24, G:0.13, T:0.45
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCTG
Found at i:536900 original size:23 final size:23
Alignment explanation
Indices: 536874--536921 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
536864 ATAAAGTACA
*
536874 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
536897 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
536920 AT
1 AT
536922 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:537364 original size:21 final size:22
Alignment explanation
Indices: 537339--537390 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
537329 ATACTTTACA
*
537339 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
537362 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
537385 ATATAA
1 ATATAA
537391 GCGCTATCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:537375 original size:23 final size:23
Alignment explanation
Indices: 537349--537411 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
537339 ATATAACCAC
537349 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
537372 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
* *
537395 TATCTATTACATCATAT
1 TACCTATTACATTATAT
537412 TTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:537587 original size:22 final size:22
Alignment explanation
Indices: 537557--537599 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
537547 TCATTTGCAC
537557 AAAAAATTATTT-GATATTTTAT
1 AAAAAATTATTTAGA-ATTTTAT
*
537579 AAAATATTATTTAGAATTTTA
1 AAAAAATTATTTAGAATTTTA
537600 AATTTAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.49
Consensus pattern (22 bp):
AAAAAATTATTTAGAATTTTAT
Found at i:537797 original size:23 final size:23
Alignment explanation
Indices: 537771--537833 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
537761 ATATAACCAC
537771 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
537794 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
537817 TACCTATTACATCATAT
1 TACCTATTACATTATAT
537834 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:538019 original size:30 final size:29
Alignment explanation
Indices: 537979--538045 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 29
537969 TCATTTGCAC
* * *
537979 AAAAAATTATTT-GATTTTTTGATATTTTAT
1 AAAATATTATTTAGAATTTTT-A-ATTTAAT
538009 AAAATATTATTTAGAATTTTTAATTTAAT
1 AAAATATTATTTAGAATTTTTAATTTAAT
538038 AATAATAT
1 AA-AATAT
538046 ATATCGGTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 8 0.25
30 17 0.53
31 7 0.22
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (29 bp):
AAAATATTATTTAGAATTTTTAATTTAAT
Found at i:538227 original size:23 final size:23
Alignment explanation
Indices: 538201--538263 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
538191 ATATAACCAC
538201 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
538224 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
538247 TACCTATTACATCATAT
1 TACCTATTACATTATAT
538264 TTTACCTATT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:538240 original size:430 final size:430
Alignment explanation
Indices: 536988--538880 Score: 3451
Period size: 422 Copynumber: 4.5 Consensus size: 430
536978 TATTACATTA
536988 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
537053 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
*
537118 ATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTT
131 ATTTGCACAAAAAATTATTTGATT-TTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTT
*
537183 AATAATAATATATATCGGTACGTAAAAAATAAATCATTAAACGCCTATAATTACTAAATTAATAT
195 AATAATAATATATATCGGTACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
* * *
537248 CTTAAAACTCACTTAAAGGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACT
260 CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACT
537313 TTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTA
325 TTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTA
*
537378 TTACATTATATAAGCGCTATCTATTACATCATATTTTTACC
390 TTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
*
537419 TATTATATTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
537484 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
*
537549 ATTTGCAC-AAAAA--A-TT-A---TTTGATATTTTATAAAATATTATTTAGAATTTTAAATTTA
131 ATTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
537606 ATAATAATATATATC-GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
196 ATAATAATATATATCGGT-ACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
537670 CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACT
260 CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACT
*
537735 TTTATAAAAATGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTA
325 TTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTA
537800 TTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
390 TTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
537841 TATTATATTGAAAGTGTCCATA-TTTTGTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAA
1 TATTATATTGAAAGTGTCCATACTTTT-TATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAA
537905 TTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTT
65 TTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTT
537970 CATTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTT
130 CATTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTT
538035 AATAATAATATATATCGGTACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
195 AATAATAATATATATCGGTACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
*
538100 CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGGAAAAAGTATGGACACT
260 CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACT
538165 TTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTA
325 TTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTA
538230 TTACATTATATAAGCGCTACCTATTACATCATA-TTTTACC
390 TTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
538270 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
538335 TTATGTTTCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
538399 ATTTGCAC-AAAAA--A-TT-A---TTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
131 ATTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
538456 ATAATAATATATATCGGTACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
196 ATAATAATATATATCGGTACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
* *
538521 TTAAAA---ACTCAAAGGATAACCTTAAATTAATATTTTCCACAGTG-AAAAAGTATGGACACTT
261 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
*
538582 TTATAAAAAGGATAGATACTTTACAATATAACCACTACATATTACATTATATAAACGATACCTAT
326 TTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
*
538647 TACATTATATAAGCGCTACCTATTACATCATTTTTTTACC
391 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
538687 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
538752 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
538817 ATTTGCACAAAAAATTATTTGATTTTTTGATA-TTTATAAAATATTATTTAGAA-TTTTAATTTA
131 ATTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
538880 A
196 A
538881 CAACATTAAC
Statistics
Matches: 1423, Mismatches: 17, Indels: 51
0.95 0.01 0.03
Matches are distributed among these distances:
416 112 0.08
417 119 0.08
418 61 0.04
419 5 0.00
420 111 0.08
421 7 0.00
422 398 0.28
423 7 0.00
424 13 0.01
425 23 0.02
426 10 0.01
427 8 0.01
428 62 0.04
429 78 0.05
430 270 0.19
431 139 0.10
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (430 bp):
TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
ATTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
ATAATAATATATATCGGTACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
TTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
Found at i:538437 original size:22 final size:22
Alignment explanation
Indices: 538407--538448 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
538397 TCATTTGCAC
538407 AAAAAATTATTT-GATATTTTAT
1 AAAAAATTATTTAGA-ATTTTAT
*
538429 AAAATATTATTTAGAATTTT
1 AAAAAATTATTTAGAATTTT
538449 TAATTTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (22 bp):
AAAAAATTATTTAGAATTTTAT
Found at i:538647 original size:23 final size:23
Alignment explanation
Indices: 538621--538674 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
538611 AACCACTACA
538621 TATTACATTATATAAACGATACC
1 TATTACATTATATAAACGATACC
* *
538644 TATTACATTATATAAGCGCTACC
1 TATTACATTATATAAACGATACC
538667 TATTACAT
1 TATTACAT
538675 CATTTTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.39, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TATTACATTATATAAACGATACC
Found at i:539151 original size:39 final size:39
Alignment explanation
Indices: 539097--539182 Score: 145
Period size: 39 Copynumber: 2.2 Consensus size: 39
539087 CAAGTTGTAG
*
539097 ATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTGA
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
* *
539136 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTGG
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
539175 ATTTTGAT
1 ATTTTGAT
539183 GAGCATCGGA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.19, C:0.14, G:0.19, T:0.49
Consensus pattern (39 bp):
ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
Found at i:539465 original size:18 final size:18
Alignment explanation
Indices: 539442--539478 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
539432 CGAAATATAT
539442 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
539460 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
539478 A
1 A
539479 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:541618 original size:183 final size:183
Alignment explanation
Indices: 541310--541804 Score: 884
Period size: 183 Copynumber: 2.7 Consensus size: 183
541300 TTAAAATTAC
541310 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
* * *
541375 ATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCAGTATATTTATACCGATT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGATT
*
541440 ATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
131 ATATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAATGT
*
541493 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
* *
541558 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAATCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGATT
*
541623 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
131 ATATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAATGT
*
541676 CGACACTTTTTAACAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
1 CGACACTTTTTTA-AATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
*
541740 GATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGAT
65 TATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGAT
541805 AGCATTGCAA
Statistics
Matches: 298, Mismatches: 13, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
183 295 0.99
184 3 0.01
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (183 bp):
CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGATT
ATATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAATGT
Found at i:543313 original size:9 final size:9
Alignment explanation
Indices: 543299--543342 Score: 52
Period size: 9 Copynumber: 4.6 Consensus size: 9
543289 CTTGTTTGGA
543299 TCATCATCT
1 TCATCATCT
543308 TCATCATCAT
1 TCATCATC-T
*
543318 CATCATCATCG
1 --TCATCATCT
543329 TCATCATCT
1 TCATCATCT
543338 TCATC
1 TCATC
543343 GTCATATTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
9 21 0.70
10 1 0.03
12 8 0.27
ACGTcount: A:0.25, C:0.34, G:0.02, T:0.39
Consensus pattern (9 bp):
TCATCATCT
Found at i:543315 original size:12 final size:12
Alignment explanation
Indices: 543302--543378 Score: 73
Period size: 12 Copynumber: 6.4 Consensus size: 12
543292 GTTTGGATCA
* *
543302 TCATCTTCATCA
1 TCATCGTCATCT
* *
543314 TCATCATCATCA
1 TCATCGTCATCT
* *
543326 TCGTCATCATCT
1 TCATCGTCATCT
*
543338 TCATCGTCATAT
1 TCATCGTCATCT
*
543350 TTATCGTCATCT
1 TCATCGTCATCT
*
543362 TCATCGTCAGCT
1 TCATCGTCATCT
543374 TCATC
1 TCATC
543379 TTCTGCGACC
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 55 1.00
ACGTcount: A:0.22, C:0.31, G:0.06, T:0.40
Consensus pattern (12 bp):
TCATCGTCATCT
Found at i:543317 original size:6 final size:6
Alignment explanation
Indices: 543298--543347 Score: 64
Period size: 6 Copynumber: 8.3 Consensus size: 6
543288 ACTTGTTTGG
* * * *
543298 ATCATC ATCTTC ATCATC ATCATC ATCATC GTCATC ATCTTC ATCGTC
1 ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC
543346 AT
1 AT
543348 ATTTATCGTC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.26, C:0.32, G:0.04, T:0.38
Consensus pattern (6 bp):
ATCATC
Found at i:543318 original size:15 final size:15
Alignment explanation
Indices: 543298--543347 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
543288 ACTTGTTTGG
543298 ATCATCATCTTCATC
1 ATCATCATCTTCATC
*
543313 ATCATCATCATCATC
1 ATCATCATCTTCATC
*
543328 GTCATCATCTTCATC
1 ATCATCATCTTCATC
*
543343 GTCAT
1 ATCAT
543348 ATTTATCGTC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.26, C:0.32, G:0.04, T:0.38
Consensus pattern (15 bp):
ATCATCATCTTCATC
Found at i:543365 original size:6 final size:6
Alignment explanation
Indices: 543302--543381 Score: 61
Period size: 6 Copynumber: 13.3 Consensus size: 6
543292 GTTTGGATCA
* * * * * * *
543302 TCATCT TCATCA TCATCA TCATCA TCGTCA TCATCT TCATCG TCATAT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
* * * *
543350 TTATCG TCATCT TCATCG TCAGCT TCATCT TC
1 TCATCT TCATCT TCATCT TCATCT TCATCT TC
543382 TGCGACCGCT
Statistics
Matches: 58, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
6 58 1.00
ACGTcount: A:0.21, C:0.31, G:0.06, T:0.41
Consensus pattern (6 bp):
TCATCT
Found at i:545310 original size:196 final size:198
Alignment explanation
Indices: 544848--546776 Score: 3405
Period size: 195 Copynumber: 9.9 Consensus size: 198
544838 TTTAAATTAG
**
544848 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACATGTATAC
1 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
544913 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
544978 GACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGACCAA
131 GACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGACCAA
545043 AAA
196 AAA
* *
545046 TATCGACACCAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCAT-AAACCGATAT-C
1 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
545109 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
545174 GACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGACCAA
131 GACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGACCAA
545238 AAA
196 AAA
545241 TATCGACACAAACT-AAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
1 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
545305 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
545370 GACAC-TTTTATATATGGATCGACAC-TTATGGGTGCA-CCTGTTTTCCATTCATTCTGGACCAA
131 GACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGACCAA
545432 AAA
196 AAA
* *
545435 TATCGACGCCAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
1 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
545500 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGA-TTTGGGATC
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
*
545564 GACACTTTTTATATATGGATCAACACTTTATGGGTGCACCCTGTTTT-C---CATTCTGGACCAA
131 GACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGACCAA
545625 AAA
196 AAA
545628 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
1 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
* *
545693 TTGTACCGGTTAGATTGAAAATTTACATA-TACATTATACTTTTAGGTTCGATGATTTTGGGATC
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
545757 GACAC-TTTT-TATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGACC-A
131 GACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGACCAA
545819 AAA
196 AAA
*
545822 TATCGACACAAACT-AAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAG
1 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
*
545886 TTGTA-CGGTTAGATTGAAAAATTACATATTACATTATACATTTGGGTTCGATGATTTTGGGATC
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
*
545950 GATACTTTTTATATATGGATCGACACTTTATGGGTGCA-CCTGTTTTCCATTCATTCTGGACCAA
131 GACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGACCAA
546014 AAA
196 AAA
546017 TATCGACACAAACTAAAAAGTGTCGACACATTA-TTAGACATATTCTCTCATAAAACCGGTATAC
1 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
546081 -TGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
546145 GACAC-TTTT-TATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGACCAA
131 GACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGACCAA
546208 AAA
196 AAA
*
546211 TATCGACACAAACT-ACAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
1 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
546275 TTGTACCGGTTAGATTGAAAAA-TACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
546339 GACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTG-TTTCCATTCATTCTGGACCAA
131 GACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGACCAA
546403 AAA
196 AAA
*
546406 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAAC
1 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
*
546471 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTAGGTTCGATG-TTTTGGGATC
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
* *
546535 GACAC-TTTT-TATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAA
131 GACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGACCAA
546598 AAA
196 AAA
* *
546601 TATCGACACAAACTAAATTAGTGTCGACACATTA-TTAGACATATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAACTAAA-AAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* * *
546665 CTTGTACCGGTTAGATTGAAAAATTACATATAACATTATACTTTTGGTTTTCGATGTTTTTGGGA
65 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
* * *
546730 TTGACACTTTTTATATATGGATTGACACTTTATGGTTGCACCCTGTT
129 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
546777 GGCCATATTG
Statistics
Matches: 1667, Mismatches: 34, Indels: 59
0.95 0.02 0.03
Matches are distributed among these distances:
191 35 0.02
192 51 0.03
193 256 0.15
194 298 0.18
195 549 0.33
196 331 0.20
197 59 0.04
198 55 0.03
199 33 0.02
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (198 bp):
TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
GACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGACCAA
AAA
Found at i:546310 original size:389 final size:393
Alignment explanation
Indices: 544848--546776 Score: 3423
Period size: 389 Copynumber: 4.9 Consensus size: 393
544838 TTTAAATTAG
**
544848 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACATGTATAC
1 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
544913 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
544978 GACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGACCAA
131 GACAC-TTTT-TATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGACCAA
* *
545043 AAATATCGACACCAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCAT-AAACCGATA
194 AAATATCGACACAAACT-AAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
545107 T-CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
258 TACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
545171 ATCGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAC
323 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAC
545235 CAAAAA
388 CAAAAA
545241 TATCGACACAAACT-AAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
1 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
545305 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
545370 GACACTTTTATATATGGATCGACAC-TTATGGGTGCA-CCTGTTTTCCATTCATTCTGGACCAAA
131 GACACTTTT-TATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGACCAAA
* *
545433 AATATCGACGCCAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAT
195 AATATCGACACAAACT-AAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAT
545498 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGA-TTTGGGA
259 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
*
545562 TCGACACTTTTTATATATGGATCAACACTTTATGGGTGCACCCTGTTTT-C---CATTCTGGACC
324 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGACC
545623 AAAAA
389 AAAAA
545628 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
1 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
* *
545693 TTGTACCGGTTAGATTGAAAATTTACATA-TACATTATACTTTTAGGTTCGATGATTTTGGGATC
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
545757 GACACTTTTTATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGACC-AAA
131 GACACTTTTTATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGACCAAAA
*
545821 ATATCGACACAAACTAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAG
196 ATATCGACACAAACTAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
*
545886 TTGTA-CGGTTAGATTGAAAAATTACATATTACATTATACATTTGGGTTCGATGATTTTGGGATC
261 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
*
545950 GATACTTTTTATATATGGATCGACACTTTATGGGTGCA-CCTGTTTTCCATTCATTCTGGACCAA
326 GACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGACCAA
546014 AAA
391 AAA
546017 TATCGACACAAACTAAAAAGTGTCGACACATTA-TTAGACATATTCTCTCATAAAACCGGTATAC
1 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
546081 -TGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
546145 GACACTTTTTATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGACCAAAA
131 GACACTTTTTATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGACCAAAA
*
546210 ATATCGACACAAACTACAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
196 ATATCGACACAAACTAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
546275 TTGTACCGGTTAGATTGAAAAA-TACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
261 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
546339 GACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTG-TTTCCATTCATTCTGGACCAA
326 GACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGACCAA
546403 AAA
391 AAA
*
546406 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAAC
1 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
*
546471 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTAGGTTCGATG-TTTTGGGATC
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
* *
546535 GACACTTTTTATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAAAA
131 GACACTTTTTATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGACCAAAA
*
546600 ATATCGACACAAACTAAATTAGTGTCGACACATTA-TTAGACATATTCTCTCATAAAACCGGTAA
196 ATATCGACACAAACTAAA--AGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAT
* * *
546664 ACTTGTACCGGTTAGATTGAAAAATTACATATAACATTATACTTTTGGTTTTCGATGTTTTTGGG
259 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGG
* * *
546729 ATTGACACTTTTTATATATGGATTGACACTTTATGGTTGCACCCTGTT
323 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
546777 GGCCATATTG
Statistics
Matches: 1483, Mismatches: 31, Indels: 43
0.95 0.02 0.03
Matches are distributed among these distances:
385 56 0.04
386 115 0.08
387 127 0.09
388 228 0.15
389 335 0.23
390 175 0.12
391 220 0.15
392 155 0.10
393 71 0.05
394 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (393 bp):
TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
GACACTTTTTATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGACCAAAA
ATATCGACACAAACTAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
GACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGACCAA
AAA
Found at i:546941 original size:19 final size:19
Alignment explanation
Indices: 546895--546943 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
546885 TTATATTCAC
*
546895 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
546914 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
546933 ATACAAAATTA
1 ATACAAAATTA
546944 ACCCTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:548830 original size:21 final size:21
Alignment explanation
Indices: 548805--548848 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
548795 ACCCCTTATG
548805 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
* *
548826 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
548847 CT
1 CT
548849 TGATTGTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.32, G:0.11, T:0.41
Consensus pattern (21 bp):
CTCTCAAGTGTATCTTCGACT
Found at i:551066 original size:17 final size:18
Alignment explanation
Indices: 551044--551086 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
551034 ATATATCCGG
551044 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
551061 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
551081 TATCAT
1 TATCAT
551087 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:551104 original size:20 final size:19
Alignment explanation
Indices: 551049--551095 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
551039 TCCGGTATCA
551049 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
551068 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
551089 TTTTACC
1 TTTTACC
551096 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:551910 original size:226 final size:226
Alignment explanation
Indices: 551319--552028 Score: 1227
Period size: 224 Copynumber: 3.2 Consensus size: 226
551309 ACTTTTATAC
*
551319 GTATGGATACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTA-GTTTCAATTT
*
551384 TTTTAATAGCGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAATT
65 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAATT
*
551449 ATTTGATTTTTTGATA-TTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAATA
130 ATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGA
551513 TAATAATAAATATG-TTTCCACAGTGAAATAA
195 TAATAATAAATATGTTTTCCACAGTGAAATAA
*
551544 GTATGGACACTTTTATAAAAATGATATATAC-TTTTTTAAAGTTATGTAATTTATGTTTCATTTT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTA-GTTTCAATTT
551608 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAT
65 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC-AAAAAT
* *
551673 TTTTTGATTTTTTTTATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
129 TATTTGA-TTTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
551738 GATAATAATAAATATGTTTTCCACAGTGAAATAA
193 GATAATAATAAATATGTTTTCCACAGTGAAATAA
*
551772 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAA-TTA-TTTGAATTTT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTAGTTTCAATTTT
*
551835 TTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACATAATT
66 TTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACA-AAAATT
551900 ATTTGATTTTTTGATATTTTAT-AAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGA
130 ATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGA
*
551964 TAATAATAAATATATTTT-CACAGTGAAATAA
195 TAATAATAAATATGTTTTCCACAGTGAAATAA
* *
551995 GTATGGACACTTTTATAAAAAAGATAGATACTTT
1 GTATGGACACTTTTATAAAAATGATATATACTTT
552029 ACAATATAAC
Statistics
Matches: 465, Mismatches: 14, Indels: 14
0.94 0.03 0.03
Matches are distributed among these distances:
223 45 0.10
224 148 0.32
225 58 0.12
226 84 0.18
227 61 0.13
228 51 0.11
229 18 0.04
ACGTcount: A:0.39, C:0.08, G:0.07, T:0.45
Consensus pattern (226 bp):
GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTAGTTTCAATTTT
TTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAATTA
TTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGAT
AATAATAAATATGTTTTCCACAGTGAAATAA
Done.