Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 316 of 325
Found at i:95801602 original size:18 final size:19
Alignment explanation
Indices: 95801555--95801604 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
95801545 TAGTCTGTTT
95801555 AAACAA-AAGTTTAACATAG
1 AAACAATAA-TTTAACATAG
* *
95801574 TAACCATAATTTAACATA-
1 AAACAATAATTTAACATAG
95801592 AAACAATAATTTA
1 AAACAATAATTTA
95801605 CACCTTCATT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 11 0.42
19 13 0.50
20 2 0.08
ACGTcount: A:0.56, C:0.12, G:0.04, T:0.28
Consensus pattern (19 bp):
AAACAATAATTTAACATAG
Found at i:95807570 original size:49 final size:49
Alignment explanation
Indices: 95807498--95807595 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
95807488 TGTTTCTGCT
95807498 TAGTGCTCGGATCTGAACAAACAACAACATTAGGAAGCAAGAACAAGTA
1 TAGTGCTCGGATCTGAACAAACAACAACATTAGGAAGCAAGAACAAGTA
95807547 TAGTGCTCGGATCTGAACAAACAACAACATTAGGAAGCAAGAACAAGTA
1 TAGTGCTCGGATCTGAACAAACAACAACATTAGGAAGCAAGAACAAGTA
95807596 CTACATGATA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.45, C:0.18, G:0.20, T:0.16
Consensus pattern (49 bp):
TAGTGCTCGGATCTGAACAAACAACAACATTAGGAAGCAAGAACAAGTA
Found at i:95814689 original size:18 final size:18
Alignment explanation
Indices: 95814666--95814700 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
95814656 AATTTCAAAG
95814666 ATAGAATCCAGACACTTT
1 ATAGAATCCAGACACTTT
95814684 ATAGAATCCAGACACTT
1 ATAGAATCCAGACACTT
95814701 CAATACACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.23, G:0.11, T:0.26
Consensus pattern (18 bp):
ATAGAATCCAGACACTTT
Found at i:95820895 original size:19 final size:20
Alignment explanation
Indices: 95820859--95820911 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
95820849 TTTGGGGTTT
*
95820859 GGGAGAAAT-AAAATTTTTGA
1 GGGA-AAATAAAAATTTTGGA
* *
95820879 GGGGAAGTAAAAATTTTGGA
1 GGGAAAATAAAAATTTTGGA
95820899 GGGAAAATAAAAA
1 GGGAAAATAAAAA
95820912 GAAAAAGGTT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 3 0.11
20 24 0.89
ACGTcount: A:0.49, C:0.00, G:0.28, T:0.23
Consensus pattern (20 bp):
GGGAAAATAAAAATTTTGGA
Found at i:95822450 original size:22 final size:22
Alignment explanation
Indices: 95822425--95822467 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
95822415 ATCCACAAAA
95822425 ATATGAACTGTTTGAATCTAGC
1 ATATGAACTGTTTGAATCTAGC
95822447 ATATGAACTGTTTGAATCTAG
1 ATATGAACTGTTTGAATCTAG
95822468 TGGTTGATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.37
Consensus pattern (22 bp):
ATATGAACTGTTTGAATCTAGC
Found at i:95826204 original size:21 final size:21
Alignment explanation
Indices: 95826131--95826206 Score: 89
Period size: 21 Copynumber: 3.6 Consensus size: 21
95826121 GTGGGCTTTG
* * * *
95826131 CCTCGGGTTCTGCTGGTTTCG
1 CCTCGGTTTCGGCTGGCTTCA
* * *
95826152 CCTCAGTTTCCGCAGGCTTCA
1 CCTCGGTTTCGGCTGGCTTCA
95826173 CCTCGGTTTCGGCTGGCTTCA
1 CCTCGGTTTCGGCTGGCTTCA
95826194 CCTCGGTTTCGGC
1 CCTCGGTTTCGGC
95826207 CAGAGCTTCT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.05, C:0.34, G:0.28, T:0.33
Consensus pattern (21 bp):
CCTCGGTTTCGGCTGGCTTCA
Found at i:95833508 original size:68 final size:65
Alignment explanation
Indices: 95833392--95833815 Score: 182
Period size: 68 Copynumber: 6.2 Consensus size: 65
95833382 CTTATTAGGA
* * * * ** *
95833392 ACTTAGCTTTTCAAAATTTTCCACCTT-TTCAAGTCACATACTTATTAAAGTACTTTGCCTTCAT
1 ACTTAGCTTTTCAAAACTTTCAACATTCTT-GAGTTGCATACTTCTTAAAGTACTTT-CCTTCA-
*
95833456 ATGT
63 A-GC
* * * *
95833460 ACTTAGCTTTTCAAAGCTTTCAACATTCTTTG-GTTAG-GTACTTCTTAAAATACATTATCTTTT
1 ACTTAGCTTTTCAAAACTTTCAACATTC-TTGAGTT-GCATACTTCTTAAAGTAC-TT-TC-CTT
95833523 CAAGC
61 CAAGC
* * *
95833528 ACTTATCTTTTCAAAACTTTCAACCTTCTTGAGTTGCATACTTCTTAAAGTACTTTACCTTCTCG
1 ACTTAGCTTTTCAAAACTTTCAACATTCTTGAGTTGCATACTTCTTAAAGTACTTT-CC-T-TCA
*
95833593 GGC
63 AGC
* * * * * ** * *
95833596 ACTTAGTTTTTCAAACCTTTCATCCTT-TTCAGGTTGCATGTTTCTTAAAGTACTTCACCTTCTC
1 ACTTAGCTTTTCAAAACTTTCAACATTCTTGA-GTTGCATACTTCTTAAAGTACTT-TCCTTC-A
95833660 AGAC
63 AG-C
* * ** * * ** *
95833664 ACCTAACTTTTCAAAGTTTTCAACCTTATCAAGTTGTGA-ACTTCTTAAAGTACTTTGCCTT-AT
1 ACTTAGCTTTTCAAAACTTTCAACATTCTTGAGTTG-CATACTTCTTAAAGTACTTT-CCTTCA-
*
95833727 TAGGGT
63 -A--GC
* * *
95833733 A-TTAGCTTTTCAAAACTTTCAACCTTCTT-AGTTTCCATACGTT-TTAAAGTACCTTGCCTTTA
1 ACTTAGCTTTTCAAAACTTTCAACATTCTTGAG-TTGCATAC-TTCTTAAAGTA-CTTTCC-TT-
95833795 CAAGC
61 CAAGC
*
95833800 ACTTAACATTTTCAAA
1 ACTTAGC-TTTTCAAA
95833816 TGTCCTTAAT
Statistics
Matches: 270, Mismatches: 55, Indels: 61
0.70 0.14 0.16
Matches are distributed among these distances:
66 3 0.01
67 18 0.07
68 216 0.80
69 24 0.09
70 8 0.03
71 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.42
Consensus pattern (65 bp):
ACTTAGCTTTTCAAAACTTTCAACATTCTTGAGTTGCATACTTCTTAAAGTACTTTCCTTCAAGC
Found at i:95841714 original size:50 final size:51
Alignment explanation
Indices: 95841655--95841773 Score: 145
Period size: 52 Copynumber: 2.3 Consensus size: 51
95841645 TTAATAAAGT
*
95841655 CATGCATTATGTAACT-CTCATGTAAGTT-AAGTTTGCATCA-CAAATTATGA
1 CATGCATTATGTAACTCCTC--GTAAGTTAAAGTTTGCATCATCAAATTAAGA
* * *
95841705 CATGCATTATGTAACTCCTGCGTTAGTTAAAGTTTGCATCATTAAATTAAGT
1 CATGCATTATGTAACTCCT-CGTAAGTTAAAGTTTGCATCATCAAATTAAGA
*
95841757 CATGCATTAAGTAACTC
1 CATGCATTATGTAACTC
95841774 ATTTGTTCAT
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
50 22 0.37
51 14 0.23
52 24 0.40
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (51 bp):
CATGCATTATGTAACTCCTCGTAAGTTAAAGTTTGCATCATCAAATTAAGA
Found at i:95850506 original size:24 final size:23
Alignment explanation
Indices: 95850479--95850530 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
95850469 AAAATTGTAC
95850479 AAAATTA-TATAAACTTAAAATATT
1 AAAATTAGTA-AAACTTAAAAT-TT
* *
95850503 AAAAATAGTAAAATTTAAAATTT
1 AAAATTAGTAAAACTTAAAATTT
95850526 AAAAT
1 AAAAT
95850531 CATTTAACAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
23 6 0.25
24 16 0.67
25 2 0.08
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (23 bp):
AAAATTAGTAAAACTTAAAATTT
Found at i:95850588 original size:9 final size:9
Alignment explanation
Indices: 95850576--95850605 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
95850566 AAATCTATAT
95850576 AAAATTACA
1 AAAATTACA
*
95850585 AAAATTATA
1 AAAATTACA
95850594 AAAATTACA
1 AAAATTACA
95850603 AAA
1 AAA
95850606 TAAAAAAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (9 bp):
AAAATTACA
Found at i:95850606 original size:17 final size:20
Alignment explanation
Indices: 95850566--95850605 Score: 66
Period size: 18 Copynumber: 2.1 Consensus size: 20
95850556 AAAATATATG
95850566 AAATCTATATAAAATTACAA
1 AAATCTATATAAAATTACAA
95850586 AAAT-TATA-AAAATTACAA
1 AAATCTATATAAAATTACAA
95850604 AA
1 AA
95850606 TAAAAAAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 12 0.60
19 4 0.20
20 4 0.20
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (20 bp):
AAATCTATATAAAATTACAA
Found at i:95850661 original size:29 final size:28
Alignment explanation
Indices: 95850618--95850695 Score: 70
Period size: 28 Copynumber: 2.7 Consensus size: 28
95850608 AAAAAGAAAT
*
95850618 TTATTAAAAATTAATAGAGAAATATAA-ATA
1 TTATT-AAAA-TAAT-GAAAAATATAACATA
* *
95850648 TTATATAAAATAATGAAAAATGTAACCTA
1 TTAT-TAAAATAATGAAAAATATAACATA
*
95850677 TTATTAAAATTAT-AAAAAT
1 TTATTAAAATAATGAAAAAT
95850696 TGTAGGCATA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
27 6 0.14
28 17 0.40
29 10 0.24
30 8 0.19
31 1 0.02
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.35
Consensus pattern (28 bp):
TTATTAAAATAATGAAAAATATAACATA
Found at i:95851207 original size:15 final size:15
Alignment explanation
Indices: 95851189--95851236 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
95851179 TGTTTAAGGT
95851189 TTTTGAGTTTGGAGA
1 TTTTGAGTTTGGAGA
* *
95851204 TTTTGGGTTAGG-GA
1 TTTTGAGTTTGGAGA
* *
95851218 TTTTGATTTTGGAAA
1 TTTTGAGTTTGGAGA
95851233 TTTT
1 TTTT
95851237 TATTTAAGGT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
14 11 0.42
15 15 0.58
ACGTcount: A:0.19, C:0.00, G:0.29, T:0.52
Consensus pattern (15 bp):
TTTTGAGTTTGGAGA
Found at i:95851253 original size:30 final size:30
Alignment explanation
Indices: 95851181--95851257 Score: 86
Period size: 29 Copynumber: 2.6 Consensus size: 30
95851171 TCGGTTTATG
* * *
95851181 TTTAAGGT-TTTTGAGTTTGGAGATTTTGG
1 TTTAAGGTATTTTGATTTTGGAAATTTTGA
* * *
95851210 GTT-AGGGATTTTGATTTTGGAAATTTTTA
1 TTTAAGGTATTTTGATTTTGGAAATTTTGA
95851239 TTTAAGGTATTTTGATTTT
1 TTTAAGGTATTTTGATTTT
95851258 AGGGATTTTT
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
28 3 0.08
29 21 0.55
30 14 0.37
ACGTcount: A:0.21, C:0.00, G:0.25, T:0.55
Consensus pattern (30 bp):
TTTAAGGTATTTTGATTTTGGAAATTTTGA
Found at i:95852372 original size:114 final size:114
Alignment explanation
Indices: 95852168--95852413 Score: 330
Period size: 114 Copynumber: 2.2 Consensus size: 114
95852158 GTAATGAAGT
* ** *
95852168 TGTTGAGGTTATTAGCAGTAAAGGTGGTGAGGGTGTTGAGGGTTTAAATGGGGAGGGTGTTAAGG
1 TGTTGAGGTTGTTAGCAGTAAAGGTGGTGAGGGTGTTGAAAGTTTAAATGGGAAGGGTGTTAAGG
* * * *
95852233 TTGCTGGTAGTGAAGGTGGTAAGGGTGGTGAAGATTTAGGTGGGAAGGG
66 TTGCTGGCAGTCAAGGCGGTAAGGGTGGTGAAGATTTAGGTAGGAAGGG
* * * * ** *
95852282 TGTTGATGTTGTTGGCAGTCAATGTGGTGAGGGTGTTGAAAGTTTAGGTGGGAAGGGTGTTGAGG
1 TGTTGAGGTTGTTAGCAGTAAAGGTGGTGAGGGTGTTGAAAGTTTAAATGGGAAGGGTGTTAAGG
* * *
95852347 TTGCTGGCAGTCAAGGCGGTGAGGGTGGTGAAGGTTTAGGTAGGAAGGT
66 TTGCTGGCAGTCAAGGCGGTAAGGGTGGTGAAGATTTAGGTAGGAAGGG
95852396 TGTTGAGGTTGTTAGCAG
1 TGTTGAGGTTGTTAGCAG
95852414 CCAAGGTAGT
Statistics
Matches: 112, Mismatches: 20, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
114 112 1.00
ACGTcount: A:0.21, C:0.04, G:0.46, T:0.30
Consensus pattern (114 bp):
TGTTGAGGTTGTTAGCAGTAAAGGTGGTGAGGGTGTTGAAAGTTTAAATGGGAAGGGTGTTAAGG
TTGCTGGCAGTCAAGGCGGTAAGGGTGGTGAAGATTTAGGTAGGAAGGG
Found at i:95852434 original size:57 final size:57
Alignment explanation
Indices: 95852168--95852420 Score: 290
Period size: 57 Copynumber: 4.4 Consensus size: 57
95852158 GTAATGAAGT
* * * * * ** *
95852168 TGTTGAGGTTATTAGCAGTAAAGGTGGTGAGGGTGTTGAGGGTTTAAATGGGGAGGG
1 TGTTGAGGTTGTTGGCAGTCAAGGTGGTGAGGGTGGTGAAGGTTTAGGTGGGAAGGG
* * * * * *
95852225 TGTTAAGGTTGCTGGTAGTGAAGGTGGTAAGGGTGGTGAAGATTTAGGTGGGAAGGG
1 TGTTGAGGTTGTTGGCAGTCAAGGTGGTGAGGGTGGTGAAGGTTTAGGTGGGAAGGG
* * * *
95852282 TGTTGATGTTGTTGGCAGTCAATGTGGTGAGGGTGTTGAAAGTTTAGGTGGGAAGGG
1 TGTTGAGGTTGTTGGCAGTCAAGGTGGTGAGGGTGGTGAAGGTTTAGGTGGGAAGGG
* * * *
95852339 TGTTGAGGTTGCTGGCAGTCAAGGCGGTGAGGGTGGTGAAGGTTTAGGTAGGAAGGT
1 TGTTGAGGTTGTTGGCAGTCAAGGTGGTGAGGGTGGTGAAGGTTTAGGTGGGAAGGG
* *
95852396 TGTTGAGGTTGTTAGCAGCCAAGGT
1 TGTTGAGGTTGTTGGCAGTCAAGGT
95852421 AGTAAATGTG
Statistics
Matches: 161, Mismatches: 35, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
57 161 1.00
ACGTcount: A:0.21, C:0.04, G:0.45, T:0.30
Consensus pattern (57 bp):
TGTTGAGGTTGTTGGCAGTCAAGGTGGTGAGGGTGGTGAAGGTTTAGGTGGGAAGGG
Found at i:95853778 original size:31 final size:31
Alignment explanation
Indices: 95853743--95853830 Score: 158
Period size: 31 Copynumber: 2.8 Consensus size: 31
95853733 TAAATAATGT
* *
95853743 TATTTATTTTGTACCAATTTATTACTGGTGC
1 TATTTATTTTGCACCAATTTATTACTGATGC
95853774 TATTTATTTTGCACCAATTTATTACTGATGC
1 TATTTATTTTGCACCAATTTATTACTGATGC
95853805 TATTTATTTTGCACCAATTTATTACT
1 TATTTATTTTGCACCAATTTATTACT
95853831 AATGTTTTAC
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 55 1.00
ACGTcount: A:0.25, C:0.15, G:0.09, T:0.51
Consensus pattern (31 bp):
TATTTATTTTGCACCAATTTATTACTGATGC
Found at i:95853795 original size:15 final size:15
Alignment explanation
Indices: 95853775--95853827 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
95853765 TACTGGTGCT
95853775 ATTTATTTTGCACCA
1 ATTTATTTTGCACCA
* * *
95853790 ATTTATTACTG-ATGCT
1 ATTTATT-TTGCA-CCA
95853806 ATTTATTTTGCACCA
1 ATTTATTTTGCACCA
95853821 ATTTATT
1 ATTTATT
95853828 ACTAATGTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
15 18 0.62
16 11 0.38
ACGTcount: A:0.26, C:0.15, G:0.08, T:0.51
Consensus pattern (15 bp):
ATTTATTTTGCACCA
Found at i:95854796 original size:5 final size:6
Alignment explanation
Indices: 95854783--95854826 Score: 52
Period size: 6 Copynumber: 7.0 Consensus size: 6
95854773 ATAATTTAAT
* *
95854783 AAATAA AAATAA AAATAA AAATCTAA AACTAA GAATAA AAATAA
1 AAATAA AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA
95854827 TAACATATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
6 27 0.84
8 5 0.16
ACGTcount: A:0.75, C:0.05, G:0.02, T:0.18
Consensus pattern (6 bp):
AAATAA
Found at i:95854819 original size:20 final size:20
Alignment explanation
Indices: 95854786--95854824 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
95854776 ATTTAATAAA
95854786 TAAAAATAAAAATAAAAATC
1 TAAAAATAAAAATAAAAATC
* *
95854806 TAAAACTAAGAATAAAAAT
1 TAAAAATAAAAATAAAAAT
95854825 AATAACATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.72, C:0.05, G:0.03, T:0.21
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAATC
Found at i:95854878 original size:18 final size:18
Alignment explanation
Indices: 95854857--95854897 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
95854847 ATAATTAAGT
95854857 TAATTCGGTTAATTTGGG
1 TAATTCGGTTAATTTGGG
*
95854875 TAATTCGGTTAATTTGGT
1 TAATTCGGTTAATTTGGG
95854893 TAATT
1 TAATT
95854898 TTATACTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.24, C:0.05, G:0.22, T:0.49
Consensus pattern (18 bp):
TAATTCGGTTAATTTGGG
Found at i:95854898 original size:9 final size:9
Alignment explanation
Indices: 95854855--95854898 Score: 61
Period size: 9 Copynumber: 4.9 Consensus size: 9
95854845 AAATAATTAA
*
95854855 GTTAATTCG
1 GTTAATTTG
95854864 GTTAATTTG
1 GTTAATTTG
* *
95854873 GGTAATTCG
1 GTTAATTTG
95854882 GTTAATTTG
1 GTTAATTTG
95854891 GTTAATTT
1 GTTAATTT
95854899 TATACTTATT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.23, C:0.05, G:0.23, T:0.50
Consensus pattern (9 bp):
GTTAATTTG
Found at i:95855695 original size:161 final size:161
Alignment explanation
Indices: 95855374--95855688 Score: 415
Period size: 161 Copynumber: 2.0 Consensus size: 161
95855364 GGTGAAGGTC
* * * * * *
95855374 ACAACAGAAGATCATGCCTTCAACCTAACACAACTGGATCAGAGGTATATCGTAAACACTTTTTC
1 ACAACAAAAGACCATGCATTCAACCTAACACAACTGGATCACAAGTATATCATAAACACTTTTTC
* * *
95855439 ACTATCAAGTTCCAAAATATTTAAATCTAATTTGGAATTGTGATTATTTATTGTCTCAGTTTGGT
66 ACTATCAAGTTCCAAAATATTTAAATCTAATTTGGAATTGTGATTATTTATTGCCTCAATCTGGT
*
95855504 ATGAGTACAAGAACTAGAAGCTAAAAAAAGA
131 AAGAGTACAAGAACTAGAAGCTAAAAAAAGA
* *
95855535 ACAACAAAAGACCATGCATTCAACCTAACACAACTGGATCACAAGTATATCATAAACATTTTTTT
1 ACAACAAAAGACCATGCATTCAACCTAACACAACTGGATCACAAGTATATCATAAACACTTTTTC
* * * * **
95855600 ACTGTCAAGTTTCAAAGTATTTAAATCTAGTTTGGGGTTGTGA-T-TTT-TT-CCTCAATCTGGT
66 ACTATCAAGTTCCAAAATATTTAAATCTAATTTGGAATTGTGATTATTTATTGCCTCAATCTGGT
**
95855661 AAGAGTATTAGAACTAGAAG-TAAAAAAA
131 AAGAGTACAAGAACTAGAAGCTAAAAAAA
95855689 AAAAAGATGG
Statistics
Matches: 134, Mismatches: 20, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
156 8 0.06
157 26 0.19
158 2 0.01
159 3 0.02
160 1 0.01
161 94 0.70
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (161 bp):
ACAACAAAAGACCATGCATTCAACCTAACACAACTGGATCACAAGTATATCATAAACACTTTTTC
ACTATCAAGTTCCAAAATATTTAAATCTAATTTGGAATTGTGATTATTTATTGCCTCAATCTGGT
AAGAGTACAAGAACTAGAAGCTAAAAAAAGA
Found at i:95856758 original size:67 final size:67
Alignment explanation
Indices: 95856687--95856815 Score: 181
Period size: 67 Copynumber: 1.9 Consensus size: 67
95856677 TCTAGTTGAC
* * **
95856687 ACAAAAATCAAAC-AACTAAAAAAATC-CCTAATTTTTTATGAAGTCTAAAACAAATTGGCTAAC
1 ACAAAAAACAAACAAACT-AAAAAATCTCC-AATTTCTTATGAACCCTAAAACAAATTGGCTAAC
95856750 CGAT
64 CGAT
*
95856754 ACAAAAAACAGACAAACTAAAAAATCTCCAATTTCTTATGAACCCTAAAACAAATTGGCTAA
1 ACAAAAAACAAACAAACTAAAAAATCTCCAATTTCTTATGAACCCTAAAACAAATTGGCTAA
95856816 ATATGTGCTT
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
67 49 0.89
68 6 0.11
ACGTcount: A:0.50, C:0.19, G:0.07, T:0.23
Consensus pattern (67 bp):
ACAAAAAACAAACAAACTAAAAAATCTCCAATTTCTTATGAACCCTAAAACAAATTGGCTAACCG
AT
Found at i:95861747 original size:22 final size:21
Alignment explanation
Indices: 95861716--95861756 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
95861706 ATATATATTT
*
95861716 TTTTACTTTTTCTATATTTAAA
1 TTTTACTTTTTATAT-TTTAAA
*
95861738 TTTTAGTTTTTATATTTTA
1 TTTTACTTTTTATATTTTA
95861757 TTTTAGAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.24, C:0.05, G:0.02, T:0.68
Consensus pattern (21 bp):
TTTTACTTTTTATATTTTAAA
Found at i:95867811 original size:39 final size:39
Alignment explanation
Indices: 95867723--95867899 Score: 257
Period size: 39 Copynumber: 4.5 Consensus size: 39
95867713 ACAAAGCATG
* * *
95867723 CGGGACTTTAAGCCCGGATGTAATACCAGCAC-AAAGCCTT
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
* *
95867763 CAGGACTTAGCCCGGATATAACACTAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
95867802 CGGGACTTAGCCCGGGTATAACACCAGCGCGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
95867841 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
95867880 CGGGAATTAGCCCGGATATA
1 CGGGACTTAGCCCGGATATA
95867900 TATCTCACAC
Statistics
Matches: 124, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
38 19 0.15
39 100 0.81
40 5 0.04
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.19
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:95868665 original size:2 final size:2
Alignment explanation
Indices: 95868658--95868684 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
95868648 AATCATTTCA
95868658 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
95868685 ACATAGCTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:95871084 original size:19 final size:19
Alignment explanation
Indices: 95871060--95871102 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
95871050 CATATTTTAA
*
95871060 TTTCTAGTGTATCCTTACT
1 TTTCTAGTGTATCCTTACG
95871079 TTTCTAGTGTATCCTTACG
1 TTTCTAGTGTATCCTTACG
95871098 TTTCT
1 TTTCT
95871103 TTCCTTCTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.14, C:0.21, G:0.12, T:0.53
Consensus pattern (19 bp):
TTTCTAGTGTATCCTTACG
Found at i:95872780 original size:20 final size:20
Alignment explanation
Indices: 95872757--95872839 Score: 54
Period size: 20 Copynumber: 4.3 Consensus size: 20
95872747 GATTTTCCTA
95872757 TTATTTATTATATTA---TT
1 TTATTTATTATATTATTTTT
95872774 TT-TTTA-TATATTATTTTT
1 TTATTTATTATATTATTTTT
* * * *
95872792 ATACTTATTATATCATTTTCA
1 TTATTTATTATATTATTTT-T
95872813 TTA-TTATTAT-TTATTTATT
1 TTATTTATTATATTATTT-TT
95872832 TTCATTTA
1 TT-ATTTA
95872840 ATTTAATCAA
Statistics
Matches: 50, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
15 7 0.14
16 4 0.08
17 2 0.04
18 3 0.06
19 10 0.20
20 19 0.38
21 5 0.10
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (20 bp):
TTATTTATTATATTATTTTT
Found at i:95872783 original size:15 final size:16
Alignment explanation
Indices: 95872760--95872831 Score: 58
Period size: 17 Copynumber: 4.4 Consensus size: 16
95872750 TTTCCTATTA
95872760 TTTATTATATTATTTT
1 TTTATTATATTATTTT
95872776 TTTA-TATATTATTTT
1 TTTATTATATTATTTT
* *
95872791 TATACTTAT-TATATCATT
1 TTTA-TTATAT-TAT-TTT
* *
95872809 TTCATTATTATTATTTA
1 TTTATTA-TATTATTTT
95872826 TTTATT
1 TTTATT
95872832 TTCATTTAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 11
0.70 0.11 0.18
Matches are distributed among these distances:
15 14 0.33
16 5 0.12
17 15 0.35
18 8 0.19
19 1 0.02
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTATTATATTATTTT
Found at i:95873139 original size:14 final size:14
Alignment explanation
Indices: 95873101--95873138 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
95873091 TTATTATACG
95873101 TATTATATTTTATT
1 TATTATATTTTATT
*
95873115 TATCATATTTTATT
1 TATTATATTTTATT
95873129 TATT-TATTTT
1 TATTATATTTT
95873139 TTACCGTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 6 0.27
14 16 0.73
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (14 bp):
TATTATATTTTATT
Found at i:95874885 original size:24 final size:24
Alignment explanation
Indices: 95874856--95874908 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
95874846 CTTTATTGTT
95874856 ATTATTAGAAAAATTTCTATCTAA
1 ATTATTAGAAAAATTTCTATCTAA
*
95874880 ATTATTAGGAAAATTTCTATCTAA
1 ATTATTAGAAAAATTTCTATCTAA
*
95874904 GTTAT
1 ATTAT
95874909 CACTTGTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.43
Consensus pattern (24 bp):
ATTATTAGAAAAATTTCTATCTAA
Found at i:95879454 original size:171 final size:171
Alignment explanation
Indices: 95879156--95879491 Score: 557
Period size: 171 Copynumber: 2.0 Consensus size: 171
95879146 ATGATTTTCC
* * * * *
95879156 TTTGCTATGGGAGATGCAAACTTTTGACCTGAGGATGTAGGATCTAGAGAAGCAGGAGAAAGGGA
1 TTTGCCATGGGAGATACAAACTTCTGACCTGAGGATGGAGGATCTAGAGAAGCAGGAGAAAAGGA
* * *
95879221 GCTGCTACAATTACGATCCTGTAACTGATCCATCTCACCATGTGAAGGTGGCACATGATCATGGG
66 GCTACTACAATTACGATCCTGTAACTGATCCATCCCACCATGTGAAGGTGGCACAGGATCATGGG
*
95879286 ATTGAGTTTTGGGTAATTCTTTGGAGCAGCAAATACAAACT
131 ATTGAGTTTTGGGTAATTCTTTGGAGAAGCAAATACAAACT
95879327 TTTGCCATGGGAGATACAAACTTCTGACCTGAGGATGGAGGATCTAGAGAAGCAGGAGAAAAGGA
1 TTTGCCATGGGAGATACAAACTTCTGACCTGAGGATGGAGGATCTAGAGAAGCAGGAGAAAAGGA
* *
95879392 GCTACTACAATTAC-ATTCCTGTAACTGATCCATCCCATCATGTGAAGGTGGGACAGGATCATGG
66 GCTACTACAATTACGA-TCCTGTAACTGATCCATCCCACCATGTGAAGGTGGCACAGGATCATGG
95879456 GATTGAGTTTTGGGTAATTCTTTGGAGAAGCAAATA
130 GATTGAGTTTTGGGTAATTCTTTGGAGAAGCAAATA
95879492 TGTTCCCCCT
Statistics
Matches: 153, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
170 1 0.01
171 152 0.99
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (171 bp):
TTTGCCATGGGAGATACAAACTTCTGACCTGAGGATGGAGGATCTAGAGAAGCAGGAGAAAAGGA
GCTACTACAATTACGATCCTGTAACTGATCCATCCCACCATGTGAAGGTGGCACAGGATCATGGG
ATTGAGTTTTGGGTAATTCTTTGGAGAAGCAAATACAAACT
Found at i:95880888 original size:8 final size:8
Alignment explanation
Indices: 95880875--95880903 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
95880865 AGGAAAGGAG
95880875 TTTCTTTT
1 TTTCTTTT
95880883 TTTC-TTT
1 TTTCTTTT
95880890 TTTCTTTT
1 TTTCTTTT
95880898 TTTCTT
1 TTTCTT
95880904 AAAGCAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (8 bp):
TTTCTTTT
Found at i:95880895 original size:15 final size:15
Alignment explanation
Indices: 95880875--95880903 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
95880865 AGGAAAGGAG
95880875 TTTCTTTTTTTCTTT
1 TTTCTTTTTTTCTTT
95880890 TTTCTTTTTTTCTT
1 TTTCTTTTTTTCTT
95880904 AAAGCAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (15 bp):
TTTCTTTTTTTCTTT
Found at i:95886271 original size:17 final size:17
Alignment explanation
Indices: 95886249--95886298 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
95886239 ATTGGGATTG
95886249 AATTAAGAAAATT-ATTT
1 AATTAAG-AAATTAATTT
95886266 AATTAAGAAATTAATTT
1 AATTAAGAAATTAATTT
* **
95886283 AGTTAATTAATTAATT
1 AATTAAGAAATTAATT
95886299 AATATTTTGG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 5 0.17
17 24 0.83
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
AATTAAGAAATTAATTT
Found at i:95888476 original size:27 final size:27
Alignment explanation
Indices: 95888415--95888477 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
95888405 GCATGTCCAC
* *
95888415 TCAGAGTTCGATACAAAGGTTATTCTT
1 TCAGAGTTCAATACAAAGGCTATTCTT
* * *
95888442 TTAAAGTTCAATATAAAGGCTATTCTT
1 TCAGAGTTCAATACAAAGGCTATTCTT
95888469 TCAGAGTTC
1 TCAGAGTTC
95888478 GCCACAAAAG
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (27 bp):
TCAGAGTTCAATACAAAGGCTATTCTT
Found at i:95889934 original size:31 final size:31
Alignment explanation
Indices: 95889898--95889960 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
95889888 TCAGAATTTA
95889898 TGTTTTATATTGAATACTAAGAGTTGAAACT
1 TGTTTTATATTGAATACTAAGAGTTGAAACT
95889929 TGTTTTATATTGAATACTAAGAGTTGAAACT
1 TGTTTTATATTGAATACTAAGAGTTGAAACT
95889960 T
1 T
95889961 ACTTATAGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.35, C:0.06, G:0.16, T:0.43
Consensus pattern (31 bp):
TGTTTTATATTGAATACTAAGAGTTGAAACT
Found at i:95894458 original size:15 final size:15
Alignment explanation
Indices: 95894438--95894473 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
95894428 ATAATAATAT
95894438 TATTTTTTAAAAAAA
1 TATTTTTTAAAAAAA
*
95894453 TATTTTTTAAAATAA
1 TATTTTTTAAAAAAA
95894468 T-TTTTT
1 TATTTTT
95894474 AATTAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 5 0.25
15 15 0.75
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TATTTTTTAAAAAAA
Found at i:95903520 original size:22 final size:21
Alignment explanation
Indices: 95903480--95903520 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
95903470 AATAAGGGAC
*
95903480 ATTATGTATGTTTAATGAAGA
1 ATTATGTATGATTAATGAAGA
*
95903501 ATTATGTTATGATTATTGAA
1 ATTATG-TATGATTAATGAA
95903521 ATGTTTTGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.46
Consensus pattern (21 bp):
ATTATGTATGATTAATGAAGA
Found at i:95905430 original size:14 final size:14
Alignment explanation
Indices: 95905411--95905437 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
95905401 TATGGCAGCA
95905411 ATTATTATTATTAT
1 ATTATTATTATTAT
95905425 ATTATTATTATTA
1 ATTATTATTATTA
95905438 ATTTAAGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
ATTATTATTATTAT
Found at i:95909389 original size:25 final size:24
Alignment explanation
Indices: 95909356--95909404 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 24
95909346 GGATGGATTC
95909356 TTATTTTATTTAAT-ATTAATATAA
1 TTATTTTATTTAATGA-TAATATAA
95909380 TTATATTTATTTAATGATAATATAA
1 TTAT-TTTATTTAATGATAATATAA
95909405 ATATCAACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 4 0.17
25 18 0.78
26 1 0.04
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (24 bp):
TTATTTTATTTAATGATAATATAA
Found at i:95909463 original size:22 final size:22
Alignment explanation
Indices: 95909419--95909477 Score: 64
Period size: 24 Copynumber: 2.6 Consensus size: 22
95909409 CAACATAACA
* * *
95909419 TTTACATTTATTATTATATATTT
1 TTTAAATTTTTTATTATAT-TTC
95909442 TTTAAAATTTTTTATTATATTTC
1 TTT-AAATTTTTTATTATATTTC
*
95909465 TTTGAATTTTTTA
1 TTTAAATTTTTTA
95909478 AAATTAAGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
22 9 0.29
23 8 0.26
24 14 0.45
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (22 bp):
TTTAAATTTTTTATTATATTTC
Found at i:95915184 original size:11 final size:11
Alignment explanation
Indices: 95915168--95915192 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
95915158 TTTTAATTTT
95915168 AAAAATTATAA
1 AAAAATTATAA
95915179 AAAAATTATAA
1 AAAAATTATAA
95915190 AAA
1 AAA
95915193 CTATTTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
AAAAATTATAA
Found at i:95915241 original size:39 final size:40
Alignment explanation
Indices: 95915165--95915242 Score: 97
Period size: 39 Copynumber: 2.0 Consensus size: 40
95915155 ATTTTTTAAT
* *
95915165 TTTAAAAATTATAAAAAAATTATAAAAACTATTTTTAAAA
1 TTTAAAAATTATAAAAAAAGTATAAAAACTATATTTAAAA
* *
95915205 TTTAAAAATTAT-TAAAAAGTATAAATACT-TAATTTAAA
1 TTTAAAAATTATAAAAAAAGTATAAAAACTAT-ATTTAAA
95915243 TTATTTTAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
38 1 0.03
39 20 0.61
40 12 0.36
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (40 bp):
TTTAAAAATTATAAAAAAAGTATAAAAACTATATTTAAAA
Found at i:95915728 original size:277 final size:281
Alignment explanation
Indices: 95915314--95915853 Score: 700
Period size: 277 Copynumber: 1.9 Consensus size: 281
95915304 ATCAATTCAG
* * *
95915314 TAAAACACTTAAATAATAGTAAGTATAGATGTACAATTGATGGAAATTAGAGTGTGCATAATAAA
1 TAAAACACTTAAATAATAGTAAGTATAGATATACAATTGATGGAAATTAAAATGTGCATAATAAA
** * * * *
95915379 ATAAAAATGTATAAGAATATTAAAATAAAGTTTTAGTTGAGTGGTAAATTAAAAGTTTTACTGAA
66 ATAAAAACATATAAAAATATCAAAACAAAGCTTTAGTTGAGTGGTAAATTAAAAGTTTTACTGAA
*
95915444 GCAATCAACATG-G-C-GTA-A-TTTTATT-CATTTTTAAATGAAAAAGACTAAAATATCCTCGA
131 GCAATCAACATGAGCCAGTATATTTTTATTGCATTTTTAAATGAAAAAAACTAAAATATCCTCGA
* ** * *
95915503 ATAATATAACTTTTTTAATTA-AGAGAGGGCATTTTCATAATTTAACAATTGAGTTGATGACACG
196 ATAATATAACTTTATTAATTAGAG-GAAAGCATTCTCATAATTTAACAACTGAGTTGATGACACG
95915567 GTTGAGGGTGACACAAACTCAA
260 GTTGAGGGTGACACAAACTCAA
95915589 TAAAACACTTAAATAATAGTAAGTATAGATATACAATTGAT-GAATATGATAAAATGTGCATAAT
1 TAAAACACTTAAATAATAGTAAGTATAGATATACAATTGATGGAA-AT--TAAAATGTGCATAAT
* *
95915653 AAAATAAAAACATATAAAAATATCAAAACAAAGCTTTAGTTGAGTGGTAAATTAAACGTTTTATT
63 AAAATAAAAACATATAAAAATATCAAAACAAAGCTTTAGTTGAGTGGTAAATTAAAAGTTTTACT
* * ** *
95915718 GATGCAATCAAGATGAGTCACCATATGTATATTTTTATTGGGTTTTTTAAATGAAAAAAATTAAA
128 GAAGCAATCAACATGAG---CC--A-GTATATTTTTATT-GCATTTTTAAATGAAAAAAACTAAA
* *
95915783 GTATCCTCGAATAATATAACTTTATTAATTAGAGGAAAGCATTCTCTTAATTTAACAACTGAGTT
186 ATATCCTCGAATAATATAACTTTATTAATTAGAGGAAAGCATTCTCATAATTTAACAACTGAGTT
*
95915848 GGTGAC
251 GATGAC
95915854 TCGATTGGGG
Statistics
Matches: 223, Mismatches: 25, Indels: 19
0.84 0.09 0.07
Matches are distributed among these distances:
274 3 0.01
275 42 0.19
277 83 0.37
278 1 0.00
282 1 0.00
286 3 0.01
287 1 0.00
288 7 0.03
290 80 0.36
291 2 0.01
ACGTcount: A:0.43, C:0.09, G:0.15, T:0.33
Consensus pattern (281 bp):
TAAAACACTTAAATAATAGTAAGTATAGATATACAATTGATGGAAATTAAAATGTGCATAATAAA
ATAAAAACATATAAAAATATCAAAACAAAGCTTTAGTTGAGTGGTAAATTAAAAGTTTTACTGAA
GCAATCAACATGAGCCAGTATATTTTTATTGCATTTTTAAATGAAAAAAACTAAAATATCCTCGA
ATAATATAACTTTATTAATTAGAGGAAAGCATTCTCATAATTTAACAACTGAGTTGATGACACGG
TTGAGGGTGACACAAACTCAA
Found at i:95915944 original size:22 final size:20
Alignment explanation
Indices: 95915921--95915959 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
95915911 TTTTATGATA
*
95915921 AAATATATTATTATATATTTT
1 AAATATATT-TAATATATTTT
95915942 AAATATATTTAATATATT
1 AAATATATTTAATATATT
95915960 ATGGTATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
AAATATATTTAATATATTTT
Found at i:95917263 original size:23 final size:23
Alignment explanation
Indices: 95917185--95917265 Score: 67
Period size: 24 Copynumber: 3.3 Consensus size: 23
95917175 AATTATATTT
95917185 TATTTTTAAAAA-AATACAAATTTAA
1 TATTTTTAAAAATAATA-AAA-TT-A
* *
95917210 TTATTTTTTAAAAATTATAAAAATA
1 -TA-TTTTTAAAAATAATAAAATTA
95917235 TAATTTGTT-AAAATAATAAAATTA
1 T-ATTT-TTAAAAATAATAAAATTA
95917259 TATTTTT
1 TATTTTT
95917266 TTTACTAGCT
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
22 2 0.04
23 4 0.09
24 18 0.38
25 4 0.09
26 3 0.06
27 13 0.28
28 3 0.06
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (23 bp):
TATTTTTAAAAATAATAAAATTA
Found at i:95917269 original size:77 final size:78
Alignment explanation
Indices: 95917125--95917268 Score: 204
Period size: 77 Copynumber: 1.8 Consensus size: 78
95917115 ACAAATTTTT
* * * *
95917125 AATTTAATTAATTTTTTATAATTTATAAAATTTTAATTTAGTAATAATAAAATTATATTTTATTT
1 AATTTAATTAATTTTTTAAAAATTATAAAAATATAATTTAGTAATAATAAAATTATATTTTATTT
95917190 TTAAAAAAATACA
66 TTAAAAAAATACA
95917203 AATTTAATT-ATTTTTTAAAAATTATAAAAATATAATTT-GTTAAAATAATAAAATTATATTTT-
1 AATTTAATTAATTTTTTAAAAATTATAAAAATATAATTTAG-T--AATAATAAAATTATATTTTA
95917265 TTTT
63 TTTT
95917269 ACTAGCTTAA
Statistics
Matches: 59, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
76 1 0.02
77 26 0.44
78 13 0.22
79 19 0.32
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (78 bp):
AATTTAATTAATTTTTTAAAAATTATAAAAATATAATTTAGTAATAATAAAATTATATTTTATTT
TTAAAAAAATACA
Found at i:95917640 original size:35 final size:35
Alignment explanation
Indices: 95917584--95917654 Score: 83
Period size: 35 Copynumber: 2.0 Consensus size: 35
95917574 TGTTCTTTCA
*
95917584 TAATTAAAAATATGTAGTATTT-AAGAGTATTCTAG
1 TAATTAAAAATATATAGTATTTGAAG-GTATTCTAG
* *
95917619 TAATTAAAAA-ATTATATTATTTGAAGGTATTTTAG
1 TAATTAAAAATA-TATAGTATTTGAAGGTATTCTAG
95917654 T
1 T
95917655 CTTTTTATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
34 1 0.03
35 27 0.87
36 3 0.10
ACGTcount: A:0.42, C:0.01, G:0.13, T:0.44
Consensus pattern (35 bp):
TAATTAAAAATATATAGTATTTGAAGGTATTCTAG
Found at i:95918274 original size:21 final size:21
Alignment explanation
Indices: 95918230--95918278 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
95918220 AAAAATGATA
* *
95918230 AAAAAATTGATTTAATCCGAT
1 AAAAATTTGATTTAATCAGAT
**
95918251 AAAAATTTGATTTAATCATTT
1 AAAAATTTGATTTAATCAGAT
95918272 AAAAATT
1 AAAAATT
95918279 ATAAATATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.39
Consensus pattern (21 bp):
AAAAATTTGATTTAATCAGAT
Found at i:95919478 original size:46 final size:46
Alignment explanation
Indices: 95919373--95919488 Score: 119
Period size: 46 Copynumber: 2.5 Consensus size: 46
95919363 AAGCGGGAGT
* *
95919373 TTCAGTACTTTACGCAT-TTATATTCAGACCCTTATGCATGTTACA
1 TTCAGTGCTTTATGCATGTTATATTCAGACCCTTATGCATGTTACA
* * * * * * *
95919418 TTTAGCGCTATATGCATGTTATATTTAG-CACCTTGTGCGTGTTATA
1 TTCAGTGCTTTATGCATGTTATATTCAGAC-CCTTATGCATGTTACA
*
95919464 TTCAGTGCTTTATGCATGCTATATT
1 TTCAGTGCTTTATGCATGTTATATT
95919489 GGTGTGATTG
Statistics
Matches: 56, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
45 13 0.23
46 43 0.77
ACGTcount: A:0.23, C:0.18, G:0.16, T:0.43
Consensus pattern (46 bp):
TTCAGTGCTTTATGCATGTTATATTCAGACCCTTATGCATGTTACA
Found at i:95921609 original size:20 final size:21
Alignment explanation
Indices: 95921584--95921636 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
95921574 CAAAGATAAA
95921584 AAAGTATCGATACCCTTA-AC
1 AAAGTATCGATACCCTTAGAC
* *
95921604 AAAGTATCTATA-CCTTAGTC
1 AAAGTATCGATACCCTTAGAC
95921624 AAAGTATCGATAC
1 AAAGTATCGATAC
95921637 TATTTTACAG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 5 0.18
20 23 0.82
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (21 bp):
AAAGTATCGATACCCTTAGAC
Found at i:95923183 original size:10 final size:10
Alignment explanation
Indices: 95923168--95923201 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
95923158 AATTTTAATG
95923168 TAATATTTTT
1 TAATATTTTT
95923178 TAATA--TTT
1 TAATATTTTT
95923186 TAATATTTTT
1 TAATATTTTT
95923196 TAATAT
1 TAATAT
95923202 ATTTATGTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 8 0.36
10 14 0.64
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
TAATATTTTT
Found at i:95923189 original size:18 final size:19
Alignment explanation
Indices: 95923168--95923206 Score: 71
Period size: 18 Copynumber: 2.1 Consensus size: 19
95923158 AATTTTAATG
95923168 TAATATTTTTTAATAT-TT
1 TAATATTTTTTAATATATT
95923186 TAATATTTTTTAATATATT
1 TAATATTTTTTAATATATT
95923205 TA
1 TA
95923207 TGTCATGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TAATATTTTTTAATATATT
Found at i:95925836 original size:18 final size:18
Alignment explanation
Indices: 95925805--95925843 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
95925795 AAAATAAATA
* *
95925805 TTATTTATTCAATTAATT
1 TTATTGATTAAATTAATT
95925823 TTATTGATTAAATTAATT
1 TTATTGATTAAATTAATT
95925841 TTA
1 TTA
95925844 CATTTTTACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (18 bp):
TTATTGATTAAATTAATT
Found at i:95926295 original size:75 final size:75
Alignment explanation
Indices: 95926189--95926338 Score: 230
Period size: 75 Copynumber: 2.0 Consensus size: 75
95926179 TTCATATTAT
* * * *
95926189 TTATTTAGCTTGATAAATGAATAAAAACCGAATTGTTCATGATTTGTTCATCGTACGCTCTGTTA
1 TTATTTAGCTTGATAAATGAATAAAAACCGAATTGTTCATGAATTGTTCATCATACACCCTGTTA
95926254 ATCTACATCC
66 ATCTACATCC
* *
95926264 TTATATTAGCTTGATAAATG-ATAAAAGCCGAATTGTTCATGAATTGTTCATCATATACCCTGTT
1 TTAT-TTAGCTTGATAAATGAATAAAAACCGAATTGTTCATGAATTGTTCATCATACACCCTGTT
95926328 AATCTACATCC
65 AATCTACATCC
95926339 CAATATTCAA
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
75 53 0.78
76 15 0.22
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (75 bp):
TTATTTAGCTTGATAAATGAATAAAAACCGAATTGTTCATGAATTGTTCATCATACACCCTGTTA
ATCTACATCC
Found at i:95928186 original size:27 final size:27
Alignment explanation
Indices: 95928148--95928202 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
95928138 ATATATAAAG
95928148 TATAATAATAAAATTAGTCCTTAATCT
1 TATAATAATAAAATTAGTCCTTAATCT
95928175 TATAATAATAAAATTAGTCCTTAATCT
1 TATAATAATAAAATTAGTCCTTAATCT
95928202 T
1 T
95928203 TACATATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.44, C:0.11, G:0.04, T:0.42
Consensus pattern (27 bp):
TATAATAATAAAATTAGTCCTTAATCT
Found at i:95935967 original size:5 final size:5
Alignment explanation
Indices: 95935957--95935983 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
95935947 TAAAAGGCCT
95935957 TTATA TTATA TTATA TTATA TTATA TT
1 TTATA TTATA TTATA TTATA TTATA TT
95935984 CATGCTCATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
TTATA
Found at i:95953534 original size:13 final size:13
Alignment explanation
Indices: 95953516--95953543 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
95953506 TATAATCATT
95953516 TTATTATTAATAA
1 TTATTATTAATAA
95953529 TTATTATTAATAA
1 TTATTATTAATAA
95953542 TT
1 TT
95953544 TCTTAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
TTATTATTAATAA
Found at i:95954336 original size:10 final size:11
Alignment explanation
Indices: 95954305--95954337 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
95954295 TGGCTTGCCC
95954305 ATATTAATTTT
1 ATATTAATTTT
*
95954316 ATATTATTTTT
1 ATATTAATTTT
95954327 ATA-TAATTTT
1 ATATTAATTTT
95954337 A
1 A
95954338 AAATATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 7 0.35
11 13 0.65
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
ATATTAATTTT
Found at i:95954357 original size:19 final size:19
Alignment explanation
Indices: 95954335--95954383 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 19
95954325 TTATATAATT
*
95954335 TTAAAATATATATAAACCA
1 TTAAAATATATATAAAACA
95954354 TTAAAATAT-TA-AAAACA
1 TTAAAATATATATAAAACA
* *
95954371 TCAAAATAAATAT
1 TTAAAATATATAT
95954384 TTCTCAACAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 12 0.48
18 4 0.16
19 9 0.36
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (19 bp):
TTAAAATATATATAAAACA
Found at i:95959854 original size:22 final size:22
Alignment explanation
Indices: 95959829--95959872 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
95959819 TTGATAGGAG
95959829 ATGAAAAGATATAATGGATGTT
1 ATGAAAAGATATAATGGATGTT
95959851 ATGAAAAGATATAATGGATGTT
1 ATGAAAAGATATAATGGATGTT
95959873 TTGTACAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.23, T:0.32
Consensus pattern (22 bp):
ATGAAAAGATATAATGGATGTT
Found at i:95961482 original size:27 final size:28
Alignment explanation
Indices: 95961449--95961525 Score: 81
Period size: 27 Copynumber: 2.9 Consensus size: 28
95961439 TATACCTTAT
*
95961449 TTATTTTGAAATTATTTATATATCTT-C
1 TTATTTTGAAATTATTTATATATATTAC
* *
95961476 TTATTTT-AAACT-TTTATATATATTAT
1 TTATTTTGAAATTATTTATATATATTAC
* *
95961502 TTATTTTG-GATTATTTTTATATAT
1 TTATTTTGAAATTATTTATATATAT
95961526 ATATATATAT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
25 11 0.27
26 13 0.32
27 17 0.41
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (28 bp):
TTATTTTGAAATTATTTATATATATTAC
Found at i:95961587 original size:29 final size:26
Alignment explanation
Indices: 95961555--95961628 Score: 85
Period size: 29 Copynumber: 2.7 Consensus size: 26
95961545 TTTAAACTGT
*
95961555 TTTTATATATTATTTATTTCAAATTTCTC
1 TTTTATATATTATTTATTTCAAA---CCC
* *
95961584 TTTTACATATTATTTATTTTAAACCC
1 TTTTATATATTATTTATTTCAAACCC
*
95961610 TTTTATATATTAATTATTT
1 TTTTATATATTATTTATTT
95961629 TAATTATTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
26 19 0.47
29 21 0.52
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.61
Consensus pattern (26 bp):
TTTTATATATTATTTATTTCAAACCC
Found at i:95961612 original size:26 final size:27
Alignment explanation
Indices: 95961555--95961631 Score: 93
Period size: 26 Copynumber: 2.8 Consensus size: 27
95961545 TTTAAACTGT
* *
95961555 TTTTATATATTATTTATTTCAAATTTCTC
1 TTTTATATATTATTTATTTTAAA--TCCC
*
95961584 TTTTACATATTATTTATTTTAAA-CCC
1 TTTTATATATTATTTATTTTAAATCCC
*
95961610 TTTTATATATTAATTATTTTAA
1 TTTTATATATTATTTATTTTAA
95961632 TTATTTTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
26 22 0.51
29 21 0.49
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.60
Consensus pattern (27 bp):
TTTTATATATTATTTATTTTAAATCCC
Found at i:95961639 original size:26 final size:26
Alignment explanation
Indices: 95961554--95961639 Score: 82
Period size: 26 Copynumber: 3.2 Consensus size: 26
95961544 ATTTAAACTG
*
95961554 TTTTTATATATTATTTATTTCAAATTTC
1 TTTTTATATATTATTTATTT-TAA-TTC
* **
95961582 TCTTTTACATATTATTTATTTTAAACC
1 T-TTTTATATATTATTTATTTTAATTC
* * *
95961609 CTTTTATATATTAATTATTTTAATTA
1 TTTTTATATATTATTTATTTTAATTC
95961635 TTTTT
1 TTTTT
95961640 TTTATATTTA
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
26 24 0.52
27 1 0.02
28 3 0.07
29 18 0.39
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (26 bp):
TTTTTATATATTATTTATTTTAATTC
Found at i:95965743 original size:12 final size:12
Alignment explanation
Indices: 95965724--95965784 Score: 68
Period size: 12 Copynumber: 4.9 Consensus size: 12
95965714 AACTAACACC
95965724 CCACTAAACCAA
1 CCACTAAACCAA
* *
95965736 CTACTAAACCACC
1 CCACTAAACCA-A
95965749 CCACTAAACCAA
1 CCACTAAACCAA
* *
95965761 CCAATAAACCACC
1 CCACTAAACCA-A
95965774 CCACTAAACCA
1 CCACTAAACCA
95965785 TCCTATGTTG
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
12 20 0.50
13 20 0.50
ACGTcount: A:0.46, C:0.44, G:0.00, T:0.10
Consensus pattern (12 bp):
CCACTAAACCAA
Found at i:95965749 original size:25 final size:25
Alignment explanation
Indices: 95965720--95965784 Score: 112
Period size: 25 Copynumber: 2.6 Consensus size: 25
95965710 GTCTAACTAA
* *
95965720 CACCCCACTAAACCAACTACTAAAC
1 CACCCCACTAAACCAACCAATAAAC
95965745 CACCCCACTAAACCAACCAATAAAC
1 CACCCCACTAAACCAACCAATAAAC
95965770 CACCCCACTAAACCA
1 CACCCCACTAAACCA
95965785 TCCTATGTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.45, C:0.46, G:0.00, T:0.09
Consensus pattern (25 bp):
CACCCCACTAAACCAACCAATAAAC
Found at i:95965756 original size:13 final size:13
Alignment explanation
Indices: 95965720--95965784 Score: 80
Period size: 13 Copynumber: 5.2 Consensus size: 13
95965710 GTCTAACTAA
95965720 CACCCCACTAAAC
1 CACCCCACTAAAC
* *
95965733 CA-ACTACTAAAC
1 CACCCCACTAAAC
95965745 CACCCCACTAAAC
1 CACCCCACTAAAC
* *
95965758 CA-ACCAATAAAC
1 CACCCCACTAAAC
95965770 CACCCCACTAAAC
1 CACCCCACTAAAC
95965783 CA
1 CA
95965785 TCCTATGTTG
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
12 20 0.48
13 22 0.52
ACGTcount: A:0.45, C:0.46, G:0.00, T:0.09
Consensus pattern (13 bp):
CACCCCACTAAAC
Found at i:95966192 original size:3 final size:3
Alignment explanation
Indices: 95966184--95966221 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
95966174 GTGTTATTTT
95966184 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
95966222 TATTATTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:95966228 original size:3 final size:3
Alignment explanation
Indices: 95966222--95966682 Score: 114
Period size: 3 Copynumber: 152.0 Consensus size: 3
95966212 AATAATAATA
* * *
95966222 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAC TACT T-T AAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT
* * * * * *
95966267 T-C TAT ATAC TAT TAC TGT T-T TCT T-T T-T TAT TAT TAT TAG TAGT
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
* * * * * * *
95966310 AACG TAA TAA TAT TTT TAT TAT T-T TAT TAT TAT TTT TACCT TTT TAT
1 TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA--T TAT TAT
* * * * *
95966357 TAC TAA TAT TAT TAACC TAC TAT TAT TAT TAT TAT TAT TA- TAG TAT
1 TAT TAT TAT TAT T-A-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * ** * *
95966403 TAT T-T TCT T-T TTT TA- TAT TGT TAT TAT TAT TGG CACG TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT
* * *
95966445 TAT TAT TAT TAAT GCAT TAT TGT TAT TTT CTAT T-T TAT TAT TACT T-T
1 TAT TAT TAT T-AT -TAT TAT TAT TAT TAT -TAT TAT TAT TAT TA-T TAT
* *
95966492 TAT TAC TAT T-T TTT CTAT TAT TAT TAT T-T TCAT TACT TCCAT TAT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT T-AT TA-T T--AT TAT
* * * * * *
95966537 TAT TAT CAT TAT TTT CTAT TAT CAT TAA TA- TGT TGT T-T GT-T TAT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
* * * * *
95966581 TAT TAT TAT TAT TAT TTT TAA CAC TAT TAT CAT TAT TA- TATT TACT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TA-T
* * * * * *
95966627 TTT TTT TAA TAT TAT TAC CAT TAT ATATT TAT TAT TAT TAT TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT -TA-T TAT TAT TAT TAT TAT TAT
*
95966674 TAT TTT TAT
1 TAT TAT TAT
95966683 GATCCGTCCT
Statistics
Matches: 339, Mismatches: 80, Indels: 78
0.68 0.16 0.16
Matches are distributed among these distances:
2 33 0.10
3 266 0.78
4 33 0.10
5 6 0.02
6 1 0.00
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:95967028 original size:125 final size:128
Alignment explanation
Indices: 95966869--95967107 Score: 331
Period size: 125 Copynumber: 1.9 Consensus size: 128
95966859 CGATACTTGA
* * * *
95966869 AAATTCGAGAAATCATGTCCTAATGTACTGGGTTTCAATTTTTCGTTTGATCTAAGTAACCGATT
1 AAATTCGAGAAATCATGCCCTAACGTACTGGGTTTCAATTTTTCGTTTGATCTAAATAACCGAAT
*
95966934 ATCC-TTTT-AAATTAAAATACATGAGTTTTAAATAAAATA-AAGGCAATATTCCGTATTTAG
66 ATCCTTTTTAAAATTAAAATACATGAGCTTTAAATAAAATAGAAGGCAATATTCCGTATTTAG
* * * ** * *
95966994 AAATTCGAGTAGTCGTGCCCTAACGTACTGGGTTTTGATTTTTCGTTTGATCTAAATATCTGAAT
1 AAATTCGAGAAATCATGCCCTAACGTACTGGGTTTCAATTTTTCGTTTGATCTAAATAACCGAAT
* *
95967059 ATCCTTTTTAAAATTTAAATACATGAGCTTTAAATGAAATAGAAGGCAA
66 ATCCTTTTTAAAATTAAAATACATGAGCTTTAAATAAAATAGAAGGCAA
95967108 GCTCATACTC
Statistics
Matches: 97, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
125 58 0.60
126 4 0.04
127 28 0.29
128 7 0.07
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (128 bp):
AAATTCGAGAAATCATGCCCTAACGTACTGGGTTTCAATTTTTCGTTTGATCTAAATAACCGAAT
ATCCTTTTTAAAATTAAAATACATGAGCTTTAAATAAAATAGAAGGCAATATTCCGTATTTAG
Found at i:95967771 original size:18 final size:20
Alignment explanation
Indices: 95967729--95967765 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
95967719 ATATTTTATG
*
95967729 ATTA-TTTAATTAGATATAT
1 ATTATTTTAATGAGATATAT
95967748 ATTATTTTAATGAGATAT
1 ATTATTTTAATGAGATAT
95967766 TTTATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
ATTATTTTAATGAGATATAT
Found at i:95969969 original size:46 final size:46
Alignment explanation
Indices: 95969916--95970234 Score: 444
Period size: 46 Copynumber: 7.0 Consensus size: 46
95969906 AGTGTGCTCT
*
95969916 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
95969962 TTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
95970008 CTGATATGAAACGTGTAAAACCATGGTTGAAAGATACCATGGC-AC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
95970053 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
95970099 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * **
95970145 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
95970191 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
95970235 TCATGTCAAA
Statistics
Matches: 251, Mismatches: 20, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
45 44 0.18
46 207 0.82
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:95970168 original size:137 final size:138
Alignment explanation
Indices: 95969916--95970234 Score: 462
Period size: 137 Copynumber: 2.3 Consensus size: 138
95969906 AGTGTGCTCT
* * *
95969916 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACTTGATATGAAATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAACGTGTAAG
* **
95969981 ACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAACGTGTAAAACCATGGTTGAAAGATACC
66 ACCATGGTTGAAAGATACCATGGCAGCCTGACATGAAACGAATAAAACCATGGTTGAAAGATACC
95970046 ATGGC-AC
131 ATGGCAAC
* *
95970053 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAACGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAACGTGTAAG
* * *
95970118 ACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGAATAAGACCATGGTTGAAAGATACC
66 ACCATGGTTGAAAGATACCATGGCAGCCTGACATGAAACGAATAAAACCATGGTTGAAAGATACC
95970183 ATGGCAAC
131 ATGGCAAC
* * * * * *
95970191 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
95970235 TCATGTCAAA
Statistics
Matches: 162, Mismatches: 18, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
137 125 0.77
138 37 0.23
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (138 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAACGTGTAAG
ACCATGGTTGAAAGATACCATGGCAGCCTGACATGAAACGAATAAAACCATGGTTGAAAGATACC
ATGGCAAC
Found at i:95970257 original size:183 final size:182
Alignment explanation
Indices: 95969916--95970244 Score: 446
Period size: 183 Copynumber: 1.8 Consensus size: 182
95969906 AGTGTGCTCT
* * * **
95969916 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACTTGATATGAAATGTGTAAG
1 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGACAACGTGACATGAAATGAATAAG
* * * * * *
95969981 ACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAACGTGTAAAACCATGGTTGAAAGATACC
66 ACCATGGTTGAAAGATACCATGGCAACATGACATGAAACGAGTAAAACCATAGTTGAAAGACACC
* * *
95970046 ATGGCACCTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
131 ATGGCA-CTCATATCAAACGTATAAGACCATGGTTGAAAGATACCATGGCAGC
* *
95970099 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGAATAAG
1 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGACAACGTGACATGAAATGAATAAG
* *
95970164 ACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACAC
66 ACCATGGTTGAAAGATACCATGGCAACATGACATG-AAACGAGTAAAACCATAGTTGAAAGACAC
* *
95970228 TATGGCA-TCATGTCAAA
130 CATGGCACTCATATCAAA
95970245 GATAAATAAG
Statistics
Matches: 126, Mismatches: 19, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
181 7 0.06
182 1 0.01
183 118 0.94
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (182 bp):
CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGACAACGTGACATGAAATGAATAAG
ACCATGGTTGAAAGATACCATGGCAACATGACATGAAACGAGTAAAACCATAGTTGAAAGACACC
ATGGCACTCATATCAAACGTATAAGACCATGGTTGAAAGATACCATGGCAGC
Found at i:95973242 original size:2 final size:2
Alignment explanation
Indices: 95973200--95973232 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
95973190 TATAAATGAA
95973200 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
95973233 TCATTATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:95973791 original size:22 final size:21
Alignment explanation
Indices: 95973754--95973796 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
95973744 AATAAATAAT
95973754 TTAAAAAATAAAAAATCTCAAA
1 TTAAAAAATAAAAAAT-TCAAA
95973776 TTAAAATAAT-AAAAATTCAAA
1 TTAAAA-AATAAAAAATTCAAA
95973797 ATAATTAGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 5 0.25
22 12 0.60
23 3 0.15
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (21 bp):
TTAAAAAATAAAAAATTCAAA
Found at i:95976577 original size:13 final size:11
Alignment explanation
Indices: 95976550--95976592 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
95976540 AGTTAAAAAT
95976550 TATTTTATTAA
1 TATTTTATTAA
95976561 TATTTTACTTAA
1 TATTTTA-TTAA
*
95976573 -ATATTTATTAT
1 TAT-TTTATTAA
95976584 TATTTTATT
1 TATTTTATT
95976593 TAGAAAATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
11 18 0.64
12 10 0.36
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:95976707 original size:26 final size:26
Alignment explanation
Indices: 95976671--95976723 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
95976661 AGGATGAGAA
95976671 AAGAAGTTTTCTTTTCTTTACAATTT
1 AAGAAGTTTTCTTTTCTTTACAATTT
95976697 AAGAAGTTTTCTTTTCTTTACAATTT
1 AAGAAGTTTTCTTTTCTTTACAATTT
95976723 A
1 A
95976724 GTCTTTTGCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.28, C:0.11, G:0.08, T:0.53
Consensus pattern (26 bp):
AAGAAGTTTTCTTTTCTTTACAATTT
Found at i:95984777 original size:21 final size:19
Alignment explanation
Indices: 95984738--95984774 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
95984728 AAATTTAGTC
*
95984738 CTATATTTATTATATTATT
1 CTATATATATTATATTATT
95984757 CTATATATA-TATATTATT
1 CTATATATATTATATTATT
95984775 ATTTGTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.59
Consensus pattern (19 bp):
CTATATATATTATATTATT
Found at i:95986606 original size:17 final size:17
Alignment explanation
Indices: 95986584--95986622 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
95986574 ATAAACAAAA
95986584 TTTATATTTGTTTAATT
1 TTTATATTTGTTTAATT
95986601 TTTATATTTGTTTAATT
1 TTTATATTTGTTTAATT
95986618 TTTAT
1 TTTAT
95986623 CCATCTACCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (17 bp):
TTTATATTTGTTTAATT
Found at i:95988113 original size:20 final size:20
Alignment explanation
Indices: 95988085--95988130 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
95988075 AGTTTTTAGA
* *
95988085 TTTACTATGACAAATTAAAT
1 TTTATTATGACAAATTAAAC
95988105 TTTATTATGACAAATTAAAC
1 TTTATTATGACAAATTAAAC
95988125 TTTATT
1 TTTATT
95988131 TTATAACTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.41, C:0.09, G:0.04, T:0.46
Consensus pattern (20 bp):
TTTATTATGACAAATTAAAC
Found at i:95989547 original size:21 final size:21
Alignment explanation
Indices: 95989523--95989563 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
95989513 TTTAGGGATA
95989523 AAAAATAAATAATA-AATTTTT
1 AAAAATAAA-AATATAATTTTT
*
95989544 AAAAATTAAAATATAATTTT
1 AAAAATAAAAATATAATTTT
95989564 ATTATTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
AAAAATAAAAATATAATTTTT
Found at i:95989559 original size:22 final size:21
Alignment explanation
Indices: 95989521--95989563 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
95989511 ATTTTAGGGA
95989521 TAAAAAATAAATAATAAATTTT
1 TAAAAAATAAATAAT-AATTTT
*
95989543 TAAAAATTAAA-ATATAATTTT
1 TAAAAAATAAATA-ATAATTTT
95989564 ATTATTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAAAAATAAATAATAATTTT
Found at i:95990817 original size:34 final size:34
Alignment explanation
Indices: 95990775--95990846 Score: 135
Period size: 34 Copynumber: 2.1 Consensus size: 34
95990765 TATATTATAT
*
95990775 AAAAAAAATTAGTGTATGCACACAAAAAGCTTTA
1 AAAAAAAATTAATGTATGCACACAAAAAGCTTTA
95990809 AAAAAAAATTAATGTATGCACACAAAAAGCTTTA
1 AAAAAAAATTAATGTATGCACACAAAAAGCTTTA
95990843 AAAA
1 AAAA
95990847 GATTTAGTGT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.57, C:0.11, G:0.10, T:0.22
Consensus pattern (34 bp):
AAAAAAAATTAATGTATGCACACAAAAAGCTTTA
Found at i:95990858 original size:33 final size:33
Alignment explanation
Indices: 95990774--95990858 Score: 134
Period size: 34 Copynumber: 2.5 Consensus size: 33
95990764 ATATATTATA
95990774 TAAAAAAAATTAGTGTATGCACACAAAAAGCTT
1 TAAAAAAAATTAGTGTATGCACACAAAAAGCTT
*
95990807 TAAAAAAAAATTAATGTATGCACACAAAAAGCTT
1 T-AAAAAAAATTAGTGTATGCACACAAAAAGCTT
* *
95990841 TAAAAAGATTTAGTGTAT
1 TAAAAAAAATTAGTGTAT
95990859 ATATTTAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
33 15 0.32
34 32 0.68
ACGTcount: A:0.52, C:0.09, G:0.12, T:0.27
Consensus pattern (33 bp):
TAAAAAAAATTAGTGTATGCACACAAAAAGCTT
Found at i:95992167 original size:29 final size:29
Alignment explanation
Indices: 95992125--95992183 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
95992115 CCAAATTGTG
*
95992125 TGACTTATCAAACCAAGTTTTCACATTAA
1 TGACTTATCAAACCAAGCTTTCACATTAA
95992154 TGACTTATCAAACCAAGCTTTCACATTAA
1 TGACTTATCAAACCAAGCTTTCACATTAA
95992183 T
1 T
95992184 ATGAGAATAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.34
Consensus pattern (29 bp):
TGACTTATCAAACCAAGCTTTCACATTAA
Found at i:95994631 original size:92 final size:92
Alignment explanation
Indices: 95994434--95994616 Score: 298
Period size: 92 Copynumber: 2.0 Consensus size: 92
95994424 TTTTAAACAT
* * * *
95994434 AAAATTAG-AAAATGAGTAAAAACTCTGGTAAAAAATTTGATCTCTCCAAAATAAGTGAAAATTA
1 AAAATTAGAAAAATAAGTAAAAACTCTGGTAAAAAATTTGACCTCTCCAAAATAAGCGAAAAATA
95994498 TTCCTTCTCTATTCCAAAAATAAGTCA
66 TTCCTTCTCTATTCCAAAAATAAGTCA
*
95994525 AAAATTAGAAAAATAAGTAAAAACTCTTGT-AAAAATTATGACCTCTCCAAAATAAGCGAAAAAT
1 AAAATTAGAAAAATAAGTAAAAACTCTGGTAAAAAATT-TGACCTCTCCAAAATAAGCGAAAAAT
95994589 ATTCCTTCTCTATTCCAAAAATAAGTCA
65 ATTCCTTCTCTATTCCAAAAATAAGTCA
95994617 TGAGAATGGT
Statistics
Matches: 85, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
91 15 0.18
92 70 0.82
ACGTcount: A:0.48, C:0.15, G:0.09, T:0.28
Consensus pattern (92 bp):
AAAATTAGAAAAATAAGTAAAAACTCTGGTAAAAAATTTGACCTCTCCAAAATAAGCGAAAAATA
TTCCTTCTCTATTCCAAAAATAAGTCA
Found at i:95997430 original size:20 final size:20
Alignment explanation
Indices: 95997406--95997451 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
95997396 AAAAAACAAT
95997406 ATTTTT-AT-ATAAAAATTTA
1 ATTTTTAATAATAAAAA-TTA
95997425 ATTTTTAATAATAAAAATTA
1 ATTTTTAATAATAAAAATTA
95997445 ATTTTTA
1 ATTTTTA
95997452 GAGTATACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.24
20 12 0.48
21 7 0.28
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
ATTTTTAATAATAAAAATTA
Found at i:95998164 original size:33 final size:33
Alignment explanation
Indices: 95998122--95998187 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
95998112 GCATGTTATA
* *
95998122 AACATGCATGTATTGATAGAGTGAATTTAAGAG
1 AACATGCATGCATTGATAGACTGAATTTAAGAG
*
95998155 AACATGCATGCATTGATAGACTGGATTTAAGAG
1 AACATGCATGCATTGATAGACTGAATTTAAGAG
95998188 CGCGTAATAG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.38, C:0.09, G:0.24, T:0.29
Consensus pattern (33 bp):
AACATGCATGCATTGATAGACTGAATTTAAGAG
Found at i:96001770 original size:24 final size:25
Alignment explanation
Indices: 96001721--96001776 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
96001711 TTTATTAACC
* *
96001721 TTATTTAAATGTTTCATTTATATG-
1 TTATTTAAATATTTCATATATATGT
*
96001745 TTATTTCAAATATTTTATATAT-TGT
1 TTATTT-AAATATTTCATATATATGT
96001770 TTATTTA
1 TTATTTA
96001777 CATCATTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 9 0.33
25 18 0.67
ACGTcount: A:0.30, C:0.04, G:0.05, T:0.61
Consensus pattern (25 bp):
TTATTTAAATATTTCATATATATGT
Found at i:96001855 original size:3 final size:3
Alignment explanation
Indices: 96001847--96001906 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
96001837 TTATTGTAGA
96001847 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
96001895 TAT TAT TAT TAT
1 TAT TAT TAT TAT
96001907 ATGCATATAT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:96002134 original size:31 final size:31
Alignment explanation
Indices: 96002086--96002150 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
96002076 CCATCCTATG
* *
96002086 TATATATTTTTTAAATACTATATTGTGTATA
1 TATATATTTCTTAAATACCATATTGTGTATA
96002117 TATATATATTCTT-AATACCATATTGTGTATA
1 TATATAT-TTCTTAAATACCATATTGTGTATA
96002148 TAT
1 TAT
96002151 CATTATTACA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 27 0.87
32 4 0.13
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.52
Consensus pattern (31 bp):
TATATATTTCTTAAATACCATATTGTGTATA
Found at i:96006363 original size:8 final size:8
Alignment explanation
Indices: 96006352--96006399 Score: 53
Period size: 8 Copynumber: 5.8 Consensus size: 8
96006342 AAGAAAAAGA
96006352 AAAAAAAC
1 AAAAAAAC
96006360 AAAAAAAC
1 AAAAAAAC
96006368 AAAAAGAA-
1 AAAAA-AAC
*
96006376 AAAAGACAAG
1 AAAA-A-AAC
96006386 AAAAAAAC
1 AAAAAAAC
96006394 AAAAAA
1 AAAAAA
96006400 GAAATCAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
8 25 0.71
9 6 0.17
10 4 0.11
ACGTcount: A:0.85, C:0.08, G:0.06, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:96006366 original size:23 final size:24
Alignment explanation
Indices: 96006340--96006390 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 24
96006330 GACAGTCATG
*
96006340 AAAAGAAAAAGAAAAAAAACAA-A
1 AAAACAAAAAGAAAAAAAACAAGA
*
96006363 AAAACAAAAAGAAAAAAGACAAGA
1 AAAACAAAAAGAAAAAAAACAAGA
96006387 AAAA
1 AAAA
96006391 AACAAAAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 20 0.80
24 5 0.20
ACGTcount: A:0.84, C:0.06, G:0.10, T:0.00
Consensus pattern (24 bp):
AAAACAAAAAGAAAAAAAACAAGA
Found at i:96006401 original size:15 final size:14
Alignment explanation
Indices: 96006340--96006403 Score: 62
Period size: 15 Copynumber: 4.6 Consensus size: 14
96006330 GACAGTCATG
*
96006340 AAAAGAAAAAGAAAA
1 AAAAGAAAAA-AACA
*
96006355 AAAACAAAAAAACA
1 AAAAGAAAAAAACA
96006369 AAAAGAAAAAAGAC-
1 AAAAGAAAAAA-ACA
96006383 --AAGAAAAAAACAA
1 AAAAGAAAAAAAC-A
96006396 AAAAGAAA
1 AAAAGAAA
96006404 TCAAATGCCA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
11 2 0.05
12 9 0.22
14 13 0.32
15 17 0.41
ACGTcount: A:0.84, C:0.06, G:0.09, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAAAACA
Found at i:96008670 original size:73 final size:73
Alignment explanation
Indices: 96008549--96008784 Score: 337
Period size: 73 Copynumber: 3.2 Consensus size: 73
96008539 TTGATGTTTT
*
96008549 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCATGCTGAGG
1 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGG
*
96008614 TAATTTCA
66 TATTTTCA
* * ** * * * *
96008622 ATTTCTGTTTGTCAAAACTCAACTCATATTGCGAGAAATGAGTCGAGCCTCAAGACACGTTGAGG
1 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGG
96008687 TATTTTCA
66 TATTTTCA
* *
96008695 ATTTATGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGA
1 ATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGA
96008760 GGTATTTTCA
64 GGTATTTTCA
*
96008770 ATTTCCGTTTTTCAA
1 ATTTCTGTTTTTCAA
96008785 TTTATGCTTT
Statistics
Matches: 138, Mismatches: 23, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
73 75 0.54
75 63 0.46
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (73 bp):
ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGG
TATTTTCA
Found at i:96008874 original size:16 final size:16
Alignment explanation
Indices: 96008853--96008883 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
96008843 CTGAGGTAAT
*
96008853 TTCAATTTCTGTTTTC
1 TTCAATTTATGTTTTC
96008869 TTCAATTTATGTTTT
1 TTCAATTTATGTTTT
96008884 TCGAAAATCA
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:0.16, C:0.13, G:0.06, T:0.65
Consensus pattern (16 bp):
TTCAATTTATGTTTTC
Found at i:96008877 original size:89 final size:90
Alignment explanation
Indices: 96008691--96009036 Score: 477
Period size: 89 Copynumber: 4.0 Consensus size: 90
96008681 TTGAGGTATT
*
96008691 TTCAATTTATGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACG
1 TTCAATTTATGCTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
* *
96008756 CTGAGGTATTTTCAATTTCCG-TTT-
65 CTGAGGTAATTTCAATTTCTGTTTTC
*
96008780 TTCAATTTATGCTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGC
1 TTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
96008844 TGAGGTAATTTCAATTTCTGTTTTC
66 TGAGGTAATTTCAATTTCTGTTTTC
* * * *
96008869 TTCAATTTATGTTTTTC-GAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
1 TTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
* *
96008933 TGAGGTATTTTCAA--T-T-TTTGC
66 TGAGGTAATTTCAATTTCTGTTTTC
96008954 TTC------TGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
1 TTCAATTTATGCTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
*
96009013 CTGAGGTAATTTCAATTTATGTTT
65 CTGAGGTAATTTCAATTTCTGTTT
96009037 GTCAAAAAAA
Statistics
Matches: 233, Mismatches: 16, Indels: 20
0.87 0.06 0.07
Matches are distributed among these distances:
79 7 0.03
81 57 0.24
83 1 0.00
84 1 0.00
85 10 0.04
86 1 0.00
87 64 0.27
88 3 0.01
89 89 0.38
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.36
Consensus pattern (90 bp):
TTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
TGAGGTAATTTCAATTTCTGTTTTC
Found at i:96009029 original size:170 final size:172
Alignment explanation
Indices: 96008691--96009101 Score: 541
Period size: 170 Copynumber: 2.4 Consensus size: 172
96008681 TTGAGGTATT
96008691 TTCAATTTATGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACG
1 TTCAATTTATGCTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACG
*
96008756 CTGAGGTATTTTCAATTTCCGTTTTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAG
65 CTGAGGTATTTTCAA-TT-C-TTTTGC-A-TTATGCTTTTCAAAAATCAACTCATATTGCGAGAG
* *
96008821 GTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATTTCTGTTTTC
125 GTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTATGTTTTC
* * *
96008869 TTCAATTTATGTTTTTC-GAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
1 TTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
*
96008933 TGAGGTATTTTCAA-T-TTTTGC-TTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGA
66 TGAGGTATTTTCAATTCTTTTGCATTATGCTTTTC--AAAAATCAACTCATATTGCGAGAGGTGA
96008995 GTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTATG-TTT-
129 GTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTATGTTTTC
* * *
96009037 GTCAA---A--------AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCGGGGCACGC
1 TTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
96009091 TGAGGTATTTT
66 TGAGGTATTTT
96009102 TAGTTTATGT
Statistics
Matches: 218, Mismatches: 12, Indels: 26
0.85 0.05 0.10
Matches are distributed among these distances:
158 54 0.25
165 1 0.00
168 14 0.06
169 3 0.01
170 65 0.30
171 5 0.02
174 1 0.00
176 59 0.27
178 16 0.07
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (172 bp):
TTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
TGAGGTATTTTCAATTCTTTTGCATTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGT
TGAGCCTCAGGACACGCTGAGGTAATTTCAATTTATGTTTTC
Found at i:96009090 original size:77 final size:78
Alignment explanation
Indices: 96008887--96009113 Score: 321
Period size: 77 Copynumber: 2.9 Consensus size: 78
96008877 ATGTTTTTCG
* *
96008887 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTAT
***
96008952 GCTTCTGCTTTTCAAA
66 G-TT-TGC-TCAAAAA
* *
96008968 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTAT
96009033 GTTTG-TCAAAAA
66 GTTTGCTCAAAAA
* * * *
96009045 AAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCGGGGCACGCTGAGGTATTTTTAGTTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTAT
96009110 GTTT
66 GTTT
96009114 TAAATTGACT
Statistics
Matches: 133, Mismatches: 13, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
77 67 0.50
79 2 0.02
80 2 0.02
81 62 0.47
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (78 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTAT
GTTTGCTCAAAAA
Found at i:96009178 original size:123 final size:124
Alignment explanation
Indices: 96009044--96009274 Score: 322
Period size: 123 Copynumber: 1.9 Consensus size: 124
96009034 TTTGTCAAAA
* * * * *
96009044 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCGGGGCACGCTGAGGTATTTTTAGTTTA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACGCTGAGGTAATTTCAATTT-
* **
96009109 TGTTTT-AAATT-GACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
65 TGTTTTAAAATTCAACTCATATTGCGAGAAATGAGTTAAGCCTTTTAATTTTTGTTTTTC
* **
96009167 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGATTTAATTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACGCTGAGGTAATTTCAATTTT
*
96009232 GTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCT
66 GTTTT-AAAATTCAACTCATATTGCGAGAAATGAGTTAAGCCT
96009275 CAAGATACGT
Statistics
Matches: 93, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
122 6 0.06
123 56 0.60
124 5 0.05
125 26 0.28
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (124 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACGCTGAGGTAATTTCAATTTT
GTTTTAAAATTCAACTCATATTGCGAGAAATGAGTTAAGCCTTTTAATTTTTGTTTTTC
Found at i:96009331 original size:72 final size:71
Alignment explanation
Indices: 96009156--96009370 Score: 331
Period size: 72 Copynumber: 3.0 Consensus size: 71
96009146 GCCTTTTAAT
* ** * * **
96009156 TTTTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGATTTA
1 TTTTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTA
96009221 ATTTCAA
65 ATTTCAA
*
96009228 TTTTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGATACGTTGAGGTAA
1 TTTTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAA
96009293 TTTCAA
66 TTTCAA
96009299 TTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTA
1 TTT-TGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTA
*
96009364 TTTTCAA
65 ATTTCAA
96009371 AATCAACTTT
Statistics
Matches: 132, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
71 61 0.46
72 71 0.54
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.35
Consensus pattern (71 bp):
TTTTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAA
TTTCAA
Found at i:96009703 original size:54 final size:54
Alignment explanation
Indices: 96009397--96009699 Score: 543
Period size: 54 Copynumber: 5.6 Consensus size: 54
96009387 TAAGTTTCAA
* *
96009397 AAAAATCGACTCATATTGCGAGAGGTGAGTTGAACTTTTTAATTTCTATTTTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTATTTTTC
*
96009451 AAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTATTTTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTATTTTTC
96009505 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTATTTTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTATTTTTC
* *
96009559 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTCCTGTTTTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTATTTTTC
* *
96009613 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTATTTTTC
96009667 AAAAATCAACTCATATTGCGAGAGGTGAGTTGA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGA
96009700 GCCTCGGGTC
Statistics
Matches: 241, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 241 1.00
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (54 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTATTTTTC
Found at i:96009946 original size:45 final size:45
Alignment explanation
Indices: 96009895--96009983 Score: 106
Period size: 45 Copynumber: 2.0 Consensus size: 45
96009885 AATAAAGACC
* * * * * *
96009895 GGAGCTGGTTGAAGATGCCAGATTTTGTCTCTCTGAAGTTGCAGT
1 GGAGCTGATCGAAGATACAAGATCTTGCCTCTCTGAAGTTGCAGT
* *
96009940 GGAGCTGATCGAAGATATAAGATCTTGCCTTTCTGAAGTTGCAG
1 GGAGCTGATCGAAGATACAAGATCTTGCCTCTCTGAAGTTGCAG
96009984 AAGAAAAGAC
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (45 bp):
GGAGCTGATCGAAGATACAAGATCTTGCCTCTCTGAAGTTGCAGT
Found at i:96011374 original size:24 final size:25
Alignment explanation
Indices: 96011325--96011380 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
96011315 TTTATTAACC
* *
96011325 TTATTTAAATGTTTCATTTATATG-
1 TTATTTAAATATTTCATATATATGT
*
96011349 TTATTTCAAATATTTTATATAT-TGT
1 TTATTT-AAATATTTCATATATATGT
96011374 TTATTTA
1 TTATTTA
96011381 CATCATTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 9 0.33
25 18 0.67
ACGTcount: A:0.30, C:0.04, G:0.05, T:0.61
Consensus pattern (25 bp):
TTATTTAAATATTTCATATATATGT
Found at i:96011470 original size:3 final size:3
Alignment explanation
Indices: 96011451--96011531 Score: 144
Period size: 3 Copynumber: 27.0 Consensus size: 3
96011441 TTATTGTAGA
* *
96011451 TAT TCT TAT TCT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
96011499 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
96011532 ATGCATATAT
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 74 1.00
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:96011759 original size:31 final size:31
Alignment explanation
Indices: 96011711--96011775 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
96011701 CCATCCTATG
* *
96011711 TATATATTTTTTAAATACTATATTGTGTATA
1 TATATATTTCTTAAATACCATATTGTGTATA
96011742 TATATATATTCTT-AATACCATATTGTGTATA
1 TATATAT-TTCTTAAATACCATATTGTGTATA
96011773 TAT
1 TAT
96011776 CATTATTACA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 27 0.87
32 4 0.13
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.52
Consensus pattern (31 bp):
TATATATTTCTTAAATACCATATTGTGTATA
Found at i:96027063 original size:6 final size:6
Alignment explanation
Indices: 96027047--96027076 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
96027037 TAGGTTTCCA
*
96027047 AAAATG GAAATG AAAATG AAAATG AAAATG
1 AAAATG AAAATG AAAATG AAAATG AAAATG
96027077 GAAACTTGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.63, C:0.00, G:0.20, T:0.17
Consensus pattern (6 bp):
AAAATG
Found at i:96027064 original size:12 final size:12
Alignment explanation
Indices: 96027047--96027080 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
96027037 TAGGTTTCCA
96027047 AAAATGGAAATG
1 AAAATGGAAATG
*
96027059 AAAATGAAAATG
1 AAAATGGAAATG
96027071 AAAATGGAAA
1 AAAATGGAAA
96027081 CTTGCAATCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.21, T:0.15
Consensus pattern (12 bp):
AAAATGGAAATG
Found at i:96029304 original size:104 final size:104
Alignment explanation
Indices: 96029186--96029386 Score: 321
Period size: 104 Copynumber: 1.9 Consensus size: 104
96029176 ACAATTTAGC
** * *
96029186 CCCTGAGCTTTAATTAATGATTTTCTCGGTTAAATTACTTAACCAATCTTTAATATATTTCTACA
1 CCCTGAGCTTTAATTAACAATTTTCCCGGTTAAATTACTTAACCAATCTTTAATATATTTCTAAA
*
96029251 CTAACTCTATTCATCTTCCTATTTTATTCTTATGAGAGT
66 CTAACTCTATTAATCTTCCTATTTTATTCTTATGAGAGT
* * *
96029290 CCCTGAGCTTTAATTAACAATTTTCCCTGTTAAATTACTTAATCAATCTTTAATATATTTTTAAA
1 CCCTGAGCTTTAATTAACAATTTTCCCGGTTAAATTACTTAACCAATCTTTAATATATTTCTAAA
*
96029355 TTAACTCTATTAATCTTCCTATTTTATTCTTA
66 CTAACTCTATTAATCTTCCTATTTTATTCTTA
96029387 CAAGCTCGAT
Statistics
Matches: 88, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
104 88 1.00
ACGTcount: A:0.29, C:0.18, G:0.05, T:0.47
Consensus pattern (104 bp):
CCCTGAGCTTTAATTAACAATTTTCCCGGTTAAATTACTTAACCAATCTTTAATATATTTCTAAA
CTAACTCTATTAATCTTCCTATTTTATTCTTATGAGAGT
Found at i:96031492 original size:44 final size:43
Alignment explanation
Indices: 96031379--96031493 Score: 153
Period size: 41 Copynumber: 2.7 Consensus size: 43
96031369 TCATTTTAAC
*
96031379 TTTTCATATAATTATTCTATACACTGTTAATGAATCTTAAAAG
1 TTTTCATATAATTATTCTATACACTGTTAGTGAATCTTAAAAG
* *
96031422 GTTT--TATAATTATTCTATACACTGTTAGTGAATTTTAAAAAG
1 TTTTCATATAATTATTCTATACACTGTTAGTGAATCTT-AAAAG
* * *
96031464 TTTTCATATAATTATTATATATATTGTTAG
1 TTTTCATATAATTATTCTATACACTGTTAG
96031494 CGGAATAAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
41 30 0.48
42 8 0.13
43 3 0.05
44 21 0.34
ACGTcount: A:0.36, C:0.08, G:0.09, T:0.48
Consensus pattern (43 bp):
TTTTCATATAATTATTCTATACACTGTTAGTGAATCTTAAAAG
Found at i:96032907 original size:23 final size:25
Alignment explanation
Indices: 96032867--96032924 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
96032857 AATAAATTCG
96032867 TATAAAAAATCTAGTTATATT-ATT
1 TATAAAAAATCTAGTTATATTAATT
* * *
96032891 TATAAAATAT-TATTTATTTTAAATT
1 TATAAAAAATCTAGTTATATT-AATT
96032916 TATAAAAAA
1 TATAAAAAA
96032925 AAAACCACAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
23 8 0.29
24 9 0.32
25 11 0.39
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (25 bp):
TATAAAAAATCTAGTTATATTAATT
Found at i:96034023 original size:29 final size:29
Alignment explanation
Indices: 96033936--96034024 Score: 88
Period size: 31 Copynumber: 3.0 Consensus size: 29
96033926 GATTAAATTA
* * *
96033936 AAATTAAAGTTCCAAGTATACATTTGAACC
1 AAATTAAAGTT-CATGTATACAATTGCACC
* * *
96033966 ATAATTAGAGTTTCATGTGTATAATTGCACC
1 A-AATTAAAG-TTCATGTATACAATTGCACC
*
96033997 AAATTAAAGTTCATGTATACAACTGCAC
1 AAATTAAAGTTCATGTATACAATTGCAC
96034025 ATTAAATCAA
Statistics
Matches: 47, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
29 16 0.34
30 8 0.17
31 21 0.45
32 2 0.04
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33
Consensus pattern (29 bp):
AAATTAAAGTTCATGTATACAATTGCACC
Found at i:96034676 original size:18 final size:18
Alignment explanation
Indices: 96034642--96034676 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
96034632 TGTGTGATAC
*
96034642 TTATAATTATAATTTAAT
1 TTATAATTATAAGTTAAT
*
96034660 TTATAATTATTAGTTAA
1 TTATAATTATAAGTTAA
96034677 AAATTTGAGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (18 bp):
TTATAATTATAAGTTAAT
Found at i:96035656 original size:11 final size:10
Alignment explanation
Indices: 96035621--96035656 Score: 54
Period size: 11 Copynumber: 3.4 Consensus size: 10
96035611 ATAATAAAAA
96035621 TAATATTAAT
1 TAATATTAAT
96035631 TAAATATTAAT
1 T-AATATTAAT
96035642 TAATATTATAT
1 TAATATTA-AT
96035653 TAAT
1 TAAT
96035657 GTGAAATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 8 0.33
11 16 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
TAATATTAAT
Found at i:96037357 original size:16 final size:16
Alignment explanation
Indices: 96037332--96037367 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
96037322 GGATGACTCA
96037332 TAGA-AGATAAATACC
1 TAGATAGATAAATACC
96037347 TAGATAGATAAATACC
1 TAGATAGATAAATACC
96037363 TAGAT
1 TAGAT
96037368 GTGATTGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.50, C:0.11, G:0.14, T:0.25
Consensus pattern (16 bp):
TAGATAGATAAATACC
Found at i:96039073 original size:84 final size:83
Alignment explanation
Indices: 96038923--96039090 Score: 230
Period size: 84 Copynumber: 2.0 Consensus size: 83
96038913 TTATTACTAT
* *
96038923 AAATATCACAACAGGTTGGTTTCAAAGAAAATTTTAAAATTTCATTATGCTTATTTTCACTATTT
1 AAATATCACAACAGGTTGGTTTCAAAGAAAAATTTAAAATTTCATTATGATTATTTTCACTATTT
**
96038988 TCAAATTGATTTTCCAAC
66 TCAAACCGATTTTCCAAC
* * * *
96039006 AAATCATCACAACTA-GTTGGTTTCAATGAAAAATTTAAAATTTCTTTCTGATTATTTTCACTCT
1 AAAT-ATCACAAC-AGGTTGGTTTCAAAGAAAAATTTAAAATTTCATTATGATTATTTTCACTAT
*
96039070 TTTCAAACCGATTTTCTAAC
64 TTTCAAACCGATTTTCCAAC
96039090 A
1 A
96039091 TAGGCAACTT
Statistics
Matches: 74, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
83 4 0.05
84 69 0.93
85 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.08, T:0.41
Consensus pattern (83 bp):
AAATATCACAACAGGTTGGTTTCAAAGAAAAATTTAAAATTTCATTATGATTATTTTCACTATTT
TCAAACCGATTTTCCAAC
Done.