Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 140 of 228
Found at i:42054356 original size:16 final size:16
Alignment explanation
Indices: 42054323--42054368 Score: 76
Period size: 16 Copynumber: 2.9 Consensus size: 16
42054313 ACTTTTTTAG
*
42054323 AATACTTATAAA-TTT
1 AATACTAATAAATTTT
42054338 AATACTAATAAATTTT
1 AATACTAATAAATTTT
42054354 AATACTAATAAATTT
1 AATACTAATAAATTT
42054369 AGAAAAATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
15 11 0.38
16 18 0.62
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (16 bp):
AATACTAATAAATTTT
Found at i:42054383 original size:13 final size:13
Alignment explanation
Indices: 42054365--42054400 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
42054355 ATACTAATAA
42054365 ATTTAGAAAAATT
1 ATTTAGAAAAATT
*
42054378 ATTTAGAAAACTT
1 ATTTAGAAAAATT
*
42054391 ATATAGAAAA
1 ATTTAGAAAA
42054401 TAAAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.56, C:0.03, G:0.08, T:0.33
Consensus pattern (13 bp):
ATTTAGAAAAATT
Found at i:42055310 original size:17 final size:16
Alignment explanation
Indices: 42055290--42055330 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
42055280 TAAATATTCA
42055290 AATTTATAAATACTATC
1 AATTT-TAAATACTATC
42055307 AA-TTTAAATACTATC
1 AATTTTAAATACTATC
*
42055322 AATATTAAA
1 AATTTTAAA
42055331 ATTTATAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 13 0.59
16 7 0.32
17 2 0.09
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (16 bp):
AATTTTAAATACTATC
Found at i:42055316 original size:15 final size:16
Alignment explanation
Indices: 42055296--42055330 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
42055286 TTCAAATTTA
42055296 TAAATACTATCAAT-T
1 TAAATACTATCAATAT
42055311 TAAATACTATCAATAT
1 TAAATACTATCAATAT
42055327 TAAA
1 TAAA
42055331 ATTTATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.37
Consensus pattern (16 bp):
TAAATACTATCAATAT
Found at i:42057119 original size:16 final size:15
Alignment explanation
Indices: 42057100--42057137 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
42057090 TAAAAACACT
*
42057100 AAAAAAACAAAAGAA
1 AAAAAAAAAAAAGAA
42057115 AAAAAGAAAAAAAGAA
1 AAAAA-AAAAAAAGAA
42057131 AAAAAAA
1 AAAAAAA
42057138 TAAATGAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.89, C:0.03, G:0.08, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAAGAA
Found at i:42057132 original size:7 final size:8
Alignment explanation
Indices: 42057108--42057135 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
42057098 CTAAAAAAAC
42057108 AAAAGAAA
1 AAAAGAAA
42057116 AAAAGAAA
1 AAAAGAAA
42057124 AAAAGAAA
1 AAAAGAAA
42057132 AAAA
1 AAAA
42057136 AATAAATGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (8 bp):
AAAAGAAA
Found at i:42061410 original size:39 final size:39
Alignment explanation
Indices: 42061346--42061629 Score: 311
Period size: 39 Copynumber: 7.3 Consensus size: 39
42061336 TTTTTTCCCA
* * *
42061346 TGTGGTGGTTCCTCTTCCCTGCCACCAGGTCCAGGGTGG
1 TGTGGTGGCTCCTCTCCCCTACCACCAGGTCCAGGGTGG
* *
42061385 TGTGGTGGCTCCTCTCCACTACCACCAGGTCCTGGGTGG
1 TGTGGTGGCTCCTCTCCCCTACCACCAGGTCCAGGGTGG
* * *
42061424 TGTGGTGGCTCCTCTCCTCTACCACCAGGTCCGGGGTGA
1 TGTGGTGGCTCCTCTCCCCTACCACCAGGTCCAGGGTGG
* * *
42061463 TGTGGTGGCTCATC-CCCCATACCACTAGGTCCGGGGTGG
1 TGTGGTGGCTCCTCTCCCC-TACCACCAGGTCCAGGGTGG
* * * * *
42061502 TGTGGTGGCTTCTCTCTCCTATCACCAGGTCCGGGGTGA
1 TGTGGTGGCTCCTCTCCCCTACCACCAGGTCCAGGGTGG
* * * *
42061541 TGTGGTGGTTCAT-TCCCCATACCACTAGGTTCAGGGTGG
1 TGTGGTGGCTCCTCTCCCC-TACCACCAGGTCCAGGGTGG
* * * * *
42061580 TGTGGTGGCTCATCCCCCCAACCACTAGGTCCAGGGTGT
1 TGTGGTGGCTCCTCTCCCCTACCACCAGGTCCAGGGTGG
42061619 TGTGGTGGCTC
1 TGTGGTGGCTC
42061630 ATTATCGTGG
Statistics
Matches: 209, Mismatches: 32, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
38 7 0.03
39 195 0.93
40 7 0.03
ACGTcount: A:0.11, C:0.30, G:0.32, T:0.27
Consensus pattern (39 bp):
TGTGGTGGCTCCTCTCCCCTACCACCAGGTCCAGGGTGG
Found at i:42061564 original size:117 final size:117
Alignment explanation
Indices: 42061367--42061629 Score: 352
Period size: 117 Copynumber: 2.2 Consensus size: 117
42061357 CTCTTCCCTG
* * *
42061367 CCACCAGGTCCAGGGTGGTGTGGTGGCTCCTCTCCACTACCACCAGGTCCTGGGTGGTGTGGTGG
1 CCACTAGGTCCAGGGTGGTGTGGTGGCTCCTCTCCACTACCACCAGGTCCGGGGTGATGTGGTGG
* * *
42061432 CTCCTCTCCTCTACCACCAGGTCCGGGGTGATGTGGTGGCTCAT-CCCCCATA
66 CTCATCTCCCCTACCACCAGGTCCAGGGTGATGTGGTGGCTCATCCCCCCA-A
* * *
42061484 CCACTAGGTCCGGGGTGGTGTGGTGGCTTCTCTCTC-CTATCACCAGGTCCGGGGTGATGTGGTG
1 CCACTAGGTCCAGGGTGGTGTGGTGGCTCCTCTC-CACTACCACCAGGTCCGGGGTGATGTGGTG
* * * *
42061548 GTTCAT-TCCCCATACCACTAGGTTCAGGGTGGTGTGGTGGCTCATCCCCCCAA
65 GCTCATCTCCCC-TACCACCAGGTCCAGGGTGATGTGGTGGCTCATCCCCCCAA
*
42061601 CCACTAGGTCCAGGGTGTTGTGGTGGCTC
1 CCACTAGGTCCAGGGTGGTGTGGTGGCTC
42061630 ATTATCGTGG
Statistics
Matches: 127, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
116 4 0.03
117 116 0.91
118 7 0.06
ACGTcount: A:0.12, C:0.30, G:0.32, T:0.26
Consensus pattern (117 bp):
CCACTAGGTCCAGGGTGGTGTGGTGGCTCCTCTCCACTACCACCAGGTCCGGGGTGATGTGGTGG
CTCATCTCCCCTACCACCAGGTCCAGGGTGATGTGGTGGCTCATCCCCCCAA
Found at i:42063837 original size:15 final size:15
Alignment explanation
Indices: 42063819--42063866 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
42063809 GATGTTTCTA
42063819 AATATATTTCATAAT
1 AATATATTTCATAAT
42063834 AATATATTTC-T-A-
1 AATATATTTCATAAT
*
42063846 AATA-AATTCATAAT
1 AATATATTTCATAAT
42063860 AATATAT
1 AATATAT
42063867 ATTTTAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
11 4 0.15
12 5 0.19
13 2 0.07
14 5 0.19
15 11 0.41
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (15 bp):
AATATATTTCATAAT
Found at i:42063855 original size:26 final size:27
Alignment explanation
Indices: 42063813--42063866 Score: 92
Period size: 26 Copynumber: 2.0 Consensus size: 27
42063803 AAAATAGATG
*
42063813 TTTCTAAATATATTTCATAATAATATA
1 TTTCTAAATATAATTCATAATAATATA
42063840 TTTCTAAATA-AATTCATAATAATATA
1 TTTCTAAATATAATTCATAATAATATA
42063866 T
1 T
42063867 ATTTTAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 16 0.62
27 10 0.38
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (27 bp):
TTTCTAAATATAATTCATAATAATATA
Found at i:42075070 original size:649 final size:649
Alignment explanation
Indices: 42073833--42075776 Score: 3799
Period size: 649 Copynumber: 3.0 Consensus size: 649
42073823 CATAGTATAT
*
42073833 GCAAACATTGAGGATGAGAAATCGACTTCAGAGGGAAAAAGCTGAAAGGTTAAGTTTGTAATATA
1 GCAAACATTGAGGATGAGAAATCGACTTCAGAGGGAAAAAGTTGAAAGGTTAAGTTTGTAATATA
42073898 AGGGCCAAGTATTAGTGGTCGATTAGAGCGTAAAATAGCATGAAAGTTCAATGCAAACCAATATC
66 AGGGCCAAGTATTAGTGGTCGATTAGAGCGTAAAATAGCATGAAAGTTCAATGCAAACCAATATC
42073963 CTAAATTAATTTTAAATCCAGAATGCATACACCA-C-AAAAAAAATTCAATTTTATTTAAAATAG
131 CTAAATTAATTTTAAATCCAGAATGCATACACCACCAAAAAAAAATTCAATTTTATTTAAAATAG
42074026 ATGACTAATTATTTCGTCCTGAAAAACTAAAAATTAAAAATCGATGAATATATCTCAAAGCGGGT
196 ATGACTAATTATTTCGTCCTGAAAAACTAAAAATTAAAAATCGATGAATATATCTCAAAGCGGGT
*
42074091 TCACTCACCAACAATCCTTAGAGGTCTTTGGATTATAACATTGATTTCTAGAATGAGTTAAAGTA
261 TCACGCACCAACAATCCTTAGAGGTCTTTGGATTATAACATTGATTTCTAGAATGAGTTAAAGTA
42074156 CAATAAACATCTTGAGCATCAAAGTAGATACGAACTTGCTTTTGTTGTCGAAATTGAGTCGTAAA
326 CAATAAACATCTTGAGCATCAAAGTAGATACGAACTTGCTTTTGTTGTCGAAATTGAGTCGTAAA
42074221 GTTACCCGATTGTTAAATTAAGTATTGAAACTAAAGTTAAACAAAATGGCTATTTTAGAAGCTGA
391 GTTACCCGATTGTTAAATTAAGTATTGAAACTAAAGTTAAACAAAATGGCTATTTTAGAAGCTGA
42074286 TGGTTGAAAAAAAAAGAGTTTGTTTAGAAAATAAGTTGATGAAAAATATGGATTGTGAACTTAAA
456 TGGTTGAAAAAAAAAGAGTTTGTTTAGAAAATAAGTTGATGAAAAATATGGATTGTGAACTTAAA
42074351 ACAAGAATGAACCCTTAATAAAGATTAAGGACTCGATTCTTATAAGTTTTAAGGTGGATGGTGGA
521 ACAAGAATGAACCCTTAATAAAGATTAAGGACTCGATTCTTATAAGTTTTAAGGTGGATGGTGGA
42074416 TAGTTGGATAGAATCGTGACCCACTATCTAGCAAGATAGGAACCAGACAATATGAAGGGTGAAC
586 TAGTTGGATAGAATCGTGACCCACTATCTAGCAAGATAGGAACCAGACAATATGAAGGGTGAAC
*
42074480 GTAAACATTGAGGATGAGAAATCGACTTCAGAGGGAAAAAGTTGAAAGGTTAAGTTTGTAATATA
1 GCAAACATTGAGGATGAGAAATCGACTTCAGAGGGAAAAAGTTGAAAGGTTAAGTTTGTAATATA
*
42074545 AGGGCCAAGTATTAGTGGTCGATTAGAGCTTAAAATAGCATGAAAGTTCAATGCAAACCAATATC
66 AGGGCCAAGTATTAGTGGTCGATTAGAGCGTAAAATAGCATGAAAGTTCAATGCAAACCAATATC
42074610 CTAAATTAATTTTAAATCCAGAATGCATACACCACCAAAAAAAAATTCAATTTTATTTAAAATAG
131 CTAAATTAATTTTAAATCCAGAATGCATACACCACCAAAAAAAAATTCAATTTTATTTAAAATAG
42074675 ATGACTAATTATTTCGTCCTGAAAAACTAAAAATTAAAAATCGATGAATATATCTCAAAGCGGGT
196 ATGACTAATTATTTCGTCCTGAAAAACTAAAAATTAAAAATCGATGAATATATCTCAAAGCGGGT
42074740 TCACGCACCAACAATCCTTAGAGGTCTTTGGATTATAACATTGATTTCTAGAATGAGTTAAAGTA
261 TCACGCACCAACAATCCTTAGAGGTCTTTGGATTATAACATTGATTTCTAGAATGAGTTAAAGTA
*
42074805 CAATAAACATCTTGAGCATCAAAGTAGATACAAACTTGCTTTTGTTGTCGAAATTGAGTCGTAAA
326 CAATAAACATCTTGAGCATCAAAGTAGATACGAACTTGCTTTTGTTGTCGAAATTGAGTCGTAAA
42074870 GTTACCCGATTGTTAAATTAAGTATTGAAACTAAAGTTAAACAAAATGGCTATTTTAGAAGCTGA
391 GTTACCCGATTGTTAAATTAAGTATTGAAACTAAAGTTAAACAAAATGGCTATTTTAGAAGCTGA
42074935 TGGTTGAAAAAAAAAGAGTTTGTTTAGAAAATAAGTTGATGAAAAATATGGATTGTGAACTTAAA
456 TGGTTGAAAAAAAAAGAGTTTGTTTAGAAAATAAGTTGATGAAAAATATGGATTGTGAACTTAAA
42075000 ACAAGAATGAACCCTTAATAAAGATTAAGGACTCGATTCTTATAAGTTTTAAGGTGGATGGTGGA
521 ACAAGAATGAACCCTTAATAAAGATTAAGGACTCGATTCTTATAAGTTTTAAGGTGGATGGTGGA
42075065 TAGTTGGATAGAATCGTGACCCACTATCTAGCAAGATAGGAACCAGACAATATGAAGGGTGAAC
586 TAGTTGGATAGAATCGTGACCCACTATCTAGCAAGATAGGAACCAGACAATATGAAGGGTGAAC
42075129 GCAAACATTGAGGATGAGAAATCGACTTCAGAGGGAAAAAGTTGAAAGGTTAAGTTTGTAATATA
1 GCAAACATTGAGGATGAGAAATCGACTTCAGAGGGAAAAAGTTGAAAGGTTAAGTTTGTAATATA
42075194 AGGGCCAAGTATTAGTGGTCGATTAGAGCGTAAAATAGCATGAAAGTTCAATGCAAACCAATATC
66 AGGGCCAAGTATTAGTGGTCGATTAGAGCGTAAAATAGCATGAAAGTTCAATGCAAACCAATATC
*
42075259 CTAAATTAATTTTAAATCCAGAATGCAT--A-CACCATAAAAAAATTCAATTTTATTTAAAATAG
131 CTAAATTAATTTTAAATCCAGAATGCATACACCACCAAAAAAAAATTCAATTTTATTTAAAATAG
42075321 ATGACTAATTATTTCGTCCTGAAAAACTAAAAATTAAAAATCGATGAATATATCTCAAAGCGGGT
196 ATGACTAATTATTTCGTCCTGAAAAACTAAAAATTAAAAATCGATGAATATATCTCAAAGCGGGT
42075386 TCACGCACCAACAATCCTTAGAGGTCTTTGGATTATAACATTGATTTCTAGAATGAGTTAAAGTA
261 TCACGCACCAACAATCCTTAGAGGTCTTTGGATTATAACATTGATTTCTAGAATGAGTTAAAGTA
42075451 CAATAAACATCTTGAGCATCAAAGTAGATACGAACTTGCTTTTGTTGTCGAAATTGAGTCGTAAA
326 CAATAAACATCTTGAGCATCAAAGTAGATACGAACTTGCTTTTGTTGTCGAAATTGAGTCGTAAA
42075516 GTTACCCGATTGTTAAATTAAGTATTGAAACTAAAGTTAAACAAAATGGCTATTTTAGAAGCTGA
391 GTTACCCGATTGTTAAATTAAGTATTGAAACTAAAGTTAAACAAAATGGCTATTTTAGAAGCTGA
42075581 TGGTTGAAAAAAAAAGAGTTTGTTTAGAAAATAAGTTGATGAAAAATATGGATTGTGAACTTAAA
456 TGGTTGAAAAAAAAAGAGTTTGTTTAGAAAATAAGTTGATGAAAAATATGGATTGTGAACTTAAA
42075646 ACAAGAATGAACCCTTAATAAAGATTAAGGACTCGATTCTTATAAGTTTTAAGGTGGATGGTGGA
521 ACAAGAATGAACCCTTAATAAAGATTAAGGACTCGATTCTTATAAGTTTTAAGGTGGATGGTGGA
42075711 TAGTTGGATAGAATCGTGACCCACTATCTAGCAAGATAGGAACCAGACAATATGAAGGGTGAAC
586 TAGTTGGATAGAATCGTGACCCACTATCTAGCAAGATAGGAACCAGACAATATGAAGGGTGAAC
42075775 GC
1 GC
42075777 CACACTCAAA
Statistics
Matches: 1286, Mismatches: 9, Indels: 5
0.99 0.01 0.00
Matches are distributed among these distances:
646 487 0.38
647 162 0.13
648 1 0.00
649 636 0.49
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.29
Consensus pattern (649 bp):
GCAAACATTGAGGATGAGAAATCGACTTCAGAGGGAAAAAGTTGAAAGGTTAAGTTTGTAATATA
AGGGCCAAGTATTAGTGGTCGATTAGAGCGTAAAATAGCATGAAAGTTCAATGCAAACCAATATC
CTAAATTAATTTTAAATCCAGAATGCATACACCACCAAAAAAAAATTCAATTTTATTTAAAATAG
ATGACTAATTATTTCGTCCTGAAAAACTAAAAATTAAAAATCGATGAATATATCTCAAAGCGGGT
TCACGCACCAACAATCCTTAGAGGTCTTTGGATTATAACATTGATTTCTAGAATGAGTTAAAGTA
CAATAAACATCTTGAGCATCAAAGTAGATACGAACTTGCTTTTGTTGTCGAAATTGAGTCGTAAA
GTTACCCGATTGTTAAATTAAGTATTGAAACTAAAGTTAAACAAAATGGCTATTTTAGAAGCTGA
TGGTTGAAAAAAAAAGAGTTTGTTTAGAAAATAAGTTGATGAAAAATATGGATTGTGAACTTAAA
ACAAGAATGAACCCTTAATAAAGATTAAGGACTCGATTCTTATAAGTTTTAAGGTGGATGGTGGA
TAGTTGGATAGAATCGTGACCCACTATCTAGCAAGATAGGAACCAGACAATATGAAGGGTGAAC
Found at i:42080600 original size:41 final size:41
Alignment explanation
Indices: 42080513--42080673 Score: 168
Period size: 41 Copynumber: 4.0 Consensus size: 41
42080503 TTGTATAAAA
* * * * * *
42080513 CACCGGCATAAAGCCTGCT-GAAACAAAGACCGATACATTC
1 CACCGGCACAAAGCCTGCTAGACATAAAGTCTGATACATTT
42080553 CACCGGCACAAAGCCTGCTAGACATAAAGTCTGATACATTT
1 CACCGGCACAAAGCCTGCTAGACATAAAGTCTGATACATTT
* * *
42080594 CACCGGCGCTAAGCCTGCTAGACATAAAGTCTGA-A-GTGATT
1 CACCGGCACAAAGCCTGCTAGACATAAAGTCTGATACAT--TT
* *
42080635 CACCGGCATC-AAGCCTGCTAGACGTAAAGTCTGAAACAT
1 CACCGGCA-CAAAGCCTGCTAGACATAAAGTCTGATACAT
42080674 CTTATTTTCA
Statistics
Matches: 103, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
39 1 0.01
40 19 0.18
41 80 0.78
42 2 0.02
43 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.20, T:0.19
Consensus pattern (41 bp):
CACCGGCACAAAGCCTGCTAGACATAAAGTCTGATACATTT
Found at i:42081338 original size:16 final size:17
Alignment explanation
Indices: 42081317--42081351 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
42081307 ATCTAATAAT
42081317 TTATACAT-GTATATAC
1 TTATACATCGTATATAC
*
42081333 TTATACATCGTTTATAC
1 TTATACATCGTATATAC
42081350 TT
1 TT
42081352 CAACTAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.49
Consensus pattern (17 bp):
TTATACATCGTATATAC
Found at i:42084298 original size:33 final size:33
Alignment explanation
Indices: 42084256--42084323 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
42084246 TAAACCCAGC
* *
42084256 CTGCCAGCCCAATTTTATTTTTTCTCTTGTAGG
1 CTGCAAGCCCAATTTTATTTTTTCTCCTGTAGG
42084289 CTGCAAGCCCAATTTTATTTTTTCTCCTGTAGG
1 CTGCAAGCCCAATTTTATTTTTTCTCCTGTAGG
42084322 CT
1 CT
42084324 CCAATTTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.16, C:0.25, G:0.15, T:0.44
Consensus pattern (33 bp):
CTGCAAGCCCAATTTTATTTTTTCTCCTGTAGG
Found at i:42084327 original size:27 final size:28
Alignment explanation
Indices: 42084264--42084344 Score: 92
Period size: 33 Copynumber: 2.8 Consensus size: 28
42084254 GCCTGCCAGC
*
42084264 CCAATTTTATTTTTTCTCTTGTAGGCTGCAA
1 CCAATTTTATTTTTTCTCCTGTAGGCT---A
42084295 GCCCAATTTTATTTTTTCTCCTGTAGGCT-
1 --CCAATTTTATTTTTTCTCCTGTAGGCTA
*
42084324 CCAATTTTATTGTTTCTCCTG
1 CCAATTTTATTTTTTCTCCTG
42084345 CAGGTAAAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
27 20 0.43
33 26 0.57
ACGTcount: A:0.16, C:0.22, G:0.12, T:0.49
Consensus pattern (28 bp):
CCAATTTTATTTTTTCTCCTGTAGGCTA
Found at i:42088471 original size:20 final size:20
Alignment explanation
Indices: 42088448--42088510 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 20
42088438 TATGTGTTAA
42088448 TTTTAAGACTTATGTAATGT
1 TTTTAAGACTTATGTAATGT
* *
42088468 TTTT-A-A-TTATGTAGTGA
1 TTTTAAGACTTATGTAATGT
**
42088485 TTCAAAGACTTATGTAATGT
1 TTTTAAGACTTATGTAATGT
42088505 TTTTAA
1 TTTTAA
42088511 TTATGTAGTG
Statistics
Matches: 32, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
17 11 0.34
18 2 0.06
19 2 0.06
20 17 0.53
ACGTcount: A:0.32, C:0.05, G:0.14, T:0.49
Consensus pattern (20 bp):
TTTTAAGACTTATGTAATGT
Found at i:42088477 original size:17 final size:17
Alignment explanation
Indices: 42088457--42088517 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
42088447 ATTTTAAGAC
42088457 TTATGTAATGTTTTTAA
1 TTATGTAATGTTTTTAA
* ***
42088474 TTATGTAGTGATTCAAAGA
1 TTATGTAATG-TTTTTA-A
42088493 CTTATGTAATGTTTTTAA
1 -TTATGTAATGTTTTTAA
42088511 TTATGTA
1 TTATGTA
42088518 GTGCTTCAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
17 16 0.48
18 4 0.12
19 4 0.12
20 9 0.27
ACGTcount: A:0.31, C:0.03, G:0.15, T:0.51
Consensus pattern (17 bp):
TTATGTAATGTTTTTAA
Found at i:42088493 original size:37 final size:37
Alignment explanation
Indices: 42088452--42088526 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
42088442 TGTTAATTTT
42088452 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
*
42088489 AAGACTTATGTAATGTTTTTAATTATGTAGTGCTTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
42088526 A
1 A
42088527 TTCGGTTAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.32, C:0.07, G:0.16, T:0.45
Consensus pattern (37 bp):
AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
Found at i:42088542 original size:9 final size:9
Alignment explanation
Indices: 42088528--42088607 Score: 115
Period size: 9 Copynumber: 8.9 Consensus size: 9
42088518 GTGCTTCAAT
42088528 TCGGTTAAA
1 TCGGTTAAA
42088537 TCGGTTAAA
1 TCGGTTAAA
*
42088546 TCGATTAAA
1 TCGGTTAAA
* *
42088555 TCGATTAAG
1 TCGGTTAAA
42088564 TCGGTTAAA
1 TCGGTTAAA
*
42088573 TTGGTTAAA
1 TCGGTTAAA
*
42088582 TCGGTTAAG
1 TCGGTTAAA
42088591 TCGGTTAAA
1 TCGGTTAAA
42088600 TCGGTTAA
1 TCGGTTAA
42088608 TTTTTAACTA
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 63 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.35
Consensus pattern (9 bp):
TCGGTTAAA
Found at i:42088993 original size:15 final size:15
Alignment explanation
Indices: 42088973--42089006 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
42088963 GGTTTTGGTG
*
42088973 TTTTATTTATTTGTT
1 TTTTATTTATTTATT
42088988 TTTTATTTATTTATT
1 TTTTATTTATTTATT
42089003 TTTT
1 TTTT
42089007 CTAGCCGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (15 bp):
TTTTATTTATTTATT
Found at i:42095296 original size:32 final size:32
Alignment explanation
Indices: 42095260--42095343 Score: 83
Period size: 25 Copynumber: 2.8 Consensus size: 32
42095250 TAATACTTTT
42095260 ATTTTAAAATATTTATAAATAGTCCAACAGTA
1 ATTTTAAAATATTTATAAATAGTCCAACAGTA
* * * *
42095292 ATTTT-AAATAATTA-AAA-A-T---ATATTT
1 ATTTTAAAATATTTATAAATAGTCCAACAGTA
42095317 ATTTTAAAATATTTATAAATAGTCCAA
1 ATTTTAAAATATTTATAAATAGTCCAA
42095344 TAGTTTTTAG
Statistics
Matches: 40, Mismatches: 5, Indels: 14
0.68 0.08 0.24
Matches are distributed among these distances:
25 8 0.20
26 8 0.20
27 3 0.08
28 2 0.05
29 2 0.05
30 3 0.08
31 8 0.20
32 6 0.15
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.42
Consensus pattern (32 bp):
ATTTTAAAATATTTATAAATAGTCCAACAGTA
Found at i:42095395 original size:11 final size:11
Alignment explanation
Indices: 42095379--42095403 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
42095369 TCATACTAAC
42095379 ATTTTCTCCAT
1 ATTTTCTCCAT
42095390 ATTTTCTCCAT
1 ATTTTCTCCAT
42095401 ATT
1 ATT
42095404 GGTAGATTAA
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:0.20, C:0.24, G:0.00, T:0.56
Consensus pattern (11 bp):
ATTTTCTCCAT
Found at i:42098897 original size:44 final size:44
Alignment explanation
Indices: 42098823--42098917 Score: 120
Period size: 44 Copynumber: 2.2 Consensus size: 44
42098813 ATTCTCTCTC
* *
42098823 AACTCAAAAATTGCCTTCGCCAGTTCTTACATGTTTAAATACAG
1 AACTCAAAAATTGCCTTCACCAGTTATTACATGTTTAAATACAG
* * * * *
42098867 AACTCGAACATTGGCTTCACCAGTTATTACATGTTTACATACTG
1 AACTCAAAAATTGCCTTCACCAGTTATTACATGTTTAAATACAG
42098911 AA-TCAAA
1 AACTCAAA
42098918 GAATACACTA
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
43 4 0.09
44 39 0.91
ACGTcount: A:0.35, C:0.22, G:0.12, T:0.32
Consensus pattern (44 bp):
AACTCAAAAATTGCCTTCACCAGTTATTACATGTTTAAATACAG
Found at i:42101690 original size:42 final size:42
Alignment explanation
Indices: 42101601--42101681 Score: 110
Period size: 42 Copynumber: 1.9 Consensus size: 42
42101591 ATTTCGTAAC
*
42101601 AAATATTTACAAATATCAAAAGAATATATTTATATAAATAAA
1 AAATATTTACAAATATCAAAAGAATATAATTATATAAATAAA
* * *
42101643 AAATATTTATAAATATGAAATGAATA-AGATTATATAAAT
1 AAATATTTACAAATATCAAAAGAATATA-ATTATATAAAT
42101682 TTTAAATATA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 1 0.03
42 33 0.97
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (42 bp):
AAATATTTACAAATATCAAAAGAATATAATTATATAAATAAA
Found at i:42101722 original size:19 final size:18
Alignment explanation
Indices: 42101685--42101731 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
42101675 TATAAATTTT
*
42101685 AAATATAAAATATTCATA
1 AAATATAAAATACTCATA
* *
42101703 ATTATATAAAATACTGATA
1 A-AATATAAAATACTCATA
42101722 AAATATAAAA
1 AAATATAAAA
42101732 AAAATCATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 9 0.38
19 15 0.62
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (18 bp):
AAATATAAAATACTCATA
Found at i:42102543 original size:30 final size:30
Alignment explanation
Indices: 42102509--42102565 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
42102499 AATAATAAAA
* *
42102509 AATAAAAATCA-ATAGAAATTATAAAAATGT
1 AATAAAAAT-ATATACAAATTAGAAAAATGT
42102539 AATAAAAATATATACAAATTAGAAAAA
1 AATAAAAATATATACAAATTAGAAAAA
42102566 ATATAAAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.67, C:0.04, G:0.05, T:0.25
Consensus pattern (30 bp):
AATAAAAATATATACAAATTAGAAAAATGT
Found at i:42102653 original size:29 final size:30
Alignment explanation
Indices: 42102590--42102661 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 30
42102580 AAAAAATTAT
* *
42102590 AGAAAATTTTAAATTTTTATAAAAATAGTA
1 AGAAAATTATAAAATTTTATAAAAATAGTA
* *
42102620 A-AAAATTATAAAATTTTAT-AAAGTCGTA
1 AGAAAATTATAAAATTTTATAAAAATAGTA
*
42102648 AGAAAATTAAAAAA
1 AGAAAATTATAAAA
42102662 ATATAATTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
28 8 0.22
29 27 0.75
30 1 0.03
ACGTcount: A:0.58, C:0.01, G:0.07, T:0.33
Consensus pattern (30 bp):
AGAAAATTATAAAATTTTATAAAAATAGTA
Found at i:42102920 original size:54 final size:54
Alignment explanation
Indices: 42102861--42102965 Score: 135
Period size: 54 Copynumber: 1.9 Consensus size: 54
42102851 CTTTGATGTA
*
42102861 TTTTATAAATTTTTTATGACTTTT-ATAAAATTTTAA-AATTAT-TATTTTTATGGT
1 TTTTATAAAATTTTTA-G-CTTTTAATAAAA-TTTAAGAATTATATATTTTTATGGT
* *
42102915 TTTTATAAAATTTTTAGTTTTTAATAAAATTTAAGAATTTTATATTTTTAT
1 TTTTATAAAATTTTTAGCTTTTAATAAAATTTAAGAATTATATATTTTTAT
42102966 TAAAATTTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
52 9 0.20
53 12 0.27
54 24 0.53
ACGTcount: A:0.35, C:0.01, G:0.05, T:0.59
Consensus pattern (54 bp):
TTTTATAAAATTTTTAGCTTTTAATAAAATTTAAGAATTATATATTTTTATGGT
Found at i:42102936 original size:19 final size:20
Alignment explanation
Indices: 42102904--42102946 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
42102894 TAAAATTATT
*
42102904 ATTTTTATGGTTTTTATAAA
1 ATTTTTATGGTTTTAATAAA
*
42102924 ATTTTTA-GTTTTTAATAAA
1 ATTTTTATGGTTTTAATAAA
42102943 ATTT
1 ATTT
42102947 AAGAATTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (20 bp):
ATTTTTATGGTTTTAATAAA
Found at i:42102953 original size:27 final size:26
Alignment explanation
Indices: 42102923--42102985 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 26
42102913 GTTTTTATAA
42102923 AATTTTTAGTTTTTAATAAAATTTAAG
1 AATTTTTA-TTTTTAATAAAATTTAAG
* *
42102950 AATTTTATATTTTTATTAAAATTTAAT
1 AATTTT-TATTTTTAATAAAATTTAAG
42102977 AATTTTTAT
1 AATTTTTAT
42102986 AACTTATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
26 3 0.09
27 28 0.85
28 2 0.06
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (26 bp):
AATTTTTATTTTTAATAAAATTTAAG
Found at i:42102972 original size:19 final size:21
Alignment explanation
Indices: 42102945--42102985 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
42102935 TTAATAAAAT
*
42102945 TTAAGAATTTTAT-ATTTTTA
1 TTAAGAATTTAATAATTTTTA
42102965 TTAA-AATTTAATAATTTTTA
1 TTAAGAATTTAATAATTTTTA
42102985 T
1 T
42102986 AACTTATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (21 bp):
TTAAGAATTTAATAATTTTTA
Found at i:42102992 original size:27 final size:27
Alignment explanation
Indices: 42102939--42102993 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
42102929 TAGTTTTTAA
**
42102939 TAAAATTTAAGAATTTTATATTTTTAT
1 TAAAATTTAAGAATTTTATATACTTAT
*
42102966 TAAAATTTAATAATTTT-TATAACTTAT
1 TAAAATTTAAGAATTTTATAT-ACTTAT
42102993 T
1 T
42102994 TTTTGAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 3 0.12
27 21 0.88
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (27 bp):
TAAAATTTAAGAATTTTATATACTTAT
Found at i:42103994 original size:4 final size:4
Alignment explanation
Indices: 42103985--42104010 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
42103975 GGATGTCCTG
42103985 TAAA TAAA TAAA TAAA TAAA TAAA TA
1 TAAA TAAA TAAA TAAA TAAA TAAA TA
42104011 TTGGGTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
TAAA
Found at i:42111802 original size:14 final size:14
Alignment explanation
Indices: 42111783--42111810 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
42111773 AACATGCATA
42111783 AAATGACCAAATTC
1 AAATGACCAAATTC
42111797 AAATGACCAAATTC
1 AAATGACCAAATTC
42111811 CATTAAACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.21, G:0.07, T:0.21
Consensus pattern (14 bp):
AAATGACCAAATTC
Found at i:42113281 original size:26 final size:26
Alignment explanation
Indices: 42113245--42113309 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
42113235 CATCGTTGCT
*
42113245 CACACGAGCTGTGAAACGAGTCTACC
1 CACACGAGCTGTGAAACAAGTCTACC
* * *
42113271 CACACGAGCTGTGAAATAAGTCTGCT
1 CACACGAGCTGTGAAACAAGTCTACC
*
42113297 CACACGAGTTGTG
1 CACACGAGCTGTG
42113310 GGTCAAAATG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.29, C:0.26, G:0.25, T:0.20
Consensus pattern (26 bp):
CACACGAGCTGTGAAACAAGTCTACC
Found at i:42115703 original size:49 final size:47
Alignment explanation
Indices: 42115602--42116251 Score: 1050
Period size: 47 Copynumber: 13.8 Consensus size: 47
42115592 TAGTATGGCG
42115602 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
42115649 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
*
42115698 TAATGGCCGATGTGATGAATATGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
42115745 TAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAA--GTGTATATATGTGATAAGGCC
42115794 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
42115841 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
*
42115890 TAATGGCCGATGTGATGAATATGAAAGTGTATATA--TG-T---G--
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
42115929 --ATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
* * *
42115976 TAATGGCCAATATGATGAATTTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
42116023 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
42116070 TAATGGCCGATGTGATGAATATGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* *
42116117 TAATGGCCGATATGATGAATGTGAAAGTGTATATATATGTGATAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
42116166 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
42116215 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
42116252 GCCGATGTGA
Statistics
Matches: 567, Mismatches: 16, Indels: 40
0.91 0.03 0.06
Matches are distributed among these distances:
37 26 0.05
39 6 0.01
41 3 0.01
42 1 0.00
44 1 0.00
45 3 0.01
47 271 0.48
49 256 0.45
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.31
Consensus pattern (47 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
Found at i:42115934 original size:37 final size:37
Alignment explanation
Indices: 42115892--42115962 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
42115882 ATAAGGCCTA
42115892 ATGGCCGATGTGATGAATATGAAAGTGTATATATGTG
1 ATGGCCGATGTGATGAATATGAAAGTGTATATATGTG
*
42115929 ATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGGCCGATGTGATGAATATGAAAGTGTATATAT
42115963 ATGTGATAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.32, C:0.06, G:0.30, T:0.32
Consensus pattern (37 bp):
ATGGCCGATGTGATGAATATGAAAGTGTATATATGTG
Found at i:42116251 original size:96 final size:95
Alignment explanation
Indices: 42115602--42116482 Score: 1260
Period size: 96 Copynumber: 9.5 Consensus size: 95
42115592 TAGTATGGCG
*
42115602 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 TAATGGCCGATGTGATGAATATGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
42115667 ATGTGAAAGTGTATATATATGTGATAAGGCC
66 ATGTGAAAGTG-ATATATATGTGATAAGGCC
42115698 TAATGGCCGATGTGATGAATATGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 TAATGGCCGATGTGATGAATATGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
42115763 ATGTGAAAGTGTGTATATATGTGATAAGGCC
66 ATGTGAAAGTG-ATATATATGTGATAAGGCC
*
42115794 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 TAATGGCCGATGTGATGAATATGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
42115859 ATGTGAAAGTGTATATATATGTGATAAGGCC
66 ATGTGAAAGTG-ATATATATGTGATAAGGCC
42115890 TAATGGCCGATGTGATGAATATGAAAGTGTATATA--TG-T---G----ATGGCCGATGTGATGA
1 TAATGGCCGATGTGATGAATATGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
42115945 ATGTGAAAGTGTATATATATGTGATAAGGCC
66 ATGTGAAAGTG-ATATATATGTGATAAGGCC
* * *
42115976 TAATGGCCAATATGATGAATTTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 TAATGGCCGATGTGATGAATATGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
42116041 ATGTGAAAGTG-TATATATGTGATAAGGCC
66 ATGTGAAAGTGATATATATGTGATAAGGCC
*
42116070 TAATGGCCGATGTGATGAATATGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATATGATGA
1 TAATGGCCGATGTGATGAATATGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
42116135 ATGTGAAAGTGTATATATATGTGATAGGGCC
66 ATGTGAAAGTG-ATATATATGTGATAAGGCC
*
42116166 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 TAATGGCCGATGTGATGAATATGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
42116231 GAATGTGAAAGTG---TATA--T-AT--GGCC
64 GAATGTGAAAGTGATATATATGTGATAAGGCC
* * * *
42116255 -GAT-G-TGATGAATG-TGAA-A-G--TGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 TAATGGCCGATG--TGATGAATATGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
42116312 GAATGTGAAAGTGTATATATATGTGATAAGGCC
64 GAATGTGAAAGTG-ATATATATGTGATAAGGCC
*
42116345 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 TAATGGCCGATGTGATGAATATGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
42116410 ATGTGAAAGTG-TATATATGTGACAGGGCC
66 ATGTGAAAGTGATATATATGTGATAAGGCC
* * * * * * * *
42116439 GAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATATGATAAG
1 TAATGGCCGATGTGATGAATATGAAAGTGTATATATGTGATAAG
42116483 TCCCGAAGGG
Statistics
Matches: 718, Mismatches: 34, Indels: 68
0.88 0.04 0.08
Matches are distributed among these distances:
81 47 0.07
83 2 0.00
85 5 0.01
86 83 0.12
87 6 0.01
88 8 0.01
89 5 0.01
90 5 0.01
91 6 0.01
92 7 0.01
93 5 0.01
94 150 0.21
96 343 0.48
98 46 0.06
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (95 bp):
TAATGGCCGATGTGATGAATATGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
ATGTGAAAGTGATATATATGTGATAAGGCC
Found at i:42116254 original size:32 final size:32
Alignment explanation
Indices: 42116217--42116282 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
42116207 ATAAGGCCTA
42116217 ATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGGCCGATGTGATGAATGTGAAAGTGTATAT
42116249 ATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGGCCGATGTGATGAATGTGAAAGTGTATAT
42116281 AT
1 AT
42116283 ATGTGATAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.32, C:0.06, G:0.30, T:0.32
Consensus pattern (32 bp):
ATGGCCGATGTGATGAATGTGAAAGTGTATAT
Found at i:42116265 original size:81 final size:81
Alignment explanation
Indices: 42116168--42116331 Score: 328
Period size: 81 Copynumber: 2.0 Consensus size: 81
42116158 ATAGGGCCTA
42116168 ATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
42116233 ATGTGAAAGTGTATAT
66 ATGTGAAAGTGTATAT
42116249 ATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
42116314 ATGTGAAAGTGTATAT
66 ATGTGAAAGTGTATAT
42116330 AT
1 AT
42116332 ATGTGATAAG
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 83 1.00
ACGTcount: A:0.32, C:0.07, G:0.29, T:0.31
Consensus pattern (81 bp):
ATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
ATGTGAAAGTGTATAT
Found at i:42116304 original size:49 final size:49
Alignment explanation
Indices: 42116249--42116477 Score: 358
Period size: 47 Copynumber: 4.8 Consensus size: 49
42116239 AAGTGTATAT
42116249 ATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
1 ATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
42116298 ATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
1 ATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
42116347 ATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTA
1 ATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
* * *
42116394 ATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCCGA
1 ATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
* * * * *
42116441 GTGGCCAACGTGATGGATGTGAAAGTGTATAAATATG
1 ATGGCCGATGTGATGAATGTGAAAGTGTATATATATG
42116478 ATAAGTCCCG
Statistics
Matches: 170, Mismatches: 8, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
47 87 0.51
49 83 0.49
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.29
Consensus pattern (49 bp):
ATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
Found at i:42116352 original size:130 final size:130
Alignment explanation
Indices: 42116119--42116381 Score: 508
Period size: 130 Copynumber: 2.0 Consensus size: 130
42116109 ATAAGGCCTA
*
42116119 ATGGCCGATATGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGA
1 ATGGCCGATATGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
42116184 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
66 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
42116249 ATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGGCCGATATGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
42116314 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
66 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
42116379 ATG
1 ATG
42116382 TGATAAGGCC
Statistics
Matches: 131, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
130 131 1.00
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.31
Consensus pattern (130 bp):
ATGGCCGATATGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
Found at i:42116657 original size:37 final size:37
Alignment explanation
Indices: 42116601--42116679 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
42116591 CCGAGCTCTA
* * *
42116601 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
42116638 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
42116675 AAGAC
1 AAGAC
42116680 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:42119882 original size:23 final size:24
Alignment explanation
Indices: 42119838--42119887 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
42119828 CTGCAAAAAT
* *
42119838 TGGTGGCTTTGTCCATAACCTACA
1 TGGTGGCTTTATCCACAACCTACA
*
42119862 TGGTGG-TTTATCCACACCCTACA
1 TGGTGGCTTTATCCACAACCTACA
42119885 TGG
1 TGG
42119888 CAGCTTGTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.20, C:0.26, G:0.22, T:0.32
Consensus pattern (24 bp):
TGGTGGCTTTATCCACAACCTACA
Found at i:42123062 original size:27 final size:27
Alignment explanation
Indices: 42123032--42123208 Score: 151
Period size: 27 Copynumber: 6.6 Consensus size: 27
42123022 ATATTGAGCC
* * *
42123032 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
42123059 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
42123086 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
42123114 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
42123141 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
42123168 CGCACACTGAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
42123195 CGCAC-CTTAGTGCT
1 CGCACACTTAGTGCT
42123209 GTACAATTTA
Statistics
Matches: 123, Mismatches: 24, Indels: 7
0.80 0.16 0.05
Matches are distributed among these distances:
26 7 0.06
27 92 0.75
28 24 0.20
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.25
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:42123125 original size:55 final size:54
Alignment explanation
Indices: 42123032--42123208 Score: 196
Period size: 54 Copynumber: 3.3 Consensus size: 54
42123022 ATATTGAGCC
* * * * *
42123032 CGCACACTCAGTGCTATACAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * * *
42123086 CGCACACTTAGTGCTACATAGTCAGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
* ** * *
42123141 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTGAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
42123195 CGCAC-CTTAGTGCT
1 CGCACACTTAGTGCT
42123209 GTACAATTTA
Statistics
Matches: 103, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
53 8 0.08
54 49 0.48
55 46 0.45
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.25
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:42123171 original size:82 final size:80
Alignment explanation
Indices: 42123053--42123207 Score: 204
Period size: 82 Copynumber: 1.9 Consensus size: 80
42123043 TGCTATACAA
* * * *
42123053 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTGAGTGCAACATAGTCA-AATCGCA
42123118 CACTTAGTGCCGCATGG
65 C-CTTAGTGCCGCATGG
* * **
42123135 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTGAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCA
42123199 CCTTAGTGC
65 CCTTAGTGC
42123208 TGTACAATTT
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
80 8 0.12
81 9 0.14
82 47 0.73
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (80 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCAC
CTTAGTGCCGCATGG
Found at i:42133406 original size:42 final size:43
Alignment explanation
Indices: 42133312--42133406 Score: 104
Period size: 43 Copynumber: 2.2 Consensus size: 43
42133302 ACCATGTACA
* * *
42133312 ATTTGAAATAGGGTCACACGGTCGTGTCGCTAGACCGTGTGTG
1 ATTTGAAATAAGGTCACACGGTCATGTCGCTAGACCGTGTGCG
** * *
42133355 ATTCAAAATAAGGTCACACGG-CTATGTGGCT-GACCGTTTGCG
1 ATTTGAAATAAGGTCACACGGTC-ATGTCGCTAGACCGTGTGCG
42133397 ATTTGAAATA
1 ATTTGAAATA
42133407 GTGTAACACC
Statistics
Matches: 42, Mismatches: 9, Indels: 3
0.78 0.17 0.06
Matches are distributed among these distances:
42 18 0.43
43 24 0.57
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.28
Consensus pattern (43 bp):
ATTTGAAATAAGGTCACACGGTCATGTCGCTAGACCGTGTGCG
Found at i:42136969 original size:15 final size:15
Alignment explanation
Indices: 42136949--42136977 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
42136939 CAAAACATAT
42136949 TTATTTTCACAATTA
1 TTATTTTCACAATTA
42136964 TTATTTTCACAATT
1 TTATTTTCACAATT
42136978 GTACCCCTAT
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:0.31, C:0.14, G:0.00, T:0.55
Consensus pattern (15 bp):
TTATTTTCACAATTA
Found at i:42144024 original size:29 final size:29
Alignment explanation
Indices: 42143968--42144048 Score: 81
Period size: 29 Copynumber: 2.8 Consensus size: 29
42143958 GCTAATTATT
* * * **
42143968 GTTCTGGAAAAATAATTTTAACAAGATGG
1 GTTCTGAAAAAATAAATTTGACGTGATGG
* *
42143997 GTTTTGAAAAAATAAATTTGACGTGATGT
1 GTTCTGAAAAAATAAATTTGACGTGATGG
* *
42144026 GTTCTGAAAAAATTATTTTGACG
1 GTTCTGAAAAAATAAATTTGACG
42144049 ATATGGATTT
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.38, C:0.06, G:0.20, T:0.36
Consensus pattern (29 bp):
GTTCTGAAAAAATAAATTTGACGTGATGG
Found at i:42145775 original size:15 final size:15
Alignment explanation
Indices: 42145755--42145806 Score: 104
Period size: 15 Copynumber: 3.5 Consensus size: 15
42145745 TATTACGGTT
42145755 ATTATTTAATGTTGC
1 ATTATTTAATGTTGC
42145770 ATTATTTAATGTTGC
1 ATTATTTAATGTTGC
42145785 ATTATTTAATGTTGC
1 ATTATTTAATGTTGC
42145800 ATTATTT
1 ATTATTT
42145807 TAGATCGAGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 37 1.00
ACGTcount: A:0.27, C:0.06, G:0.12, T:0.56
Consensus pattern (15 bp):
ATTATTTAATGTTGC
Found at i:42146990 original size:56 final size:57
Alignment explanation
Indices: 42146862--42147036 Score: 210
Period size: 58 Copynumber: 3.1 Consensus size: 57
42146852 GTCCACATCG
* * ** ** *
42146862 AAAGAACTTCTAATTTATTAAATGAAATAATATTATTTGGTTTGTACAAAAATATTCA
1 AAAGAACTTCTATTTTATTAAATGAAATAATA-AAAATAATTTATACAAAAATATTCA
*
42146920 AAAGAACTTCTATTTTATTAAATGAAATAATAAAAATAATTT-TACAAAAATATTGA
1 AAAGAACTTCTATTTTATTAAATGAAATAATAAAAATAATTTATACAAAAATATTCA
* * *
42146976 AAAGAACTTATATTTTATTAAATGAAACAATATAAAAATAATTTAAACAAAAATA-TCA
1 AAAGAACTTCTATTTTATTAAATGAAA-TA-ATAAAAATAATTTATACAAAAATATTCA
42147034 AAA
1 AAA
42147037 TAAATCAATG
Statistics
Matches: 103, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
56 39 0.38
57 6 0.06
58 49 0.48
59 9 0.09
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.35
Consensus pattern (57 bp):
AAAGAACTTCTATTTTATTAAATGAAATAATAAAAATAATTTATACAAAAATATTCA
Found at i:42147402 original size:18 final size:18
Alignment explanation
Indices: 42147379--42147420 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
42147369 AGAAGTGAAA
*
42147379 AGGATACATATAAGGGTT
1 AGGATAAATATAAGGGTT
42147397 AGGATAAATATAAGGGTT
1 AGGATAAATATAAGGGTT
42147415 AGGATA
1 AGGATA
42147421 TGCACTTGGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.43, C:0.02, G:0.29, T:0.26
Consensus pattern (18 bp):
AGGATAAATATAAGGGTT
Found at i:42151390 original size:21 final size:20
Alignment explanation
Indices: 42151356--42151403 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
42151346 ACATTATATT
42151356 ATTATATTGCTATAAATTTA
1 ATTATATTGCTATAAATTTA
*
42151376 ATTATTATTGTTATAAA-TTA
1 ATTA-TATTGCTATAAATTTA
42151396 CATTATAT
1 -ATTATAT
42151404 ATAAAAATAG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 10 0.40
21 15 0.60
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.52
Consensus pattern (20 bp):
ATTATATTGCTATAAATTTA
Found at i:42153606 original size:19 final size:19
Alignment explanation
Indices: 42153584--42153621 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
42153574 AAATTCAAAT
*
42153584 AAGTATAAAAGTTATTAAA
1 AAGTATAAAAATTATTAAA
42153603 AAGTATAAAAATTATTAAA
1 AAGTATAAAAATTATTAAA
42153622 GATATTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.32
Consensus pattern (19 bp):
AAGTATAAAAATTATTAAA
Found at i:42159961 original size:41 final size:39
Alignment explanation
Indices: 42159899--42159975 Score: 93
Period size: 41 Copynumber: 1.9 Consensus size: 39
42159889 TTTTTAAATA
* *
42159899 AATATTTTTTATTCAACAATTTCATAATTCACATATTTAGT
1 AATATTTTATATCCAACAATTTC-TAATTCACA-ATTTAGT
*
42159940 AATATTTTATACTCCAA-AATTTCTTATTCACAATTT
1 AATATTTTATA-TCCAACAATTTCTAATTCACAATTT
42159976 CCAATTATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
39 4 0.12
40 8 0.25
41 16 0.50
42 4 0.12
ACGTcount: A:0.36, C:0.14, G:0.01, T:0.48
Consensus pattern (39 bp):
AATATTTTATATCCAACAATTTCTAATTCACAATTTAGT
Found at i:42168924 original size:21 final size:21
Alignment explanation
Indices: 42168900--42168943 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
42168890 TTAATTACAA
*
42168900 CCAATCTTAGAAACTCAACAC
1 CCAATCTCAGAAACTCAACAC
42168921 CCAATCTCAGAAACTCAACAC
1 CCAATCTCAGAAACTCAACAC
42168942 CC
1 CC
42168944 GTCGCATCTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.41, C:0.39, G:0.05, T:0.16
Consensus pattern (21 bp):
CCAATCTCAGAAACTCAACAC
Found at i:42171821 original size:27 final size:27
Alignment explanation
Indices: 42171791--42171968 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
42171781 ATATTGAGTC
* * * *
42171791 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
42171818 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
42171845 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
42171873 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
42171900 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
42171927 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
42171954 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
42171969 GTACAATTCA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:42171930 original size:82 final size:81
Alignment explanation
Indices: 42171812--42171967 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
42171802 TGCTATATAA
* *
42171812 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
42171877 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
42171894 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
42171958 CACTTAGTGC
65 CACTTAGTGC
42171968 TGTACAATTC
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:42171980 original size:82 final size:83
Alignment explanation
Indices: 42171791--42171980 Score: 221
Period size: 82 Copynumber: 2.3 Consensus size: 83
42171781 ATATTGAGTC
* * * * *
42171791 CGCACACTCAGTGCTATATAA-TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTA
1 CGCACACTTAGTGCTGTACAATTCAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTA
*
42171855 GTGCTACATAGTCAAACT
66 GTGCAACATAGTCAAACT
* * **
42171873 CGCACACTTAGTGCCG--C-ATGGTCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACAC
1 CGCACACTTAGTGCTGTACAAT--TCAATTCGCACACTTAGTGCTA-CATAATCAAATCGCACAC
42171934 TTAGTGCAACATAGTCAAA-T
63 TTAGTGCAACATAGTCAAACT
42171954 CGCACACTTAGTGCTGTACAATTCAAT
1 CGCACACTTAGTGCTGTACAATTCAAT
42171981 CCCGCGCACT
Statistics
Matches: 90, Mismatches: 11, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
79 1 0.01
81 17 0.19
82 69 0.77
83 1 0.01
84 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (83 bp):
CGCACACTTAGTGCTGTACAATTCAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTA
GTGCAACATAGTCAAACT
Found at i:42173797 original size:17 final size:17
Alignment explanation
Indices: 42173772--42173805 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
42173762 ATGTTCGATG
*
42173772 GAGTTGTCAGAACACTT
1 GAGTCGTCAGAACACTT
42173789 GAGTCGTCAGAACACTT
1 GAGTCGTCAGAACACTT
42173806 AGTGGCGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (17 bp):
GAGTCGTCAGAACACTT
Found at i:42177121 original size:5 final size:5
Alignment explanation
Indices: 42177113--42177142 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
42177103 AAATTCAATT
42177113 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
42177143 AGATAATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:42179830 original size:40 final size:40
Alignment explanation
Indices: 42179785--42180182 Score: 598
Period size: 40 Copynumber: 9.9 Consensus size: 40
42179775 CGAATACACG
* * * *
42179785 TCACCAGCATGATTGCTCTTCGGAACCTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
* * * * *** * * *
42179825 ACACCAGCACGAATGCTCTTTGGGGTTTAGCACAGATATA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
*
42179865 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
42179905 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
* *
42179945 TCGCTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
42179985 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
* *
42180025 TCACTAGCATGAATGCTCTTCGGGACTTAACCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
*
42180065 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
*
42180105 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCAGATACA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
*
42180145 TCACTAGCATGAATGCTCTTCGGAACTTAGTCCGGATA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATA
42180183 TGGTCACTTA
Statistics
Matches: 327, Mismatches: 31, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 327 1.00
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
Found at i:42182557 original size:22 final size:22
Alignment explanation
Indices: 42182529--42182603 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
42182519 TTCCACATCC
42182529 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
42182551 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
42182575 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
42182598 ATCACA
1 ATCACA
42182604 CATACACATG
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 17 0.45
23 5 0.13
24 5 0.13
25 11 0.29
ACGTcount: A:0.27, C:0.31, G:0.11, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:42182683 original size:96 final size:97
Alignment explanation
Indices: 42182501--42182960 Score: 702
Period size: 96 Copynumber: 4.8 Consensus size: 97
42182491 CCCTTCGGGA
* * * *
42182501 CTTATCAC-ATTTATACACTTCCACATCCATCACATTGGCCATTCGGCCTTATCAC--ATATATA
1 CTTATCACAATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATA
*
42182563 CACTTTCACATTCATCACATTGGCCATTCGGC
66 CACTTTCACATTCATCACATTGGCCATTAGGC
* * * *
42182595 CTTATCAC-ACATACACA-TGTTCACATTCATCACATTGGCCATTCGGCCTTACCACATATATAT
1 CTTATCACAATATATACACT-TTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAT
*
42182658 ACACTTTCACATTCATCACATTGGCCATTCGGC
65 ACACTTTCACATTCATCACATTGGCCATTAGGC
*
42182691 CTTATCAC-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
1 CTTATCACAATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATA
*
42182755 CACTTTCACATTCATCACATCGGCCATTAGGC
66 CACTTTCACATTCATCACATTGGCCATTAGGC
* *
42182787 CTTATCACATATATATACACTTTCACATTCATCACATCGGTCATTAGGCCTTATCACATATATAT
1 CTTATCACA-ATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAT
*
42182852 ACACTTTCACATTCATCACATGGGCCATTAGGC
65 ACACTTTCACATTCATCACATTGGCCATTAGGC
42182885 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATAT
1 CTTATCACA-ATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAT
42182948 ACACTTTCACATT
65 ACACTTTCACATT
42182961 TATTCAAATA
Statistics
Matches: 343, Mismatches: 17, Indels: 10
0.93 0.05 0.03
Matches are distributed among these distances:
93 1 0.00
94 47 0.14
96 153 0.45
97 1 0.00
98 141 0.41
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (97 bp):
CTTATCACAATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATA
CACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:42182686 original size:49 final size:49
Alignment explanation
Indices: 42182501--42182960 Score: 708
Period size: 49 Copynumber: 9.6 Consensus size: 49
42182491 CCCTTCGGGA
* * *
42182501 CTTATCACAT-T-TATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
42182548 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
42182595 CTTATCAC--ACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACT-TTCACATTCATCACATTGGCCATTAGGC
* *
42182642 CTTACCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
42182691 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
42182738 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
42182787 CTTATCACATATATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
42182836 CTTATCACATATATATACACTTTCACATTCATCACATGGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
42182885 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
42182934 CTTATCAC--ATATATACACTTTCACATT
1 CTTATCACATATATATACACTTTCACATT
42182961 TATTCAAATA
Statistics
Matches: 391, Mismatches: 14, Indels: 16
0.93 0.03 0.04
Matches are distributed among these distances:
46 2 0.01
47 156 0.40
49 232 0.59
50 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:42184484 original size:56 final size:56
Alignment explanation
Indices: 42184412--42184531 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
42184402 TATTAGTTTA
*
42184412 TTGCTCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
42184468 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
42184524 TTGCCCAT
1 TTGCCCAT
42184532 CATCCCTTGT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.46
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:42188498 original size:17 final size:17
Alignment explanation
Indices: 42188473--42188528 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
42188463 TTTTCTAGGG
*
42188473 CTTAGTGTTTATGTTTT
1 CTTAATGTTTATGTTTT
*
42188490 CTTAATGTTTATGCTTT
1 CTTAATGTTTATGTTTT
***
42188507 -TT-CCCTTTATGTTTT
1 CTTAATGTTTATGTTTT
42188522 CTTAATG
1 CTTAATG
42188529 CCTATTGCGA
Statistics
Matches: 28, Mismatches: 9, Indels: 4
0.68 0.22 0.10
Matches are distributed among these distances:
15 9 0.32
16 4 0.14
17 15 0.54
ACGTcount: A:0.14, C:0.12, G:0.12, T:0.61
Consensus pattern (17 bp):
CTTAATGTTTATGTTTT
Found at i:42194335 original size:47 final size:47
Alignment explanation
Indices: 42194278--42194496 Score: 375
Period size: 47 Copynumber: 4.7 Consensus size: 47
42194268 ACATCACCTC
* * *
42194278 TCACACTCATCACATCGGCTATTAGGCCTTATCACATATATACATTT
1 TCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTT
42194325 TCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTT
1 TCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTT
*
42194372 TTACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTT
1 TCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTT
* *
42194419 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
1 TCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTT
*
42194466 TCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATTCATCACATCGGCTATTAGGCCTTA
42194497 CTATCATTTC
Statistics
Matches: 165, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 165 1.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.32
Consensus pattern (47 bp):
TCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTT
Found at i:42200460 original size:17 final size:17
Alignment explanation
Indices: 42200438--42200470 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
42200428 TTTTGAATTA
42200438 GTGAATTCTGTGATTTT
1 GTGAATTCTGTGATTTT
*
42200455 GTGAATTTTGTGATTT
1 GTGAATTCTGTGATTT
42200471 AAAAAGAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.03, G:0.24, T:0.55
Consensus pattern (17 bp):
GTGAATTCTGTGATTTT
Found at i:42201731 original size:46 final size:46
Alignment explanation
Indices: 42201664--42201849 Score: 300
Period size: 46 Copynumber: 4.0 Consensus size: 46
42201654 TCATGAAAAA
** *
42201664 TTGTGAAAAGTAGGTATGGTGTTTCAGGGAAGAAAGCCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAATGAAGAAAACCATACTGAG
*
42201710 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAATGAAGAAAACCATACTGAG
*
42201756 TTGTGAAAAGTAGGTATGATGTTTCAATGAAGAAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAATGAAGAAAACCATACTGAG
* * *
42201802 TTGTGAAAAGTAGGTATGGTATTTTAATGAAGAAAACCATATTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAATGAAGAAAACCATACTGAG
42201848 TT
1 TT
42201850 ATAGCATTGT
Statistics
Matches: 132, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 132 1.00
ACGTcount: A:0.36, C:0.08, G:0.27, T:0.30
Consensus pattern (46 bp):
TTGTGAAAAGTAGGTATGGTGTTTCAATGAAGAAAACCATACTGAG
Found at i:42202813 original size:23 final size:25
Alignment explanation
Indices: 42202773--42202818 Score: 60
Period size: 23 Copynumber: 1.9 Consensus size: 25
42202763 GTGGAAATAG
*
42202773 AATTAGAAGCTGAGTGAG-ATATGA
1 AATTAGAAGCTGAATGAGTATATGA
*
42202797 AATTA-AATCTGAATGAGTATAT
1 AATTAGAAGCTGAATGAGTATAT
42202819 TTTCACATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.43, C:0.04, G:0.22, T:0.30
Consensus pattern (25 bp):
AATTAGAAGCTGAATGAGTATATGA
Found at i:42206163 original size:14 final size:12
Alignment explanation
Indices: 42206133--42206158 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
42206123 TATTATTATT
42206133 TAACATTAAAAA
1 TAACATTAAAAA
42206145 TAACATTAAAAA
1 TAACATTAAAAA
42206157 TA
1 TA
42206159 TAACAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (12 bp):
TAACATTAAAAA
Found at i:42208368 original size:58 final size:60
Alignment explanation
Indices: 42208306--42208422 Score: 166
Period size: 61 Copynumber: 2.0 Consensus size: 60
42208296 AATCACTTTA
* *
42208306 ATATTAAATTAATATAATACTTA-T-CAAGATAAATATTAGATTAAATTTAACATTAAAT
1 ATATTAAATTAATAGAATACTTACTACAAGATAAATATTAAATTAAATTTAACATTAAAT
* * *
42208364 ATATTAAATTAATAGAATATTTATCTACAAGATAAATATTAAATTTAATTTAATATTAA
1 ATATTAAATTAATAGAATACTTA-CTACAAGATAAATATTAAATTAAATTTAACATTAA
42208423 GATAATCACT
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
58 21 0.41
60 1 0.02
61 29 0.57
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.41
Consensus pattern (60 bp):
ATATTAAATTAATAGAATACTTACTACAAGATAAATATTAAATTAAATTTAACATTAAAT
Found at i:42217196 original size:40 final size:41
Alignment explanation
Indices: 42217115--42217196 Score: 94
Period size: 40 Copynumber: 2.0 Consensus size: 41
42217105 TATGGAATAT
* * * * *
42217115 TGAATATTGTTTTTGAGTACTGAATTGAATTGTGAAGTTAC
1 TGAATATTGTTTATGAGTACTGAATTGAACTCTAAAATTAC
* *
42217156 TGAATATTG-TTATGTGTACTGCATTGAACTCTAAAATTAC
1 TGAATATTGTTTATGAGTACTGAATTGAACTCTAAAATTAC
42217196 T
1 T
42217197 AAAGTAATGA
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
40 25 0.74
41 9 0.26
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.43
Consensus pattern (41 bp):
TGAATATTGTTTATGAGTACTGAATTGAACTCTAAAATTAC
Found at i:42221173 original size:16 final size:16
Alignment explanation
Indices: 42221154--42221188 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
42221144 AGACATTGAA
42221154 GCAGATGTTGATCGAG
1 GCAGATGTTGATCGAG
42221170 GCAGATGTTGATCGAG
1 GCAGATGTTGATCGAG
42221186 GCA
1 GCA
42221189 CCTATTTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.26, C:0.14, G:0.37, T:0.23
Consensus pattern (16 bp):
GCAGATGTTGATCGAG
Found at i:42226624 original size:45 final size:45
Alignment explanation
Indices: 42226557--42226656 Score: 146
Period size: 45 Copynumber: 2.2 Consensus size: 45
42226547 GCCGACTACT
** **
42226557 GTTACTGTTACCGATTTGACACTTTGTGTGTTGAATACTGTTACC
1 GTTACTGTTACAAATTCAACACTTTGTGTGTTGAATACTGTTACC
**
42226602 GTTACTGTTACAAATTCAACACTTTGTGTGTTGAATACTGTTATT
1 GTTACTGTTACAAATTCAACACTTTGTGTGTTGAATACTGTTACC
42226647 GTTACTGTTA
1 GTTACTGTTA
42226657 TTGCTACCGT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.23, C:0.15, G:0.18, T:0.44
Consensus pattern (45 bp):
GTTACTGTTACAAATTCAACACTTTGTGTGTTGAATACTGTTACC
Found at i:42229127 original size:10 final size:10
Alignment explanation
Indices: 42229112--42229149 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
42229102 GGACTTTCCA
42229112 TGAATGTTCT
1 TGAATGTTCT
42229122 TGAATGTTCT
1 TGAATGTTCT
*
42229132 TAAAATGTTCT
1 T-GAATGTTCT
42229143 TG-ATGTT
1 TGAATGTT
42229150 AAATTCTAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 5 0.20
10 11 0.44
11 9 0.36
ACGTcount: A:0.24, C:0.08, G:0.18, T:0.50
Consensus pattern (10 bp):
TGAATGTTCT
Found at i:42239709 original size:39 final size:40
Alignment explanation
Indices: 42239592--42239776 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
42239582 GCTACTCGTT
*
42239592 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
42239632 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
42239672 CAAATCCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
42239711 CAAATGCCTT-TGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
42239752 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
42239777 CATCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
38 2 0.02
39 31 0.26
40 75 0.62
41 13 0.11
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:42239736 original size:79 final size:82
Alignment explanation
Indices: 42239592--42239776 Score: 211
Period size: 79 Copynumber: 2.3 Consensus size: 82
42239582 GCTACTCGTT
* * *
42239592 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
42239656 GATTTAGTAAC-TCGCA
66 GATATAGTAACTTAGCA
* * * **
42239672 CAAATCCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTT-TGGATCTTAGTCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* *
42239734 GGATATGGTCACTTAGCA
65 GGATATAGTAACTTAGCA
42239752 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
42239777 CATCATTCAA
Statistics
Matches: 88, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
78 3 0.03
79 52 0.59
80 33 0.38
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
GATATAGTAACTTAGCA
Found at i:42250628 original size:37 final size:37
Alignment explanation
Indices: 42250569--42250646 Score: 129
Period size: 37 Copynumber: 2.1 Consensus size: 37
42250559 GGTGTTAGAA
* *
42250569 TAATTTAATTTCTATAGAATTAGATTATTAATTTTGT
1 TAATTTAATTTCCATAGAATTAGATTATTAATGTTGT
*
42250606 TAATTTAATTTCCATAGCATTAGATTATTAATGTTGT
1 TAATTTAATTTCCATAGAATTAGATTATTAATGTTGT
42250643 TAAT
1 TAAT
42250647 GATATTATGT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.35, C:0.05, G:0.09, T:0.51
Consensus pattern (37 bp):
TAATTTAATTTCCATAGAATTAGATTATTAATGTTGT
Found at i:42261269 original size:21 final size:21
Alignment explanation
Indices: 42261230--42261270 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
42261220 AACTTGGTTA
*
42261230 TATTACCAAAGACCAAGATTG
1 TATTACCAAAGAACAAGATTG
*
42261251 TATTACCAAAGAACGAGATT
1 TATTACCAAAGAACAAGATT
42261271 TTGGGAGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.17, G:0.15, T:0.24
Consensus pattern (21 bp):
TATTACCAAAGAACAAGATTG
Found at i:42261607 original size:62 final size:61
Alignment explanation
Indices: 42261511--42261634 Score: 194
Period size: 62 Copynumber: 2.0 Consensus size: 61
42261501 ACACTATAAA
* * *
42261511 TTCAATTAGATTTTTTTTGGTAAATTTATCAACTGAATTATGTTTTATTGACAATTTTAAC
1 TTCAATTAGATTTTTTTTGGTAAATTTATCAACTGAATTATGTTTCATTAACAATGTTAAC
* *
42261572 TTCAATTTGATTTGTTTTTGGTAAATTTATCAACTGAGTTATGTTTCATTAACAATGTTAAC
1 TTCAATTAGATTT-TTTTTGGTAAATTTATCAACTGAATTATGTTTCATTAACAATGTTAAC
42261634 T
1 T
42261635 CTTTTTTCTT
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
61 12 0.21
62 45 0.79
ACGTcount: A:0.30, C:0.09, G:0.11, T:0.50
Consensus pattern (61 bp):
TTCAATTAGATTTTTTTTGGTAAATTTATCAACTGAATTATGTTTCATTAACAATGTTAAC
Found at i:42262467 original size:17 final size:17
Alignment explanation
Indices: 42262445--42262484 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
42262435 AAAAATATTG
*
42262445 ATTTTATT-TTTTATACA
1 ATTTTATTATTTT-TAAA
42262462 ATTTTATTATTTTTAAA
1 ATTTTATTATTTTTAAA
42262479 ATTTTA
1 ATTTTA
42262485 AATAAGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (17 bp):
ATTTTATTATTTTTAAA
Found at i:42263943 original size:86 final size:81
Alignment explanation
Indices: 42263831--42264030 Score: 233
Period size: 79 Copynumber: 2.4 Consensus size: 81
42263821 TATTTGAATG
*
42263831 GTTTTAAGTTTATGTTTATTTGAATAAATTTGTGCGTGTTTACTGCAAGTTTTGCCGCGAATATA
1 GTTTAAAGTTTATGTTTATTTGAATAAATTTGTGCGTG-----TGCAAGTTTTGCCGCGAATATA
42263896 CTATCAAATTTGAATGGTTAA
61 CTATCAAATTTGAATGGTTAA
* * * * *
42263917 GTTTAAAGTCTATGTTTATTTGAATAAATTTGT--GTGTGCAAGTTTTGCTGTGAGTATGCTATC
1 GTTTAAAGTTTATGTTTATTTGAATAAATTTGTGCGTGTGCAAGTTTTGCCGCGAATATACTATC
* *
42263980 ATATTTGAATTGTTAA
66 AAATTTGAATGGTTAA
* * * *
42263996 TTTTAAAGTTTATATTTATCTAAATAAATTTGTGC
1 GTTTAAAGTTTATGTTTATTTGAATAAATTTGTGC
42264031 ACTTTTGTAC
Statistics
Matches: 99, Mismatches: 13, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
79 65 0.66
84 3 0.03
86 31 0.31
ACGTcount: A:0.28, C:0.07, G:0.17, T:0.47
Consensus pattern (81 bp):
GTTTAAAGTTTATGTTTATTTGAATAAATTTGTGCGTGTGCAAGTTTTGCCGCGAATATACTATC
AAATTTGAATGGTTAA
Found at i:42264533 original size:16 final size:17
Alignment explanation
Indices: 42264503--42264535 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
42264493 TGTATTTTTC
42264503 TTTTTAAAATATTTATT
1 TTTTTAAAATATTTATT
*
42264520 TTTTTAATAT-TTTATT
1 TTTTTAAAATATTTATT
42264536 ATATTTTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTTTAAAATATTTATT
Found at i:42265239 original size:13 final size:13
Alignment explanation
Indices: 42265223--42265247 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42265213 AATTGTAAAA
42265223 AAATAATTATTAT
1 AAATAATTATTAT
42265236 AAATAATTATTA
1 AAATAATTATTA
42265248 AATATTGTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AAATAATTATTAT
Found at i:42265307 original size:20 final size:20
Alignment explanation
Indices: 42265243--42265313 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 20
42265233 TATAAATAAT
* *
42265243 TATTAAATATTGTTAAAAATA
1 TATTAAA-ATTGTAAAAAAAA
* * **
42265264 TTTTAAAATTGTAAAGAAGT
1 TATTAAAATTGTAAAAAAAA
*
42265284 TATTAAAATTATAAAAAAAA
1 TATTAAAATTGTAAAAAAAA
*
42265304 TATTTAAATT
1 TATTAAAATT
42265314 CTTTAAAAAC
Statistics
Matches: 39, Mismatches: 11, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
20 33 0.85
21 6 0.15
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.41
Consensus pattern (20 bp):
TATTAAAATTGTAAAAAAAA
Found at i:42265392 original size:3 final size:3
Alignment explanation
Indices: 42265378--42265409 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
42265368 AAATCAAATT
*
42265378 CTC CTC CGC CTC CTC CTC CTC CTC CTC CTC CT
1 CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CT
42265410 TCTTCTTCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.66, G:0.03, T:0.31
Consensus pattern (3 bp):
CTC
Found at i:42265602 original size:10 final size:10
Alignment explanation
Indices: 42265587--42265613 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
42265577 TAAAGAATTC
42265587 TTTTTTACAT
1 TTTTTTACAT
42265597 TTTTTTACAT
1 TTTTTTACAT
42265607 TTTTTTA
1 TTTTTTA
42265614 ATGATTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTTTTACAT
Found at i:42265638 original size:23 final size:21
Alignment explanation
Indices: 42265600--42265643 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
42265590 TTTACATTTT
*
42265600 TTTACATTTTTTTAATGATTA
1 TTTACATTTTTATAATGATTA
*
42265621 TTTACACTTTTTAATAATTATTA
1 TTTACA-TTTTT-ATAATGATTA
42265644 GCAAATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 6 0.32
22 5 0.26
23 8 0.42
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.59
Consensus pattern (21 bp):
TTTACATTTTTATAATGATTA
Found at i:42265783 original size:17 final size:18
Alignment explanation
Indices: 42265734--42265860 Score: 113
Period size: 18 Copynumber: 7.0 Consensus size: 18
42265724 ACAATTTTAA
42265734 AATATTTTTAACAATATTT
1 AATATTTTT-ACAATATTT
42265753 AATAGTTATTTACAATATTT
1 AATA-TT-TTTACAATATTT
42265773 AAT-TTTTTACAAT-TTT
1 AATATTTTTACAATATTT
* * *
42265789 TATTTTTTTACAATTTTT
1 AATATTTTTACAATATTT
42265807 AATATTTTT--AATAATTT
1 AATATTTTTACAAT-ATTT
*
42265824 AAATGTTTTTACAAT-TCTT
1 -AATATTTTTACAATAT-TT
42265843 ATATATTTTTA-AATATTT
1 A-ATATTTTTACAATATTT
42265861 TTTTACTATT
Statistics
Matches: 91, Mismatches: 6, Indels: 23
0.76 0.05 0.19
Matches are distributed among these distances:
16 8 0.09
17 21 0.23
18 27 0.30
19 15 0.16
20 17 0.19
21 3 0.03
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (18 bp):
AATATTTTTACAATATTT
Found at i:42265814 original size:20 final size:20
Alignment explanation
Indices: 42265671--42265852 Score: 82
Period size: 20 Copynumber: 9.6 Consensus size: 20
42265661 TTCAAAAAAA
**
42265671 TTAATATTTTAATA-AATTT
1 TTAATATTTTTTTACAATTT
* * * *
42265690 TAAATAATGTTTTATAATTT
1 TTAATATTTTTTTACAATTT
** *
42265710 TATAATAACTTGTTACAA-TT
1 T-TAATATTTTTTTACAATTT
* * *
42265730 TTAAAATATTTTTAACAATAT
1 TTAATAT-TTTTTTACAATTT
* * *
42265751 TTAATAGTTATTTACAATAT
1 TTAATATTTTTTTACAATTT
42265771 TT-A-A-TTTTTTACAA-TT
1 TTAATATTTTTTTACAATTT
42265787 TT--TATTTTTTTACAATTT
1 TTAATATTTTTTTACAATTT
* *
42265805 TTAATA-TTTTTAATAA--T
1 TTAATATTTTTTTACAATTT
* *
42265822 TTAA-ATGTTTTTACAATTC
1 TTAATATTTTTTTACAATTT
42265841 TTATATATTTTT
1 TTA-ATATTTTT
42265853 AAATATTTTT
Statistics
Matches: 120, Mismatches: 29, Indels: 26
0.69 0.17 0.15
Matches are distributed among these distances:
16 5 0.04
17 31 0.26
18 5 0.04
19 25 0.21
20 32 0.27
21 22 0.18
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (20 bp):
TTAATATTTTTTTACAATTT
Found at i:42265818 original size:9 final size:9
Alignment explanation
Indices: 42265734--42265881 Score: 67
Period size: 9 Copynumber: 16.0 Consensus size: 9
42265724 ACAATTTTAA
42265734 AATATTTTT
1 AATATTTTT
* *
42265743 AACAATATTT
1 AA-TATTTTT
42265753 AATAGTTATTT
1 AATA-TT-TTT
*
42265764 ACA-ATATTT
1 A-ATATTTTT
42265773 AAT-TTTTT
1 AATATTTTT
42265781 ACA-ATTTTT
1 A-ATATTTTT
*
42265790 -ATTTTTTT
1 AATATTTTT
42265798 ACA-ATTTTT
1 A-ATATTTTT
42265807 AATATTTTT
1 AATATTTTT
* *
42265816 AATAATTTA
1 AATATTTTT
*
42265825 AATGTTTTT
1 AATATTTTT
*
42265834 ACA-ATTCTT
1 A-ATATTTTT
42265843 ATATATTTTT
1 A-ATATTTTT
42265853 AAATATTTTTTT
1 -AATA--TTTTT
*
42265865 ACTATTTTT
1 AATATTTTT
42265874 AAT-TTTTT
1 AATATTTTT
42265882 TTACAAATTT
Statistics
Matches: 104, Mismatches: 19, Indels: 33
0.67 0.12 0.21
Matches are distributed among these distances:
7 1 0.01
8 17 0.16
9 52 0.50
10 19 0.18
11 9 0.09
12 6 0.06
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.61
Consensus pattern (9 bp):
AATATTTTT
Found at i:42265881 original size:17 final size:17
Alignment explanation
Indices: 42265722--42265881 Score: 98
Period size: 17 Copynumber: 9.1 Consensus size: 17
42265712 TAATAACTTG
*
42265722 TTACAATTTTAAAATATTT
1 TTACAATTTT-TAAT-TTT
*
42265741 TTAACAATATTTAATAGTTAT
1 TT-ACAATTTTTAAT--TT-T
*
42265762 TTACAATATTTAATTTT
1 TTACAATTTTTAATTTT
*
42265779 TTACAATTTTTATTTTT
1 TTACAATTTTTAATTTT
42265796 TTACAATTTTTAATATTT
1 TTACAATTTTTAAT-TTT
* *
42265814 TTA-ATAATTTAAATGTTT
1 TTACA-ATTTTTAAT-TTT
*
42265832 TTACAATTCTTATATATTT
1 TTACAATTTTTA-AT-TTT
*
42265851 TTA-AA----TATTTTT
1 TTACAATTTTTAATTTT
*
42265863 TTACTATTTTTAATTTT
1 TTACAATTTTTAATTTT
42265880 TT
1 TT
42265882 TTACAAATTT
Statistics
Matches: 113, Mismatches: 16, Indels: 26
0.73 0.10 0.17
Matches are distributed among these distances:
12 6 0.05
13 2 0.02
14 2 0.02
17 38 0.34
18 27 0.24
19 14 0.12
20 21 0.19
21 3 0.03
ACGTcount: A:0.34, C:0.05, G:0.01, T:0.60
Consensus pattern (17 bp):
TTACAATTTTTAATTTT
Found at i:42265891 original size:20 final size:21
Alignment explanation
Indices: 42265847--42265893 Score: 62
Period size: 19 Copynumber: 2.3 Consensus size: 21
42265837 ATTCTTATAT
*
42265847 ATTTTTAAATATTTTTTTACT
1 ATTTTTAAATATTTTTTTACA
42265868 ATTTTT-AAT-TTTTTTTACAA
1 ATTTTTAAATATTTTTTTAC-A
42265888 ATTTTT
1 ATTTTT
42265894 GGTCTAGTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 9 0.38
20 9 0.38
21 6 0.25
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (21 bp):
ATTTTTAAATATTTTTTTACA
Found at i:42267964 original size:51 final size:51
Alignment explanation
Indices: 42267888--42268015 Score: 193
Period size: 51 Copynumber: 2.5 Consensus size: 51
42267878 GAAGACGATT
* *
42267888 TATGGCATAAGACCATAGATAAAAGAAGCTACGGTAGTCTAGTATAAGGTA
1 TATGGCATAAGACCATAGATGAAAGAAGCTACGGTAGTCTAGTATAAGGCA
* * * *
42267939 TATGGCATAAAACCATAGATGAAAGAGGCTATGGTAGTCTGGTATAAGGCA
1 TATGGCATAAGACCATAGATGAAAGAAGCTACGGTAGTCTAGTATAAGGCA
*
42267990 TATGGCATAAGACCATGGATGAAAGA
1 TATGGCATAAGACCATAGATGAAAGA
42268016 TGTCATGGTA
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 69 1.00
ACGTcount: A:0.40, C:0.12, G:0.26, T:0.23
Consensus pattern (51 bp):
TATGGCATAAGACCATAGATGAAAGAAGCTACGGTAGTCTAGTATAAGGCA
Found at i:42270195 original size:39 final size:39
Alignment explanation
Indices: 42269992--42270213 Score: 189
Period size: 40 Copynumber: 5.6 Consensus size: 39
42269982 TTGAATGCTG
* * * * * *
42269992 TCCGGGCTAAGT-CCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** *
42270031 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAAA
* * * *
42270070 TTCCGAGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
* *
42270111 TCCGGGTTAAGTCCTGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* *
42270151 TCCGGGTTACGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
42270190 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
42270214 TGAACGAGGA
Statistics
Matches: 151, Mismatches: 25, Indels: 14
0.79 0.13 0.07
Matches are distributed among these distances:
39 49 0.32
40 92 0.61
41 10 0.07
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:42287636 original size:39 final size:40
Alignment explanation
Indices: 42287392--42287654 Score: 307
Period size: 40 Copynumber: 6.6 Consensus size: 40
42287382 TTGAATGCTG
* * * * * *
42287392 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * * *
42287432 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCAAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
*
42287472 TCCGGGTTAAGTCCCGAAGGCATTCCTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
42287512 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
42287552 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
42287592 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
42287631 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
42287655 TGAACGAGGA
Statistics
Matches: 199, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.18
40 156 0.78
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:42287674 original size:79 final size:80
Alignment explanation
Indices: 42287431--42287689 Score: 238
Period size: 80 Copynumber: 3.3 Consensus size: 80
42287421 AAGTGAATAT
* * * * * * *
42287431 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCAAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
*** * *
42287495 TCCTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
42287511 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
42287576 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
42287591 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
42287655 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
42287670 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
42287690 TACATGATTT
Statistics
Matches: 154, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 92 0.60
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:42295408 original size:40 final size:40
Alignment explanation
Indices: 42295363--42295586 Score: 308
Period size: 40 Copynumber: 5.6 Consensus size: 40
42295353 AAGTGAATAT
* * * * *
42295363 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAA
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAA
*
42295403 TTCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAA
42295443 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAA
*
42295483 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAA
* * *
42295523 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAA
* * *
42295562 AACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATT
42295587 TGAACGAGGA
Statistics
Matches: 169, Mismatches: 14, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
39 35 0.21
40 134 0.79
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAA
Found at i:42295461 original size:80 final size:80
Alignment explanation
Indices: 42295324--42295586 Score: 316
Period size: 80 Copynumber: 3.3 Consensus size: 80
42295314 TTGAATGCTG
* * * * * *
42295324 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGAT-CCGAAGGCCT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCCT
* *
42295387 TTGTGCGAGATACTAAT
64 TTGTGCGAGTTACTAAA
* * *
42295404 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
42295469 GTGCGAGTTATTAAA
66 GTGCGAGTTACTAAA
* * * *
42295484 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
42295548 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* *
42295563 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
42295587 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 22, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
79 36 0.23
80 117 0.74
81 6 0.04
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
GTGCGAGTTACTAAA
Found at i:42295538 original size:120 final size:120
Alignment explanation
Indices: 42295324--42295586 Score: 325
Period size: 120 Copynumber: 2.2 Consensus size: 120
42295314 TTGAATGCTG
* * *
42295324 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
* * *
42295388 TGTGCGAGATACTAATTCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
66 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* * * * *
42295444 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGAT-CCGAAGGCAT
* ** * *
42295507 TCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
42295563 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
42295587 TGAACGAGGA
Statistics
Matches: 122, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
119 35 0.29
120 81 0.66
121 6 0.05
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:42295606 original size:79 final size:80
Alignment explanation
Indices: 42295363--42295621 Score: 247
Period size: 80 Copynumber: 3.3 Consensus size: 80
42295353 AAGTGAATAT
* * * * ** *
42295363 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAATTCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
42295427 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
42295443 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
42295508 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
42295523 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
42295587 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
42295602 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
42295622 TACGTGATTT
Statistics
Matches: 155, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 93 0.60
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:42301781 original size:13 final size:11
Alignment explanation
Indices: 42301755--42301788 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
42301745 CTTAGACACG
42301755 ATAAAAAAAAT
1 ATAAAAAAAAT
42301766 ATAAAAGAAAATT
1 ATAAAA-AAAA-T
42301779 ATAAAAAAAA
1 ATAAAAAAAA
42301789 GTGAAATACT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 6 0.29
12 8 0.38
13 7 0.33
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (11 bp):
ATAAAAAAAAT
Found at i:42306549 original size:25 final size:25
Alignment explanation
Indices: 42306520--42306571 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
42306510 AGCTACTCAT
42306520 AGTCCCACCCCAATCCTTAAATAGG
1 AGTCCCACCCCAATCCTTAAATAGG
42306545 AGTCCCACCCCAATCCTTAAATAGG
1 AGTCCCACCCCAATCCTTAAATAGG
42306570 AG
1 AG
42306572 GATAACGCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.33, C:0.35, G:0.13, T:0.19
Consensus pattern (25 bp):
AGTCCCACCCCAATCCTTAAATAGG
Found at i:42307192 original size:19 final size:18
Alignment explanation
Indices: 42307150--42307192 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
42307140 CCAAACACTA
42307150 AAAAAATAAATCATTTTT
1 AAAAAATAAATCATTTTT
*
42307168 AGAAAAGTAAATCATTTTCT
1 A-AAAAATAAATCATTTT-T
42307188 AAAAA
1 AAAAA
42307193 TCATTTTTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 19 0.86
20 2 0.09
ACGTcount: A:0.56, C:0.07, G:0.05, T:0.33
Consensus pattern (18 bp):
AAAAAATAAATCATTTTT
Found at i:42307195 original size:14 final size:14
Alignment explanation
Indices: 42307176--42307213 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
42307166 TTAGAAAAGT
*
42307176 AAATCATTTTCTAA
1 AAATCATTTTCAAA
42307190 AAATCATTTTTCAAA
1 AAATCA-TTTTCAAA
42307205 AAAT-ATTTT
1 AAATCATTTT
42307214 ACAGGCAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 4 0.18
14 7 0.32
15 11 0.50
ACGTcount: A:0.45, C:0.11, G:0.00, T:0.45
Consensus pattern (14 bp):
AAATCATTTTCAAA
Found at i:42307206 original size:15 final size:15
Alignment explanation
Indices: 42307176--42307213 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
42307166 TTAGAAAAGT
*
42307176 AAATCA-TTTTCTAA
1 AAATCATTTTTCAAA
42307190 AAATCATTTTTCAAA
1 AAATCATTTTTCAAA
42307205 AAAT-ATTTT
1 AAATCATTTT
42307214 ACAGGCAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.45, C:0.11, G:0.00, T:0.45
Consensus pattern (15 bp):
AAATCATTTTTCAAA
Found at i:42307410 original size:21 final size:21
Alignment explanation
Indices: 42307384--42307439 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
42307374 AACAGCGGTG
*
42307384 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
*
42307405 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
*
42307426 GCGATGAGATTAGA
1 GCGGTGAGATTAGA
42307440 AACAATGGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.27, C:0.09, G:0.36, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:42313911 original size:18 final size:20
Alignment explanation
Indices: 42313888--42313932 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 20
42313878 TAAGTTCGAG
42313888 TTTAAATTAATTT-TA-CTA
1 TTTAAATTAATTTATATCTA
*
42313906 TTTAAA-TAATTTATATCTT
1 TTTAAATTAATTTATATCTA
42313925 TTTAAATT
1 TTTAAATT
42313933 TTAAATGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 6 0.26
18 8 0.35
19 8 0.35
20 1 0.04
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTAAATTAATTTATATCTA
Found at i:42313930 original size:19 final size:17
Alignment explanation
Indices: 42313888--42313931 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 17
42313878 TAAGTTCGAG
42313888 TTTAAATTAATTTTACTA
1 TTTAAA-TAATTTTACTA
*
42313906 TTTAAATAATTTATATCTT
1 TTTAAATAATTT-TA-CTA
42313925 TTTAAAT
1 TTTAAAT
42313932 TTTAAATGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 6 0.26
18 8 0.35
19 9 0.39
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTAAATAATTTTACTA
Found at i:42316323 original size:251 final size:252
Alignment explanation
Indices: 42315755--42316505 Score: 1396
Period size: 251 Copynumber: 3.0 Consensus size: 252
42315745 ATGGTACAAA
*
42315755 TGACTTGTCTGAAATTATGAACTATCAACCTGGGAACAGAACTGCTACTTCTGTTCAAAGGCCAA
1 TGACTTGTCTGAAATTATGAACTATCTACCTGGGAACAGAACTGCTACTTCTGTTCAAAGGCCAA
* *
42315820 GTGCAACCACTATTTCATGAAAAAAGCATGCATCGTCCAAAAGATCTTCAAGAATTGAGGACTTG
66 GTGCAACCACTATTTCAGGAAAAAAGCATGCATCGTCCAAAAGTTCTTCAAGAATTGAGGACTTG
42315885 ATGAAAGTTATTAATAGAGAAAAGAACGATCCAACAGCAGGAGAAATGGCAGGTATTTTGCGTGA
131 ATGAAAGTTATTAATAGAGAAAAGAACGATCCAACAGCAGGAGAAATGGCAGGTATTTTGCGTGA
42315950 TAGTTTAGCATCAACTGAATCTTCGAAAGGGAACAAAATAGAGAAGGAAAAAAATAG
196 TAGTTTAGCATCAACTGAATCTTCGAAAGGGAACAAAATAGAGAAGGAAAAAAATAG
42316007 TGACTTGTCTGAAATTATGAACTATCTACCTGGGAACAGAACTGCTACTTCTGTTCAAAGGCCAA
1 TGACTTGTCTGAAATTATGAACTATCTACCTGGGAACAGAACTGCTACTTCTGTTCAAAGGCCAA
*
42316072 GTGCAACCACTATTTCAGGAAAAAAGCATGCATTGTCCAAAAGTTCTTCAAGAATTGAGGACTTG
66 GTGCAACCACTATTTCAGGAAAAAAGCATGCATCGTCCAAAAGTTCTTCAAGAATTGAGGACTTG
*
42316137 ATGAAAGTTATTAATAGAGAAAAGAGCGATCCAACAGCAGGAG-AATGGCAGGTATTTTGCGTGA
131 ATGAAAGTTATTAATAGAGAAAAGAACGATCCAACAGCAGGAGAAATGGCAGGTATTTTGCGTGA
42316201 TAGTTTAGCATCAACTGAATCTTCGAAAGGGAACAAAATAGAGAAGGAAAAAAATAG
196 TAGTTTAGCATCAACTGAATCTTCGAAAGGGAACAAAATAGAGAAGGAAAAAAATAG
42316258 TGACTTGTCTGAAATTATGAACTATCTACCTGGGAACAGAACTGCTACTTCTGTTCAAAGGCCAA
1 TGACTTGTCTGAAATTATGAACTATCTACCTGGGAACAGAACTGCTACTTCTGTTCAAAGGCCAA
* * *
42316323 GTGCAACCATTATTTCAGGAAAAAAGCATGCATCGTCCCAAAGTTTTTCAAGAATTGAGGACTTG
66 GTGCAACCACTATTTCAGGAAAAAAGCATGCATCGTCCAAAAGTTCTTCAAGAATTGAGGACTTG
*
42316388 ATGAAAGTTATTAATAGAGAAAAGAACGATCCAACAGCAGGAGAAATGGCAGGTATTTTGCATGA
131 ATGAAAGTTATTAATAGAGAAAAGAACGATCCAACAGCAGGAGAAATGGCAGGTATTTTGCGTGA
* *
42316453 TACTTTAGCACCAACTGAATCTTCGAAAGGGAACAAAATAGAGAAGGAAAAAA
196 TAGTTTAGCATCAACTGAATCTTCGAAAGGGAACAAAATAGAGAAGGAAAAAA
42316506 CCAAATCTCG
Statistics
Matches: 485, Mismatches: 13, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
251 246 0.51
252 239 0.49
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (252 bp):
TGACTTGTCTGAAATTATGAACTATCTACCTGGGAACAGAACTGCTACTTCTGTTCAAAGGCCAA
GTGCAACCACTATTTCAGGAAAAAAGCATGCATCGTCCAAAAGTTCTTCAAGAATTGAGGACTTG
ATGAAAGTTATTAATAGAGAAAAGAACGATCCAACAGCAGGAGAAATGGCAGGTATTTTGCGTGA
TAGTTTAGCATCAACTGAATCTTCGAAAGGGAACAAAATAGAGAAGGAAAAAAATAG
Found at i:42317516 original size:13 final size:13
Alignment explanation
Indices: 42317498--42317574 Score: 118
Period size: 13 Copynumber: 5.9 Consensus size: 13
42317488 AGTTCTTCAT
42317498 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
42317511 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
* *
42317524 TACTTTTCAGAAG
1 TGCTTTTGAGAAG
42317537 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
*
42317550 TGCTTTTCAGAAG
1 TGCTTTTGAGAAG
*
42317563 TGTTTTTGAGAA
1 TGCTTTTGAGAA
42317575 ATTTGAGTGT
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 57 1.00
ACGTcount: A:0.25, C:0.09, G:0.26, T:0.40
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:42322620 original size:15 final size:15
Alignment explanation
Indices: 42322573--42322612 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
42322563 TATAAGCAAC
42322573 AAAACATAGTAATTA
1 AAAACATAGTAATTA
* *
42322588 AAAAAATAATTAATTA
1 AAAACAT-AGTAATTA
42322604 AAAACATAG
1 AAAACATAG
42322613 CTATTAAATT
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.25
Consensus pattern (15 bp):
AAAACATAGTAATTA
Found at i:42322830 original size:19 final size:20
Alignment explanation
Indices: 42322806--42322843 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
42322796 TGAGCTGGTT
42322806 GGAGCTGAAA-TGAGCTAAG
1 GGAGCTGAAATTGAGCTAAG
42322825 GGAGCTGAAATTGAGCTAA
1 GGAGCTGAAATTGAGCTAA
42322844 AATCAGCTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.37, C:0.11, G:0.34, T:0.18
Consensus pattern (20 bp):
GGAGCTGAAATTGAGCTAAG
Found at i:42328526 original size:131 final size:130
Alignment explanation
Indices: 42328247--42328526 Score: 289
Period size: 131 Copynumber: 2.1 Consensus size: 130
42328237 TGTAACGACC
* * **
42328247 AAACAAGTTGTTGCTAAATGTTAAAATATTTGCAACAATCTTAAATTGTCGTTATGTAATTTAAT
1 AAACAAGTTGTTGTTAAATGTTAAAATATTAGCAACAATCTTAAATTGTCGTTACATAATTTAAT
* * * ** *
42328312 TTTATGCTTATTCATTGCAACGACAAATCGTGTTGTTGTGAATTTGTAATAAAATGTATAACAAC
66 TTTATACTTATTAATAGCAACGACAAATC-TGTCATTGTGAATTTGTAATAAAATGTACAACAAC
42328377 A
130 A
* * * * *
42328378 AAACAAGGTATTATTAAATGTTAAAATATTAGCAGCAA-CTTTGAAA-TGTTGTTACATAATTTA
1 AAACAAGTTGTTGTTAAATGTTAAAATATTAGCAACAATC-TT-AAATTGTCGTTACATAATTTA
* * *
42328441 ATTTTCTACTTATTAATAGCAATGACACAAAT-TGTCATTGTGAATTAT-TAATAAAATTTACAA
64 ATTTTATACTTATTAATAGCAACG--ACAAATCTGTCATTGTGAATT-TGTAATAAAATGTACAA
*
42328504 CGACA
126 CAACA
**
42328509 AAATTAGTTGTTGTTAAA
1 AAACAAGTTGTTGTTAAA
42328527 CCTTTAAATA
Statistics
Matches: 120, Mismatches: 24, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
130 1 0.01
131 109 0.91
132 4 0.03
133 6 0.05
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.38
Consensus pattern (130 bp):
AAACAAGTTGTTGTTAAATGTTAAAATATTAGCAACAATCTTAAATTGTCGTTACATAATTTAAT
TTTATACTTATTAATAGCAACGACAAATCTGTCATTGTGAATTTGTAATAAAATGTACAACAACA
Found at i:42330053 original size:24 final size:24
Alignment explanation
Indices: 42330019--42330071 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
42330009 TTTCTAGAAG
* **
42330019 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAACATAATAT
*
42330043 ATTTAGCATTTATTAACATAATAT
1 ATTTAGCATTTATGAACATAATAT
42330067 ATTTA
1 ATTTA
42330072 ACTTTGATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.49
Consensus pattern (24 bp):
ATTTAGCATTTATGAACATAATAT
Found at i:42330081 original size:24 final size:24
Alignment explanation
Indices: 42330036--42330081 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
42330026 ATTTATGAGT
*
42330036 ATAATATATTTAGCATTTATTAAC
1 ATAATATATTTAACATTTATTAAC
42330060 ATAATATATTTAAC-TTTGATTA
1 ATAATATATTTAACATTT-ATTA
42330082 GAATTAGGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.48
Consensus pattern (24 bp):
ATAATATATTTAACATTTATTAAC
Found at i:42332826 original size:79 final size:80
Alignment explanation
Indices: 42332736--42332920 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 80
42332726 AGTAACTCAT
* * *
42332736 ACAATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACGAATGCCTTCGG-GCTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTCGGAGCTTAACCCG
*
42332799 GA-ATTAGT-A-TCTCGC
65 GATA-TAGTCACT-TAGC
* **
42332814 ACAAAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCCG
1 ACAAA-GCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATGCCTTCGGAGCTTAACCCG
42332879 GATATAGTCACTTAGC
65 GATATAGTCACTTAGC
*
42332895 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
42332921 CAGCATTCAA
Statistics
Matches: 93, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
78 8 0.09
79 41 0.44
80 33 0.35
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATGCCTTCGGAGCTTAACCCGG
ATATAGTCACTTAGC
Done.