Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167849.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_12, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22966848
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 129000 characters in sequence are not A, C, G, or T
File 115 of 129
Found at i:19299032 original size:22 final size:21
Alignment explanation
Indices: 19298983--19299033 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
19298973 TTTATTATTC
**
19298983 TTTATATTATTTATTAATAGTG
1 TTTAT-TTATTTATTAATAGCA
19299005 TATTATTTATTTATATAATAGCA
1 T-TTATTTATTTAT-TAATAGCA
19299028 TTTATT
1 TTTATT
19299034 ACTATAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 14 0.56
23 11 0.44
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.59
Consensus pattern (21 bp):
TTTATTTATTTATTAATAGCA
Found at i:19299048 original size:18 final size:17
Alignment explanation
Indices: 19298986--19299050 Score: 60
Period size: 18 Copynumber: 3.6 Consensus size: 17
19298976 ATTATTCTTT
19298986 ATATTATTTATTA-ATA
1 ATATTATTTATTATATA
*
19299002 GTGTATTATTTATTTATATA
1 --ATATTATTTA-TTATATA
**
19299022 ATAGCATTTATTACTATA
1 ATATTATTTATTA-TATA
19299040 ATATTATTTAT
1 ATATTATTTAT
19299051 AAATAAAATT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
17 3 0.08
18 29 0.76
19 3 0.08
20 3 0.08
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.55
Consensus pattern (17 bp):
ATATTATTTATTATATA
Found at i:19299253 original size:14 final size:16
Alignment explanation
Indices: 19299234--19299267 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
19299224 TTAAAAATAA
19299234 AAAAATTAT-TTTT-C
1 AAAAATTATGTTTTGC
19299248 AAAAATTATGTTTTGC
1 AAAAATTATGTTTTGC
19299264 AAAA
1 AAAA
19299268 CAAATCGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.50
15 4 0.22
16 5 0.28
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (16 bp):
AAAAATTATGTTTTGC
Found at i:19301528 original size:17 final size:17
Alignment explanation
Indices: 19301506--19301546 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
19301496 CTAATTAATA
*
19301506 AATAAATA-ACTAAAATT
1 AATAAATACA-TAAAAAT
19301523 AATAAATACATAAAAAT
1 AATAAATACATAAAAAT
19301540 AATAAAT
1 AATAAAT
19301547 TTTATAAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 21 0.95
18 1 0.05
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (17 bp):
AATAAATACATAAAAAT
Found at i:19301553 original size:26 final size:27
Alignment explanation
Indices: 19301509--19301562 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
19301499 ATTAATAAAT
*
19301509 AAATAACTAAAATTAATAAATACATAA
1 AAATAACTAAAATTAATAAAGACATAA
* *
19301536 AAATAA-TAAATTTTATAAAGACATAA
1 AAATAACTAAAATTAATAAAGACATAA
19301562 A
1 A
19301563 TTATTAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 18 0.75
27 6 0.25
ACGTcount: A:0.65, C:0.06, G:0.02, T:0.28
Consensus pattern (27 bp):
AAATAACTAAAATTAATAAAGACATAA
Found at i:19301580 original size:19 final size:17
Alignment explanation
Indices: 19301536--19301585 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 17
19301526 AAATACATAA
19301536 AAAT-AATAAATTTTAT
1 AAATGAATAAATTTTAT
19301552 AAA-GACATAAATTATTAAT
1 AAATGA-ATAAATT-TT-AT
19301571 AAATGAATAAATTTT
1 AAATGAATAAATTTT
19301586 TCAAATAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
16 4 0.14
17 7 0.24
18 4 0.14
19 12 0.41
20 2 0.07
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (17 bp):
AAATGAATAAATTTTAT
Found at i:19303338 original size:5 final size:5
Alignment explanation
Indices: 19303330--19303356 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
19303320 AACTGTAAGG
19303330 TTATT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TT
19303357 TTGTTTCTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:19309672 original size:23 final size:23
Alignment explanation
Indices: 19309646--19309699 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
19309636 TGATTATAAT
* *
19309646 TTATTTATTGTTTATGAATATAC
1 TTATTTATTATTAATGAATATAC
**
19309669 TTATTTATTATTAATGAATATGT
1 TTATTTATTATTAATGAATATAC
19309692 TTATTTAT
1 TTATTTAT
19309700 ACATATTGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.31, C:0.02, G:0.07, T:0.59
Consensus pattern (23 bp):
TTATTTATTATTAATGAATATAC
Found at i:19310419 original size:69 final size:69
Alignment explanation
Indices: 19310308--19310445 Score: 240
Period size: 69 Copynumber: 2.0 Consensus size: 69
19310298 TATTATCTAC
* *
19310308 ATCATAATTTTTTAAAACATGTGCATCACGATCTTTAAATTATCGTAAGCCAACCCAACATACAA
1 ATCATAATTTTTTAAAACATGTACATCACGATCTTCAAATTATCGTAAGCCAACCCAACATACAA
19310373 AAAG
66 AAAG
* *
19310377 ATCATAATTTTTTAAAACATGTACATCATGATCTTCAAATTATCGTAAGCCAACCCAGCATACAA
1 ATCATAATTTTTTAAAACATGTACATCACGATCTTCAAATTATCGTAAGCCAACCCAACATACAA
19310442 AAAG
66 AAAG
19310446 GATACATGAG
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 65 1.00
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.29
Consensus pattern (69 bp):
ATCATAATTTTTTAAAACATGTACATCACGATCTTCAAATTATCGTAAGCCAACCCAACATACAA
AAAG
Found at i:19315956 original size:15 final size:14
Alignment explanation
Indices: 19315924--19315983 Score: 50
Period size: 14 Copynumber: 4.1 Consensus size: 14
19315914 CAATTTAATC
19315924 ATAAAAAATAATAA
1 ATAAAAAATAATAA
* *
19315938 ATAAAAACTTATAA
1 ATAAAAAATAATAA
*
19315952 GAT-AAATATAACTAA
1 -ATAAAAAATAA-TAA
19315967 ATAAATAAATAAATAA
1 ATAAA-AAAT-AATAA
19315983 A
1 A
19315984 AATACCCAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
14 19 0.54
15 7 0.20
16 7 0.20
17 2 0.06
ACGTcount: A:0.70, C:0.03, G:0.02, T:0.25
Consensus pattern (14 bp):
ATAAAAAATAATAA
Found at i:19319217 original size:145 final size:145
Alignment explanation
Indices: 19318924--19319416 Score: 466
Period size: 145 Copynumber: 3.4 Consensus size: 145
19318914 TTAAAACACT
** * * * * *
19318924 AAAAATCATGAAATATTATAGGATTATGATCTGAAAATTTTCGTTAAATTTCGAGCTCAAAAAGG
1 AAAAATCATGAAATATTATAAAATTAGGATCTAAAAAGTTTCATAAAATTTCGAGCTC-AAAAGG
* * ** * * *
19318989 -CTAAATTACTAAAATACC-CTTATGAGGGTATTTTAGTAATTTCATAC-TTCTTGGGGTACTAT
65 TC-AAATTACAAAAATACCATTTAAAAGGGTATTTTAGTAATTTCACACTTTC-TGGGATACTAC
19319051 TATAATTTCAAATACATC
128 TATAATTTCAAATACATC
* * * *
19319069 AAAATTTATGAAATATTATAAAATTAGGATCTAAAAATTTTCATAAAATTTTGAGCTCGAAAAGG
1 AAAAATCATGAAATATTATAAAATTAGGATCTAAAAAGTTTCATAAAATTTCGAGCTC-AAAAGG
*
19319134 TCAAATTACAAAAATACCATTTAAAAGGGTATTTTAATAATTTCACACTTTCTGGGATACTACTA
65 TCAAATTACAAAAATACCATTTAAAAGGGTATTTTAGTAATTTCACACTTTCTGGGATACTACTA
* *
19319199 TGATTTCCAACT-CA-C
130 TAATTT-CAAATACATC
* * * * *
19319214 AAAAAATCATGAAATATTACAAAAGT-GAGATCTAAAAAGTTTCA-AGAAATTCCAAGCTCATGA
1 -AAAAATCATGAAATATTATAAAATTAG-GATCTAAAAAGTTTCATA-AAATTTCGAGCTCA-AA
* * * * *
19319277 AGGTCAAATTACAATAATATCCATAT-AAA-GATATTTTAGTAATTTCACACTTTTTGGGATACC
62 AGGTCAAATTACAAAAATA-CCATTTAAAAGGGTATTTTAGTAATTTCACACTTTCTGGGATACT
* * *
19319340 GCTATAATTTTAAATGCATC
126 ACTATAATTTCAAATACATC
* * * * *
19319360 AAAAATCATGAAATATTATAAGATTAAGATATGAAAGGTTTCATAAAAATTT-GAGCT
1 AAAAATCATGAAATATTATAAAATTAGGATCTAAAAAGTTTCAT-AAAATTTCGAGCT
19319417 TAAGAAAATC
Statistics
Matches: 286, Mismatches: 48, Indels: 28
0.79 0.13 0.08
Matches are distributed among these distances:
144 3 0.01
145 153 0.53
146 117 0.41
147 13 0.05
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.34
Consensus pattern (145 bp):
AAAAATCATGAAATATTATAAAATTAGGATCTAAAAAGTTTCATAAAATTTCGAGCTCAAAAGGT
CAAATTACAAAAATACCATTTAAAAGGGTATTTTAGTAATTTCACACTTTCTGGGATACTACTAT
AATTTCAAATACATC
Found at i:19320258 original size:31 final size:30
Alignment explanation
Indices: 19320223--19320282 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
19320213 CTCTAAAGTT
**
19320223 TTTTTAATTTTTTGTTTTCTCATTTTTTTTG
1 TTTTTAATTTTTAATTTT-TCATTTTTTTTG
*
19320254 TTTTTAATTTTTAATTTTTTATTTTTTTT
1 TTTTTAATTTTTAATTTTTCATTTTTTTT
19320283 ATTAACAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 10 0.38
31 16 0.62
ACGTcount: A:0.13, C:0.03, G:0.03, T:0.80
Consensus pattern (30 bp):
TTTTTAATTTTTAATTTTTCATTTTTTTTG
Found at i:19320265 original size:17 final size:17
Alignment explanation
Indices: 19320230--19320265 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
19320220 GTTTTTTTAA
*
19320230 TTTTTTGTTTTCTCATT
1 TTTTTTGTTTTCTAATT
19320247 TTTTTTGTTTT-TAATT
1 TTTTTTGTTTTCTAATT
19320263 TTT
1 TTT
19320266 AATTTTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.08, C:0.06, G:0.06, T:0.81
Consensus pattern (17 bp):
TTTTTTGTTTTCTAATT
Found at i:19322552 original size:36 final size:30
Alignment explanation
Indices: 19322526--19322582 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
19322516 AGATAATCAC
* *
19322526 ATAATAATAAATAATTAT-AATAATTTATAA
1 ATAATAAT-AATAATAATAAATAATTTAGAA
*
19322556 ATAGTAATAATAATAATAAATAATTTA
1 ATAATAATAATAATAATAAATAATTTA
19322583 TAATATTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 8 0.33
30 16 0.67
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.39
Consensus pattern (30 bp):
ATAATAATAATAATAATAAATAATTTAGAA
Found at i:19322557 original size:20 final size:19
Alignment explanation
Indices: 19322526--19322587 Score: 79
Period size: 20 Copynumber: 3.2 Consensus size: 19
19322516 AGATAATCAC
19322526 ATAATAATAAATAATTATA
1 ATAATAATAAATAATTATA
* * *
19322545 ATAATTTATAAATAGTAATA
1 ATAA-TAATAAATAATTATA
19322565 ATAATAATAAATAATTTATA
1 ATAATAATAAATAA-TTATA
19322585 ATA
1 ATA
19322588 TTATAAACCA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
19 12 0.34
20 23 0.66
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.39
Consensus pattern (19 bp):
ATAATAATAAATAATTATA
Found at i:19322781 original size:20 final size:18
Alignment explanation
Indices: 19322738--19322783 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
19322728 AAATGTGTAA
*
19322738 ATAATAAAAAATTTTAAG
1 ATAATAAAAAATTTTAAC
*
19322756 ATAATAAAAAATATTTATC
1 ATAATAAAAAAT-TTTAAC
19322775 ATAAATAAA
1 AT-AATAAA
19322784 TTTTAAGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 12 0.50
19 6 0.25
20 6 0.25
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (18 bp):
ATAATAAAAAATTTTAAC
Found at i:19325570 original size:102 final size:102
Alignment explanation
Indices: 19324980--19325523 Score: 980
Period size: 102 Copynumber: 5.3 Consensus size: 102
19324970 ATCCTTGTTC
* * * *
19324980 TTGTGCAAGTAGAATGCAATTGAAGCATATTTATCTTCGAGCTCCTTAAAAAGCTGGGAAGGCAA
1 TTGTGCAAGTAGAATGGAAGTAAAGCATATTTGTCTTCGAGCTCCTTAAAAAGCTGGGAAGGCAA
* *
19325045 TTGAGAAGAAGGATTTTTCTCAACGGCGTCTTCATTT
66 TTGAGAAGAAGAATTTTTCTCAACGGCATCTTCATTT
*
19325082 TTGTGCAAGTAGAATGGAAGTAAACCATATTTGTCTTCGAGCTCCTTAAAAAGCTGGGAAGGCAA
1 TTGTGCAAGTAGAATGGAAGTAAAGCATATTTGTCTTCGAGCTCCTTAAAAAGCTGGGAAGGCAA
*
19325147 TTGAGAAGAAGAATTTTTCTCAACGGCGTCTTCATTT
66 TTGAGAAGAAGAATTTTTCTCAACGGCATCTTCATTT
19325184 TTGTGCAAGTAGAATGGAAGTAAAGCATATTTGTCTTCGAGCTCCTTAAAAAGCTGGGAAGGCAA
1 TTGTGCAAGTAGAATGGAAGTAAAGCATATTTGTCTTCGAGCTCCTTAAAAAGCTGGGAAGGCAA
*
19325249 TCGAGAAGAAGAATTTTTCTCAACGGCATCTTCATTT
66 TTGAGAAGAAGAATTTTTCTCAACGGCATCTTCATTT
19325286 TTGTGCAAGTAGAATGGAAGTAAAGCATATTTGTCTTCGAGCTCCTTAAAAAGCTGGGAAGGCAA
1 TTGTGCAAGTAGAATGGAAGTAAAGCATATTTGTCTTCGAGCTCCTTAAAAAGCTGGGAAGGCAA
*
19325351 TCGAGAAGAAGAATTTTTCTCAACGGCATCTTCATTT
66 TTGAGAAGAAGAATTTTTCTCAACGGCATCTTCATTT
19325388 TTGTGCAAGTAGAATGGAAGTAAAGCATATTTGTCTTCGAGCTCCTTAAAAAGCTGGGAAGGCAA
1 TTGTGCAAGTAGAATGGAAGTAAAGCATATTTGTCTTCGAGCTCCTTAAAAAGCTGGGAAGGCAA
*
19325453 TTGAGAAGAAGGATTTTTCTCAACGGCATCTTCATTT
66 TTGAGAAGAAGAATTTTTCTCAACGGCATCTTCATTT
*
19325490 TTGTGCAAGTAGAATGGAAATAAAGCATATTTGT
1 TTGTGCAAGTAGAATGGAAGTAAAGCATATTTGT
19325524 TCTCAAAATT
Statistics
Matches: 430, Mismatches: 12, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
102 430 1.00
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (102 bp):
TTGTGCAAGTAGAATGGAAGTAAAGCATATTTGTCTTCGAGCTCCTTAAAAAGCTGGGAAGGCAA
TTGAGAAGAAGAATTTTTCTCAACGGCATCTTCATTT
Found at i:19326907 original size:15 final size:16
Alignment explanation
Indices: 19326874--19326918 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
19326864 TTAATTTAAT
19326874 AAAAAAAATTAAAATTA
1 AAAAAAAATT-AAATTA
*
19326891 AAAAAAAATTATA-TA
1 AAAAAAAATTAAATTA
*
19326906 AAAATAAATTAAA
1 AAAAAAAATTAAA
19326919 ATAATTAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 13 0.52
16 2 0.08
17 10 0.40
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAAAAAATTAAATTA
Found at i:19327569 original size:18 final size:20
Alignment explanation
Indices: 19327542--19327579 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
19327532 GCATTGCGCG
19327542 AAAATATAATTAT-ATATAA
1 AAAATATAATTATAATATAA
19327561 AAAAT-TAATTATAATATAA
1 AAAATATAATTATAATATAA
19327580 TTAATAACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
AAAATATAATTATAATATAA
Found at i:19328053 original size:42 final size:43
Alignment explanation
Indices: 19327971--19328055 Score: 120
Period size: 42 Copynumber: 2.0 Consensus size: 43
19327961 CCTCGTAATC
*
19327971 GTAAAAAAGTAGGTTTGTTCTGCAATGGGCCTAGCACATGAAA
1 GTAAAAAAGTAGGTTTGTTCTGCAACGGGCCTAGCACATGAAA
* *
19328014 GTAAGAAAGTAGGTTT-TT-TAGCAACGGGCCTAGCGCATGAAA
1 GTAAAAAAGTAGGTTTGTTCT-GCAACGGGCCTAGCACATGAAA
19328056 ACAATTTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
41 1 0.03
42 22 0.58
43 15 0.39
ACGTcount: A:0.34, C:0.14, G:0.27, T:0.25
Consensus pattern (43 bp):
GTAAAAAAGTAGGTTTGTTCTGCAACGGGCCTAGCACATGAAA
Found at i:19330501 original size:23 final size:24
Alignment explanation
Indices: 19330458--19330507 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
19330448 TTCTCTTTTC
*
19330458 TTCAATAAAAAAATAAAAATAATAT
1 TTCAATAAAAAAAT-AAAATAAAAT
*
19330483 TTCAATAAAAAAAT-CAATAAAAT
1 TTCAATAAAAAAATAAAATAAAAT
19330506 TT
1 TT
19330508 TTAAAGGAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 9 0.39
25 14 0.61
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
TTCAATAAAAAAATAAAATAAAAT
Found at i:19333458 original size:60 final size:59
Alignment explanation
Indices: 19333384--19333740 Score: 325
Period size: 60 Copynumber: 6.0 Consensus size: 59
19333374 TCAATGATCT
* * *
19333384 CTTTAAAATGAAAATTTGAAAAAAATATTTTTTGAAGG-ACAGTTGAATGTATCAATTTC
1 CTTTAAAATAAAAATTTGAAAAAAATA-TTTTTGAAGGAAAAGTTGAAAGTATCAATTTC
*
19333443 CTTTAAACATAAAAATTT-TAAAAAATATTTTTG-AGGAAAAGTTGAAAGTATCAATTTCC
1 CTTTAAA-ATAAAAATTTGAAAAAAATATTTTTGAAGGAAAAGTTGAAAGTATCAATTT-C
* * *
19333502 CTTGAAAATAAAAATTTTTAAAAAAATATTTTT-AAGGAAAAATTGAAAGTATCAATTTTC
1 CTTTAAAATAAAAA-TTTGAAAAAAATATTTTTGAAGGAAAAGTTGAAAGTATCAA-TTTC
* * * ***
19333562 TTTTTAAAAATAAAGATTTGAATAAGGGATTTTT-AAGGAAAAGTTGAAAGTATCAATTTTC
1 -CTTT-AAAATAAAAATTTGAAAAAAATATTTTTGAAGGAAAAGTTGAAAGTATCAA-TTTC
* * * * * * ** *
19333623 CTTGACAATAAAATTTTTAAAAAAACATTTTTTG-AGGAAAAGTTGGAAGTAAAAATTTTT
1 CTTTAAAATAAAAATTTGAAAAAAATA-TTTTTGAAGGAAAAGTTGAAAGTATCAA-TTTC
* * *
19333683 CTTAAAAAT-AAAATTTGAAAAAAAAATATTTTT-AAAGAAAAGTTGAAAGTATTAATTT
1 CTTTAAAATAAAAATTTG--AAAAAAATATTTTTGAAGGAAAAGTTGAAAGTATCAATTT
19333741 TTCTTGTATA
Statistics
Matches: 245, Mismatches: 39, Indels: 28
0.79 0.12 0.09
Matches are distributed among these distances:
57 3 0.01
58 31 0.13
59 49 0.20
60 101 0.41
61 52 0.21
62 9 0.04
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.36
Consensus pattern (59 bp):
CTTTAAAATAAAAATTTGAAAAAAATATTTTTGAAGGAAAAGTTGAAAGTATCAATTTC
Found at i:19333626 original size:121 final size:118
Alignment explanation
Indices: 19333388--19333746 Score: 395
Period size: 120 Copynumber: 3.0 Consensus size: 118
19333378 TGATCTCTTT
* * * *
19333388 AAAATGAAAA-TTTGAAAAAAATATTTTTTGAAGG-ACAGTTGAATGTATCAATTTC-CTTTAAA
1 AAAAT-AAAATTTTTAAAAAAATATTTTTT-AAGGAAAAGTTGAAAGTATCAATTTCTTTTTAAA
* * * *
19333450 CATAAAAATTTTAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTCCCTTG
64 AAT-AAAATTTGAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTG
*
19333506 AAAATAAAAATTTTTAAAAAAATA-TTTTTAAGGAAAAATTGAAAGTATCAATTTTCTTTTTAAA
1 AAAAT-AAAATTTTTAAAAAAATATTTTTTAAGGAAAAGTTGAAAGTATCAA-TTTCTTTTTAAA
***
19333570 AATAAAGATTTGAATAAGGGATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTG
64 AATAAA-ATTTGAA-AAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTG
* * * * ** *
19333627 ACAATAAAATTTTTAAAAAAACATTTTTTGAGGAAAAGTTGGAAGTAAAAATTT-TTCTTAAAAA
1 AAAATAAAATTTTTAAAAAAATATTTTTTAAGGAAAAGTTGAAAGTATCAATTTCTTTTTAAAAA
* * *
19333691 TAAAATTTGAAAAAAAAATATTTTTAAAGAAAAGTTGAAAGTATTAATTTTTCTTG
66 TAAAATTTG---AAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTG
19333747 TATAAAAGCA
Statistics
Matches: 204, Mismatches: 27, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
117 4 0.02
118 33 0.16
119 32 0.16
120 70 0.34
121 65 0.32
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.36
Consensus pattern (118 bp):
AAAATAAAATTTTTAAAAAAATATTTTTTAAGGAAAAGTTGAAAGTATCAATTTCTTTTTAAAAA
TAAAATTTGAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTG
Found at i:19337897 original size:11 final size:11
Alignment explanation
Indices: 19337881--19337951 Score: 58
Period size: 12 Copynumber: 6.4 Consensus size: 11
19337871 TTAATAGATG
19337881 AAAAAAGATAA
1 AAAAAAGATAA
*
19337892 AAAAAAGAGAAA
1 AAAAAAGA-TAA
19337904 AAAAAAGA-AA
1 AAAAAAGATAA
19337914 AAAAAAGGA-AA
1 AAAAAA-GATAA
*
19337925 AATAAAAAATAA
1 AA-AAAAGATAA
*
19337937 TGAAAAA-ATAA
1 -AAAAAAGATAA
19337948 AAAA
1 AAAA
19337952 TAAAAAAGAG
Statistics
Matches: 51, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
10 11 0.22
11 19 0.37
12 20 0.39
13 1 0.02
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (11 bp):
AAAAAAGATAA
Found at i:19337907 original size:23 final size:22
Alignment explanation
Indices: 19337881--19337936 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 22
19337871 TTAATAGATG
19337881 AAAAAAGATAAAAAAAAGAGAAA
1 AAAAAAGATAAAAAAAAG-GAAA
19337904 AAAAAAGA-AAAAAAAAGGAAA
1 AAAAAAGATAAAAAAAAGGAAA
*
19337925 AATAAAAAATAA
1 AA-AAAAGATAA
19337937 TGAAAAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 6 0.20
22 14 0.47
23 10 0.33
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.05
Consensus pattern (22 bp):
AAAAAAGATAAAAAAAAGGAAA
Found at i:19337918 original size:10 final size:10
Alignment explanation
Indices: 19337890--19337971 Score: 62
Period size: 10 Copynumber: 8.2 Consensus size: 10
19337880 GAAAAAAGAT
19337890 AAAAAAAAGAG
1 AAAAAAAA-AG
19337901 AAAAAAAAAG
1 AAAAAAAAAG
19337911 AAAAAAAAAG
1 AAAAAAAAAG
* *
19337921 -GAAAAATA-
1 AAAAAAAAAG
* *
19337929 AAAAATAATG
1 AAAAAAAAAG
19337939 AAAAAATAAA-
1 AAAAAA-AAAG
19337949 AAATAAAAAAG
1 AAA-AAAAAAG
* *
19337960 AGAGAAAAAG
1 AAAAAAAAAG
19337970 AA
1 AA
19337972 GACTCAAATT
Statistics
Matches: 55, Mismatches: 11, Indels: 11
0.71 0.14 0.14
Matches are distributed among these distances:
9 10 0.18
10 30 0.55
11 15 0.27
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:19337925 original size:17 final size:17
Alignment explanation
Indices: 19337905--19337943 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
19337895 AAAGAGAAAA
19337905 AAAAAGAAAAAAAAAGG
1 AAAAAGAAAAAAAAAGG
* * *
19337922 AAAAATAAAAAATAATG
1 AAAAAGAAAAAAAAAGG
19337939 AAAAA
1 AAAAA
19337944 ATAAAAAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.82, C:0.00, G:0.10, T:0.08
Consensus pattern (17 bp):
AAAAAGAAAAAAAAAGG
Found at i:19337952 original size:18 final size:18
Alignment explanation
Indices: 19337904--19337955 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
19337894 AAAAGAGAAA
*
19337904 AAAAAAGAAAAAA-AAAG
1 AAAAAATAAAAAATAAAG
* *
19337921 GAAAAATAAAAAATAATG
1 AAAAAATAAAAAATAAAG
19337939 AAAAAATAAAAAATAAA
1 AAAAAATAAAAAATAAA
19337956 AAAGAGAGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 11 0.38
18 18 0.62
ACGTcount: A:0.83, C:0.00, G:0.08, T:0.10
Consensus pattern (18 bp):
AAAAAATAAAAAATAAAG
Found at i:19338797 original size:23 final size:23
Alignment explanation
Indices: 19338766--19338809 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
19338756 GAAGCCTCAA
*
19338766 AATGGTGATCAAG-TGATGAAAAT
1 AATGATGATC-AGTTGATGAAAAT
19338789 AATGATGATCAGTTGATGAAA
1 AATGATGATCAGTTGATGAAA
19338810 CTTGTTTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.43, C:0.05, G:0.25, T:0.27
Consensus pattern (23 bp):
AATGATGATCAGTTGATGAAAAT
Found at i:19339146 original size:21 final size:21
Alignment explanation
Indices: 19339122--19339224 Score: 102
Period size: 21 Copynumber: 5.0 Consensus size: 21
19339112 ATTTTTTAGT
19339122 TCTCAAATGAAAATATTTGAA
1 TCTCAAATGAAAATATTTGAA
*
19339143 TCTCAAATGAGAATATTTGAA
1 TCTCAAATGAAAATATTTGAA
* * *
19339164 TTTCAAAT-ATAAAT-CTTCAA
1 TCTCAAATGA-AAATATTTGAA
* *
19339184 ACTCAAATGAAAATTTTTGAA
1 TCTCAAATGAAAATATTTGAA
* * *
19339205 TTTCAAATGAGAATCTTTGA
1 TCTCAAATGAAAATATTTGA
19339225 GGTGTGAAAC
Statistics
Matches: 66, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
20 15 0.23
21 51 0.77
ACGTcount: A:0.44, C:0.11, G:0.10, T:0.36
Consensus pattern (21 bp):
TCTCAAATGAAAATATTTGAA
Found at i:19339270 original size:79 final size:79
Alignment explanation
Indices: 19339169--19339394 Score: 326
Period size: 79 Copynumber: 2.9 Consensus size: 79
19339159 TTGAATTTCA
* * *
19339169 AATATAAATCTTCAAACTCAAATGAAAATTTTTGAATTTCAAATGAGAATCTTTGAGGTGTGAAA
1 AATATAAATCTTCAAACTCAAATGAGAATCTTTGAGTTTCAAATGAGAATCTTTGAGGTGTGAAA
*
19339234 CCTAAAATTTATCG
66 CCCAAAATTTATCG
* ** *
19339248 AATATAAATATTTGAACTCAAATGAGAATCTTTGAGTTTCAAATGAGAATCTTTGAGATGTGAAA
1 AATATAAATCTTCAAACTCAAATGAGAATCTTTGAGTTTCAAATGAGAATCTTTGAGGTGTGAAA
*
19339313 CCCAAAATTTATTG
66 CCCAAAATTTATCG
* * * * *
19339327 AATGTGAATCTTCAAACTCAAATGAGAATCTTTGAGTTTCAAATAAGGATCTTTAAGGTGTGAAA
1 AATATAAATCTTCAAACTCAAATGAGAATCTTTGAGTTTCAAATGAGAATCTTTGAGGTGTGAAA
19339392 CCC
66 CCC
19339395 TAATGTTCAT
Statistics
Matches: 129, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
79 129 1.00
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (79 bp):
AATATAAATCTTCAAACTCAAATGAGAATCTTTGAGTTTCAAATGAGAATCTTTGAGGTGTGAAA
CCCAAAATTTATCG
Found at i:19339290 original size:21 final size:21
Alignment explanation
Indices: 19339265--19339304 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
19339255 ATATTTGAAC
19339265 TCAAATGAGAATCTTTGAGTT
1 TCAAATGAGAATCTTTGAGTT
19339286 TCAAATGAGAATCTTTGAG
1 TCAAATGAGAATCTTTGAG
19339305 ATGTGAAACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.35
Consensus pattern (21 bp):
TCAAATGAGAATCTTTGAGTT
Found at i:19339476 original size:29 final size:31
Alignment explanation
Indices: 19339432--19339494 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 31
19339422 ACTAGAATGA
*
19339432 AAAGTTTTAAAC-TTTTGGATATGAATCTTC
1 AAAGTTTTAAACTTTTTGGATATGAATCTCC
* *
19339462 AAAG-TTTGAACTTTTTGGATGTGAATCTCC
1 AAAGTTTTAAACTTTTTGGATATGAATCTCC
19339492 AAA
1 AAA
19339495 ATTCAAATGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 6 0.21
30 23 0.79
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.40
Consensus pattern (31 bp):
AAAGTTTTAAACTTTTTGGATATGAATCTCC
Found at i:19339864 original size:41 final size:41
Alignment explanation
Indices: 19339738--19340008 Score: 319
Period size: 41 Copynumber: 6.5 Consensus size: 41
19339728 GATCATCAAT
* * *
19339738 GAGC-ATTTATTTTTCAACGTTGTGATTGCCTCTGTTTAGAG
1 GAGCAATTTATTTTTCAAAGTTGTG-GTGCCTCTATTTAGAG
*
19339779 GAGCAATTTATTTTTTCAAAGTTATGGTTGCCTCTATTTAGAG
1 GAGCAATTTA-TTTTTCAAAGTTGTGG-TGCCTCTATTTAGAG
* *
19339822 GAGTAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAG
1 GAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTATTTAGAG
** * *
19339863 GAGCAATTTATTTTTCAAAGTTACGATTGCCTCTATTTAAAG
1 GAGCAATTTATTTTTCAAAGTTGTG-GTGCCTCTATTTAGAG
* *
19339905 GAACAATTTATTTTTTCAAAGTCGTGGTGCCTCTATTTAGAG
1 GAGCAATTTA-TTTTTCAAAGTTGTGGTGCCTCTATTTAGAG
* * * * *
19339947 AAGCAATTTATTTTTCAAAGTTGAGGCGCCTTTGTTTAGAG
1 GAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTATTTAGAG
*
19339988 GAGCATTTTATTTTTTCAAAG
1 GAGCAATTTA-TTTTTCAAAG
19340009 GAGAAGCAAT
Statistics
Matches: 196, Mismatches: 28, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
41 74 0.38
42 74 0.38
43 48 0.24
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.42
Consensus pattern (41 bp):
GAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTATTTAGAG
Found at i:19339920 original size:84 final size:83
Alignment explanation
Indices: 19339742--19339968 Score: 337
Period size: 84 Copynumber: 2.7 Consensus size: 83
19339732 ATCAATGAGC
* * * *
19339742 ATTTATTTTTCAACGTTGTGATTGCCTCTGTTTAGAGGAGCAATTTATTTTTTCAAAGTTATGGT
1 ATTTATTTTTCAAAGTTGTG-GTGCCTCTGTTTAGAGGAGCAATTTA-TTTTTCAAAGTTACGAT
* **
19339807 TGCCTCTATTTAGAGGAGTA
64 TGCCTCTATTTAAAGGAACA
19339827 ATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTACGATTG
1 ATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTACGATTG
19339892 CCTCTATTTAAAGGAACA
66 CCTCTATTTAAAGGAACA
* * *
19339910 ATTTATTTTTTCAAAGTCGTGGTGCCTCTATTTAGAGAAGCAATTTATTTTTCAAAGTT
1 ATTTA-TTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTT
19339969 GAGGCGCCTT
Statistics
Matches: 131, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
83 37 0.28
84 75 0.57
85 19 0.15
ACGTcount: A:0.26, C:0.12, G:0.18, T:0.44
Consensus pattern (83 bp):
ATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTACGATTG
CCTCTATTTAAAGGAACA
Found at i:19340003 original size:84 final size:83
Alignment explanation
Indices: 19339738--19340008 Score: 334
Period size: 84 Copynumber: 3.3 Consensus size: 83
19339728 GATCATCAAT
* * *
19339738 GAGC-ATTTA-TTTTTCAACGTTGTGATTGCCTCTGTTTAGAGGAGCAATTTATTTTTTCAAAGT
1 GAGCAATTTATTTTTTCAAAGTCGTG-GTGCCTCTGTTTAGAGGAGCAATTTA-TTTTTCAAAGT
*
19339801 TATGGTTGCCTCTATTTAGAG
64 TACGG-TGCCTCTATTTAGAG
* *
19339822 GAGTAATTTA-TTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTA
1 GAGCAATTTATTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTA
* *
19339886 CGATTGCCTCTATTTAAAG
66 CG-GTGCCTCTATTTAGAG
* * *
19339905 GAACAATTTATTTTTTCAAAGTCGTGGTGCCTCTATTTAGAGAAGCAATTTATTTTTCAAAGTTG
1 GAGCAATTTATTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTT-
* * *
19339970 A-GGCGCCTTTGTTTAGAG
65 ACGGTGCCTCTATTTAGAG
*
19339988 GAGCATTTTATTTTTTCAAAG
1 GAGCAATTTATTTTTTCAAAG
19340009 GAGAAGCAAT
Statistics
Matches: 165, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
83 66 0.40
84 79 0.48
85 20 0.12
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.42
Consensus pattern (83 bp):
GAGCAATTTATTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTA
CGGTGCCTCTATTTAGAG
Found at i:19343450 original size:16 final size:16
Alignment explanation
Indices: 19343425--19343455 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19343415 TATTATTTAT
19343425 TTTTAATTTATTTTTG
1 TTTTAATTTATTTTTG
*
19343441 TTTTATTTTATTTTT
1 TTTTAATTTATTTTT
19343456 AAAGTTTATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.81
Consensus pattern (16 bp):
TTTTAATTTATTTTTG
Found at i:19344672 original size:30 final size:31
Alignment explanation
Indices: 19344630--19344687 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
19344620 TATTTGGATA
* *
19344630 GATAATTTTTTTTGGCGAAAAATAAATTTAT
1 GATAATTTTTTTTAGCAAAAAATAAATTTAT
19344661 GATAA-TTTTTTTAGCAAAAAATAAATT
1 GATAATTTTTTTTAGCAAAAAATAAATT
19344688 AATAAGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.43, C:0.03, G:0.10, T:0.43
Consensus pattern (31 bp):
GATAATTTTTTTTAGCAAAAAATAAATTTAT
Found at i:19345977 original size:30 final size:30
Alignment explanation
Indices: 19345941--19345997 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
19345931 TATTTGGATA
* *
19345941 GATAATTTTTTTGGCGAAAAATAAATTTAT
1 GATAATTTTTTTAGCAAAAAATAAATTTAT
19345971 GATAATTTTTTTAGCAAAAAATAAATT
1 GATAATTTTTTTAGCAAAAAATAAATT
19345998 AATAAGAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.44, C:0.04, G:0.11, T:0.42
Consensus pattern (30 bp):
GATAATTTTTTTAGCAAAAAATAAATTTAT
Found at i:19346230 original size:36 final size:37
Alignment explanation
Indices: 19346167--19346236 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
19346157 ATTTTTTATG
*
19346167 ATAATTTTTAATATTAAAAAATAAAAAATTTTAAAAT
1 ATAATTTTAAATATTAAAAAATAAAAAATTTTAAAAT
19346204 ATAATTTTGAAATA-TAAAAAAT-AAAAATTTTAA
1 ATAATTTT-AAATATTAAAAAATAAAAAATTTTAA
19346237 GACGTTAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
36 11 0.35
37 16 0.52
38 4 0.13
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (37 bp):
ATAATTTTAAATATTAAAAAATAAAAAATTTTAAAAT
Found at i:19347799 original size:30 final size:30
Alignment explanation
Indices: 19347763--19347849 Score: 165
Period size: 30 Copynumber: 2.9 Consensus size: 30
19347753 TATTTGGATA
*
19347763 GATAATTTTTTTGGCGAAAAATAAATTTAT
1 GATAATTTTTTTGGCAAAAAATAAATTTAT
19347793 GATAATTTTTTTGGCAAAAAATAAATTTAT
1 GATAATTTTTTTGGCAAAAAATAAATTTAT
19347823 GATAATTTTTTTGGCAAAAAATAAATT
1 GATAATTTTTTTGGCAAAAAATAAATT
19347850 AATAAGAAAA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 56 1.00
ACGTcount: A:0.43, C:0.03, G:0.11, T:0.43
Consensus pattern (30 bp):
GATAATTTTTTTGGCAAAAAATAAATTTAT
Found at i:19348087 original size:36 final size:37
Alignment explanation
Indices: 19348023--19348093 Score: 110
Period size: 37 Copynumber: 1.9 Consensus size: 37
19348013 ATTAAAGTTT
*
19348023 TATAATTTTTAATATTAAAAAATAAAAAATTTTAAAA
1 TATAATTTTAAATATTAAAAAATAAAAAATTTTAAAA
19348060 TATAATTTTGAAATA-TAAAAAAT-AAAAATTTTAA
1 TATAATTTT-AAATATTAAAAAATAAAAAATTTTAA
19348094 GACGTTAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
36 11 0.34
37 17 0.53
38 4 0.12
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.39
Consensus pattern (37 bp):
TATAATTTTAAATATTAAAAAATAAAAAATTTTAAAA
Found at i:19349165 original size:30 final size:30
Alignment explanation
Indices: 19349129--19349185 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
19349119 TATTTGGATA
*
19349129 GATAATTTTTTTGGCGAAAAATAAATTTAT
1 GATAATTTTTTTGGCAAAAAATAAATTTAT
19349159 GATAATTTTTTTGGCAAAAAATAAATT
1 GATAATTTTTTTGGCAAAAAATAAATT
19349186 AATAAGAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.42, C:0.04, G:0.12, T:0.42
Consensus pattern (30 bp):
GATAATTTTTTTGGCAAAAAATAAATTTAT
Found at i:19349385 original size:37 final size:36
Alignment explanation
Indices: 19349355--19349424 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 36
19349345 ATTTTTTATG
*
19349355 ATAATTTT-TAATATTAAAAAATAAAAAATTTTAAAAC
1 ATAATTTTGAAATA-TAAAAAAT-AAAAATTTTAAAAC
19349392 ATAATTTTGAAATATAAAAAATAAAAATTTTAA
1 ATAATTTTGAAATATAAAAAATAAAAATTTTAA
19349425 GACGTTAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
36 11 0.35
37 16 0.52
38 4 0.13
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (36 bp):
ATAATTTTGAAATATAAAAAATAAAAATTTTAAAAC
Found at i:19350048 original size:24 final size:24
Alignment explanation
Indices: 19349992--19350050 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 24
19349982 TCAAACCCCA
* **
19349992 TTTTTTTCTTTTCTGATTCTGACT
1 TTTTTTTTTTTTCTGAAACTGACT
** *
19350016 TCCTCTTTTTTTCTGAAACTGACT
1 TTTTTTTTTTTTCTGAAACTGACT
19350040 TTTTTTTTTTT
1 TTTTTTTTTTT
19350051 GTATAAGAAC
Statistics
Matches: 26, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.10, C:0.17, G:0.07, T:0.66
Consensus pattern (24 bp):
TTTTTTTTTTTTCTGAAACTGACT
Found at i:19350506 original size:30 final size:30
Alignment explanation
Indices: 19350470--19350526 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
19350460 TATTTGGATA
*
19350470 GATAATTTTTTTGGCGAAAAATAAATTTAT
1 GATAATTTTTTTGGCAAAAAATAAATTTAT
19350500 GATAATTTTTTTGGCAAAAAATAAATT
1 GATAATTTTTTTGGCAAAAAATAAATT
19350527 AATAAGAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.42, C:0.04, G:0.12, T:0.42
Consensus pattern (30 bp):
GATAATTTTTTTGGCAAAAAATAAATTTAT
Found at i:19351984 original size:24 final size:27
Alignment explanation
Indices: 19351960--19352016 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 27
19351950 TTTGAATAAA
19351960 AATTATATATAAATTTGATAAAAAAATT
1 AATTA-ATATAAATTTGATAAAAAAATT
19351988 AAATTTAATATAAATTTGATAAAAAAATT
1 -AA-TTAATATAAATTTGATAAAAAAATT
19352017 TCAGATTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 24 0.89
30 3 0.11
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.39
Consensus pattern (27 bp):
AATTAATATAAATTTGATAAAAAAATT
Found at i:19352017 original size:24 final size:25
Alignment explanation
Indices: 19351947--19352017 Score: 74
Period size: 29 Copynumber: 2.8 Consensus size: 25
19351937 ATTTCATTTA
*
19351947 AAATTTGA-ATAAAAA-TTATATAT
1 AAATTTGATAAAAAAATTTATATAT
*
19351970 AAATTTGATAAAAAAATTAAATTTAATAT
1 AAATTTGATAAAAAAATT---TAT-ATAT
19351999 AAATTTGATAAAAAAATTT
1 AAATTTGATAAAAAAATTT
19352018 CAGATTTAAG
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
23 8 0.20
24 6 0.15
25 1 0.03
26 1 0.03
28 2 0.05
29 22 0.55
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (25 bp):
AAATTTGATAAAAAAATTTATATAT
Found at i:19352228 original size:16 final size:16
Alignment explanation
Indices: 19352181--19352232 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
19352171 TTCTTTTGGC
*
19352181 AAAAAATAAAT-TAAT
1 AAAAAATATATATAAT
* *
19352196 AAGAAAA-ATAAAAAAT
1 AA-AAAATATATATAAT
19352212 AAAAAATATATATAAT
1 AAAAAATATATATAAT
19352228 AAAAA
1 AAAAA
19352233 CTTATATTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
15 8 0.28
16 21 0.72
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (16 bp):
AAAAAATATATATAAT
Found at i:19352243 original size:16 final size:17
Alignment explanation
Indices: 19352209--19352249 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
19352199 AAAAATAAAA
19352209 AATAAAAA-ATATATAT
1 AATAAAAACATATATAT
*
19352225 AATAAAAACTTATAT-T
1 AATAAAAACATATATAT
*
19352241 AATGAAAAC
1 AATAAAAAC
19352250 CGAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 17 0.77
17 5 0.23
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.29
Consensus pattern (17 bp):
AATAAAAACATATATAT
Found at i:19352437 original size:23 final size:23
Alignment explanation
Indices: 19352373--19352437 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 23
19352363 ATTTTATAAT
*
19352373 TTTTAATATTTAAATATAAAAAA
1 TTTTAATATTTAAAAATAAAAAA
* * *
19352396 TTTTAAAATATAAAAAAATAAAAA
1 TTTTAATATTTAAAAATA-AAAAA
19352420 TTTTAGATATTTAAAAAT
1 TTTTA-ATATTTAAAAAT
19352438 TTTTTTAATA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
23 14 0.42
24 10 0.30
25 9 0.27
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (23 bp):
TTTTAATATTTAAAAATAAAAAA
Found at i:19352771 original size:50 final size:50
Alignment explanation
Indices: 19352666--19352788 Score: 135
Period size: 50 Copynumber: 2.5 Consensus size: 50
19352656 TAATATTATT
* * * * * *
19352666 TTAAATATTAAATTT--AAAATTAATTGATAATAATTAAAAATATTTAAT
1 TTAAATATAAAATTTAAAAAATTAAATGATAATAAGTAAAAAGATCTAAC
* *
19352714 TTGAATATAAAATTATAAAAAATTAAAT-ATAATAAGTGAAAAGATCTAAC
1 TTAAATATAAAATT-TAAAAAATTAAATGATAATAAGTAAAAAGATCTAAC
19352764 TTAAATATAAAATTTTAAAAAATTA
1 TTAAATATAAAA-TTTAAAAAATTA
19352789 TATAATTATT
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
48 12 0.19
49 1 0.02
50 38 0.61
51 11 0.18
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (50 bp):
TTAAATATAAAATTTAAAAAATTAAATGATAATAAGTAAAAAGATCTAAC
Found at i:19353197 original size:10 final size:10
Alignment explanation
Indices: 19353139--19353196 Score: 100
Period size: 10 Copynumber: 5.9 Consensus size: 10
19353129 ATATAAAAAT
19353139 ATTATTTTTA
1 ATTATTTTTA
19353149 ATTATTTTTA
1 ATTATTTTTA
19353159 ATTATTTTTA
1 ATTATTTTTA
19353169 ATTATTTTTA
1 ATTATTTTTA
*
19353179 ATTTTTTTTA
1 ATTATTTTTA
19353189 ATT-TTTTT
1 ATTATTTTT
19353197 TCTTTCAAGC
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
9 5 0.11
10 42 0.89
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (10 bp):
ATTATTTTTA
Found at i:19364494 original size:20 final size:21
Alignment explanation
Indices: 19364465--19364504 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
19364455 TACTTTGGTA
19364465 TTATTATT-AAGTTTATTTTT
1 TTATTATTAAAGTTTATTTTT
*
19364485 TTATTTTTAAAGTTTATTTT
1 TTATTATTAAAGTTTATTTT
19364505 AAAAATTAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (21 bp):
TTATTATTAAAGTTTATTTTT
Found at i:19365696 original size:21 final size:19
Alignment explanation
Indices: 19365672--19365718 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 19
19365662 CCTTTTTCAT
19365672 TTTTTTCTTTTTTGTTATTTC
1 TTTTTT-TTTTTTGTT-TTTC
*
19365693 TTTTTGTTTTTTTGTTTTTG
1 TTTTT-TTTTTTTGTTTTTC
19365713 TTTTTT
1 TTTTTT
19365719 GTATTTTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 1 0.04
20 8 0.33
21 14 0.58
22 1 0.04
ACGTcount: A:0.02, C:0.04, G:0.09, T:0.85
Consensus pattern (19 bp):
TTTTTTTTTTTTGTTTTTC
Found at i:19365717 original size:7 final size:7
Alignment explanation
Indices: 19365672--19365770 Score: 51
Period size: 7 Copynumber: 13.4 Consensus size: 7
19365662 CCTTTTTCAT
*
19365672 TTTTTTC
1 TTTTTTG
19365679 TTTTTTG
1 TTTTTTG
*
19365686 TTATTT-
1 TTTTTTG
*
19365692 CTTTTTG
1 TTTTTTG
19365699 TTTTTT-
1 TTTTTTG
19365705 TGTTTTTG
1 T-TTTTTG
19365713 TTTTTTG
1 TTTTTTG
*
19365720 TATTTTATA
1 T-TTTT-TG
*
19365729 TTTTTTA
1 TTTTTTG
*
19365736 TATTTTATA
1 T-TTTT-TG
19365745 TTTTTT-
1 TTTTTTG
19365751 TATATTTTG
1 T-T-TTTTG
19365760 TATTTTTG
1 T-TTTTTG
19365768 TTT
1 TTT
19365771 AATTTTTATT
Statistics
Matches: 76, Mismatches: 6, Indels: 20
0.75 0.06 0.20
Matches are distributed among these distances:
6 6 0.08
7 35 0.46
8 27 0.36
9 8 0.11
ACGTcount: A:0.11, C:0.02, G:0.07, T:0.80
Consensus pattern (7 bp):
TTTTTTG
Found at i:19365718 original size:14 final size:14
Alignment explanation
Indices: 19365671--19365766 Score: 68
Period size: 14 Copynumber: 6.5 Consensus size: 14
19365661 ACCTTTTTCA
*
19365671 TTTTTTTCTTTTT-
1 TTTTTTTATTTTTG
* *
19365684 TGTTATTTCTTTTTG
1 T-TTTTTTATTTTTG
*
19365699 TTTTTTTGTTTTTG
1 TTTTTTTATTTTTG
*
19365713 TTTTTTGTATTTTATA
1 TTTTTT-TATTTT-TG
*
19365729 TTTTTTATATTTTATA
1 TTTTTT-TATTTT-TG
19365745 TTTTTTTATATTTTG
1 TTTTTTTAT-TTTTG
*
19365760 TATTTTT
1 TTTTTTT
19365767 GTTTAATTTT
Statistics
Matches: 70, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
13 1 0.01
14 28 0.40
15 16 0.23
16 25 0.36
ACGTcount: A:0.11, C:0.02, G:0.06, T:0.80
Consensus pattern (14 bp):
TTTTTTTATTTTTG
Found at i:19365725 original size:8 final size:8
Alignment explanation
Indices: 19365693--19365768 Score: 63
Period size: 7 Copynumber: 9.9 Consensus size: 8
19365683 TTGTTATTTC
19365693 TTTTTGT-
1 TTTTTGTA
*
19365700 TTTTT-TG
1 TTTTTGTA
19365707 TTTTTGT-
1 TTTTTGTA
19365714 TTTTTGTA
1 TTTTTGTA
*
19365722 -TTTTATA
1 TTTTTGTA
19365729 TTTTT-TA
1 TTTTTGTA
*
19365736 TATTTTATA
1 T-TTTTGTA
*
19365745 TTTTTTTA
1 TTTTTGTA
19365753 TATTTTGTA
1 T-TTTTGTA
19365762 TTTTTGT
1 TTTTTGT
19365769 TTAATTTTTA
Statistics
Matches: 59, Mismatches: 3, Indels: 13
0.79 0.04 0.17
Matches are distributed among these distances:
6 1 0.02
7 26 0.44
8 22 0.37
9 10 0.17
ACGTcount: A:0.13, C:0.00, G:0.08, T:0.79
Consensus pattern (8 bp):
TTTTTGTA
Found at i:19365732 original size:16 final size:16
Alignment explanation
Indices: 19365713--19365766 Score: 81
Period size: 16 Copynumber: 3.3 Consensus size: 16
19365703 TTTGTTTTTG
*
19365713 TTTTTTGTATTTTATA
1 TTTTTTATATTTTATA
19365729 TTTTTTATATTTTATA
1 TTTTTTATATTTTATA
*
19365745 TTTTTTTATATTTTGTA
1 -TTTTTTATATTTTATA
19365762 TTTTT
1 TTTTT
19365767 GTTTAATTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
16 20 0.57
17 15 0.43
ACGTcount: A:0.19, C:0.00, G:0.04, T:0.78
Consensus pattern (16 bp):
TTTTTTATATTTTATA
Found at i:19365749 original size:17 final size:17
Alignment explanation
Indices: 19365713--19365766 Score: 83
Period size: 17 Copynumber: 3.2 Consensus size: 17
19365703 TTTGTTTTTG
*
19365713 TTTTTTGTATTTTATA-
1 TTTTTTATATTTTATAT
19365729 TTTTTTATATTTTATAT
1 TTTTTTATATTTTATAT
*
19365746 TTTTTTATATTTTGTAT
1 TTTTTTATATTTTATAT
19365763 TTTT
1 TTTT
19365767 GTTTAATTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
16 15 0.43
17 20 0.57
ACGTcount: A:0.19, C:0.00, G:0.04, T:0.78
Consensus pattern (17 bp):
TTTTTTATATTTTATAT
Found at i:19365780 original size:17 final size:18
Alignment explanation
Indices: 19365722--19365785 Score: 64
Period size: 17 Copynumber: 3.7 Consensus size: 18
19365712 GTTTTTTGTA
*
19365722 TTTTATATTT-TTTATA-
1 TTTTATTTTTGTTTATAT
19365738 TTTTATATTTT-TTTATAT
1 TTTTAT-TTTTGTTTATAT
19365756 TTTGTATTTTTGTTTA-AT
1 TTT-TATTTTTGTTTATAT
*
19365774 TTTTATTATTGT
1 TTTTATTTTTGT
19365786 ATTTAATAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
16 6 0.14
17 17 0.40
18 12 0.29
19 7 0.17
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.75
Consensus pattern (18 bp):
TTTTATTTTTGTTTATAT
Found at i:19365820 original size:12 final size:12
Alignment explanation
Indices: 19365775--19365821 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
19365765 TTGTTTAATT
*
19365775 TTTATTATTGTA
1 TTTATTATTTTA
* *
19365787 TTTAATAATATTA
1 TTT-ATTATTTTA
19365800 -TTATTATTTTA
1 TTTATTATTTTA
19365811 TTTATTATTTT
1 TTTATTATTTT
19365822 TTCTGTGACA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
11 7 0.25
12 15 0.54
13 6 0.21
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (12 bp):
TTTATTATTTTA
Found at i:19368333 original size:59 final size:59
Alignment explanation
Indices: 19368259--19368422 Score: 195
Period size: 61 Copynumber: 2.7 Consensus size: 59
19368249 TGCTTTTATA
* * * * *
19368259 CAAGAAAAATTGATACTTACAACTTTTTCTTTAAAATGTTTTTTTTT-ATTTTTTGTTTT
1 CAAGGAAAATTGATACTT-CAAATTTTTCTTAAAAATATTTTTTTTTAATTTTTTATTTT
*
19368318 CAAGGAAAATTGATACTTTTAAATTTTTCTTAAAAATATTTTTTTTTGAATTTTTTATTTT
1 CAAGGAAAATTGATAC-TTCAAATTTTTCTTAAAAATATTTTTTTTT-AATTTTTTATTTT
* * * *
19368379 TAAAGAAAATTAATACATTCAAATTTTCCTTAAAAATATTTTTT
1 CAAGGAAAATTGATAC-TTCAAATTTTTCTTAAAAATATTTTTT
19368423 AGAAATTGAA
Statistics
Matches: 90, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
59 39 0.43
60 2 0.02
61 49 0.54
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.52
Consensus pattern (59 bp):
CAAGGAAAATTGATACTTCAAATTTTTCTTAAAAATATTTTTTTTTAATTTTTTATTTT
Found at i:19368603 original size:16 final size:18
Alignment explanation
Indices: 19368567--19368621 Score: 64
Period size: 16 Copynumber: 3.3 Consensus size: 18
19368557 AAAAACTCCT
*
19368567 AAAAATAAAT--AACACA
1 AAAAATAAATAAAATACA
*
19368583 TAAAATAAAT-AAATA-A
1 AAAAATAAATAAAATACA
19368599 AAAAATAAATAAAATACA
1 AAAAATAAATAAAATACA
19368617 AAAAA
1 AAAAA
19368622 CGAACTGCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
16 19 0.58
17 8 0.24
18 6 0.18
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.16
Consensus pattern (18 bp):
AAAAATAAATAAAATACA
Found at i:19368604 original size:12 final size:13
Alignment explanation
Indices: 19368568--19368614 Score: 60
Period size: 12 Copynumber: 3.5 Consensus size: 13
19368558 AAAACTCCTA
19368568 AAAATAAATAACACAT
1 AAAATAAAT-A-A-AT
19368584 AAAATAAATAAAT
1 AAAATAAATAAAT
19368597 AAAA-AAATAAAT
1 AAAATAAATAAAT
19368609 AAAATA
1 AAAATA
19368615 CAAAAAACGA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
12 12 0.40
13 7 0.23
14 1 0.03
15 1 0.03
16 9 0.30
ACGTcount: A:0.77, C:0.04, G:0.00, T:0.19
Consensus pattern (13 bp):
AAAATAAATAAAT
Found at i:19369019 original size:22 final size:22
Alignment explanation
Indices: 19368981--19369033 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
19368971 TCACCGAAAT
*
19368981 CTAAAAATTTTCCCAAAAAAAA
1 CTAAAAATTTTCACAAAAAAAA
**
19369003 CTAAAAA-TTTCTACAAAAAATC
1 CTAAAAATTTTC-ACAAAAAAAA
19369025 CTAAAAATT
1 CTAAAAATT
19369034 CTATGATTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 4 0.15
22 21 0.81
23 1 0.04
ACGTcount: A:0.57, C:0.17, G:0.00, T:0.26
Consensus pattern (22 bp):
CTAAAAATTTTCACAAAAAAAA
Found at i:19369035 original size:21 final size:20
Alignment explanation
Indices: 19368977--19369036 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 20
19368967 AATTTCACCG
* *
19368977 AAATCTAAAAATTTTCCCAAAA
1 AAATCTAAAAATTCT-AC-AAA
*
19368999 AAAACTAAAAATTTCTACAAA
1 AAATCTAAAAA-TTCTACAAA
19369020 AAATCCTAAAAATTCTA
1 AAAT-CTAAAAATTCTA
19369037 TGATTGCTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
21 11 0.34
22 18 0.56
23 3 0.09
ACGTcount: A:0.57, C:0.17, G:0.00, T:0.27
Consensus pattern (20 bp):
AAATCTAAAAATTCTACAAA
Found at i:19369087 original size:21 final size:20
Alignment explanation
Indices: 19369062--19369103 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
19369052 CTTTTAAACA
*
19369062 TTTTCTTTTTTGCTTCTGTTT
1 TTTTCTATTTT-CTTCTGTTT
*
19369083 TTTTCTATTTTCTTGTGTTT
1 TTTTCTATTTTCTTCTGTTT
19369103 T
1 T
19369104 ATAGTGTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.02, C:0.12, G:0.10, T:0.76
Consensus pattern (20 bp):
TTTTCTATTTTCTTCTGTTT
Found at i:19369453 original size:6 final size:6
Alignment explanation
Indices: 19369423--19369451 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
19369413 CATTTTTATC
19369423 GTTTTT GTTTTT GTTTTT GTTTTT -TTTTT
1 GTTTTT GTTTTT GTTTTT GTTTTT GTTTTT
19369452 TTGAAAATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (6 bp):
GTTTTT
Found at i:19369604 original size:86 final size:85
Alignment explanation
Indices: 19369468--19369735 Score: 298
Period size: 84 Copynumber: 3.2 Consensus size: 85
19369458 ATGTAATTAA
* * * ** * * *
19369468 GCTCCTTTAAATAAAGGC-TCAATGAAATTGAAAAATAAATTACTCCTCTAAATAGAGGCAACCA
1 GCTCCTTTAAATAGAGTCATCCATGACTTTGAAAAATAAAATGCTCATCTAAATAGAGGCAACCA
19369532 CAACTTTAGGAAAAATAAAAT
66 CAACTTTA-GAAAAATAAAAT
*
19369553 GCTCCTTTAAATAGAGTCATCCATGACTTTGAAAAATAAAATGCTCTTCTAAATAGAGGCAACCA
1 GCTCCTTTAAATAGAGTCATCCATGACTTTGAAAAATAAAATGCTCATCTAAATAGAGGCAACCA
19369618 CAACTTT-GAAAAATAAAAT
66 CAACTTTAGAAAAATAAAAT
* * ** *
19369637 GCTCCTCTAAATAGAGGT-AACCACAACTTTGAAAAATAAAATTGCTCATCTAAACAGAGGC-A-
1 GCTCCTTTAAATAGA-GTCATCCATGACTTTGAAAAATAAAA-TGCTCATCTAAATAGAGGCAAC
** *
19369699 CATGACTTTA-AAAAATAAATT
64 CACAACTTTAGAAAAATAAAAT
19369720 GCT-CTTCTAAATAGAG
1 GCTCCTT-TAAATAGAG
19369736 GTAACACAAT
Statistics
Matches: 160, Mismatches: 18, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
82 3 0.02
83 28 0.17
84 47 0.29
85 35 0.22
86 47 0.29
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (85 bp):
GCTCCTTTAAATAGAGTCATCCATGACTTTGAAAAATAAAATGCTCATCTAAATAGAGGCAACCA
CAACTTTAGAAAAATAAAAT
Found at i:19369606 original size:42 final size:42
Alignment explanation
Indices: 19369495--19369838 Score: 324
Period size: 42 Copynumber: 8.2 Consensus size: 42
19369485 CTCAATGAAA
* * *
19369495 TTGAAAAATAAATTACTCCTCTAAATAGAGGCAACCACAACT
1 TTGAAAAATAAAATGCTCTTCTAAATAGAGGCAACCACAACT
* * **
19369537 TTAGGAAAAATAAAATGCTCCTT-TAAATAGAGTCATCCATGACT
1 TT--GAAAAATAAAATGCT-CTTCTAAATAGAGGCAACCACAACT
19369581 TTGAAAAATAAAATGCTCTTCTAAATAGAGGCAACCACAACT
1 TTGAAAAATAAAATGCTCTTCTAAATAGAGGCAACCACAACT
* *
19369623 TTGAAAAATAAAATGCTCCTCTAAATAGAGGTAACCACAACT
1 TTGAAAAATAAAATGCTCTTCTAAATAGAGGCAACCACAACT
* * **
19369665 TTGAAAAATAAAATTGCTCATCTAAACAGAGGC-A-CATGACT
1 TTGAAAAATAAAA-TGCTCTTCTAAATAGAGGCAACCACAACT
* * * *
19369706 TTAAAAAATAAATTGCTCTTCTAAATAGAGGTAA-CACAATTT
1 TTGAAAAATAAAATGCTCTTCTAAATAGAGGCAACCACAA-CT
* * * * * * *
19369748 TTAAAAAATAAATTACACTTCTAAACAAAGGC-ACCATAACT
1 TTGAAAAATAAAATGCTCTTCTAAATAGAGGCAACCACAACT
* * **
19369789 TTGAAAAAATAAATTACT-TCTCTAAACGGAGGC-ACCACAACT
1 TTG-AAAAATAAAATGCTCT-TCTAAATAGAGGCAACCACAACT
19369831 TTGAAAAA
1 TTGAAAAA
19369839 AATAAAAGGC
Statistics
Matches: 254, Mismatches: 38, Indels: 21
0.81 0.12 0.07
Matches are distributed among these distances:
40 16 0.06
41 33 0.13
42 155 0.61
43 16 0.06
44 32 0.13
45 2 0.01
ACGTcount: A:0.45, C:0.18, G:0.11, T:0.26
Consensus pattern (42 bp):
TTGAAAAATAAAATGCTCTTCTAAATAGAGGCAACCACAACT
Found at i:19369755 original size:125 final size:126
Alignment explanation
Indices: 19369498--19369850 Score: 376
Period size: 125 Copynumber: 2.8 Consensus size: 126
19369488 AATGAAATTG
* * *
19369498 AAAAATAAATTACTCCTCTAAATAGAGGCAACCACAACTTTAGGAAAAATAAAATGCTCCTTTAA
1 AAAAATAAAATACTCCTCTAAATAGAGGCAACCACAACTTTA-GAAAAATAAAATGCTCATCTAA
* * * *
19369563 ATAGAGTCATCCATGACTTTGAAAAATAAAATGCTCTTCTAAATAGAGGCAACCACAACTTTG
65 ACAGAGGCA-CCATGACTTTAAAAAATAAAATGCTCTTCTAAATAGAGGCAACCACAACTTTA
* *
19369626 AAAAATAAAATGCTCCTCTAAATAGAGGTAACCACAACTTT-GAAAAATAAAATTGCTCATCTAA
1 AAAAATAAAATACTCCTCTAAATAGAGGCAACCACAACTTTAGAAAAATAAAA-TGCTCATCTAA
* * *
19369690 ACAGAGGCA-CATGACTTTAAAAAATAAATTGCTCTTCTAAATAGAGGTAA-CACAATTTTTA
65 ACAGAGGCACCATGACTTTAAAAAATAAAATGCTCTTCTAAATAGAGGCAACCACAA-CTTTA
* * * * * * * *
19369751 AAAAATAAATTACACTTCTAAACAAAGGC-ACCATAACTTT-GAAAAAATAAATTACTTC-TCTA
1 AAAAATAAAATACTCCTCTAAATAGAGGCAACCACAACTTTAG-AAAAATAAAATGC-TCATCTA
* ** *
19369813 AACGGAGGCACCACAACTTTGAAAAAAATAAAAGGCTC
64 AACAGAGGCACCATGACTTT--AAAAAATAAAATGCTC
19369851 ATTAATGATC
Statistics
Matches: 191, Mismatches: 27, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
124 31 0.16
125 81 0.42
126 11 0.06
127 30 0.16
128 38 0.20
ACGTcount: A:0.46, C:0.18, G:0.11, T:0.25
Consensus pattern (126 bp):
AAAAATAAAATACTCCTCTAAATAGAGGCAACCACAACTTTAGAAAAATAAAATGCTCATCTAAA
CAGAGGCACCATGACTTTAAAAAATAAAATGCTCTTCTAAATAGAGGCAACCACAACTTTA
Found at i:19370301 original size:21 final size:22
Alignment explanation
Indices: 19370274--19370332 Score: 84
Period size: 21 Copynumber: 2.7 Consensus size: 22
19370264 GGTTTCACAC
19370274 CTCAAAGATTCTCATTTGA-AA
1 CTCAAAGATTCTCATTTGAGAA
*
19370295 TTCAAAGATTCTCATTTGAGAA
1 CTCAAAGATTCTCATTTGAGAA
* *
19370317 CTGAAAAATTCTCATT
1 CTCAAAGATTCTCATT
19370333 AAAAGATTCC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
21 18 0.55
22 15 0.45
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.36
Consensus pattern (22 bp):
CTCAAAGATTCTCATTTGAGAA
Found at i:19374379 original size:23 final size:23
Alignment explanation
Indices: 19374353--19374429 Score: 64
Period size: 23 Copynumber: 3.1 Consensus size: 23
19374343 TAGGTATGAG
19374353 ATGATACATAGAATGAAATGATA
1 ATGATACATAGAATGAAATGATA
* *
19374376 ATGATGCACGAAATGAAATGATATGATA
1 ATGAT--AC-ATA-G-AATGAAATGATA
* * *
19374404 ATGATGCATATAATGAAATGAAA
1 ATGATACATAGAATGAAATGATA
19374427 ATG
1 ATG
19374430 TTGCAGGTGC
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
23 18 0.43
25 4 0.10
26 3 0.07
27 1 0.02
28 16 0.38
ACGTcount: A:0.49, C:0.05, G:0.19, T:0.26
Consensus pattern (23 bp):
ATGATACATAGAATGAAATGATA
Found at i:19374395 original size:28 final size:28
Alignment explanation
Indices: 19374364--19374426 Score: 92
Period size: 28 Copynumber: 2.2 Consensus size: 28
19374354 TGATACATAG
19374364 AATGAAATGATAATGATGCACGA-AATGA
1 AATGAAATGATAATGATGCA-GATAATGA
* *
19374392 AATGATATGATAATGATGCATATAATGA
1 AATGAAATGATAATGATGCAGATAATGA
19374420 AATGAAA
1 AATGAAA
19374427 ATGTTGCAGG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
27 1 0.03
28 30 0.97
ACGTcount: A:0.51, C:0.05, G:0.19, T:0.25
Consensus pattern (28 bp):
AATGAAATGATAATGATGCAGATAATGA
Found at i:19376962 original size:20 final size:19
Alignment explanation
Indices: 19376934--19376976 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
19376924 TAGATATGAT
* * *
19376934 AAATTTAAATATAATATAA
1 AAATTTAAAAAAAAGATAA
19376953 AAATTATAAAAAAAAGATAA
1 AAATT-TAAAAAAAAGATAA
19376973 AAAT
1 AAAT
19376977 GATTGGGTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (19 bp):
AAATTTAAAAAAAAGATAA
Found at i:19377483 original size:36 final size:37
Alignment explanation
Indices: 19377419--19377489 Score: 110
Period size: 37 Copynumber: 1.9 Consensus size: 37
19377409 ATTAAAATTT
*
19377419 TATAATTTTTAATATTAAAAAATAAAAAATTTTAAAA
1 TATAATTTTAAATATTAAAAAATAAAAAATTTTAAAA
19377456 TATAATTTTGAAATA-TAAAAAAT-AAAAATTTTAA
1 TATAATTTT-AAATATTAAAAAATAAAAAATTTTAA
19377490 GACGTTAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
36 11 0.34
37 17 0.53
38 4 0.12
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.39
Consensus pattern (37 bp):
TATAATTTTAAATATTAAAAAATAAAAAATTTTAAAA
Found at i:19380157 original size:21 final size:21
Alignment explanation
Indices: 19380133--19380172 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
19380123 TAAATTATAG
19380133 TAAAATGTTTAGTATAGTACT
1 TAAAATGTTTAGTATAGTACT
* *
19380154 TAAATTTTTTAGTATAGTA
1 TAAAATGTTTAGTATAGTA
19380173 ACAAAATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.47
Consensus pattern (21 bp):
TAAAATGTTTAGTATAGTACT
Found at i:19380179 original size:21 final size:21
Alignment explanation
Indices: 19380140--19380182 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
19380130 TAGTAAAATG
*
19380140 TTTAGTATAGTACTTAAATTT
1 TTTAGTATAGTACTAAAATTT
19380161 TTTAGTATAGTAAC-AAAATTT
1 TTTAGTATAGT-ACTAAAATTT
19380182 T
1 T
19380183 AAAATATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 18 0.90
22 2 0.10
ACGTcount: A:0.37, C:0.05, G:0.09, T:0.49
Consensus pattern (21 bp):
TTTAGTATAGTACTAAAATTT
Found at i:19381837 original size:314 final size:314
Alignment explanation
Indices: 19380968--19382851 Score: 3212
Period size: 314 Copynumber: 6.0 Consensus size: 314
19380958 GTTTCTCACC
* * * * * *
19380968 AAAGTATCATATCGTTGATTAATGACATGAATCAAAGTTATATTTAATATATA-TATATATATAA
1 AAAGTATCATATTGTTGATTATTGACATGAACCAAAGTAATGTTTAATATATACT-T-T-TTTAA
* * * *
19381032 TTTTTATTGTAACTAACGCTATTGACTCTTTGAATTTTGTATGTATAGTATGCACCAGGCGATGC
63 TTTATATTGTAACTAACGCTATTGGCTCTTTGAAATTTGTGTGTATAGTATGCACCAGGCGATGC
*
19381097 AGTGAAGGATTTGGAAGAAAAATATTCTTGGATTTATTTTCACAAAAATGTTAATGATCAATTTG
128 AGTGAAGGATTTGGAAGAAAAATATTCATGGATTTATTTTCACAAAAATGTTAATGATCAATTTG
* *
19381162 AGGAAACGAAATCTCCTGATCAACCATCTTCCAAAATCATTAAGGATCACAACATGGAACAGCAT
193 AGGAAACAAAATCTCCTGATCAACCATCTTCCAAAATCATGAAGGATCACAACATGGAACAGCAT
* *
19381227 CATGGGCATAACCACGTTGAAAGCGCAGAGGTAGGCTTGTTCACCATAGATGATCTG
258 CACGGGCATAACCACGCTGAAAGCGCAGAGGTAGGCTTGTTCACCATAGATGATCTG
* *
19381284 AAAGTATCATATTGTTGATTATTGACATGAACCAAAGAAATGTTTAATATATATATTTTTTAATT
1 AAAGTATCATATTGTTGATTATTGACATGAACCAAAGTAATGTTTAATATATA-CTTTTTTAATT
* * *
19381349 TATATTGTAAGTAATGCTATTGGCTCTTGGAAATTTGTGTGTATAGTATGCACCAGGCGATGCAG
65 TATATTGTAACTAACGCTATTGGCTCTTTGAAATTTGTGTGTATAGTATGCACCAGGCGATGCAG
*
19381414 TGAAGGATTTGGAAGAAAAATATTCTTGGATTTATTTTCACAAAAATGTTAATGATCAATTTGAG
130 TGAAGGATTTGGAAGAAAAATATTCATGGATTTATTTTCACAAAAATGTTAATGATCAATTTGAG
* *
19381479 GAAACGAAATCTCCTGATCAACCATCTTCCAAAATCAAGAAGGATCACAACATGGAACAGCATCA
195 GAAACAAAATCTCCTGATCAACCATCTTCCAAAATCATGAAGGATCACAACATGGAACAGCATCA
* *
19381544 TGGGCATAACCACGTTGAAAGCGCAGAGGTAGGCTTGTTCACCATAGATGATCTG
260 CGGGCATAACCACGCTGAAAGCGCAGAGGTAGGCTTGTTCACCATAGATGATCTG
19381599 AAAGTATCATATTGTTGATTATTGACATGAACCAAAGTAATGTTTAATATATACTTTTTTAATTT
1 AAAGTATCATATTGTTGATTATTGACATGAACCAAAGTAATGTTTAATATATACTTTTTTAATTT
*
19381664 ATATTGTAACTAACGCTATTGGCTCTTTGAAATTGGTGTGTATAGTATGCACCAGGCGATGCAGT
66 ATATTGTAACTAACGCTATTGGCTCTTTGAAATTTGTGTGTATAGTATGCACCAGGCGATGCAGT
* *
19381729 GAAGGATTTGGAAGAAAAATCTTCATGGATTTATTTTCACAAAAATGTTAATGAGCAATTTGAGG
131 GAAGGATTTGGAAGAAAAATATTCATGGATTTATTTTCACAAAAATGTTAATGATCAATTTGAGG
*
19381794 AAACAAAATCTCCTGATCAACCATCTTCCAAAATCATGAAGGATCACAACATGGAGCAGCATCAC
196 AAACAAAATCTCCTGATCAACCATCTTCCAAAATCATGAAGGATCACAACATGGAACAGCATCAC
** * * *
19381859 GGGCATAACCACGCTGAAAATGCGGAGGTAGGCCTGTTCACTATAGATGATCTG
261 GGGCATAACCACGCTGAAAGCGCAGAGGTAGGCTTGTTCACCATAGATGATCTG
* *
19381913 AAAGTATCATATTGTTGATTATTGACATGAACCAAAGAAATGTTTAATATATATATTTTTTAATT
1 AAAGTATCATATTGTTGATTATTGACATGAACCAAAGTAATGTTTAATATATA-CTTTTTTAATT
* *
19381978 TATATTGTAAGTAACGCTATTGGCTCTTGGAAATTTGTGTGTATAGTATGCACCAGGCGATGCAG
65 TATATTGTAACTAACGCTATTGGCTCTTTGAAATTTGTGTGTATAGTATGCACCAGGCGATGCAG
*
19382043 TGAAGGATTTGGAAGAAAAATATTCTTGGATTTATTTTCACAAAAATGTTAATGATCAATTTGAG
130 TGAAGGATTTGGAAGAAAAATATTCATGGATTTATTTTCACAAAAATGTTAATGATCAATTTGAG
* *
19382108 GAAACGAAATCTCCTGATCAACCATCTTCCAAAATCAAGAAGGATCACAACATGGAACAGCATCA
195 GAAACAAAATCTCCTGATCAACCATCTTCCAAAATCATGAAGGATCACAACATGGAACAGCATCA
* *
19382173 TGGGCATAACCACGTTGAAAGCGCAGAGGTAGGCTTGTTCACCATAGATGATCTG
260 CGGGCATAACCACGCTGAAAGCGCAGAGGTAGGCTTGTTCACCATAGATGATCTG
19382228 AAAGTATCATATTGTTGATTATTGACATGAACCAAAGTAATGTTTAATATATACTTTTTTAATTT
1 AAAGTATCATATTGTTGATTATTGACATGAACCAAAGTAATGTTTAATATATACTTTTTTAATTT
*
19382293 ATATTGTAACTAACGCTATTGGCTCTTTGAAATTGGTGTGTATAGTATGCACCAGGCGATGCAGT
66 ATATTGTAACTAACGCTATTGGCTCTTTGAAATTTGTGTGTATAGTATGCACCAGGCGATGCAGT
* *
19382358 GAAGGATTTGGAAGAAAAATCTTCATGGATTTATTTTCACAAAAATGTTAATGAGCAATTTGAGG
131 GAAGGATTTGGAAGAAAAATATTCATGGATTTATTTTCACAAAAATGTTAATGATCAATTTGAGG
*
19382423 AAACAAAATCTCCTGATCAACCATCTTCCAAAATCATGAAGGATCACAACATGGAGCAGCATCAC
196 AAACAAAATCTCCTGATCAACCATCTTCCAAAATCATGAAGGATCACAACATGGAACAGCATCAC
** * * *
19382488 GGGCATAACCACGCTGAAAATGCGGAGGTAGGCCTGTTCACTATAGATGATCTG
261 GGGCATAACCACGCTGAAAGCGCAGAGGTAGGCTTGTTCACCATAGATGATCTG
19382542 AAAGTATCATATTGTTGATTATTGACATGAACCAAAGTAATGTTTAATATATACTTTTTTAATTT
1 AAAGTATCATATTGTTGATTATTGACATGAACCAAAGTAATGTTTAATATATACTTTTTTAATTT
*
19382607 ATATTGTAACTAACGTTATTGGCTCTTTGAAATTTGTGTGTATAGTATGCACCAGGCGATGCAGT
66 ATATTGTAACTAACGCTATTGGCTCTTTGAAATTTGTGTGTATAGTATGCACCAGGCGATGCAGT
19382672 GAAGGATTTGGAAGAAAAATATTCATGGATTTATTTTCACAAAAATGTTAATGATCAATTTGAGG
131 GAAGGATTTGGAAGAAAAATATTCATGGATTTATTTTCACAAAAATGTTAATGATCAATTTGAGG
* *
19382737 AAACAAAATCTCCTGGTCAACCATCGTCCAAAATCATGAAGGATCACAACATGGAACAGCATCAC
196 AAACAAAATCTCCTGATCAACCATCTTCCAAAATCATGAAGGATCACAACATGGAACAGCATCAC
*
19382802 GGGCATAACCACGCTGAAAGCGCAGAGATAGGCTTGTTCACCATAGATGA
261 GGGCATAACCACGCTGAAAGCGCAGAGGTAGGCTTGTTCACCATAGATGA
19382852 ACTACGTGGT
Statistics
Matches: 1481, Mismatches: 84, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
314 836 0.56
315 595 0.40
316 48 0.03
317 1 0.00
318 1 0.00
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (314 bp):
AAAGTATCATATTGTTGATTATTGACATGAACCAAAGTAATGTTTAATATATACTTTTTTAATTT
ATATTGTAACTAACGCTATTGGCTCTTTGAAATTTGTGTGTATAGTATGCACCAGGCGATGCAGT
GAAGGATTTGGAAGAAAAATATTCATGGATTTATTTTCACAAAAATGTTAATGATCAATTTGAGG
AAACAAAATCTCCTGATCAACCATCTTCCAAAATCATGAAGGATCACAACATGGAACAGCATCAC
GGGCATAACCACGCTGAAAGCGCAGAGGTAGGCTTGTTCACCATAGATGATCTG
Found at i:19382213 original size:629 final size:629
Alignment explanation
Indices: 19380968--19382851 Score: 3385
Period size: 629 Copynumber: 3.0 Consensus size: 629
19380958 GTTTCTCACC
* * * * * *
19380968 AAAGTATCATATCGTTGATTAATGACATGAATCAAAGTTATATTTAATATATA-TATATATATAA
1 AAAGTATCATATTGTTGATTATTGACATGAACCAAAGTAATGTTTAATATATACT-T-T-TTTAA
* * * * *
19381032 TTTTTATTGTAACTAACGCTATTGACTCTTTGAATTTTGTATGTATAGTATGCACCAGGCGATGC
63 TTTATATTGTAACTAACGCTATTGGCTCTTTGAAATTGGTGTGTATAGTATGCACCAGGCGATGC
* * *
19381097 AGTGAAGGATTTGGAAGAAAAATATTCTTGGATTTATTTTCACAAAAATGTTAATGATCAATTTG
128 AGTGAAGGATTTGGAAGAAAAATCTTCATGGATTTATTTTCACAAAAATGTTAATGAGCAATTTG
* * *
19381162 AGGAAACGAAATCTCCTGATCAACCATCTTCCAAAATCATTAAGGATCACAACATGGAACAGCAT
193 AGGAAACAAAATCTCCTGATCAACCATCTTCCAAAATCATGAAGGATCACAACATGGAGCAGCAT
* * ** * * *
19381227 CATGGGCATAACCACGTTGAAAGCGCAGAGGTAGGCTTGTTCACCATAGATGATCTGAAAGTATC
258 CACGGGCATAACCACGCTGAAAATGCGGAGGTAGGCCTGTTCACTATAGATGATCTGAAAGTATC
19381292 ATATTGTTGATTATTGACATGAACCAAAGAAATGTTTAATATATATATTTTTTAATTTATATTGT
323 ATATTGTTGATTATTGACATGAACCAAAGAAATGTTTAATATATATATTTTTTAATTTATATTGT
*
19381357 AAGTAATGCTATTGGCTCTTGGAAATTTGTGTGTATAGTATGCACCAGGCGATGCAGTGAAGGAT
388 AAGTAACGCTATTGGCTCTTGGAAATTTGTGTGTATAGTATGCACCAGGCGATGCAGTGAAGGAT
19381422 TTGGAAGAAAAATATTCTTGGATTTATTTTCACAAAAATGTTAATGATCAATTTGAGGAAACGAA
453 TTGGAAGAAAAATATTCTTGGATTTATTTTCACAAAAATGTTAATGATCAATTTGAGGAAACGAA
19381487 ATCTCCTGATCAACCATCTTCCAAAATCAAGAAGGATCACAACATGGAACAGCATCATGGGCATA
518 ATCTCCTGATCAACCATCTTCCAAAATCAAGAAGGATCACAACATGGAACAGCATCATGGGCATA
19381552 ACCACGTTGAAAGCGCAGAGGTAGGCTTGTTCACCATAGATGATCTG
583 ACCACGTTGAAAGCGCAGAGGTAGGCTTGTTCACCATAGATGATCTG
19381599 AAAGTATCATATTGTTGATTATTGACATGAACCAAAGTAATGTTTAATATATACTTTTTTAATTT
1 AAAGTATCATATTGTTGATTATTGACATGAACCAAAGTAATGTTTAATATATACTTTTTTAATTT
19381664 ATATTGTAACTAACGCTATTGGCTCTTTGAAATTGGTGTGTATAGTATGCACCAGGCGATGCAGT
66 ATATTGTAACTAACGCTATTGGCTCTTTGAAATTGGTGTGTATAGTATGCACCAGGCGATGCAGT
19381729 GAAGGATTTGGAAGAAAAATCTTCATGGATTTATTTTCACAAAAATGTTAATGAGCAATTTGAGG
131 GAAGGATTTGGAAGAAAAATCTTCATGGATTTATTTTCACAAAAATGTTAATGAGCAATTTGAGG
19381794 AAACAAAATCTCCTGATCAACCATCTTCCAAAATCATGAAGGATCACAACATGGAGCAGCATCAC
196 AAACAAAATCTCCTGATCAACCATCTTCCAAAATCATGAAGGATCACAACATGGAGCAGCATCAC
19381859 GGGCATAACCACGCTGAAAATGCGGAGGTAGGCCTGTTCACTATAGATGATCTGAAAGTATCATA
261 GGGCATAACCACGCTGAAAATGCGGAGGTAGGCCTGTTCACTATAGATGATCTGAAAGTATCATA
19381924 TTGTTGATTATTGACATGAACCAAAGAAATGTTTAATATATATATTTTTTAATTTATATTGTAAG
326 TTGTTGATTATTGACATGAACCAAAGAAATGTTTAATATATATATTTTTTAATTTATATTGTAAG
19381989 TAACGCTATTGGCTCTTGGAAATTTGTGTGTATAGTATGCACCAGGCGATGCAGTGAAGGATTTG
391 TAACGCTATTGGCTCTTGGAAATTTGTGTGTATAGTATGCACCAGGCGATGCAGTGAAGGATTTG
19382054 GAAGAAAAATATTCTTGGATTTATTTTCACAAAAATGTTAATGATCAATTTGAGGAAACGAAATC
456 GAAGAAAAATATTCTTGGATTTATTTTCACAAAAATGTTAATGATCAATTTGAGGAAACGAAATC
19382119 TCCTGATCAACCATCTTCCAAAATCAAGAAGGATCACAACATGGAACAGCATCATGGGCATAACC
521 TCCTGATCAACCATCTTCCAAAATCAAGAAGGATCACAACATGGAACAGCATCATGGGCATAACC
19382184 ACGTTGAAAGCGCAGAGGTAGGCTTGTTCACCATAGATGATCTG
586 ACGTTGAAAGCGCAGAGGTAGGCTTGTTCACCATAGATGATCTG
19382228 AAAGTATCATATTGTTGATTATTGACATGAACCAAAGTAATGTTTAATATATACTTTTTTAATTT
1 AAAGTATCATATTGTTGATTATTGACATGAACCAAAGTAATGTTTAATATATACTTTTTTAATTT
19382293 ATATTGTAACTAACGCTATTGGCTCTTTGAAATTGGTGTGTATAGTATGCACCAGGCGATGCAGT
66 ATATTGTAACTAACGCTATTGGCTCTTTGAAATTGGTGTGTATAGTATGCACCAGGCGATGCAGT
19382358 GAAGGATTTGGAAGAAAAATCTTCATGGATTTATTTTCACAAAAATGTTAATGAGCAATTTGAGG
131 GAAGGATTTGGAAGAAAAATCTTCATGGATTTATTTTCACAAAAATGTTAATGAGCAATTTGAGG
19382423 AAACAAAATCTCCTGATCAACCATCTTCCAAAATCATGAAGGATCACAACATGGAGCAGCATCAC
196 AAACAAAATCTCCTGATCAACCATCTTCCAAAATCATGAAGGATCACAACATGGAGCAGCATCAC
19382488 GGGCATAACCACGCTGAAAATGCGGAGGTAGGCCTGTTCACTATAGATGATCTGAAAGTATCATA
261 GGGCATAACCACGCTGAAAATGCGGAGGTAGGCCTGTTCACTATAGATGATCTGAAAGTATCATA
* * *
19382553 TTGTTGATTATTGACATGAACCAAAGTAATGTTTAATATATA-CTTTTTTAATTTATATTGTAAC
326 TTGTTGATTATTGACATGAACCAAAGAAATGTTTAATATATATATTTTTTAATTTATATTGTAAG
* *
19382617 TAACGTTATTGGCTCTTTGAAATTTGTGTGTATAGTATGCACCAGGCGATGCAGTGAAGGATTTG
391 TAACGCTATTGGCTCTTGGAAATTTGTGTGTATAGTATGCACCAGGCGATGCAGTGAAGGATTTG
* *
19382682 GAAGAAAAATATTCATGGATTTATTTTCACAAAAATGTTAATGATCAATTTGAGGAAACAAAATC
456 GAAGAAAAATATTCTTGGATTTATTTTCACAAAAATGTTAATGATCAATTTGAGGAAACGAAATC
* * * *
19382747 TCCTGGTCAACCATCGTCCAAAATCATGAAGGATCACAACATGGAACAGCATCACGGGCATAACC
521 TCCTGATCAACCATCTTCCAAAATCAAGAAGGATCACAACATGGAACAGCATCATGGGCATAACC
* *
19382812 ACGCTGAAAGCGCAGAGATAGGCTTGTTCACCATAGATGA
586 ACGTTGAAAGCGCAGAGGTAGGCTTGTTCACCATAGATGA
19382852 ACTACGTGGT
Statistics
Matches: 1214, Mismatches: 38, Indels: 5
0.97 0.03 0.00
Matches are distributed among these distances:
628 245 0.20
629 918 0.76
630 1 0.00
631 49 0.04
632 1 0.00
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (629 bp):
AAAGTATCATATTGTTGATTATTGACATGAACCAAAGTAATGTTTAATATATACTTTTTTAATTT
ATATTGTAACTAACGCTATTGGCTCTTTGAAATTGGTGTGTATAGTATGCACCAGGCGATGCAGT
GAAGGATTTGGAAGAAAAATCTTCATGGATTTATTTTCACAAAAATGTTAATGAGCAATTTGAGG
AAACAAAATCTCCTGATCAACCATCTTCCAAAATCATGAAGGATCACAACATGGAGCAGCATCAC
GGGCATAACCACGCTGAAAATGCGGAGGTAGGCCTGTTCACTATAGATGATCTGAAAGTATCATA
TTGTTGATTATTGACATGAACCAAAGAAATGTTTAATATATATATTTTTTAATTTATATTGTAAG
TAACGCTATTGGCTCTTGGAAATTTGTGTGTATAGTATGCACCAGGCGATGCAGTGAAGGATTTG
GAAGAAAAATATTCTTGGATTTATTTTCACAAAAATGTTAATGATCAATTTGAGGAAACGAAATC
TCCTGATCAACCATCTTCCAAAATCAAGAAGGATCACAACATGGAACAGCATCATGGGCATAACC
ACGTTGAAAGCGCAGAGGTAGGCTTGTTCACCATAGATGATCTG
Found at i:19383086 original size:943 final size:937
Alignment explanation
Indices: 19381135--19382854 Score: 2659
Period size: 943 Copynumber: 1.8 Consensus size: 937
19381125 TGGATTTATT
** * * * ****
19381135 TTCACAAAAATGTTAATGATCAATTTGAGGAAACGAAATCTCCTGATCAACCATCTTCCAAAATC
1 TTCACAAAAATGGCAATGATCAATTCGAGAAAACGAAATCTCCTGAGCAACCAGAGACCAAAATC
**
19381200 ATTAAGGATCACAACATGGAACAGCATCATGGGCATAACCACGTTGAAAGCGCAGAGGTAGGCTT
66 AAGAAGGATCACAACATGGAACAGCATCATGGGCATAACCACGTTGAAAGCGCAGAGGTAGGCTT
19381265 GTTCACCATAGATGATCTGAAAGTATCATATTGTTGATTATTGACATGAACCAAAGAAATGTTTA
131 GTTCACCATAGATGATCTGAAAGTATCATATTGTTGATTATTGACATGAACCAAAGAAATGTTTA
* * *
19381330 ATATATATATTTTTTAATTTATATTGTAAGTAATGCTATTGGCTCTTGGAAATTTGTGTGTATAG
196 ATATATATATTTTTTAATTTATATTGTAACTAACGCTATTGGCTCTTGGAAATTGGTGTGTATAG
*
19381395 TATGCACCAGGCGATGCAGTGAAGGATTTGGAAGAAAAATATTCTTGGATTTATTTTCACAAAAA
261 TATGCACCAGGCGATGCAGTGAAGGATTTGGAAGAAAAATATTCATGGATTTATTTTCACAAAAA
* *
19381460 TGTTAATGATCAATTTGAGGAAACGAAATCTCCTGATCAACCATCTTCCAAAATCAAGAAGGATC
326 TGTTAATGAGCAATTTGAGGAAACAAAATCTCCTGATCAACCATCTTCCAAAATCAAGAAGGATC
* * * *
19381525 ACAACATGGAACAGCATCATGGGCATAACCACGTTGAAAGCGCAGAGGTAGGCTTGTTCACCATA
391 ACAACATGGAACAGCATCACGGGCATAACCACGCTGAAAACGCAGAGGTAGGCCTGTTCACCATA
19381590 GATGATCTGAAAGTATCATATTGTTGATTATTGACATGAACCAAAGTAATGTTTAATATATACTT
456 GATGATCTGAAAGTATCATATTGTTGATTATTGACATGAACCAAAGTAATGTTTAATATATACTT
19381655 TTTTAATTTATATTGTAACTAACGCTATTGGCTCTTTGAAATTGGTGTGTATAGTATGCACCAGG
521 TTTTAATTTATATTGTAACTAACGCTATTGGCTCTTTGAAATTGGTGTGTATAGTATGCACCAGG
*
19381720 CGATGCAGTGAAGGATTTGGAAGAAAAATCTTCATGGATTTATTTTCACAAAAATGTTAATGAGC
586 CGATGCAGTGAAGGATTTGGAAGAAAAATATTCATGGATTTATTTTCACAAAAATGTTAATGAGC
* *
19381785 AATTTGAGGAAACAAAATCTCCTGATCAACCATCTTCCAAAATCATGAAGGATCACAACATGGAG
651 AATTTGAGGAAACAAAATCTCCTGATCAACCATCGTCCAAAATCATGAAGGATCACAACATGGAA
* * * * *
19381850 CAGCATCACGGGCATAACCACGCTGAAAATGCGGAGGTAGGCCTGTTCACTATAGATGATCTGAA
716 CAGCATCACGGGCATAACCACGCTGAAAACGCAGAGATAGGCCTGTTCACCATAGATGAACTGAA
** ** * * *** * *
19381915 AGTATCATATTGTTGATTATTGACATGAACCAAAGAAATGTTTAATATATATATTTTTTAATTTA
781 AGTATCATAGGGAAGATAATTGACATGAACCAAACAAATGACCAATATATATATTCTTTAATTCA
** * * * * * * * *
19381980 TATTGTAAGTAACGCTATTGGCTCTTGGAAATTTGTGTGTATAGTATGCACCAGGCGATGCAGTG
846 TAAAGTAAGTAACGCTATTGACTCAT-GAAATTTGTGTATATAGCAAGCACCA-GCCATGCACTC
* ** * *
19382045 AAGGATTTGGAAGAAAAATATTCTTGGATTTATT
909 AAGGATTTCGAAG----ATATTCTTCCA-TGATC
** * * * ****
19382079 TTCACAAAAATGTTAATGATCAATTTGAGGAAACGAAATCTCCTGATCAACCATCTTCCAAAATC
1 TTCACAAAAATGGCAATGATCAATTCGAGAAAACGAAATCTCCTGAGCAACCAGAGACCAAAATC
19382144 AAGAAGGATCACAACATGGAACAGCATCATGGGCATAACCACGTTGAAAGCGCAGAGGTAGGCTT
66 AAGAAGGATCACAACATGGAACAGCATCATGGGCATAACCACGTTGAAAGCGCAGAGGTAGGCTT
*
19382209 GTTCACCATAGATGATCTGAAAGTATCATATTGTTGATTATTGACATGAACCAAAGTAATGTTTA
131 GTTCACCATAGATGATCTGAAAGTATCATATTGTTGATTATTGACATGAACCAAAGAAATGTTTA
* *
19382274 ATATATA-CTTTTTTAATTTATATTGTAACTAACGCTATTGGCTCTTTGAAATTGGTGTGTATAG
196 ATATATATATTTTTTAATTTATATTGTAACTAACGCTATTGGCTCTTGGAAATTGGTGTGTATAG
*
19382338 TATGCACCAGGCGATGCAGTGAAGGATTTGGAAGAAAAATCTTCATGGATTTATTTTCACAAAAA
261 TATGCACCAGGCGATGCAGTGAAGGATTTGGAAGAAAAATATTCATGGATTTATTTTCACAAAAA
*
19382403 TGTTAATGAGCAATTTGAGGAAACAAAATCTCCTGATCAACCATCTTCCAAAATCATGAAGGATC
326 TGTTAATGAGCAATTTGAGGAAACAAAATCTCCTGATCAACCATCTTCCAAAATCAAGAAGGATC
* * * *
19382468 ACAACATGGAGCAGCATCACGGGCATAACCACGCTGAAAATGCGGAGGTAGGCCTGTTCACTATA
391 ACAACATGGAACAGCATCACGGGCATAACCACGCTGAAAACGCAGAGGTAGGCCTGTTCACCATA
19382533 GATGATCTGAAAGTATCATATTGTTGATTATTGACATGAACCAAAGTAATGTTTAATATATACTT
456 GATGATCTGAAAGTATCATATTGTTGATTATTGACATGAACCAAAGTAATGTTTAATATATACTT
* *
19382598 TTTTAATTTATATTGTAACTAACGTTATTGGCTCTTTGAAATTTGTGTGTATAGTATGCACCAGG
521 TTTTAATTTATATTGTAACTAACGCTATTGGCTCTTTGAAATTGGTGTGTATAGTATGCACCAGG
*
19382663 CGATGCAGTGAAGGATTTGGAAGAAAAATATTCATGGATTTATTTTCACAAAAATGTTAATGATC
586 CGATGCAGTGAAGGATTTGGAAGAAAAATATTCATGGATTTATTTTCACAAAAATGTTAATGAGC
*
19382728 AATTTGAGGAAACAAAATCTCCTGGTCAACCATCGTCCAAAATCATGAAGGATCACAACATGGAA
651 AATTTGAGGAAACAAAATCTCCTGATCAACCATCGTCCAAAATCATGAAGGATCACAACATGGAA
* *
19382793 CAGCATCACGGGCATAACCACGCTGAAAGCGCAGAGATAGGCTTGTTCACCATAGATGAACT
716 CAGCATCACGGGCATAACCACGCTGAAAACGCAGAGATAGGCCTGTTCACCATAGATGAACT
19382855 ACGTGGTTTC
Statistics
Matches: 741, Mismatches: 35, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
943 542 0.73
944 199 0.27
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.30
Consensus pattern (937 bp):
TTCACAAAAATGGCAATGATCAATTCGAGAAAACGAAATCTCCTGAGCAACCAGAGACCAAAATC
AAGAAGGATCACAACATGGAACAGCATCATGGGCATAACCACGTTGAAAGCGCAGAGGTAGGCTT
GTTCACCATAGATGATCTGAAAGTATCATATTGTTGATTATTGACATGAACCAAAGAAATGTTTA
ATATATATATTTTTTAATTTATATTGTAACTAACGCTATTGGCTCTTGGAAATTGGTGTGTATAG
TATGCACCAGGCGATGCAGTGAAGGATTTGGAAGAAAAATATTCATGGATTTATTTTCACAAAAA
TGTTAATGAGCAATTTGAGGAAACAAAATCTCCTGATCAACCATCTTCCAAAATCAAGAAGGATC
ACAACATGGAACAGCATCACGGGCATAACCACGCTGAAAACGCAGAGGTAGGCCTGTTCACCATA
GATGATCTGAAAGTATCATATTGTTGATTATTGACATGAACCAAAGTAATGTTTAATATATACTT
TTTTAATTTATATTGTAACTAACGCTATTGGCTCTTTGAAATTGGTGTGTATAGTATGCACCAGG
CGATGCAGTGAAGGATTTGGAAGAAAAATATTCATGGATTTATTTTCACAAAAATGTTAATGAGC
AATTTGAGGAAACAAAATCTCCTGATCAACCATCGTCCAAAATCATGAAGGATCACAACATGGAA
CAGCATCACGGGCATAACCACGCTGAAAACGCAGAGATAGGCCTGTTCACCATAGATGAACTGAA
AGTATCATAGGGAAGATAATTGACATGAACCAAACAAATGACCAATATATATATTCTTTAATTCA
TAAAGTAAGTAACGCTATTGACTCATGAAATTTGTGTATATAGCAAGCACCAGCCATGCACTCAA
GGATTTCGAAGATATTCTTCCATGATC
Found at i:19383632 original size:6 final size:6
Alignment explanation
Indices: 19383621--19383661 Score: 73
Period size: 6 Copynumber: 6.7 Consensus size: 6
19383611 CCACCTACCC
19383621 GTGTCT GTGTCT GTGTCT GTGTCT GTGTCT GTGTCTT GTGT
1 GTGTCT GTGTCT GTGTCT GTGTCT GTGTCT GTGTC-T GTGT
19383662 GTTTGCTTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 29 0.85
7 5 0.15
ACGTcount: A:0.00, C:0.15, G:0.34, T:0.51
Consensus pattern (6 bp):
GTGTCT
Found at i:19385655 original size:22 final size:22
Alignment explanation
Indices: 19385627--19385668 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
19385617 ATTTCTGCCA
19385627 ATACATGGGCTG-TGTTGAAAGG
1 ATACATGGGCTGAT-TTGAAAGG
19385649 ATACATGGGCTGATTTGAAA
1 ATACATGGGCTGATTTGAAA
19385669 TGCAACATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.29
Consensus pattern (22 bp):
ATACATGGGCTGATTTGAAAGG
Found at i:19385676 original size:22 final size:23
Alignment explanation
Indices: 19385627--19385682 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 23
19385617 ATTTCTGCCA
*
19385627 ATACATGGGCTG-TGTTGAAAGG
1 ATACATGGGCTGATGTTGAAAGC
19385649 ATACATGGGCTGAT-TTGAAATGC
1 ATACATGGGCTGATGTTGAAA-GC
19385672 A-ACAT-GGCTGA
1 ATACATGGGCTGA
19385683 GCAATATTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
21 6 0.19
22 22 0.71
23 3 0.10
ACGTcount: A:0.30, C:0.12, G:0.30, T:0.27
Consensus pattern (23 bp):
ATACATGGGCTGATGTTGAAAGC
Found at i:19385784 original size:16 final size:17
Alignment explanation
Indices: 19385754--19385788 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
19385744 AAAAGTTTAA
*
19385754 ATTTTATTGTTAACAAT
1 ATTTTATTGTGAACAAT
19385771 ATTTT-TTGTGAACAAT
1 ATTTTATTGTGAACAAT
19385787 AT
1 AT
19385789 GTAAATCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.34, C:0.06, G:0.09, T:0.51
Consensus pattern (17 bp):
ATTTTATTGTGAACAAT
Found at i:19386592 original size:96 final size:95
Alignment explanation
Indices: 19386321--19386593 Score: 291
Period size: 96 Copynumber: 2.8 Consensus size: 95
19386311 TTAACAATTG
* * * ** *
19386321 TATT-TTTGTGAAAGGGAATACTAGAATATTTATCCTCGAGTTCCTTGATGAGTTGAGAAGGTAA
1 TATTCTTT-TGAAAGGTAATACTAGAATATTTATTCTCGAATTCCTTGACAAGTTG-GAAGGCAA
*
19386385 TTGATA-AGAAGGATTTCTCTCGATGACATTCT
64 CTGA-AGAGAAGGATTTCTCTCGATGACATTCT
* * * * * *
19386417 TATTTTTTTGAAAGGTAATACTAGAATATTGATTCTCCAACTCTTTAACAAGTTGGGAAGGCAAC
1 TATTCTTTTGAAAGGTAATACTAGAATATTTATTCTCGAATTCCTTGACAAGTT-GGAAGGCAAC
* * * * * *
19386482 TGAGGAAAAAGATTTCTTTGGATGGCA-TCT
65 TGAAGAGAAGGATTTCTCTCGATGACATTCT
*
19386512 TCATTCTTTTGAAAGGTAATACTAGAGTATTTATTCTCGAATTCCTTGACAAGTTCGGAAGGCAA
1 T-ATTCTTTTGAAAGGTAATACTAGAATATTTATTCTCGAATTCCTTGACAAGTT-GGAAGGCAA
19386577 CTGAAGAGAAGGATTTC
64 CTGAAGAGAAGGATTTC
19386594 CTTTAACTGC
Statistics
Matches: 144, Mismatches: 29, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
95 4 0.03
96 136 0.94
97 4 0.03
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.35
Consensus pattern (95 bp):
TATTCTTTTGAAAGGTAATACTAGAATATTTATTCTCGAATTCCTTGACAAGTTGGAAGGCAACT
GAAGAGAAGGATTTCTCTCGATGACATTCT
Found at i:19388871 original size:13 final size:14
Alignment explanation
Indices: 19388853--19388881 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
19388843 ACATGCATAA
19388853 TTAATAATTT-TTT
1 TTAATAATTTATTT
19388866 TTAATAATTTATTT
1 TTAATAATTTATTT
19388880 TT
1 TT
19388882 TATACATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
TTAATAATTTATTT
Found at i:19397761 original size:18 final size:18
Alignment explanation
Indices: 19397726--19397775 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
19397716 TGATTTTGTT
19397726 AATAAAAAAT-AAATAAAA
1 AATAAAAAATGAAA-AAAA
19397744 AATAAAAAATGAAAAAAA
1 AATAAAAAATGAAAAAAA
*
19397762 CA-AAAAAA-GAAAAA
1 AATAAAAAATGAAAAA
19397776 TCAGTGGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 6 0.20
17 6 0.20
18 15 0.50
19 3 0.10
ACGTcount: A:0.84, C:0.02, G:0.04, T:0.10
Consensus pattern (18 bp):
AATAAAAAATGAAAAAAA
Found at i:19398291 original size:17 final size:18
Alignment explanation
Indices: 19398269--19398302 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
19398259 AAGAGAGATG
19398269 GAGAGA-AAAAAAAAGAA
1 GAGAGAGAAAAAAAAGAA
19398286 GAGAGAGAAAAAAAAGA
1 GAGAGAGAAAAAAAAGA
19398303 GATCTAAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (18 bp):
GAGAGAGAAAAAAAAGAA
Found at i:19398680 original size:25 final size:24
Alignment explanation
Indices: 19398652--19398698 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
19398642 CTAATTATCC
19398652 AATGATACAATTTTTAAAAATTTCA
1 AATGATA-AATTTTTAAAAATTTCA
* * *
19398677 AATGGTAATTTTTTATAAATTT
1 AATGATAAATTTTTAAAAATTT
19398699 TCTAGGTGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 13 0.68
25 6 0.32
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (24 bp):
AATGATAAATTTTTAAAAATTTCA
Found at i:19407502 original size:10 final size:10
Alignment explanation
Indices: 19407487--19407529 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
19407477 TAATATGCTT
19407487 AAAAAAAGAA
1 AAAAAAAGAA
*
19407497 AAAAAAA-TA
1 AAAAAAAGAA
*
19407506 AAAAATAGAA
1 AAAAAAAGAA
19407516 AAAAAAATGAA
1 AAAAAAA-GAA
19407527 AAA
1 AAA
19407530 TGAAGACTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
9 7 0.26
10 14 0.52
11 6 0.22
ACGTcount: A:0.86, C:0.00, G:0.07, T:0.07
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:19407515 original size:19 final size:19
Alignment explanation
Indices: 19407486--19407530 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
19407476 ATAATATGCT
19407486 TAAAAAA-AGAAAAAAAAA
1 TAAAAAATAGAAAAAAAAA
19407504 TAAAAAATAGAAAAAAAAA
1 TAAAAAATAGAAAAAAAAA
*
19407523 TGAAAAAT
1 TAAAAAAT
19407531 GAAGACTCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 7 0.28
19 18 0.72
ACGTcount: A:0.82, C:0.00, G:0.07, T:0.11
Consensus pattern (19 bp):
TAAAAAATAGAAAAAAAAA
Found at i:19408591 original size:43 final size:43
Alignment explanation
Indices: 19408532--19408814 Score: 196
Period size: 43 Copynumber: 6.5 Consensus size: 43
19408522 AAGATTGTTG
* **
19408532 AGGAGCTTTATTTATTTTTCAAAGTCATTGAGCCTTTGTTTAA
1 AGGAGCCTTATTTATTTTTCAAAGTCATTGAGCCTTTACTTAA
* * * *
19408575 ATGAGCCTTACTTATTTTTCAAAGTCATTAAGCCTTTACTTAG
1 AGGAGCCTTATTTATTTTTCAAAGTCATTGAGCCTTTACTTAA
* * * * * *
19408618 AGGAACCTTATTTACTTTTCCAAAGTCATTGAGTCTCTGCTTAG
1 AGGAGCCTTATTTA-TTTTTCAAAGTCATTGAGCCTTTACTTAA
* * *
19408662 ATGAG-CTTCATTTAGTTTTT-AAAGTCATTGAGCTTTTATTTAA
1 AGGAGCCTT-ATTTA-TTTTTCAAAGTCATTGAGCCTTTACTTAA
* * * * *
19408705 AGGAGCTTTATTTATTTTTTCAACA-TCGTTGAGTCTTTGCTTAG
1 AGGAGCCTTATTTA-TTTTTCAA-AGTCATTGAGCCTTTACTTAA
*** ** * * *
19408749 AGGAATTTTATTT-TTTTTCCAAAGTGGTTGAACCTATACTTAG
1 AGGAGCCTTATTTATTTTT-CAAAGTCATTGAGCCTTTACTTAA
** *
19408792 AGGAGTTTTATTTAATTTTCAAA
1 AGGAGCCTTATTTATTTTTCAAA
19408815 AGTTGTTGAG
Statistics
Matches: 189, Mismatches: 43, Indels: 16
0.76 0.17 0.06
Matches are distributed among these distances:
42 6 0.03
43 114 0.60
44 68 0.36
45 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.15, T:0.45
Consensus pattern (43 bp):
AGGAGCCTTATTTATTTTTCAAAGTCATTGAGCCTTTACTTAA
Found at i:19408773 original size:87 final size:85
Alignment explanation
Indices: 19408532--19408814 Score: 257
Period size: 87 Copynumber: 3.3 Consensus size: 85
19408522 AAGATTGTTG
* * * * *
19408532 AGGAGCTTTATTTATTTTTCAAAGTCATTGAGCCTTTGTTTAAATGAGCCTTACTTATTTTTCAA
1 AGGAGCTTTATTTATTTTTCAAAGTCATTGAGTCTTTGCTTAGATGAGCTTTA-TTTTTTTTCAA
*
19408597 AGTCATTAAGCCTTTACTTAG
65 AGTCATTAAGCCTTTACTTAA
* * * * *
19408618 AGGAACCTTATTTACTTTTCCAAAGTCATTGAGTCTCTGCTTAGATGAGCTTCATTTAGTTTTT-
1 AGGAGCTTTATTTA-TTTTTCAAAGTCATTGAGTCTTTGCTTAGATGAGCTTTATTT--TTTTTC
* * *
19408682 AAAGTCATTGAGCTTTTATTTAA
63 AAAGTCATTAAGCCTTTACTTAA
* * **
19408705 AGGAGCTTTATTTATTTTTTCAACA-TCGTTGAGTCTTTGCTTAGAGGAATTTTATTTTTTTTCC
1 AGGAGCTTTATTTA-TTTTTCAA-AGTCATTGAGTCTTTGCTTAGATGAGCTTTATTTTTTTT-C
** * *
19408769 AAAGTGGTTGAA-CCTATACTTAG
63 AAAGTCATT-AAGCCTTTACTTAA
* *
19408792 AGGAGTTTTATTTAATTTTCAAA
1 AGGAGCTTTATTTATTTTTCAAA
19408815 AGTTGTTGAG
Statistics
Matches: 157, Mismatches: 33, Indels: 15
0.77 0.16 0.07
Matches are distributed among these distances:
85 6 0.04
86 21 0.13
87 123 0.78
88 7 0.04
ACGTcount: A:0.27, C:0.13, G:0.15, T:0.45
Consensus pattern (85 bp):
AGGAGCTTTATTTATTTTTCAAAGTCATTGAGTCTTTGCTTAGATGAGCTTTATTTTTTTTCAAA
GTCATTAAGCCTTTACTTAA
Found at i:19408791 original size:130 final size:130
Alignment explanation
Indices: 19408531--19408814 Score: 322
Period size: 130 Copynumber: 2.2 Consensus size: 130
19408521 CAAGATTGTT
* *
19408531 GAGGAGCTTTATTTATTTTTCAAAGTCATTGAGCCTTTGTTTAAATGAGCCTTACTTATTTTTCA
1 GAGGAGCTTTATTTATTTTTCAAAGTCATTGAGCCTTTATTTAAAGGAGCCTTACTTATTTTTCA
** * *
19408596 AAGTCATTAAGCCTTTACTTAGAGGAACCTTATTTACTTTTCCAAAGTCATTGAGTCTCTGCTTA
66 AAGTCATTAAGCCTTTACTTAGAGGAACCTTATTTACTTTTCCAAAGTCATTGAACCTATACTTA
* * * * *
19408661 GATGAGCTTCATTTAGTTTTT-AAAGTCATTGAGCTTTTATTTAAAGGAGCTTTATTTATTTTTT
1 GAGGAGCTTTATTTA-TTTTTCAAAGTCATTGAGCCTTTATTTAAAGGAGCCTTACTTA-TTTTT
* * * * ** * **
19408725 CAACA-TCGTTGAGTCTTTGCTTAGAGGAATTTTATTT-TTTTTCCAAAGTGGTTGAACCTATAC
64 CAA-AGTCATTAAGCCTTTACTTAGAGGAACCTTATTTACTTTTCCAAAGTCATTGAACCTATAC
19408788 TTA
128 TTA
* *
19408791 GAGGAGTTTTATTTAATTTTCAAA
1 GAGGAGCTTTATTTATTTTTCAAA
19408815 AGTTGTTGAG
Statistics
Matches: 126, Mismatches: 24, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
129 4 0.03
130 82 0.65
131 39 0.31
132 1 0.01
ACGTcount: A:0.26, C:0.13, G:0.15, T:0.45
Consensus pattern (130 bp):
GAGGAGCTTTATTTATTTTTCAAAGTCATTGAGCCTTTATTTAAAGGAGCCTTACTTATTTTTCA
AAGTCATTAAGCCTTTACTTAGAGGAACCTTATTTACTTTTCCAAAGTCATTGAACCTATACTTA
Found at i:19409840 original size:14 final size:13
Alignment explanation
Indices: 19409817--19409846 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
19409807 CTCTTTGGAA
19409817 TTTATTTATTTAT
1 TTTATTTATTTAT
19409830 TTTATTTTATTTAT
1 TTTA-TTTATTTAT
19409844 TTT
1 TTT
19409847 GCATTATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTATTTATTTAT
Found at i:19409881 original size:18 final size:18
Alignment explanation
Indices: 19409860--19409894 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
19409850 TTATTAAATT
19409860 TATAAAA-AATAATAAAAA
1 TATAAAATAA-AATAAAAA
19409878 TATAAAATAAAATAAAA
1 TATAAAATAAAATAAAA
19409895 TAGTTTTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (18 bp):
TATAAAATAAAATAAAAA
Found at i:19415805 original size:29 final size:30
Alignment explanation
Indices: 19415763--19415845 Score: 82
Period size: 29 Copynumber: 2.8 Consensus size: 30
19415753 TAAATTATAG
*
19415763 TAAAA-TA-TTTAATATAATATTTCAATTT
1 TAAAATTATTTTAATATAATATTTCAATTA
* * *
19415791 TAAAATT-TTTTAATATGATATATGAATTA
1 TAAAATTATTTTAATATAATATTTCAATTA
*
19415820 TAAATTTATTAATTAATATAATATTT
1 TAAAATTATT--TTAATATAATATTT
19415846 GAAATGTTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
28 5 0.12
29 24 0.56
30 2 0.05
32 12 0.28
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (30 bp):
TAAAATTATTTTAATATAATATTTCAATTA
Found at i:19420579 original size:16 final size:16
Alignment explanation
Indices: 19420561--19420590 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19420551 ATTAACAAAA
19420561 AAAAT-AAAAGAAATT
1 AAAATCAAAAGAAATT
19420576 AAAATCAAAAGAAAT
1 AAAATCAAAAGAAAT
19420591 AAATAAATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.73, C:0.03, G:0.07, T:0.17
Consensus pattern (16 bp):
AAAATCAAAAGAAATT
Found at i:19421842 original size:1 final size:1
Alignment explanation
Indices: 19421838--19421890 Score: 52
Period size: 1 Copynumber: 53.0 Consensus size: 1
19421828 AAAAAAATTC
*** ***
19421838 AAAAAAAAAAAAAATTCAAAAAAAAAAATTCAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
19421891 CCTGGAGCGG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 46 1.00
ACGTcount: A:0.89, C:0.04, G:0.00, T:0.08
Consensus pattern (1 bp):
A
Found at i:19421844 original size:14 final size:14
Alignment explanation
Indices: 19421825--19421890 Score: 84
Period size: 14 Copynumber: 4.7 Consensus size: 14
19421815 AAAGTCAAAT
19421825 AAAAAAAAAATTCAAAA
1 AAAAAAAAAATTC---A
19421842 AAAAAAAAAATTCA
1 AAAAAAAAAATTCA
19421856 AAAAAAAAAATTCA
1 AAAAAAAAAATTCA
19421870 AAAAAAAAAA---A
1 AAAAAAAAAATTCA
19421881 AAAAAAAAAA
1 AAAAAAAAAA
19421891 CCTGGAGCGG
Statistics
Matches: 49, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.22
14 25 0.51
17 13 0.27
ACGTcount: A:0.86, C:0.05, G:0.00, T:0.09
Consensus pattern (14 bp):
AAAAAAAAAATTCA
Found at i:19421882 original size:17 final size:17
Alignment explanation
Indices: 19421819--19421882 Score: 98
Period size: 17 Copynumber: 3.9 Consensus size: 17
19421809 AAAATCAAAG
*
19421819 TCAAATAAAAAAAAAAT
1 TCAAAAAAAAAAAAAAT
19421836 TCAAAAAAAAAAAAAAT
1 TCAAAAAAAAAAAAAAT
19421853 TC---AAAAAAAAAAAT
1 TCAAAAAAAAAAAAAAT
19421867 TCAAAAAAAAAAAAAA
1 TCAAAAAAAAAAAAAA
19421883 AAAAAAAACC
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
14 14 0.33
17 29 0.67
ACGTcount: A:0.81, C:0.06, G:0.00, T:0.12
Consensus pattern (17 bp):
TCAAAAAAAAAAAAAAT
Found at i:19421890 original size:31 final size:31
Alignment explanation
Indices: 19421825--19421890 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
19421815 AAAGTCAAAT
***
19421825 AAAAAAAAAATTCAAAAAAAAAAAAAATTCA
1 AAAAAAAAAATTCAAAAAAAAAAAAAAAAAA
19421856 AAAAAAAAAATTCAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAATTCAAAAAAAAAAAAAAAAAA
19421887 AAAA
1 AAAA
19421891 CCTGGAGCGG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.86, C:0.05, G:0.00, T:0.09
Consensus pattern (31 bp):
AAAAAAAAAATTCAAAAAAAAAAAAAAAAAA
Found at i:19422242 original size:20 final size:20
Alignment explanation
Indices: 19422213--19422258 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
19422203 GGAAGATTCA
*
19422213 CCGGATTCTGGAAATTTTCG
1 CCGGAATCTGGAAATTTTCG
***
19422233 CCGGAATCTGGGTTTTTTCG
1 CCGGAATCTGGAAATTTTCG
19422253 CCGGAA
1 CCGGAA
19422259 GTTGGCCGGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.17, C:0.22, G:0.28, T:0.33
Consensus pattern (20 bp):
CCGGAATCTGGAAATTTTCG
Found at i:19422285 original size:62 final size:63
Alignment explanation
Indices: 19422203--19422320 Score: 159
Period size: 62 Copynumber: 1.9 Consensus size: 63
19422193 GAACTCCGGT
*
19422203 GGAAGATTCACCGGATTCTGGAAATT-TTCGCCGGAATCTGGGTTTTTTCGCCGGAAGTTGGCC
1 GGAAGATTCACCGGATTCTGG-AATTCTTCGCCGGAATCTGGGATTTTTCGCCGGAAGTTGGCC
* * * **
19422266 GGAA-ATTCACCGGTTTCTGGGATTCTTTGCCGGTTTCTGGGATTTTTCGCCGGAA
1 GGAAGATTCACCGGATTCTGGAATTCTTCGCCGGAATCTGGGATTTTTCGCCGGAA
19422321 ACTGGGCAGT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
61 3 0.06
62 41 0.85
63 4 0.08
ACGTcount: A:0.17, C:0.20, G:0.30, T:0.33
Consensus pattern (63 bp):
GGAAGATTCACCGGATTCTGGAATTCTTCGCCGGAATCTGGGATTTTTCGCCGGAAGTTGGCC
Found at i:19422300 original size:20 final size:20
Alignment explanation
Indices: 19422275--19422318 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
19422265 CGGAAATTCA
19422275 CCGGTTTCTGGGATTCTTT-G
1 CCGGTTTCTGGGATT-TTTCG
19422295 CCGGTTTCTGGGATTTTTCG
1 CCGGTTTCTGGGATTTTTCG
19422315 CCGG
1 CCGG
19422319 AAACTGGGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 3 0.13
20 20 0.87
ACGTcount: A:0.05, C:0.23, G:0.32, T:0.41
Consensus pattern (20 bp):
CCGGTTTCTGGGATTTTTCG
Found at i:19422904 original size:3 final size:3
Alignment explanation
Indices: 19422896--19422921 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
19422886 ATCTTACAAA
19422896 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
19422922 ATATATAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:19424903 original size:21 final size:20
Alignment explanation
Indices: 19424878--19424929 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
19424868 GAATGAATTA
*
19424878 AAAAAATTAAAAGAGAAAG-
1 AAAAAATTAAAAAAGAAAGC
**
19424897 AGTAAAAAAAAAAAAAGAAAGC
1 A--AAAAATTAAAAAAGAAAGC
19424919 AAAAAATTAAA
1 AAAAAATTAAA
19424930 GAGTTTTTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 5
0.71 0.14 0.14
Matches are distributed among these distances:
19 1 0.04
20 8 0.32
21 15 0.60
22 1 0.04
ACGTcount: A:0.77, C:0.02, G:0.12, T:0.10
Consensus pattern (20 bp):
AAAAAATTAAAAAAGAAAGC
Found at i:19425598 original size:14 final size:15
Alignment explanation
Indices: 19425579--19425608 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
19425569 CTTATTATAT
19425579 TGATTT-TTAAAAAA
1 TGATTTCTTAAAAAA
19425593 TGATTTCTTAAAAAA
1 TGATTTCTTAAAAAA
19425608 T
1 T
19425609 ATGTTAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (15 bp):
TGATTTCTTAAAAAA
Found at i:19426986 original size:19 final size:20
Alignment explanation
Indices: 19426942--19426989 Score: 64
Period size: 19 Copynumber: 2.4 Consensus size: 20
19426932 TCATCATTTC
19426942 AAAAGATGAAAATAGCACAAT
1 AAAAGAT-AAAATAGCACAAT
19426963 AAAAGATAAAAT-G-ACAATT
1 AAAAGATAAAATAGCACAA-T
19426982 AAAAGATA
1 AAAAGATA
19426990 TGGCTGAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 4 0.15
19 10 0.38
20 5 0.19
21 7 0.27
ACGTcount: A:0.65, C:0.06, G:0.12, T:0.17
Consensus pattern (20 bp):
AAAAGATAAAATAGCACAAT
Found at i:19429558 original size:9 final size:10
Alignment explanation
Indices: 19429535--19429561 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
19429525 AAGAGAAAGA
19429535 AAAAAATTTT
1 AAAAAATTTT
19429545 AAAAAATTTT
1 AAAAAATTTT
19429555 AAAAAAT
1 AAAAAAT
19429562 GAAACTGCAT
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
AAAAAATTTT
Found at i:19431134 original size:22 final size:22
Alignment explanation
Indices: 19431066--19431137 Score: 65
Period size: 22 Copynumber: 3.3 Consensus size: 22
19431056 GCTTTCAGGT
*
19431066 ATAATTTGTAAGGTTTCTAGAC
1 ATAATTTGTAAGGTTTCTAAAC
* * * * * *
19431088 ACAATTCT-CAAGATCTCCAAGC
1 ATAATT-TGTAAGGTTTCTAAAC
19431110 ATAATTTGTAAGGTTTCTAAAC
1 ATAATTTGTAAGGTTTCTAAAC
19431132 ATAATT
1 ATAATT
19431138 CTTAATACCT
Statistics
Matches: 35, Mismatches: 13, Indels: 4
0.67 0.25 0.08
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.36
Consensus pattern (22 bp):
ATAATTTGTAAGGTTTCTAAAC
Found at i:19431154 original size:22 final size:22
Alignment explanation
Indices: 19431129--19431204 Score: 75
Period size: 22 Copynumber: 3.5 Consensus size: 22
19431119 AAGGTTTCTA
* *
19431129 AACATAATTCT-TAATACCTTTG
1 AACATAATT-TGTAAGACCTCTG
*
19431151 AACATGATTTGTAAGACCTCTG
1 AACATAATTTGTAAGACCTCTG
* *
19431173 AACATAATTTGTAAGGCCT-TC
1 AACATAATTTGTAAGACCTCTG
19431194 AAGCATAATTT
1 AA-CATAATTT
19431205 TCAAGATCTG
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
21 4 0.09
22 42 0.91
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.36
Consensus pattern (22 bp):
AACATAATTTGTAAGACCTCTG
Found at i:19431252 original size:22 final size:23
Alignment explanation
Indices: 19431175--19431294 Score: 67
Period size: 22 Copynumber: 5.5 Consensus size: 23
19431165 GACCTCTGAA
* *
19431175 CATAATTTGTAAGGC-CTTCAAG
1 CATAATTTTTAAGGCTTTTCAAG
* * * *
19431197 CATAATTTTCAA-GATCTGT-ATG
1 CATAATTTTTAAGGCT-TTTCAAG
**
19431219 CATAA-TTTTAAGGCTTTTGGA-
1 CATAATTTTTAAGGCTTTTCAAG
*
19431240 CATAATTTTTAA-GATTTTCAAG
1 CATAATTTTTAAGGCTTTTCAAG
* *
19431262 CATAATTTGTAAGGCTTCT-AAG
1 CATAATTTTTAAGGCTTTTCAAG
*
19431284 -ATAATTCTTAA
1 CATAATTTTTAA
19431295 AACTTTCGAA
Statistics
Matches: 72, Mismatches: 19, Indels: 15
0.68 0.18 0.14
Matches are distributed among these distances:
21 28 0.39
22 39 0.54
23 5 0.07
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.40
Consensus pattern (23 bp):
CATAATTTTTAAGGCTTTTCAAG
Found at i:19431288 original size:43 final size:43
Alignment explanation
Indices: 19431175--19431294 Score: 120
Period size: 43 Copynumber: 2.8 Consensus size: 43
19431165 GACCTCTGAA
* *
19431175 CATAATTTGTAAGGCCTTC-AAGCATAATTTTCAAGATCTGTATG
1 CATAATTTGTAAGG-CTTCTAAG-ATAATTTTTAAGATCTGTAAG
* * * *
19431219 CATAATTT-TAAGGCTTTTGGACATAATTTTTAAGAT-TTTCAAG
1 CATAATTTGTAAGGCTTCT-AAGATAATTTTTAAGATCTGT-AAG
*
19431262 CATAATTTGTAAGGCTTCTAAGATAATTCTTAA
1 CATAATTTGTAAGGCTTCTAAGATAATTTTTAA
19431295 AACTTTCGAA
Statistics
Matches: 62, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
42 5 0.08
43 39 0.63
44 18 0.29
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.40
Consensus pattern (43 bp):
CATAATTTGTAAGGCTTCTAAGATAATTTTTAAGATCTGTAAG
Found at i:19432053 original size:44 final size:44
Alignment explanation
Indices: 19431991--19432158 Score: 171
Period size: 44 Copynumber: 3.8 Consensus size: 44
19431981 AGTGAGAATA
*
19431991 TTTTTATA-TTTTCAGAAGTTATTGAGCCTCTGTTGAGAGGA-T
1 TTTTTATATTTTTCAAAAGTTATTGAGCCTCTGTTGAGAGGAGT
* * * * * * *
19432033 CCTTTTATATTTTTCAGAAGTTGTTTAGCTTCTATTGATAGGAGTTTT
1 -TTTTTATATTTTTCAAAAGTTATTGAGCCTCTGTTGAGAGGAG---T
* *
19432081 TTTTTATATTTTTCAAAAGTTATTGAGTCTCTGTTGAGAAGAGT
1 TTTTTATATTTTTCAAAAGTTATTGAGCCTCTGTTGAGAGGAGT
* *
19432125 TTTTTATATTTTT-AAAAGTTATTGAACTTCTGTT
1 TTTTTATATTTTTCAAAAGTTATTGAGCCTCTGTT
19432159 TATGGGGCCT
Statistics
Matches: 102, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
43 25 0.25
44 42 0.41
47 34 0.33
48 1 0.01
ACGTcount: A:0.24, C:0.08, G:0.17, T:0.51
Consensus pattern (44 bp):
TTTTTATATTTTTCAAAAGTTATTGAGCCTCTGTTGAGAGGAGT
Found at i:19432852 original size:11 final size:11
Alignment explanation
Indices: 19432833--19432875 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
19432823 ATGTTTTAGG
*
19432833 TTTTTATTTGA
1 TTTTCATTTGA
*
19432844 TTTTCATTTAGG
1 TTTTCATTT-GA
*
19432856 TTTTTATTTGA
1 TTTTCATTTGA
19432867 TTTTCATTT
1 TTTTCATTT
19432876 AAAAAAAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
11 17 0.65
12 9 0.35
ACGTcount: A:0.16, C:0.05, G:0.09, T:0.70
Consensus pattern (11 bp):
TTTTCATTTGA
Found at i:19432853 original size:23 final size:23
Alignment explanation
Indices: 19432827--19432876 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
19432817 ATATATATGT
19432827 TTTAGGTTTTTATTTGATTTTCA
1 TTTAGGTTTTTATTTGATTTTCA
19432850 TTTAGGTTTTTATTTGATTTTCA
1 TTTAGGTTTTTATTTGATTTTCA
19432873 TTTA
1 TTTA
19432877 AAAAAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.18, C:0.04, G:0.12, T:0.66
Consensus pattern (23 bp):
TTTAGGTTTTTATTTGATTTTCA
Found at i:19432864 original size:12 final size:12
Alignment explanation
Indices: 19432827--19432864 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
19432817 ATATATATGT
19432827 TTTAGGTTTTTA
1 TTTAGGTTTTTA
* *
19432839 TTT-GATTTTCA
1 TTTAGGTTTTTA
19432850 TTTAGGTTTTTA
1 TTTAGGTTTTTA
19432862 TTT
1 TTT
19432865 GATTTTCATT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.16, C:0.03, G:0.13, T:0.68
Consensus pattern (12 bp):
TTTAGGTTTTTA
Done.