Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 12876159
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 54
Found at i:2354377 original size:102 final size:102
Alignment explanation
Indices: 2354195--2354391 Score: 236
Period size: 102 Copynumber: 1.9 Consensus size: 102
2354185 AATGTTATTT
* * * * **
2354195 AAACTTCTATCTTTGAATGTAACAACTTGGATAAGTTAAACATTACTATATTATTCAAACTTCCA
1 AAACCTCTATCTTTAAATGTAACAACTTGGATAAGTTAAACATTACAACACCATTCAAACTTCCA
*
2354260 TCCTTGAATAAAGCAAC-AAGGATAAGTTAAGCATTAC
66 TACTTGAATAAAGCAACTAA-GATAAGTTAAGCATTAC
** *
2354297 AAACCTCTATCTTTAAATGTAACAGTTTGGATAAGTTAAAC-TCTACAACGCCATTCAAACTTCC
1 AAACCTCTATCTTTAAATGTAACAACTTGGATAAGTTAAACAT-TACAACACCATTCAAACTTCC
* ** *
2354361 ATATTTGAATGTAGCAACTTAGATAAGTTAA
65 ATACTTGAATAAAGCAACTAAGATAAGTTAA
2354392 ACTCTACAAC
Statistics
Matches: 79, Mismatches: 14, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
101 1 0.01
102 77 0.97
103 1 0.01
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.32
Consensus pattern (102 bp):
AAACCTCTATCTTTAAATGTAACAACTTGGATAAGTTAAACATTACAACACCATTCAAACTTCCA
TACTTGAATAAAGCAACTAAGATAAGTTAAGCATTAC
Found at i:2357039 original size:34 final size:33
Alignment explanation
Indices: 2356961--2357048 Score: 86
Period size: 34 Copynumber: 2.6 Consensus size: 33
2356951 TGCGCTATAA
* * *
2356961 GCACACCAGGTGCTATCATCACAACAAAAACAT
1 GCACTCCAGGTGCAAACATCACAACAAAAACAT
** * * *
2356994 GCACTATAGGTGCAACCATCATATACAAAAATAT
1 GCACTCCAGGTGCAAACATCACA-ACAAAAACAT
*
2357028 GTACTCCAGGTGCAAACATCA
1 GCACTCCAGGTGCAAACATCA
2357049 AATGTACATG
Statistics
Matches: 43, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
33 17 0.40
34 26 0.60
ACGTcount: A:0.41, C:0.26, G:0.14, T:0.19
Consensus pattern (33 bp):
GCACTCCAGGTGCAAACATCACAACAAAAACAT
Found at i:2371126 original size:14 final size:14
Alignment explanation
Indices: 2371107--2371135 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
2371097 CCCATATTAA
2371107 TCTCAATTTCACAT
1 TCTCAATTTCACAT
2371121 TCTCAATTTCACAT
1 TCTCAATTTCACAT
2371135 T
1 T
2371136 TTTAACAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.45
Consensus pattern (14 bp):
TCTCAATTTCACAT
Found at i:2372821 original size:200 final size:203
Alignment explanation
Indices: 2372458--2372861 Score: 760
Period size: 200 Copynumber: 2.0 Consensus size: 203
2372448 GAATTAAAAT
*
2372458 TTTGATTCCCACAAAAATATCATTTTTGGGGAGAACTGTTCATTTATGGGATAAAACTTTTGTTT
1 TTTGATACCCACAAAAATATCATTTTTGGGGAGAACTGTTCATTTATGGGATAAAACTTTTGTTT
2372523 GGAAAAATTACCACTTTATTCCTAAACTTTTCTCATATTTCTACTTTGGCTACTAAAATTTCAAA
66 GGAAAAATTACCACTTTATTCCTAAACTTTTCTCATATTTCTACTTTGGCTACTAAAATTTCAAA
2372588 AATTACAATTTGGTCACTTGCTTAAATTTTGAGGTATT-CAATC-AATCTAATATCAGACGACTA
131 AATTACAATTTGGTCACTTGCTTAAATTTTGAGGTATTACAATCAAATCTAATATCAGACGACTA
2372651 AGTATTGA
196 AGTATTGA
2372659 TTTGATACCCACAAAAATA-CATTTTTGGGGAGAACTGTTCATTTATGGGATAAAACTTTTGTTT
1 TTTGATACCCACAAAAATATCATTTTTGGGGAGAACTGTTCATTTATGGGATAAAACTTTTGTTT
*
2372723 GGCAAAATTACCACTTTATTCCTAAACTTTTCTCATATTTCTACTTTGGCTACTAAAATTTCAAA
66 GGAAAAATTACCACTTTATTCCTAAACTTTTCTCATATTTCTACTTTGGCTACTAAAATTTCAAA
2372788 AATTACAATTTGGTCACTTGCTTAAATTTTGAGGTATTACAATCATAATCTAATATCAGACGACT
131 AATTACAATTTGGTCACTTGCTTAAATTTTGAGGTATTACAATCA-AATCTAATATCAGACGACT
2372853 AAGTATTGA
195 AAGTATTGA
2372862 ATGCAACTGC
Statistics
Matches: 198, Mismatches: 2, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
200 147 0.74
201 23 0.12
203 28 0.14
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (203 bp):
TTTGATACCCACAAAAATATCATTTTTGGGGAGAACTGTTCATTTATGGGATAAAACTTTTGTTT
GGAAAAATTACCACTTTATTCCTAAACTTTTCTCATATTTCTACTTTGGCTACTAAAATTTCAAA
AATTACAATTTGGTCACTTGCTTAAATTTTGAGGTATTACAATCAAATCTAATATCAGACGACTA
AGTATTGA
Found at i:2373128 original size:98 final size:100
Alignment explanation
Indices: 2372959--2373153 Score: 313
Period size: 98 Copynumber: 2.0 Consensus size: 100
2372949 AGACAACTCA
* * * * *
2372959 ATATGCATACACTGGGCATTCTTGTCAAATCATATAATATTCATTTATCATAAGTATCCATAGAT
1 ATATGCATACACTAGGCACTCTTATCAAATCATATAATATTCATTTATCAAAAGTATACATAGAT
* *
2373024 ATTAACATACCAAAA-ATCAT-TAAAAGTGCAATG
66 ACTAACATACCAAAACACCATATAAAAGTGCAATG
2373057 ATATGCATACACTAGGCACTCTTATCAAATCATATAATATTCATTTATCAAAAGTATACATAGAT
1 ATATGCATACACTAGGCACTCTTATCAAATCATATAATATTCATTTATCAAAAGTATACATAGAT
2373122 ACTAACATACCAAAACACCATATAAAAGTGCA
66 ACTAACATACCAAAACACCATATAAAAGTGCA
2373154 TTGGGCGATT
Statistics
Matches: 88, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
98 74 0.84
99 4 0.05
100 10 0.11
ACGTcount: A:0.43, C:0.18, G:0.09, T:0.30
Consensus pattern (100 bp):
ATATGCATACACTAGGCACTCTTATCAAATCATATAATATTCATTTATCAAAAGTATACATAGAT
ACTAACATACCAAAACACCATATAAAAGTGCAATG
Found at i:2373984 original size:13 final size:14
Alignment explanation
Indices: 2373958--2373990 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
2373948 CTCTTAACAT
2373958 CAACATTAATATTC
1 CAACATTAATATTC
*
2373972 TAACATT-ATATTC
1 CAACATTAATATTC
2373985 CAACAT
1 CAACAT
2373991 AGTACACCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.42, C:0.21, G:0.00, T:0.36
Consensus pattern (14 bp):
CAACATTAATATTC
Found at i:2374307 original size:7 final size:7
Alignment explanation
Indices: 2374295--2374319 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
2374285 CAAAATCCAT
2374295 ATTTCAA
1 ATTTCAA
2374302 ATTTCAA
1 ATTTCAA
2374309 ATTTCAA
1 ATTTCAA
2374316 ATTT
1 ATTT
2374320 TAACTTCTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (7 bp):
ATTTCAA
Found at i:2376322 original size:31 final size:29
Alignment explanation
Indices: 2376236--2376355 Score: 66
Period size: 31 Copynumber: 4.0 Consensus size: 29
2376226 ACCCTAATGG
*
2376236 AACATCTTAGGGCCTGAGAGCCTACCCAAGA
1 AACAT-TTAGGGCC-GAGAGCCTACCTAAGA
* * * * *
2376267 TAGATTTCGGGGCCGTGGGTCCTACCTAAGA
1 AACATTT-AGGGCCGAGAG-CCTACCTAAGA
* *
2376298 AACATCTTAGGGCCGCAGGGCCTACC--CGA
1 AACAT-TTAGGGCCG-AGAGCCTACCTAAGA
**
2376327 ATGA-TTAGGGCCGCAGAGCCTACCTAAGA
1 AACATTTAGGGCCG-AGAGCCTACCTAAGA
2376356 GTCATATTAG
Statistics
Matches: 68, Mismatches: 15, Indels: 14
0.70 0.15 0.14
Matches are distributed among these distances:
27 19 0.28
29 6 0.09
30 5 0.07
31 33 0.49
32 5 0.07
ACGTcount: A:0.27, C:0.28, G:0.28, T:0.18
Consensus pattern (29 bp):
AACATTTAGGGCCGAGAGCCTACCTAAGA
Found at i:2377301 original size:29 final size:27
Alignment explanation
Indices: 2377225--2377314 Score: 103
Period size: 29 Copynumber: 3.3 Consensus size: 27
2377215 AAAACTACCA
* * *
2377225 AATGTAACATTTTCAAAAAAAT-CCAG
1 AATGTCACCTTTTCAAAAAATTCCCAG
*
2377251 AATGTCA-CTTTTCACAAAAATTCCCAA
1 AATGTCACCTTTTCA-AAAAATTCCCAG
2377278 AATGTCACCTTTTTCAAAATAATTCCCAG
1 AATGTCACC-TTTTCAAAA-AATTCCCAG
2377307 AATGTCAC
1 AATGTCAC
2377315 GGGTCGGGTC
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
25 6 0.11
26 12 0.22
27 10 0.19
28 4 0.07
29 22 0.41
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.30
Consensus pattern (27 bp):
AATGTCACCTTTTCAAAAAATTCCCAG
Found at i:2377331 original size:13 final size:13
Alignment explanation
Indices: 2377313--2377337 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2377303 CCAGAATGTC
2377313 ACGGGTCGGGTCA
1 ACGGGTCGGGTCA
2377326 ACGGGTCGGGTC
1 ACGGGTCGGGTC
2377338 GGTCAACAGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.24, G:0.48, T:0.16
Consensus pattern (13 bp):
ACGGGTCGGGTCA
Found at i:2384447 original size:27 final size:27
Alignment explanation
Indices: 2384365--2384464 Score: 89
Period size: 27 Copynumber: 3.7 Consensus size: 27
2384355 TCTACATTCG
* * *
2384365 AAAATTCCCGAAATGTCA-TTTTTTAAAA
1 AAAATTCCCAAAATGTCACATTTTT--CA
* **
2384393 AAAATT-CCAGAATGTCACATTTCACA
1 AAAATTCCCAAAATGTCACATTTTTCA
2384419 AAAATTCCCAAAATGTCACATTTTTCA
1 AAAATTCCCAAAATGTCACATTTTTCA
*
2384446 AATAATTTCCAAAA-GTCAC
1 AA-AATTCCCAAAATGTCAC
2384465 CGGGTCGGGT
Statistics
Matches: 59, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
26 7 0.12
27 33 0.56
28 19 0.32
ACGTcount: A:0.43, C:0.20, G:0.06, T:0.31
Consensus pattern (27 bp):
AAAATTCCCAAAATGTCACATTTTTCA
Found at i:2384504 original size:19 final size:18
Alignment explanation
Indices: 2384480--2384549 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 18
2384470 CGGGTCAGGG
2384480 TCGGACCGGTCAACCCGGT
1 TCGGACCGGTCAA-CCGGT
2384499 TCGGACCGGTCAGACCGGT
1 TCGGACCGGTCA-ACCGGT
** *
2384518 TTAGACCGATCAAACCGGT
1 TCGGACCGGTC-AACCGGT
* *
2384537 TTGGACCAGTCAA
1 TCGGACCGGTCAA
2384550 GTCGGTCAAC
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
18 2 0.05
19 39 0.91
20 2 0.05
ACGTcount: A:0.23, C:0.30, G:0.29, T:0.19
Consensus pattern (18 bp):
TCGGACCGGTCAACCGGT
Found at i:2389371 original size:16 final size:16
Alignment explanation
Indices: 2389350--2389389 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
2389340 GAGTCAAATG
2389350 CAAGCCCAAACTCATC
1 CAAGCCCAAACTCATC
2389366 CAAGCCCAAACTCATC
1 CAAGCCCAAACTCATC
2389382 CAAGCCCA
1 CAAGCCCA
2389390 GATCCAACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.38, C:0.45, G:0.07, T:0.10
Consensus pattern (16 bp):
CAAGCCCAAACTCATC
Found at i:2389583 original size:26 final size:26
Alignment explanation
Indices: 2389527--2389588 Score: 88
Period size: 26 Copynumber: 2.4 Consensus size: 26
2389517 TCCTAGGGTA
* **
2389527 TCATTGCCACCCTAGGTCTATTCTGG
1 TCATTGCCTCCCTAGGTCTATTCCAG
*
2389553 CCATTGCCTCCCTAGGTCTATTCCAG
1 TCATTGCCTCCCTAGGTCTATTCCAG
2389579 TCATTGCCTC
1 TCATTGCCTC
2389589 TAGCAAATCC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.15, C:0.35, G:0.16, T:0.34
Consensus pattern (26 bp):
TCATTGCCTCCCTAGGTCTATTCCAG
Found at i:2396472 original size:20 final size:20
Alignment explanation
Indices: 2396435--2396508 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 20
2396425 TTTTCCACAA
* * *
2396435 ATTTGTAAAACATGTGGTTT
1 ATTTGTAAAACCTTTGGTTC
2396455 ATTTGTAAAACCTTTGGTTC
1 ATTTGTAAAACCTTTGGTTC
* * * *
2396475 ATTTATAAAGCCTTCGGGTC
1 ATTTGTAAAACCTTTGGTTC
*
2396495 ATTTGTAAAGCCTT
1 ATTTGTAAAACCTT
2396509 CGAGTAATTT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.42
Consensus pattern (20 bp):
ATTTGTAAAACCTTTGGTTC
Found at i:2396509 original size:20 final size:20
Alignment explanation
Indices: 2396455--2396523 Score: 84
Period size: 20 Copynumber: 3.5 Consensus size: 20
2396445 CATGTGGTTT
* * *
2396455 ATTTGTAAAACCTTTGGTTC
1 ATTTGTAAAGCCTTCGGGTC
*
2396475 ATTTATAAAGCCTTCGGGTC
1 ATTTGTAAAGCCTTCGGGTC
* *
2396495 ATTTGTAAAGCCTTCGAGTA
1 ATTTGTAAAGCCTTCGGGTC
2396515 ATTTGTAAA
1 ATTTGTAAA
2396524 TCTTTTGGGT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.39
Consensus pattern (20 bp):
ATTTGTAAAGCCTTCGGGTC
Found at i:2396630 original size:45 final size:44
Alignment explanation
Indices: 2396580--2396822 Score: 185
Period size: 45 Copynumber: 5.5 Consensus size: 44
2396570 AAACAAATCG
* *
2396580 AACTCCACAGAAGAGTAGTGGAACGGATTTTTCAGCAAAGTATCA
1 AACTCCACGGAAGAGTAGTGGAATGGATTTTTCAGCAAA-TATCA
* ** * *
2396625 AACTCCACGGGAGAGTAGTGG-ATGGAAATTCAATCA-TAAATAT-G
1 AACTCCACGGAAGAGTAGTGGAATGG--ATT-TTTCAGCAAATATCA
*
2396669 AACTCCACGAAAGAGTAGTGGAATGGATTTTTCAGCAATATATCA
1 AACTCCACGGAAGAGTAGTGGAATGGATTTTTCAGCAA-ATATCA
* * * * ** * *
2396714 AACTCCATGGAAAAGTTA-TGAAAT-CA-AATTCAATCATAA-ATCTG
1 AACTCCACGGAAGAG-TAGTGGAATGGATTTTTC-AGCA-AATATC-A
*
2396758 AACTCCACGGAAGAGTAGTGGAATGAATTTTTCAGCAAAGTATCA
1 AACTCCACGGAAGAGTAGTGGAATGGATTTTTCAGCAAA-TATCA
*
2396803 AACTTCACGGAAGAGTAGTG
1 AACTCCACGGAAGAGTAGTG
2396823 AAGCAAAAGC
Statistics
Matches: 151, Mismatches: 31, Indels: 32
0.71 0.14 0.15
Matches are distributed among these distances:
42 3 0.02
43 13 0.09
44 51 0.34
45 67 0.44
46 14 0.09
47 3 0.02
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (44 bp):
AACTCCACGGAAGAGTAGTGGAATGGATTTTTCAGCAAATATCA
Found at i:2396713 original size:89 final size:89
Alignment explanation
Indices: 2396579--2396824 Score: 338
Period size: 89 Copynumber: 2.8 Consensus size: 89
2396569 AAAACAAATC
* *
2396579 GAACTCCAC-AGAAGAGTAGTGGAACGGATTTTTCAGCAAAGTATCAAACTCCACGGGAGAGTAG
1 GAACTCCACGA-AAGAGTAGTGGAATGGATTTTTCAGCAAAGTATCAAACTCCACGGAAGAGTAG
* *
2396643 TG-GATGGAAATTCAATCATAAATAT
65 TGAAAT-CAAATTCAATCATAAATAT
* *
2396668 GAACTCCACGAAAGAGTAGTGGAATGGATTTTTCAGCAATA-TATCAAACTCCATGGAAAAGTTA
1 GAACTCCACGAAAGAGTAGTGGAATGGATTTTTCAGCAA-AGTATCAAACTCCACGGAAGAG-TA
*
2396732 -TGAAATCAAATTCAATCATAAATCT
64 GTGAAATCAAATTCAATCATAAATAT
* * *
2396757 GAACTCCACGGAAGAGTAGTGGAATGAATTTTTCAGCAAAGTATCAAACTTCACGGAAGAGTAGT
1 GAACTCCACGAAAGAGTAGTGGAATGGATTTTTCAGCAAAGTATCAAACTCCACGGAAGAGTAGT
2396822 GAA
66 GAA
2396825 GCAAAAGCAA
Statistics
Matches: 139, Mismatches: 12, Indels: 12
0.85 0.07 0.07
Matches are distributed among these distances:
88 3 0.02
89 130 0.94
90 6 0.04
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.24
Consensus pattern (89 bp):
GAACTCCACGAAAGAGTAGTGGAATGGATTTTTCAGCAAAGTATCAAACTCCACGGAAGAGTAGT
GAAATCAAATTCAATCATAAATAT
Found at i:2397029 original size:17 final size:18
Alignment explanation
Indices: 2396999--2397032 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
2396989 TATACGATAA
2396999 TATATAATAATATTATAT
1 TATATAATAATATTATAT
*
2397017 TATA-AATATTATTATA
1 TATATAATAATATTATA
2397033 AAGCCCAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TATATAATAATATTATAT
Found at i:2398561 original size:13 final size:13
Alignment explanation
Indices: 2398545--2398580 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
2398535 TTATTATTAT
2398545 ATTATAATTATAA
1 ATTATAATTATAA
2398558 ATTATAA-TAT-A
1 ATTATAATTATAA
2398569 A-TATAATTATAA
1 ATTATAATTATAA
2398581 TAGTATTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
10 5 0.24
11 5 0.24
12 4 0.19
13 7 0.33
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATTATAATTATAA
Found at i:2398578 original size:16 final size:18
Alignment explanation
Indices: 2398540--2398582 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
2398530 ATATTTTATT
*
2398540 ATTATATTATAATTATAA
1 ATTATAATATAATTATAA
2398558 ATTATAATATAA-TAT-A
1 ATTATAATATAATTATAA
2398574 ATTATAATA
1 ATTATAATA
2398583 GTATTTTGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 10 0.42
17 3 0.12
18 11 0.46
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTATAATATAATTATAA
Found at i:2398634 original size:26 final size:26
Alignment explanation
Indices: 2398599--2398670 Score: 65
Period size: 26 Copynumber: 2.6 Consensus size: 26
2398589 TGAATCAGTA
2398599 ATTAATTTATATATTTAATTACTATTT
1 ATTAA-TTATATATTTAATTACTATTT
* *
2398626 ATTAATTATAGGA-TTAATTATTATTT
1 ATTAATTATA-TATTTAATTACTATTT
*
2398652 TTTAAATTAATATAATTTA
1 ATT-AATT-ATAT-ATTTA
2398671 TAATTGTAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
26 19 0.53
27 10 0.28
28 4 0.11
29 3 0.08
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (26 bp):
ATTAATTATATATTTAATTACTATTT
Found at i:2401481 original size:51 final size:52
Alignment explanation
Indices: 2401423--2401522 Score: 161
Period size: 52 Copynumber: 1.9 Consensus size: 52
2401413 AGCTTGAAAA
2401423 ACATTGTAATGTCTAACTAGT-C-AG-TGTTACATTCAAATATAGAAGTTTGAT
1 ACATTGTAATGT-TAAC-AGTCCAAGTTGTTACATTCAAATATAGAAGTTTGAT
2401474 ACATTGTAATGTTAACAGTCCAAGTTGTTACATTCAAATATAGAAGTTT
1 ACATTGTAATGTTAACAGTCCAAGTTGTTACATTCAAATATAGAAGTTT
2401523 TAATAGCGTT
Statistics
Matches: 46, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
49 3 0.07
50 5 0.11
51 14 0.30
52 24 0.52
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (52 bp):
ACATTGTAATGTTAACAGTCCAAGTTGTTACATTCAAATATAGAAGTTTGAT
Found at i:2401576 original size:56 final size:57
Alignment explanation
Indices: 2401165--2401801 Score: 313
Period size: 55 Copynumber: 11.7 Consensus size: 57
2401155 ACTATAGAGT
* * * *** *
2401165 TTAACTTATCCAAGTTG-TACATTCGAAGATGGGAG-TTGAAAAATGTTGTAATGT-
1 TTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTGAATAGCATTGTAATATC
* * * * * * *
2401219 TTACCTT-TCAAAGTTGTTAC-TTCCGAAGATGTAAGTTTGAATAACGA-TGTAGTGT-
1 TTAACTTATCCAAGTTGTTACATT-CAAAGATGGAAGTTTGAATAGC-ATTGTAATATC
* * * * *
2401274 TAAACTTAT--GAGTTTTTACATTCAAAGATGAAAGTTTGAATAG---TGTAGTAT-
1 TTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTGAATAGCATTGTAATATC
* * ** * *
2401325 TTACAC-TGTCCAAGTTGTTACACTCAAAGATATAA-TTTGAATAG--TGTGTGATGT-
1 TTA-ACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTGAATAGCAT-TGTAATATC
* * * * * * * * *
2401379 TTAACATATTCAAGTTGCTATATTCAAAGATGAAAGCTTGAAAAACATTGTAATGTC
1 TTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTGAATAGCATTGTAATATC
* * *
2401436 -TAAC-TAGT-C-AG-TGTTACATTCAAATATAGAAGTTTG-ATA-CATTGT-A-ATG
1 TTAACTTA-TCCAAGTTGTTACATTCAAAGATGGAAGTTTGAATAGCATTGTAATATC
* * * * *
2401485 TTAAC--AGTCCAAGTTGTTACATTCAAATATAGAAGTTTTAATAGCGTTGTAGA-GT-
1 TTAACTTA-TCCAAGTTGTTACATTCAAAGATGGAAGTTTGAATAGCATTGTA-ATATC
* * * * *** *
2401540 TTAACTTATCCAAGTTGTTTCATTAAAAAATGGAAGTTGGAATAATGTTGTAATGTC
1 TTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTGAATAGCATTGTAATATC
* * * *
2401597 TTAACTTAGCGAACTTGTTACATTTAAAGATGGAAGTTTGAAATAGCATT-TAATATC
1 TTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTG-AATAGCATTGTAATATC
* * *
2401654 TTGACTTATCCAAGTT-TTACATTCAAAGATGAAAGTTTGAATAGCATTGTAAAAT-
1 TTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTGAATAGCATTGTAATATC
* * * * * * * *
2401709 TTAACTTGTCCAGGTTATTA-ATTCAAAGGTAGAAGTTTGAATA-AAGTTATAATGT-
1 TTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTGAATAGCA-TTGTAATATC
* * * *
2401764 TTACCTTATCCAAGTTGTTACACTGAAATATGGAAGTT
1 TTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTT
2401802 CGAAAATGAT
Statistics
Matches: 455, Mismatches: 94, Indels: 66
0.74 0.15 0.11
Matches are distributed among these distances:
49 4 0.01
50 6 0.01
51 19 0.04
52 37 0.08
53 53 0.12
54 83 0.18
55 100 0.22
56 94 0.21
57 53 0.12
58 6 0.01
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (57 bp):
TTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTGAATAGCATTGTAATATC
Found at i:2401735 original size:55 final size:55
Alignment explanation
Indices: 2401492--2401751 Score: 170
Period size: 56 Copynumber: 4.6 Consensus size: 55
2401482 ATGTTAACAG
* * * * *
2401492 TCCAAGTTGTTACATTCAAATAT-AGAAGTTTTAATAGCGTTGTAGAGT-TTAACTTA
1 TCCAAGTT-TTACATTCAAAGATGA-AAGTTTGAATAGCATT-TAAAATCTTAACTTA
* * * * * *** **
2401548 TCCAAGTTGTTTCATTAAAAAATGGAAGTTGGAATAATGTTGTAATGTCTTAACTTA
1 TCCAAGTT-TTACATTCAAAGATGAAAGTTTGAATAGCATT-TAAAATCTTAACTTA
* * * * * * *
2401605 GCGAACTTGTTACATTTAAAGATGGAAGTTTGAAATAGCATTTAATATCTTGACTTA
1 TCCAAGTT-TTACATTCAAAGATGAAAGTTTG-AATAGCATTTAAAATCTTAACTTA
*
2401662 TCCAAGTTTTACATTCAAAGATGAAAGTTTGAATAGCATTGTAAAAT-TTAACTTG
1 TCCAAGTTTTACATTCAAAGATGAAAGTTTGAATAGCATT-TAAAATCTTAACTTA
* *
2401717 TCCAGGTTATTA-ATTCAAAGGT-AGAAGTTTGAATA
1 TCCAAGTT-TTACATTCAAAGATGA-AAGTTTGAATA
2401752 AAGTTATAAT
Statistics
Matches: 166, Mismatches: 32, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
54 1 0.01
55 42 0.25
56 66 0.40
57 51 0.31
58 6 0.04
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.37
Consensus pattern (55 bp):
TCCAAGTTTTACATTCAAAGATGAAAGTTTGAATAGCATTTAAAATCTTAACTTA
Found at i:2402198 original size:47 final size:45
Alignment explanation
Indices: 2402140--2402297 Score: 128
Period size: 47 Copynumber: 3.4 Consensus size: 45
2402130 ATTTTATGTT
*
2402140 TTACATTAAAGATGGGAAGTTAATAGCATGCTAACTTATTCAAGTTG
1 TTACATCAAAGAT-GGAAGTTAATAGCATG-TAACTTATTCAAGTTG
* * *
2402187 TTACATCAAAGATGGAAGTTTGAATAACTTTGTAA-TGT-TT-AAATCATG
1 TTACATCAAAGATGGAAG-TT-AATAGC-ATGTAACT-TATTCAAGT--TG
*
2402235 TTTACATTCAATGAT-GAAGTTAATAGCATGTTAACTTA-TCAAGTTG
1 -TTACA-TCAAAGATGGAAGTTAATAGCATG-TAACTTATTCAAGTTG
*
2402281 TTACATTAAAGATGGAA
1 TTACATCAAAGATGGAA
2402298 TTTTTAATAA
Statistics
Matches: 88, Mismatches: 10, Indels: 28
0.70 0.08 0.22
Matches are distributed among these distances:
44 6 0.07
45 8 0.09
46 12 0.14
47 27 0.31
48 17 0.19
49 11 0.12
50 7 0.08
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.36
Consensus pattern (45 bp):
TTACATCAAAGATGGAAGTTAATAGCATGTAACTTATTCAAGTTG
Found at i:2402205 original size:94 final size:92
Alignment explanation
Indices: 2402107--2402319 Score: 240
Period size: 94 Copynumber: 2.3 Consensus size: 92
2402097 AGAGTCATAT
*
2402107 GAAGTTTTAATA-GT-TAATG-TTAAATTTTATGTTTTACATT-AAAGATGGGAAGTTAATAGCA
1 GAAGTTTTAATACGTGTAATGTTTAAA--TCATG-TTTACATTCAAAGAT--GAAGTTAATAGCA
2402168 TGCTAACTTATTCAAGTTGTTACATCAAAGATG
61 TGCTAACTTA-TCAAGTTGTTACATCAAAGATG
* * * *
2402201 GAAGTTTGAATAACTTTGTAATGTTTAAATCATGTTTACATTCAATGATGAAGTTAATAGCATGT
1 GAAGTTTTAAT-AC-GTGTAATGTTTAAATCATGTTTACATTCAAAGATGAAGTTAATAGCATGC
*
2402266 TAACTTATCAAGTTGTTACATTAAAGATG
64 TAACTTATCAAGTTGTTACATCAAAGATG
*
2402295 GAATTTTTAATAAC-TGTAAT-TTTAA
1 GAAGTTTTAAT-ACGTGTAATGTTTAA
2402320 CAGTAAAGTT
Statistics
Matches: 105, Mismatches: 8, Indels: 15
0.82 0.06 0.12
Matches are distributed among these distances:
91 5 0.05
92 6 0.06
94 43 0.41
95 23 0.22
96 8 0.08
97 10 0.10
98 5 0.05
99 5 0.05
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.40
Consensus pattern (92 bp):
GAAGTTTTAATACGTGTAATGTTTAAATCATGTTTACATTCAAAGATGAAGTTAATAGCATGCTA
ACTTATCAAGTTGTTACATCAAAGATG
Found at i:2402335 original size:94 final size:92
Alignment explanation
Indices: 2402155--2402400 Score: 264
Period size: 94 Copynumber: 2.6 Consensus size: 92
2402145 TTAAAGATGG
* * *
2402155 GAAGTTAATAGCATGCTAACTTATTCAAGTTGTTACATCAAAGATGGAAGTTTGAATAACTTTGT
1 GAAGTTAATAGCATGTTAACTTA-TCAAGTTGTTACATTAAAGATGGAATTTTGAATAAC-TTGT
* *
2402220 AATGTTTAAATCATGTTTACATTCAATGAT
64 AATGTTTAAATAAAGTTTACATTCAAT-AT
*
2402250 GAAGTTAATAGCATGTTAACTTATCAAGTTGTTACATTAAAGATGGAATTTTTAATAAC-TGTAA
1 GAAGTTAATAGCATGTTAACTTATCAAGTTGTTACATTAAAGATGGAATTTTGAATAACTTGTAA
2402314 T-TTTAACAGTAAAGTTGTACATTCAATAT
66 TGTTTAA-A-TAAAGTT-TACATTCAATAT
*** *
2402343 GGTTTTAATAGCGTTGTAAATTTAACTTATCCAAGTTGTTACATTAAAGAT-GAATTTT
1 GAAGTTAATAGC-ATG-----TTAACTTAT-CAAGTTGTTACATTAAAGATGGAATTTT
2402401 ATAGTGTAAT
Statistics
Matches: 131, Mismatches: 10, Indels: 16
0.83 0.06 0.10
Matches are distributed among these distances:
91 5 0.04
92 7 0.05
93 16 0.12
94 45 0.34
95 22 0.17
99 16 0.12
100 20 0.15
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.39
Consensus pattern (92 bp):
GAAGTTAATAGCATGTTAACTTATCAAGTTGTTACATTAAAGATGGAATTTTGAATAACTTGTAA
TGTTTAAATAAAGTTTACATTCAATAT
Found at i:2402860 original size:92 final size:93
Alignment explanation
Indices: 2402687--2402931 Score: 256
Period size: 92 Copynumber: 2.6 Consensus size: 93
2402677 ATATTGACAC
* *
2402687 TTACAAACAAAAGAGTTTAACTCATCCAAGTTTTTACATTCAATGATGAGATTTTGAATAGCATT
1 TTACAAACAAAAGAGTTTAACTTATCCAAGTTCTTACATTCAATGATGAGATTTTGAATAGCATT
* *
2402752 TAAACTTCTTAACAAAATAC-TTTGATGT
66 TAAACTTCCTAACAAAACACTTTTG-TGT
* *
2402780 TTATAAA-AAAAG-GTTTTAACTTATCCAAGTTGTTACATTCAATGAT-AGAAGTTTT-AATAGC
1 TTACAAACAAAAGAG-TTTAACTTATCCAAGTTCTTACATTCAATGATGAG-A-TTTTGAATAGC
* *
2402841 -TTTGTAA-TGTCCTAGCAAAACACTTTTGTGT
63 ATTT-AAACT-TCCTAACAAAACACTTTTGTGT
* * *
2402872 TTACAAACTAAAGAGTTTAACTTGTCTAAGTTCTTACATTCAAAT-ATG-GATGTTTGAATA
1 TTACAAACAAAAGAGTTTAACTTATCCAAGTTCTTACATTC-AATGATGAGAT-TTTGAATA
2402932 TTGTTGTAAT
Statistics
Matches: 128, Mismatches: 12, Indels: 24
0.78 0.07 0.15
Matches are distributed among these distances:
91 8 0.06
92 68 0.53
93 48 0.38
94 4 0.03
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.38
Consensus pattern (93 bp):
TTACAAACAAAAGAGTTTAACTTATCCAAGTTCTTACATTCAATGATGAGATTTTGAATAGCATT
TAAACTTCCTAACAAAACACTTTTGTGT
Found at i:2403049 original size:56 final size:55
Alignment explanation
Indices: 2402924--2403060 Score: 159
Period size: 56 Copynumber: 2.5 Consensus size: 55
2402914 AATATGGATG
* * * **
2402924 TTTGAATATTGTTGTAATGTTTAACTTATCCATTTGTTAAGTTCAAAGATGGAGG
1 TTTGAATAATGTTGTAATGTTTAACTTATCCAGTTGTTAAGTTCAAAGATGAAAA
* *
2402979 TTTGAATAATGTTGTAATGTTTAACTTATCCAAGTTGTTACA-TTTAAAGTTGAAAA
1 TTTGAATAATGTTGTAATGTTTAACTTATCC-AGTTGTTA-AGTTCAAAGATGAAAA
**
2403035 TTTGAATAGCGTTGTAATGTCTTAAC
1 TTTGAATAATGTTGTAATGT-TTAAC
2403061 AAAGCACTTT
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
55 30 0.43
56 34 0.49
57 6 0.09
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.43
Consensus pattern (55 bp):
TTTGAATAATGTTGTAATGTTTAACTTATCCAGTTGTTAAGTTCAAAGATGAAAA
Found at i:2403199 original size:92 final size:94
Alignment explanation
Indices: 2403087--2403331 Score: 258
Period size: 93 Copynumber: 2.7 Consensus size: 94
2403077 TAATGATTAG
2403087 CTTATCCAA--GTTGTTACATTCAAAGATTGAATTTTGAATAATTTTGTAATGTTTAACTTAACA
1 CTTATCCAAGTGTTGTTACATTCAAAGATTGAATTTTGAATAATTTTGTAATGTTTAACTTAACA
*
2403150 -TTTTGATGTTTACGAACTAAGGAGTAAAA
66 CTTTT-ATGTTTACAAACTAAGGAGTAAAA
* * ** **
2403179 CTTAT-C-AGTGTTGTTACATTCAAAGATGGAAGTTTGAATAACATTGTAATGTCTTAACAAAAC
1 CTTATCCAAGTGTTGTTACATTCAAAGATTGAATTTTGAATAATTTTGTAATGT-TTAACTTAAC
* * **
2403242 ACTTTTATGTTTATAAACTAAGGATTTTAA
65 ACTTTTATGTTTACAAACTAAGGAGTAAAA
* *
2403272 CTTATCCAAGT-TT-CTAAATTCAAAGA-TGAAAGTTTT-AATAATGTTT-TAATGTTTAACTTA
1 CTTATCCAAGTGTTGTTACATTCAAAGATTG-AA-TTTTGAATAAT-TTTGTAATGTTTAACTTA
2403332 TCCAAGTTGT
Statistics
Matches: 125, Mismatches: 19, Indels: 18
0.77 0.12 0.11
Matches are distributed among these distances:
90 1 0.01
91 1 0.01
92 51 0.41
93 57 0.46
94 12 0.10
95 3 0.02
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.40
Consensus pattern (94 bp):
CTTATCCAAGTGTTGTTACATTCAAAGATTGAATTTTGAATAATTTTGTAATGTTTAACTTAACA
CTTTTATGTTTACAAACTAAGGAGTAAAA
Found at i:2403378 original size:56 final size:56
Alignment explanation
Indices: 2403267--2403385 Score: 136
Period size: 56 Copynumber: 2.1 Consensus size: 56
2403257 AACTAAGGAT
* ** *
2403267 TTTAACTTATCCAAGTTTCTAAATTCAAAGATGAAAGTTTTAATAATGTTTTAATG
1 TTTAACTTATCCAAGTTTCTAAATTCAAAGATGAAAGTTTGAATAACATTGTAATG
*
2403323 TTTAACTTATCCAAGTTGT-TACAA-TCAAAGATGGAAA-TTTGAATAGCATTGTAATG
1 TTTAACTTATCCAAGTT-TCTA-AATTCAAAGAT-GAAAGTTTGAATAACATTGTAATG
2403379 TCTTAAC
1 T-TTAAC
2403386 ATAACAATTT
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
56 42 0.78
57 12 0.22
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (56 bp):
TTTAACTTATCCAAGTTTCTAAATTCAAAGATGAAAGTTTGAATAACATTGTAATG
Found at i:2403627 original size:57 final size:57
Alignment explanation
Indices: 2403482--2403650 Score: 184
Period size: 55 Copynumber: 3.0 Consensus size: 57
2403472 AGAAAAGTTT
* * * * * *
2403482 TTAACTTATCTGAGCTGTTACATTCAATGATTGAAGTTTTAATAGTGTTGT-AT-TG
1 TTAACTTATCTAAGTTGTTACATTCAATGATGGAAGTTTAAATAGTATTGTAATGTC
*
2403537 TTAACTTATCTAAGTTGTTACATT-AAGAGATGGAAGTTTAAATAGTATTGTAATGTC
1 TTAACTTATCTAAGTTGTTACATTCAA-TGATGGAAGTTTAAATAGTATTGTAATGTC
* * * * **
2403594 TTAACTTATCTAATTTGTTGCATTCAATTATGGATGTTTGGATAG-ATTGTAATGTC
1 TTAACTTATCTAAGTTGTTACATTCAATGATGGAAGTTTAAATAGTATTGTAATGTC
2403650 T
1 T
2403651 AAACAAAAAA
Statistics
Matches: 96, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
54 2 0.02
55 42 0.44
56 14 0.15
57 36 0.38
58 2 0.02
ACGTcount: A:0.30, C:0.08, G:0.18, T:0.44
Consensus pattern (57 bp):
TTAACTTATCTAAGTTGTTACATTCAATGATGGAAGTTTAAATAGTATTGTAATGTC
Found at i:2403833 original size:57 final size:57
Alignment explanation
Indices: 2403686--2403861 Score: 151
Period size: 57 Copynumber: 3.1 Consensus size: 57
2403676 ACTAAAGAGT
* * ** * *
2403686 TTAACTTATCGAAGTTGTTACATTCAAAGATAGAAACTTGAGTAGCATTGTAATGTC
1 TTAACTTATCCAAGTTGTTACATTCAAAGATGGATGCTTAAGTAGCATTGTAAAGTC
* * * * *
2403743 TTAAAGTT-TCCAAGTTGTTATATTTAAATATGGATGTTTCAAG-AGCATTGTAAAGTC
1 TT-AACTTATCCAAGTTGTTACATTCAAAGATGGATGCTT-AAGTAGCATTGTAAAGTC
* * * * * *
2403800 TTAACTTATCTAAGTTGTTACATCCAAAGATGGATGGTTGATTAGCATTATAATA-TC
1 TTAACTTATCCAAGTTGTTACATTCAAAGATGGATGCTTAAGTAGCATTGTAA-AGTC
2403857 TTAAC
1 TTAAC
2403862 CAAGCTCTTT
Statistics
Matches: 93, Mismatches: 21, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
56 5 0.05
57 81 0.87
58 7 0.08
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.38
Consensus pattern (57 bp):
TTAACTTATCCAAGTTGTTACATTCAAAGATGGATGCTTAAGTAGCATTGTAAAGTC
Found at i:2404085 original size:149 final size:150
Alignment explanation
Indices: 2403882--2404201 Score: 364
Period size: 149 Copynumber: 2.1 Consensus size: 150
2403872 GGTGATAAAA
* * * * * *
2403882 TCAAATATGGAAGTTTCAATAGCATTGTAATGTCTTCACAAAACTCATTAATGTTTACAAACT-A
1 TCAAAGATGGAAGTTTGAATAACAATGTAATGTCTTAACAAAACACATTAATGTTTACAAACTAA
* * * * *
2403946 AG-GATTTACACTTA-TCAAAGTTGTTACATTCA-AAGATGATAGTTTGTATAGCGTTGTAAAGT
66 AGTG-TTTA-ACTTATTC-AAGTTGTTACAAT-AGAAGATGAAAATTTGAATAACGTTGTAAAGT
*
2404008 -TTAACATATC-CAGGTTGTTACAT
127 CATAACATATCTCA-GTTGTTACAT
* * * *
2404031 TCAAAGATGGAAGTTTGAATAACAATGTAATGTTTTAACAAAACACTTTGATGTTTCCAAACTAA
1 TCAAAGATGGAAGTTTGAATAACAATGTAATGTCTTAACAAAACACATTAATGTTTACAAACTAA
* *
2404096 AGTGTTTAAGTTATTCAAGTTGTTACAATAGAAGATGAAAATTTGAATAACGTTGTAATGTCATA
66 AGTGTTTAACTTATTCAAGTTGTTACAATAGAAGATGAAAATTTGAATAACGTTGTAAAGTCATA
* *
2404161 ACTTATCTTAGTTGTTACAT
131 ACATATCTCAGTTGTTACAT
*
2404181 TAAAAGATGGAAGTTTGAATA
1 TCAAAGATGGAAGTTTGAATA
2404202 GAATTGTAAA
Statistics
Matches: 144, Mismatches: 21, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
148 1 0.01
149 94 0.65
150 47 0.33
151 2 0.01
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (150 bp):
TCAAAGATGGAAGTTTGAATAACAATGTAATGTCTTAACAAAACACATTAATGTTTACAAACTAA
AGTGTTTAACTTATTCAAGTTGTTACAATAGAAGATGAAAATTTGAATAACGTTGTAAAGTCATA
ACATATCTCAGTTGTTACAT
Found at i:2404243 original size:56 final size:56
Alignment explanation
Indices: 2404098--2404443 Score: 313
Period size: 56 Copynumber: 6.1 Consensus size: 56
2404088 CAAACTAAAG
* * * * *
2404098 TGTTTAAGTTATTCAAGTTGTTACAAT-AGAAGATGAAAATTTGAATAACGTTGTAA
1 TGTTTAACTTATTCAAGTTGTTACATTCA-AAGATGGAAGTTTGAATAACATTGTAA
* * *
2404154 TGTCATAACTTA-TCTTAGTTGTTACATTAAAAGATGGAAGTTTGAATAGA-ATTGTAA
1 TGT-TTAACTTATTC-AAGTTGTTACATTCAAAGATGGAAGTTTGAATA-ACATTGTAA
* ** * * *
2404211 AGTTTAACTTATTTGAGTTGTTACAATCAAAGATGGAAGTTTGAATAATATCAG-AA
1 TGTTTAACTTATTCAAGTTGTTACATTCAAAGATGGAAGTTTGAATAACAT-TGTAA
* * * * * *
2404267 TGTTTAACTTATCCTAGTTGTTACATTCAAAGATGTAATTTTGAATAACGTTGTGA
1 TGTTTAACTTATTCAAGTTGTTACATTCAAAGATGGAAGTTTGAATAACATTGTAA
* * * ** * * **
2404323 TGTTTAACTTATACAAGTTGTTACATTAAAAGGTGCTAGTTTTAACAATTTTGTAA
1 TGTTTAACTTATTCAAGTTGTTACATTCAAAGATGGAAGTTTGAATAACATTGTAA
* * * *
2404379 TGTTTAACTTATCCAAATTTTTACATTCAAAGATGGAAGTTTGAATAACGTTGTAA
1 TGTTTAACTTATTCAAGTTGTTACATTCAAAGATGGAAGTTTGAATAACATTGTAA
2404435 TGTGTTAAC
1 TGT-TTAAC
2404444 AAAACAGTTT
Statistics
Matches: 233, Mismatches: 48, Indels: 17
0.78 0.16 0.06
Matches are distributed among these distances:
55 2 0.01
56 181 0.78
57 48 0.21
58 2 0.01
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (56 bp):
TGTTTAACTTATTCAAGTTGTTACATTCAAAGATGGAAGTTTGAATAACATTGTAA
Found at i:2404329 original size:112 final size:110
Alignment explanation
Indices: 2404098--2404443 Score: 363
Period size: 112 Copynumber: 3.1 Consensus size: 110
2404088 CAAACTAAAG
* * * *
2404098 TGTTTAAGTTATTCAAGTTGTTACAATAGAAGATGAAAATTTGAATAACGTTGTAATGTCATAAC
1 TGTTTAACTTATTCAAGTTGTTACAATA-AAGATGAAAGTTTGAATAA-TTTGTAATGT-TTAAC
* * *
2404163 TTATCTTAGTTGTTACATTAAAAGATGGAAGTTTGAATAGA-ATTGTAA
63 TTATCCTAGTTGTTACATTCAAAGATGGAAGTTTGAATA-ACGTTGTAA
* ** * *
2404211 AGTTTAACTTATTTGAGTTGTTACAATCAAAGATGGAAGTTTGAATAATATCAG-AATGTTTAAC
1 TGTTTAACTTATTCAAGTTGTTACAAT-AAAGATGAAAGTTTGAATAAT-T-TGTAATGTTTAAC
* * *
2404275 TTATCCTAGTTGTTACATTCAAAGATGTAATTTTGAATAACGTTGTGA
63 TTATCCTAGTTGTTACATTCAAAGATGGAAGTTTGAATAACGTTGTAA
* * * ** * *
2404323 TGTTTAACTTATACAAGTTGTTACATTAAAAGGTGCTAGTTTTAACAATTTTGTAATGTTTAACT
1 TGTTTAACTTATTCAAGTTGTTACAAT-AAAGATGAAAGTTTGAATAA-TTTGTAATGTTTAACT
* * *
2404388 TATCCAAATTTTTACATTCAAAGATGGAAGTTTGAATAACGTTGTAA
64 TATCCTAGTTGTTACATTCAAAGATGGAAGTTTGAATAACGTTGTAA
2404435 TGTGTTAAC
1 TGT-TTAAC
2404444 AAAACAGTTT
Statistics
Matches: 193, Mismatches: 33, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
111 2 0.01
112 137 0.71
113 52 0.27
114 2 0.01
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (110 bp):
TGTTTAACTTATTCAAGTTGTTACAATAAAGATGAAAGTTTGAATAATTTGTAATGTTTAACTTA
TCCTAGTTGTTACATTCAAAGATGGAAGTTTGAATAACGTTGTAA
Found at i:2404386 original size:168 final size:169
Alignment explanation
Indices: 2404098--2404426 Score: 405
Period size: 168 Copynumber: 2.0 Consensus size: 169
2404088 CAAACTAAAG
* *
2404098 TGTTTAAGTTATTCAAGTTGTTACAATAGAAGATGAAAATTTGAATAACGTTGTAATGTCATAAC
1 TGTTTAACTTATCCAAGTTGTTACAATAGAAGATGAAAATTTGAATAACGTTGTAATGTCATAAC
* * * *** *
2404163 TTATCTTAGTTGTTACATTAAAAGATGGAAGTTTGAATAGAATTGTAAAGTTTAACTTATTTGAG
66 TTATCTAAGTTGTTACATTAAAAGATGCAAGTTTGAACAGAATTGTAAAGTTTAACTTATCCAAA
2404228 TTGTTACAATCAAAGATGGAAGTTTGAATAATATCAGAA
131 TTGTTACAATCAAAGATGGAAGTTTGAATAATATCAGAA
* * * * * *
2404267 TGTTTAACTTATCCTAGTTGTTACATTCA-AAGATGTAATTTTGAATAACGTTGTGATGT-TTAA
1 TGTTTAACTTATCCAAGTTGTTACAAT-AGAAGATGAAAATTTGAATAACGTTGTAATGTCATAA
* * * * *
2404330 CTTATAC-AAGTTGTTACATTAAAAGGTGCTAGTTTTAACA-ATTTTGTAATGTTTAACTTATCC
65 CTTAT-CTAAGTTGTTACATTAAAAGATGCAAGTTTGAACAGA-ATTGTAAAGTTTAACTTATCC
* *
2404393 AAATTTTTACATTCAAAGATGGAAGTTTGAATAA
128 AAATTGTTACAATCAAAGATGGAAGTTTGAATAA
2404427 CGTTGTAATG
Statistics
Matches: 135, Mismatches: 22, Indels: 7
0.82 0.13 0.04
Matches are distributed among these distances:
167 1 0.01
168 82 0.61
169 51 0.38
170 1 0.01
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (169 bp):
TGTTTAACTTATCCAAGTTGTTACAATAGAAGATGAAAATTTGAATAACGTTGTAATGTCATAAC
TTATCTAAGTTGTTACATTAAAAGATGCAAGTTTGAACAGAATTGTAAAGTTTAACTTATCCAAA
TTGTTACAATCAAAGATGGAAGTTTGAATAATATCAGAA
Found at i:2405914 original size:58 final size:58
Alignment explanation
Indices: 2405814--2406262 Score: 634
Period size: 58 Copynumber: 7.8 Consensus size: 58
2405804 ATGGTATTAA
* *
2405814 GTGTGCAAAAAGTTATG-AATTCATACTAAGTGTATGATTTTCCGTATTGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* *
2405871 GTGTGTAAAAAGTTAAGAAATTCATACTAAGT-TCATGAGTTTCCGTACTT-GGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGT-ATGAATTTCCGTA-TTGGGCACTTT
* * * * * *
2405929 GTGTGCAAAAAGTTAAGAAATTCATACTAAATCTATGAATTTTCTTACTAGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* * *
2405987 GAGTGCAAAAAGTTAAGAAATTCATACAAAGTGTATGAATTTCCGTATTGGGAACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* *
2406045 GTGTACAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGACACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* * *
2406103 GTGTACAAAAAATTAAGAAATTCATACTAAGTGTATGAATTTACGTATTGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* * * *
2406161 GTGTGCAAAAAGTCAAGAAATTCATACTGAGTGTATGAATTTTCGTATTGAGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* * *
2406219 GTGTACAAATAGTTAAGAGATTCATACTAAGTGTATGAATTTCC
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCC
2406263 CTATAGGAAA
Statistics
Matches: 349, Mismatches: 38, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
57 17 0.05
58 329 0.94
59 3 0.01
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (58 bp):
GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
Found at i:2412741 original size:58 final size:58
Alignment explanation
Indices: 2412674--2413009 Score: 492
Period size: 58 Copynumber: 5.8 Consensus size: 58
2412664 GGCACTAAGG
* * * *
2412674 GTGCAAAAAGTTTATAAATTCATACTAAGTGTATGAATTTTCGTATTGGGTACTTTGT
1 GTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGT
* *
2412732 GTGTAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTAGGCACTTTGT
1 GTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGT
* * * * **
2412790 GTGCAAAAAGTTAATAAATTCTTACTAAGTGTATGAATTTTCGTATTAGGCTTTTTGT
1 GTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGT
* * * * *
2412848 GTGAAAAAAGTTAAGAAATACATAATAAGTGTATGAATTTCTGTATTGGGCATTTTGT
1 GTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGT
* *
2412906 GTTCAAAAAGTTAAGAAATGCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGT
1 GTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGT
*
2412964 GTGCAAAAAGTTAAGAGATTCATACTAAGTGTATGAATTTCCGTAT
1 GTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTAT
2413010 AGGAAATATG
Statistics
Matches: 248, Mismatches: 30, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
58 248 1.00
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (58 bp):
GTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGT
Found at i:2413780 original size:111 final size:112
Alignment explanation
Indices: 2413631--2413929 Score: 365
Period size: 111 Copynumber: 2.7 Consensus size: 112
2413621 AGCCTATCTA
* * *
2413631 AACAACTTGTATAAGTTAAACACTACAACACTATTCAAACTTCCATCTTTGAATG-AAGTAAATT
1 AACAACTTGAATAAGTTAAACATTACAACACTATTCAAACTTCCATCTTTGAATGTAA-CAAATT
* * * * *
2413695 GGATATGTTAAACATTACAACGTTATTCAATTCTT-TAT-T-TGAATGT
65 GGATAAGTTAAACATTAAAACATTATTCAA-ACTTCCATCTCTGAATGT
* * *** * *
2413741 AACAACTTGGATAAGTTAAAACATTACAACGCTATTCAAACTTTTTTATTTGAATGTAACAATTT
1 AACAACTTGAATAAGTT-AAACATTACAACACTATTCAAACTTCCATCTTTGAATGTAACAAATT
*
2413806 GGATAAATTAAACATTAAAACATTATTCAAACTTCCATCTCTGAATGT
65 GGATAAGTTAAACATTAAAACATTATTCAAACTTCCATCTCTGAATGT
* * *
2413854 AACAAC-TGAATAAGTTAAATATTACAACACTATTCAAACATCCATCTTTGAATGTAACAACTTG
1 AACAACTTGAATAAGTTAAACATTACAACACTATTCAAACTTCCATCTTTGAATGTAACAAATTG
2413918 GATAAGTTAAAC
66 GATAAGTTAAAC
2413930 TATTTTGTTC
Statistics
Matches: 159, Mismatches: 25, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
110 19 0.12
111 115 0.72
112 12 0.08
113 13 0.08
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.34
Consensus pattern (112 bp):
AACAACTTGAATAAGTTAAACATTACAACACTATTCAAACTTCCATCTTTGAATGTAACAAATTG
GATAAGTTAAACATTAAAACATTATTCAAACTTCCATCTCTGAATGT
Found at i:2413898 original size:55 final size:56
Alignment explanation
Indices: 2413631--2413929 Score: 345
Period size: 56 Copynumber: 5.4 Consensus size: 56
2413621 AGCCTATCTA
* *
2413631 AACAACTTGTATAAGTTAAACACTACAACACTATTCAAACTTCCATCTTTGAATG-
1 AACAACTTGGATAAGTTAAACATTACAACACTATTCAAACTTCCATCTTTGAATGT
* * * ** ** *
2413686 AAGTAAATTGGATATGTTAAACATTACAACGTTATTC-AA-TTCTTTATTTGAATGT
1 AA-CAACTTGGATAAGTTAAACATTACAACACTATTCAAACTTCCATCTTTGAATGT
* *** *
2413741 AACAACTTGGATAAGTTAAAACATTACAACGCTATTCAAACTTTTTTATTTGAATGT
1 AACAACTTGGATAAGTT-AAACATTACAACACTATTCAAACTTCCATCTTTGAATGT
* * * * *
2413798 AACAATTTGGATAAATTAAACATTAAAACATTATTCAAACTTCCATCTCTGAATGT
1 AACAACTTGGATAAGTTAAACATTACAACACTATTCAAACTTCCATCTTTGAATGT
* * *
2413854 AACAAC-TGAATAAGTTAAATATTACAACACTATTCAAACATCCATCTTTGAATGT
1 AACAACTTGGATAAGTTAAACATTACAACACTATTCAAACTTCCATCTTTGAATGT
2413909 AACAACTTGGATAAGTTAAAC
1 AACAACTTGGATAAGTTAAAC
2413930 TATTTTGTTC
Statistics
Matches: 203, Mismatches: 35, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
54 24 0.12
55 72 0.35
56 77 0.38
57 30 0.15
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.34
Consensus pattern (56 bp):
AACAACTTGGATAAGTTAAACATTACAACACTATTCAAACTTCCATCTTTGAATGT
Found at i:2414051 original size:61 final size:60
Alignment explanation
Indices: 2413945--2414060 Score: 144
Period size: 61 Copynumber: 1.9 Consensus size: 60
2413935 TGTTCGTAAT
* * * * *
2413945 CATCAAAGTGTTCTGTTAACAAATTACAATGTTATTTGAATTTCCATCTTTGAATATAAA
1 CATCAAACTGTTCTGTTAACAAATTACAACGCTATTTCAATTTCCATATTTGAATATAAA
* *
2414005 CATCAAAACTGTTTTGTTAAGAAATTACAACGCTA-TTCAATCTTCCATATTTGAAT
1 CATC-AAACTGTTCTGTTAACAAATTACAACGCTATTTCAAT-TTCCATATTTGAAT
2414061 GTAACAAATT
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
60 9 0.19
61 38 0.81
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (60 bp):
CATCAAACTGTTCTGTTAACAAATTACAACGCTATTTCAATTTCCATATTTGAATATAAA
Found at i:2414308 original size:56 final size:55
Alignment explanation
Indices: 2414191--2414309 Score: 127
Period size: 56 Copynumber: 2.1 Consensus size: 55
2414181 TAACTTTATG
* * *
2414191 CAAACTTTCATCTTTTAATGTAACAACATGGATAAGTTAAGCATCACATCATTATT
1 CAAACTTTCATCTTTAAATGTAACAACATGGAGAAGTTAAACATCACATCA-TATT
* *
2414247 AAAAC-TTCTATCTTTAAATGTAACAACCTGGAGAAGTTAAAC-TCTACAATGC-TATT
1 CAAACTTTC-ATCTTTAAATGTAACAACATGGAGAAGTTAAACATC-AC-AT-CATATT
2414303 CAAACTT
1 CAAACTT
2414310 GTTAAAGTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
55 5 0.10
56 43 0.83
57 3 0.06
58 1 0.02
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.34
Consensus pattern (55 bp):
CAAACTTTCATCTTTAAATGTAACAACATGGAGAAGTTAAACATCACATCATATT
Found at i:2422291 original size:12 final size:12
Alignment explanation
Indices: 2422274--2422298 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2422264 TCGATATATT
2422274 TTATTTATTTAA
1 TTATTTATTTAA
2422286 TTATTTATTTAA
1 TTATTTATTTAA
2422298 T
1 T
2422299 CTTTATCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTATTTATTTAA
Found at i:2423890 original size:21 final size:21
Alignment explanation
Indices: 2423849--2423901 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
2423839 AGCAATTTCA
*
2423849 TAAGAAAAGCTGATTATGTCC
1 TAAGAAAAGCTGATTACGTCC
*
2423870 TAAGAAAATCT-AGTTACGTCC
1 TAAGAAAAGCTGA-TTACGTCC
* *
2423891 CAGGAAAAGCT
1 TAAGAAAAGCT
2423902 AATTGCATCA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 1 0.04
21 25 0.96
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.25
Consensus pattern (21 bp):
TAAGAAAAGCTGATTACGTCC
Found at i:2429895 original size:84 final size:83
Alignment explanation
Indices: 2429723--2429896 Score: 194
Period size: 84 Copynumber: 2.1 Consensus size: 83
2429713 AATTTTTTTT
* * *
2429723 TAAATAGTTTTAAGTATTTTAATTAGGATTTAGGATATTATTTTTATTATATTTTATCTTATCTT
1 TAAATAGTTTTAAGTATTTTAATTAGGATTTAAGATATTATTTTTA-TAGATTTTATCTTAGCTT
* * *
2429788 TGTTTTATGAATTTTAGTT
65 TGTTTTAGGAATTTAAGTA
* *
2429807 TAAATAGTTTTAAGTGTTTTAATTAGGATTTAAGATATTA-TTTTA-GGA-TTTATCTATAGC-T
1 TAAATAGTTTTAAGTATTTTAATTAGGATTTAAGATATTATTTTTATAGATTTTATCT-TAGCTT
2429868 TGTTTTCAGGAATTTGAAGGCTA
65 TGTTTT-AGGAATTT-AA-G-TA
2429891 TAAATA
1 TAAATA
2429897 CATTCTCAGG
Statistics
Matches: 77, Mismatches: 8, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
80 14 0.18
81 11 0.14
82 1 0.01
83 6 0.08
84 45 0.58
ACGTcount: A:0.31, C:0.03, G:0.14, T:0.52
Consensus pattern (83 bp):
TAAATAGTTTTAAGTATTTTAATTAGGATTTAAGATATTATTTTTATAGATTTTATCTTAGCTTT
GTTTTAGGAATTTAAGTA
Found at i:2430284 original size:11 final size:13
Alignment explanation
Indices: 2430269--2430331 Score: 65
Period size: 13 Copynumber: 4.8 Consensus size: 13
2430259 TATTATTTTC
2430269 ATATATTTATATT
1 ATATATTTATATT
2430282 ATATATTTATATT
1 ATATATTTATATT
* * *
2430295 ATACAGTATTGTA-C
1 ATATA-T-TTATATT
*
2430309 ATATATTTATACT
1 ATATATTTATATT
2430322 ATATATTTAT
1 ATATATTTAT
2430332 TATATGTATC
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
12 4 0.10
13 28 0.68
14 5 0.12
15 4 0.10
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (13 bp):
ATATATTTATATT
Found at i:2431455 original size:22 final size:23
Alignment explanation
Indices: 2431413--2431459 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
2431403 CCTTTCTTAA
*
2431413 TTTAATTTATGTTTTAATTATTT
1 TTTAATTTATATTTTAATTATTT
*
2431436 TTTAATTTA-ATTTTATTTATTT
1 TTTAATTTATATTTTAATTATTT
2431458 TT
1 TT
2431460 CTTGTTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (23 bp):
TTTAATTTATATTTTAATTATTT
Found at i:2431477 original size:40 final size:39
Alignment explanation
Indices: 2431422--2431570 Score: 125
Period size: 40 Copynumber: 3.9 Consensus size: 39
2431412 ATTTAATTTA
*
2431422 TGTTTTAATTATTTTTTAATTTAATTTTATTTATTTTTCT
1 TGTTTAAATT-TTTTTTAATTTAATTTTATTTATTTTTCT
*
2431462 TGTTTAAATTGTTTTTTAATATTTTATTTTA-TT-TTTTTCT
1 TGTTTAAATT-TTTTTT-A-ATTTAATTTTATTTATTTTTCT
* * * *
2431502 TCTTTAAATTATTTTTAATTT--TTTAATTTTATTTCTCCT
1 TGTTTAAATTTTTTTTAATTTAATTTTA-TTTATTT-TTCT
*
2431541 T-TTT-AA--TTTTTTAATTTAATTTCATTTATT
1 TGTTTAAATTTTTTTTAATTTAATTTTATTTATT
2431571 ATAATTTTTT
Statistics
Matches: 92, Mismatches: 9, Indels: 20
0.76 0.07 0.17
Matches are distributed among these distances:
35 14 0.15
36 6 0.07
37 12 0.13
38 7 0.08
39 9 0.10
40 31 0.34
41 3 0.03
42 10 0.11
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (39 bp):
TGTTTAAATTTTTTTTAATTTAATTTTATTTATTTTTCT
Found at i:2431533 original size:20 final size:20
Alignment explanation
Indices: 2431474--2431535 Score: 58
Period size: 20 Copynumber: 3.1 Consensus size: 20
2431464 TTTAAATTGT
*
2431474 TTTTTAATATTTT-ATTTTA
1 TTTTTAATTTTTTAATTTTA
* *
2431493 TTTTT-TTCTTCTTTAA-ATTA
1 TTTTTAAT-TT-TTTAATTTTA
2431513 TTTTTAATTTTTTAATTTTA
1 TTTTTAATTTTTTAATTTTA
2431533 TTT
1 TTT
2431536 CTCCTTTTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 9
0.70 0.11 0.19
Matches are distributed among these distances:
18 1 0.03
19 11 0.33
20 19 0.58
21 2 0.06
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTTTAATTTTTTAATTTTA
Found at i:2431575 original size:28 final size:26
Alignment explanation
Indices: 2431513--2431583 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 26
2431503 CTTTAAATTA
*
2431513 TTTTTAATTTTTTAATTTTATTTCTCC
1 TTTTTAATTTTTTAATTTAATTTCT-C
2431540 TTTTTAATTTTTTAATTTAATTTCAT-
1 TTTTTAATTTTTTAATTTAATTTC-TC
2431566 TTATTATAATTTTTTAAT
1 TT-TT-TAATTTTTTAAT
2431584 AGCTCTTTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
26 2 0.05
27 25 0.62
28 13 0.32
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (26 bp):
TTTTTAATTTTTTAATTTAATTTCTC
Found at i:2431645 original size:18 final size:16
Alignment explanation
Indices: 2431598--2431671 Score: 67
Period size: 17 Copynumber: 4.2 Consensus size: 16
2431588 CTTTATTTAA
*
2431598 TTTAATTTCTTTTTATT
1 TTTAATTT-TTCTTATT
2431615 TTTAATTTTTCTTATT
1 TTTAATTTTTCTTATT
*
2431631 TTTGAATTGTTTCTTCTT
1 TTT-AATT-TTTCTTATT
*
2431649 TTTATTTATTTTTTTTATT
1 TTTA---ATTTTTCTTATT
2431668 TTTA
1 TTTA
2431672 GATAACTTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
16 10 0.21
17 13 0.27
18 11 0.23
19 11 0.23
20 3 0.06
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (16 bp):
TTTAATTTTTCTTATT
Found at i:2440401 original size:16 final size:16
Alignment explanation
Indices: 2440361--2440401 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
2440351 TTCTTCTTTA
*
2440361 TATTTCTTTTTAATTT
1 TATTTCTTTTTAATAT
2440377 TATATT-TTTTT-ATAT
1 TAT-TTCTTTTTAATAT
2440392 TATTTCTTTT
1 TATTTCTTTT
2440402 CCTTCTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
14 2 0.09
15 10 0.45
16 8 0.36
17 2 0.09
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.76
Consensus pattern (16 bp):
TATTTCTTTTTAATAT
Found at i:2440452 original size:45 final size:45
Alignment explanation
Indices: 2440328--2440476 Score: 181
Period size: 45 Copynumber: 3.2 Consensus size: 45
2440318 TTTAATTATT
* * * *
2440328 TTTTAATTTAATTTTATTTCTTTTTCTTCTTTATATTTCTTTTTAA
1 TTTTATTTTATTTTTATTTCTTTTTCTTCTTT-TAATTATTTTTAA
* * *
2440374 TTTTATATTTTTTTATATTATTTCTTTTCCTTCTTTTAATTATTTTTTA
1 -TTT-TATTTTATT-T-TTATTTCTTTTTCTTCTTTTAATTATTTTTAA
*
2440423 TTTTATTTTATTTTTATTTCTTTTTCTTCTTTTAGTTATTTTTAA
1 TTTTATTTTATTTTTATTTCTTTTTCTTCTTTTAATTATTTTTAA
2440468 TTTTATTTT
1 TTTTATTTT
2440477 TTAATTGCTT
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
45 38 0.43
46 1 0.01
47 11 0.12
48 9 0.10
49 11 0.12
50 18 0.20
ACGTcount: A:0.17, C:0.07, G:0.01, T:0.74
Consensus pattern (45 bp):
TTTTATTTTATTTTTATTTCTTTTTCTTCTTTTAATTATTTTTAA
Found at i:2440465 original size:79 final size:78
Alignment explanation
Indices: 2440382--2440534 Score: 195
Period size: 79 Copynumber: 1.9 Consensus size: 78
2440372 AATTTTATAT
* *
2440382 TTTTTTATATTATTTCTT-TTCCTTCTTTTAAT-TATTTTTTATTTTAT-TTTATTTTTATTTCT
1 TTTTTAATATTATTTCTTATTCCTT-TTTT-ATGTA-ATTTTATTTT-TCTTTATTTTTATTTCT
2440444 TTTTCTTCTTTTAGTTA
62 TTTTCTTCTTTTAGTTA
* * *
2440461 TTTTTAATTTTATTTTTTAATTGCTTTTTTATGTAATTTTATTTTTCTTTATTTTTATTTCTTTT
1 TTTTTAATATTATTTCTT-ATTCCTTTTTTATGTAATTTTATTTTTCTTTATTTTTATTTCTTTT
2440526 TCTTCTTTT
65 TCTTCTTTT
2440535 TGAATTGTTT
Statistics
Matches: 65, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
78 1 0.02
79 53 0.82
80 6 0.09
81 5 0.08
ACGTcount: A:0.15, C:0.08, G:0.02, T:0.75
Consensus pattern (78 bp):
TTTTTAATATTATTTCTTATTCCTTTTTTATGTAATTTTATTTTTCTTTATTTTTATTTCTTTTT
CTTCTTTTAGTTA
Found at i:2440676 original size:23 final size:22
Alignment explanation
Indices: 2440634--2440678 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
2440624 TCTAATTTAG
*
2440634 CTTTTTATTTATTATTTATTTT
1 CTTTTTATTTATTATATATTTT
2440656 CTTTTTAATTTAATTA-ATATTTT
1 CTTTTT-ATTT-ATTATATATTTT
2440679 TTTACCTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 6 0.30
23 10 0.50
24 4 0.20
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.71
Consensus pattern (22 bp):
CTTTTTATTTATTATATATTTT
Found at i:2445557 original size:166 final size:167
Alignment explanation
Indices: 2445283--2445617 Score: 654
Period size: 166 Copynumber: 2.0 Consensus size: 167
2445273 ATATCACGAT
2445283 ATATGTAGTGGGGTGTGAATGATCAAGATAGGATTTGTCTTTACTACATAATATGAAATATATCA
1 ATATGTAGTGGGGTGTGAATGATCAAGATAGGATTTGTCTTTACTACATAATATGAAATATATCA
2445348 CATGTCACTTGATTGAGTGAGAATAGAAATGCATTGCCATGCTCAAATAAGTTGATATGAG-ATC
66 CATGTCACTTGATTGAGTGAGAATAGAAATGCATTGCCATGCTCAAATAAGTTGATATGAGAATC
2445412 AAAAATTATTCATTTATTATAGTGTACTCTAGATATC
131 AAAAATTATTCATTTATTATAGTGTACTCTAGATATC
2445449 ATATGTAGTGGGGTGTGAATGATCAAGATAGGATTTGTCTTTACTACATAATATGAAATATATCA
1 ATATGTAGTGGGGTGTGAATGATCAAGATAGGATTTGTCTTTACTACATAATATGAAATATATCA
2445514 CATGTCACTTGATTGAGTGAGAATAGAAATGCATTGCCATGCTCAAATAAGTTGATATGAGATAT
66 CATGTCACTTGATTGAGTGAGAATAGAAATGCATTGCCATGCTCAAATAAGTTGATATGAGA-AT
2445579 CAAAAATTATTCATTTATTATAGTGTACTCTAGATATC
130 CAAAAATTATTCATTTATTATAGTGTACTCTAGATATC
2445617 A
1 A
2445618 AGAAATAATA
Statistics
Matches: 167, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
166 126 0.75
168 41 0.25
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.35
Consensus pattern (167 bp):
ATATGTAGTGGGGTGTGAATGATCAAGATAGGATTTGTCTTTACTACATAATATGAAATATATCA
CATGTCACTTGATTGAGTGAGAATAGAAATGCATTGCCATGCTCAAATAAGTTGATATGAGAATC
AAAAATTATTCATTTATTATAGTGTACTCTAGATATC
Found at i:2445947 original size:17 final size:18
Alignment explanation
Indices: 2445921--2445969 Score: 64
Period size: 17 Copynumber: 2.7 Consensus size: 18
2445911 ATGAATAAAA
*
2445921 AATATGTATATA-ATATT
1 AATATGTATATATATATG
*
2445938 AATATATATATATATATG
1 AATATGTATATATATATG
2445956 ATATATGTATATAT
1 A-ATATGTATATAT
2445970 GCGTGTAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 11 0.41
18 5 0.19
19 11 0.41
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (18 bp):
AATATGTATATATATATG
Found at i:2445959 original size:15 final size:15
Alignment explanation
Indices: 2445941--2445970 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2445931 TAATATTAAT
2445941 ATATATATATATATG
1 ATATATATATATATG
*
2445956 ATATATGTATATATG
1 ATATATATATATATG
2445971 CGTGTAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.47
Consensus pattern (15 bp):
ATATATATATATATG
Found at i:2449670 original size:12 final size:12
Alignment explanation
Indices: 2449653--2449677 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2449643 TAAGATCTTC
2449653 TACATCTAAAGA
1 TACATCTAAAGA
2449665 TACATCTAAAGA
1 TACATCTAAAGA
2449677 T
1 T
2449678 TTACCAAGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.16, G:0.08, T:0.28
Consensus pattern (12 bp):
TACATCTAAAGA
Found at i:2450289 original size:2 final size:2
Alignment explanation
Indices: 2450284--2450330 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
2450274 CACAACACCA
2450284 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2450326 AT AT A
1 AT AT A
2450331 CACGCATAGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2451299 original size:32 final size:32
Alignment explanation
Indices: 2451263--2451490 Score: 183
Period size: 32 Copynumber: 7.2 Consensus size: 32
2451253 AATGATGTGG
* * *
2451263 CACATGACACATAATCAGTTTGGATTATATGA
1 CACATGACACATCATCACTTTGGATAATATGA
* *
2451295 CACATGACACATCATTACTTTGGATAACATGA
1 CACATGACACATCATCACTTTGGATAATATGA
* *
2451327 CACATGAAACATCATCA-TTTGGATGATATGA
1 CACATGACACATCATCACTTTGGATAATATGA
* * * * *
2451358 CACGTGATACATCATCACTTTAGATGATAAGA
1 CACATGACACATCATCACTTTGGATAATATGA
* * * * *
2451390 CACATGTCACATTATCATTTTGGGTAATATGG
1 CACATGACACATCATCACTTTGGATAATATGA
* * * *
2451422 CACAT-ACCACATCATCACTTAGGGTGATATTA
1 CACATGA-CACATCATCACTTTGGATAATATGA
* ** * * *
2451454 CACATGTCATGTCATTACATTGG-TAACATGA
1 CACATGACACATCATCACTTTGGATAATATGA
2451485 CACATG
1 CACATG
2451491 TCATGTCATT
Statistics
Matches: 154, Mismatches: 39, Indels: 7
0.77 0.19 0.04
Matches are distributed among these distances:
31 38 0.25
32 116 0.75
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.30
Consensus pattern (32 bp):
CACATGACACATCATCACTTTGGATAATATGA
Found at i:2451392 original size:63 final size:63
Alignment explanation
Indices: 2451237--2451459 Score: 207
Period size: 64 Copynumber: 3.5 Consensus size: 63
2451227 ATGGTGCATA
* * * * *
2451237 ACACAACATCACTTTAAATGATGTGGCACATGACACATAATCAGTTTGGATTATATGACACATG
1 ACACATCATCACTTTAGATGATATGACACATGACACATAATCA-TTTGGATGATATGACACATG
* * * * * * *
2451301 ACACATCATTACTTTGGATAACATGACACATGAAACATCATCATTTGGATGATATGACACGTG
1 ACACATCATCACTTTAGATGATATGACACATGACACATAATCATTTGGATGATATGACACATG
* * * * * * *
2451364 ATACATCATCACTTTAGATGATAAGACACATGTCACATTATCATTTTGGGTAATATGGCACAT-
1 ACACATCATCACTTTAGATGATATGACACATGACACATAATCA-TTTGGATGATATGACACATG
* *
2451427 ACCACATCATCAC-TTAGGGTGATATTACACATG
1 A-CACATCATCACTTTA-GATGATATGACACATG
2451460 TCATGTCATT
Statistics
Matches: 127, Mismatches: 29, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
63 56 0.44
64 71 0.56
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (63 bp):
ACACATCATCACTTTAGATGATATGACACATGACACATAATCATTTGGATGATATGACACATG
Found at i:2451717 original size:3 final size:3
Alignment explanation
Indices: 2451709--2451745 Score: 65
Period size: 3 Copynumber: 12.0 Consensus size: 3
2451699 ATTGTATTTA
2451709 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
2451746 TAAAATGTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:2460913 original size:8 final size:8
Alignment explanation
Indices: 2460900--2460954 Score: 58
Period size: 9 Copynumber: 6.5 Consensus size: 8
2460890 CTCCTTTATT
2460900 TTTTTTTC
1 TTTTTTTC
2460908 TTTTTTTC
1 TTTTTTTC
2460916 TTTTTTTTC
1 -TTTTTTTC
2460925 ATTTTTTT-
1 -TTTTTTTC
2460933 TTCATTTTTC
1 TT--TTTTTC
*
2460943 TCTTTTTC
1 TTTTTTTC
2460951 TTTT
1 TTTT
2460955 CATTTTTCTC
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
7 2 0.05
8 17 0.43
9 20 0.50
10 1 0.03
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTTTTC
Found at i:2460955 original size:20 final size:20
Alignment explanation
Indices: 2460911--2460972 Score: 90
Period size: 20 Copynumber: 3.1 Consensus size: 20
2460901 TTTTTTCTTT
* *
2460911 TTTTCTTTTTTTTCATTTTT-
1 TTTTCATTTTTCTC-TTTTTC
2460931 TTTTCATTTTTCTCTTTTTC
1 TTTTCATTTTTCTCTTTTTC
2460951 TTTTCATTTTTCTCTTTTTC
1 TTTTCATTTTTCTCTTTTTC
2460971 TT
1 TT
2460973 CTTCTTCAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
19 5 0.13
20 34 0.87
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTCATTTTTCTCTTTTTC
Found at i:2460968 original size:28 final size:27
Alignment explanation
Indices: 2460899--2460971 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 27
2460889 CCTCCTTTAT
*
2460899 TTTTTTTTCTTTTTTTCTTTTTTTTCA
1 TTTTTTTTCTTTTTCTCTTTTTTTTCA
2460926 TTTTTTTTTCATTTTTCTCTTTTTCTTTTCA
1 -TTTTTTTTC-TTTTTCTC-TTTT-TTTTCA
*
2460957 -TTTTTCTCTTTTTCT
1 TTTTTTTTCTTTTTCT
2460972 TCTTCTTCAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
28 16 0.40
29 14 0.35
30 4 0.10
31 6 0.15
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (27 bp):
TTTTTTTTCTTTTTCTCTTTTTTTTCA
Found at i:2467884 original size:30 final size:30
Alignment explanation
Indices: 2467843--2467905 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
2467833 TTAAATTTGA
*
2467843 ATGCATATTATTGGTAATGTATTATAAACG
1 ATGCATATTATTGGTAATGCATTATAAACG
* * *
2467873 ATGCATTTTATTGGTGATGCATTATAAATG
1 ATGCATATTATTGGTAATGCATTATAAACG
2467903 ATG
1 ATG
2467906 AATTCATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.33, C:0.06, G:0.19, T:0.41
Consensus pattern (30 bp):
ATGCATATTATTGGTAATGCATTATAAACG
Found at i:2473790 original size:16 final size:16
Alignment explanation
Indices: 2473769--2473802 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
2473759 TCCGGGCTTC
2473769 GGGTTGTATCTGGGTT
1 GGGTTGTATCTGGGTT
2473785 GGGTTGTATCTGGGTT
1 GGGTTGTATCTGGGTT
2473801 GG
1 GG
2473803 ATCGGATCCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.06, C:0.06, G:0.47, T:0.41
Consensus pattern (16 bp):
GGGTTGTATCTGGGTT
Found at i:2474174 original size:39 final size:39
Alignment explanation
Indices: 2474131--2474208 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
2474121 TATTTGTTTT
*
2474131 GAACTTTAGATTTTTAAATGAAGGTTATGAATGATGTTC
1 GAACTTTAGATTTTTAAATGAAGGCTATGAATGATGTTC
*
2474170 GAACTTTAGATTTTTAGATGAAGGCTATGAATGATGTTC
1 GAACTTTAGATTTTTAAATGAAGGCTATGAATGATGTTC
2474209 AAAAAGTAGC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.32, C:0.06, G:0.22, T:0.40
Consensus pattern (39 bp):
GAACTTTAGATTTTTAAATGAAGGCTATGAATGATGTTC
Found at i:2478610 original size:16 final size:16
Alignment explanation
Indices: 2478591--2478635 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
2478581 AATATATTAA
2478591 TAAAAAATTAAAACAT
1 TAAAAAATTAAAACAT
*
2478607 TAAAAAATATAAAATAT
1 TAAAAAAT-TAAAACAT
*
2478624 TCTAAAAATTAA
1 T-AAAAAATTAA
2478636 CCGGAATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 8 0.32
17 11 0.44
18 6 0.24
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (16 bp):
TAAAAAATTAAAACAT
Found at i:2479044 original size:21 final size:21
Alignment explanation
Indices: 2479020--2479075 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 21
2479010 TTAGCTTTAC
*
2479020 ATTCTATTTTTATTGAATTTT
1 ATTCTATTTTTATTCAATTTT
* **
2479041 ATTC-ACTTTTAATTCTTTTTT
1 ATTCTA-TTTTTATTCAATTTT
*
2479062 ATTGTATTTTTATT
1 ATTCTATTTTTATT
2479076 ATTTTTTAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
20 1 0.04
21 25 0.93
22 1 0.04
ACGTcount: A:0.21, C:0.07, G:0.04, T:0.68
Consensus pattern (21 bp):
ATTCTATTTTTATTCAATTTT
Found at i:2479226 original size:4 final size:4
Alignment explanation
Indices: 2479217--2479242 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
2479207 AATATCACAT
2479217 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
2479243 GTTAACGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:2479315 original size:29 final size:31
Alignment explanation
Indices: 2479274--2479333 Score: 72
Period size: 30 Copynumber: 2.0 Consensus size: 31
2479264 TCACTCTAAC
*
2479274 AAAAATTAATTAT-ATATTAG-ACACTATTTT
1 AAAAATTAATTATAAAATTAGCA-ACTATTTT
*
2479304 AAAAA-TATTTATAAAATTAGCAACTATTTT
1 AAAAATTAATTATAAAATTAGCAACTATTTT
2479334 TTTACACGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
29 6 0.23
30 19 0.73
31 1 0.04
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.42
Consensus pattern (31 bp):
AAAAATTAATTATAAAATTAGCAACTATTTT
Found at i:2479920 original size:25 final size:24
Alignment explanation
Indices: 2479876--2479923 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
2479866 TACTAATAGA
2479876 TAATAAAAATATTAAATTATTAAT
1 TAATAAAAATATTAAATTATTAAT
* *
2479900 TAATAATAATTATTAATTTATTAA
1 TAATAA-AAATATTAAATTATTAA
2479924 GTTTTTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (24 bp):
TAATAAAAATATTAAATTATTAAT
Found at i:2480202 original size:72 final size:71
Alignment explanation
Indices: 2480026--2480203 Score: 214
Period size: 72 Copynumber: 2.5 Consensus size: 71
2480016 TAATGAGCAA
* * * * *
2480026 CGAGTCGAACAATAATTT-TTTAACGAACACAAGTGGATTAAAATTTGATCACTCTTAACGAGCA
1 CGAGTCAAACAACAATTTATTTAACGAGCACAAGTGAAGTAAAATTTGATCACTCTTAACGAGCA
2480090 ATGAGT
66 ATGAGT
* * * * * * *
2480096 TGAGTTAGACAACATATTTATTTAATGAGAACAAGTGAAGTAAAATTTTATCACTCTTAACGAGT
1 CGAGTCAAACAACA-ATTTATTTAACGAGCACAAGTGAAGTAAAATTTGATCACTCTTAACGAGC
2480161 AATGAGT
65 AATGAGT
*
2480168 CGAGTCAAACAACAGATTTATTTTACGAGCACAAGT
1 CGAGTCAAACAACA-ATTTATTTAACGAGCACAAGT
2480204 CAAACACTAT
Statistics
Matches: 87, Mismatches: 19, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
70 9 0.10
71 4 0.05
72 74 0.85
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.30
Consensus pattern (71 bp):
CGAGTCAAACAACAATTTATTTAACGAGCACAAGTGAAGTAAAATTTGATCACTCTTAACGAGCA
ATGAGT
Found at i:2482185 original size:20 final size:19
Alignment explanation
Indices: 2482156--2482248 Score: 55
Period size: 20 Copynumber: 4.7 Consensus size: 19
2482146 CAAGTAATGT
*
2482156 GGTATGGATACCATGGTAAG
1 GGTATCGATACCAT-GTAAG
*
2482176 GGTATCGATACC-TAG-AGG
1 GGTATCGATACCAT-GTAAG
* *
2482194 GGTATCAATACCATATCATAGG
1 GGTATCGATACCATGT-A-A-G
* * *
2482216 GGTATCAATTCCATTGTGAG
1 GGTATCGATACCA-TGTAAG
2482236 GGTATCGATACCA
1 GGTATCGATACCA
2482249 GGCTACATCG
Statistics
Matches: 56, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
18 13 0.23
19 3 0.05
20 24 0.43
21 1 0.02
22 13 0.23
23 2 0.04
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (19 bp):
GGTATCGATACCATGTAAG
Found at i:2482851 original size:79 final size:79
Alignment explanation
Indices: 2482720--2482996 Score: 383
Period size: 79 Copynumber: 3.5 Consensus size: 79
2482710 TGAATAAAAT
* * * *
2482720 AATAATGCATACGTGTGCATTAGTGGCATGAAAAGATGCCTTAGCTGATATGTATATGGATTCAT
1 AATAATGCATACGGGTGCATTAGTGGCATGAAAGGATGCCTTAGCTGATATGTATATGGGTACAT
2482785 TATCGGCATAACAG
66 TATCGGCATAACAG
* *
2482799 AATAATGCATATGGGTGCATTAGTGGCATGAAAGGATGCCTTAGCTAATATGTATATGGGTACAT
1 AATAATGCATACGGGTGCATTAGTGGCATGAAAGGATGCCTTAGCTGATATGTATATGGGTACAT
*
2482864 TATCGGCATAACAT
66 TATCGGCATAACAG
* * *
2482878 AATGATGCATGCGGGTGCATTAGTGGCATGAAAGGATGCCTTAGCTGATATATATATGGGTACAT
1 AATAATGCATACGGGTGCATTAGTGGCATGAAAGGATGCCTTAGCTGATATGTATATGGGTACAT
* ***
2482943 TATCAGCATTTTAG
66 TATCGGCATAACAG
* * * * *
2482957 AATAATGCATATGGGTGTATTATTGGCATTAAATGATGCC
1 AATAATGCATACGGGTGCATTAGTGGCATGAAAGGATGCC
2482997 AAAGTTGAAA
Statistics
Matches: 174, Mismatches: 24, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
79 174 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.31
Consensus pattern (79 bp):
AATAATGCATACGGGTGCATTAGTGGCATGAAAGGATGCCTTAGCTGATATGTATATGGGTACAT
TATCGGCATAACAG
Found at i:2483589 original size:81 final size:81
Alignment explanation
Indices: 2483451--2483601 Score: 221
Period size: 81 Copynumber: 1.9 Consensus size: 81
2483441 GGCCTAGTTG
**
2483451 TGCAATTGACAAAAAGATGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCGTTGAGTAAAAG
1 TGCAATTGACAAAAAGATGTCAATTATGCCAGTTAGATGAACGGTTAAACACCGTTGAGTAAAAG
2483516 AATAATTTTCTAACTA
66 AATAATTTTCTAACTA
* * * * * * *
2483532 TGCAATTGGCAAAAAGGTGTGATTTATGCCAGTTAGATGAAGGGTTAAACACTGTTGAGTAAGAG
1 TGCAATTGACAAAAAGATGTCAATTATGCCAGTTAGATGAACGGTTAAACACCGTTGAGTAAAAG
2483597 AATAA
66 AATAA
2483602 AGAAATTTTA
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 61 1.00
ACGTcount: A:0.38, C:0.11, G:0.23, T:0.28
Consensus pattern (81 bp):
TGCAATTGACAAAAAGATGTCAATTATGCCAGTTAGATGAACGGTTAAACACCGTTGAGTAAAAG
AATAATTTTCTAACTA
Found at i:2484792 original size:15 final size:15
Alignment explanation
Indices: 2484772--2484806 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
2484762 AAAATGTTTA
2484772 AAGTATGATTAATGT
1 AAGTATGATTAATGT
2484787 AAGTATGATTAATGT
1 AAGTATGATTAATGT
*
2484802 GAGTA
1 AAGTA
2484807 AGAAGAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.23, T:0.37
Consensus pattern (15 bp):
AAGTATGATTAATGT
Found at i:2489999 original size:2 final size:2
Alignment explanation
Indices: 2489992--2490019 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2489982 GAATAATGTC
2489992 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2490020 GTGTGTGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2492203 original size:94 final size:95
Alignment explanation
Indices: 2492036--2492209 Score: 217
Period size: 94 Copynumber: 1.8 Consensus size: 95
2492026 CAGGTAATGT
* * * *
2492036 GGTATCGATACCATGGTAAGGGTATCGACACTAGTAAACATCGAATCTAATTTGGGTATCGATAC
1 GGTATCGATACCATGGTAAGGGTATCGACACCAGGAAACATCGAAGCTAATTTGGGTATAGATAC
*
2492101 CTAGA-GGGGTATCAGTACCATAGCATGGG
66 ATAGAGGGGGTATCAGTACCATAGCATGGG
* * * ** * *
2492130 GGTATCGGTACCATGGTGAGGGTATCGATACCAGGCTATATCGAAGCTAATTTTGGTATAGATAC
1 GGTATCGATACCATGGTAAGGGTATCGACACCAGGAAACATCGAAGCTAATTTGGGTATAGATAC
2492195 AT-GAAGGGGGTATCA
66 ATAG-AGGGGGTATCA
2492210 ATACGCTAAT
Statistics
Matches: 66, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
93 1 0.02
94 56 0.85
95 9 0.14
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (95 bp):
GGTATCGATACCATGGTAAGGGTATCGACACCAGGAAACATCGAAGCTAATTTGGGTATAGATAC
ATAGAGGGGGTATCAGTACCATAGCATGGG
Found at i:2492764 original size:79 final size:79
Alignment explanation
Indices: 2492629--2492947 Score: 433
Period size: 79 Copynumber: 4.1 Consensus size: 79
2492619 AATCTAATAA
* * *
2492629 ATAAAAGAATAATGCATA-CGGTGCATTAGTGGCATGAAAGGATGCCTTTGCTGATATGTATATG
1 ATAACAGAATAATGCATATGGGTGCATTAGTGGCATGAAAGGATGCCTTAGCTGATATGTATATG
2492693 GGTACATTATCAAC
66 GGTACATTATCAAC
2492707 ATAACAGAATAATGCATATGGGTGCATTAGTGGCATGAAAGGATGCCTTAGCTGATATGTATATG
1 ATAACAGAATAATGCATATGGGTGCATTAGTGGCATGAAAGGATGCCTTAGCTGATATGTATATG
**
2492772 GGTACATTATCGGC
66 GGTACATTATCAAC
* * *
2492786 ATAACAGAATAATGCATACGGGTGCATTAGTGGAATGAAATGATGCCTTAGCTGATATGTATATG
1 ATAACAGAATAATGCATATGGGTGCATTAGTGGCATGAAAGGATGCCTTAGCTGATATGTATATG
**
2492851 GGTACATTATCGGC
66 GGTACATTATCAAC
* * * * *** * * *
2492865 ATATCAGAATAATGCATATGGATGTATTATTGGCATGAAAGGATGCAAAAGTTGAAATGCATATG
1 ATAACAGAATAATGCATATGGGTGCATTAGTGGCATGAAAGGATGCCTTAGCTGATATGTATATG
* *
2492930 CGTGCATTATCAAC
66 GGTACATTATCAAC
2492944 ATAA
1 ATAA
2492948 AAGTATGCTA
Statistics
Matches: 214, Mismatches: 26, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
78 17 0.08
79 197 0.92
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (79 bp):
ATAACAGAATAATGCATATGGGTGCATTAGTGGCATGAAAGGATGCCTTAGCTGATATGTATATG
GGTACATTATCAAC
Found at i:2492787 original size:45 final size:44
Alignment explanation
Indices: 2492722--2492859 Score: 111
Period size: 45 Copynumber: 3.3 Consensus size: 44
2492712 AGAATAATGC
*
2492722 ATATGGGTGCATTAGTGGCATGAAAGGATGCCTTAGCTGATATGT
1 ATATGGGTACATTAGTGGCATGAAA-GATGCCTTAGCTGATATGT
*
2492767 ATATGGGTACATTA-TCGGCAT-AACAGA------A--T-A-ATGC
1 ATATGGGTACATTAGT-GGCATGAA-AGATGCCTTAGCTGATATGT
* * *
2492801 ATACGGGTGCATTAGTGGAATGAAATGATGCCTTAGCTGATATGT
1 ATATGGGTACATTAGTGGCATGAAA-GATGCCTTAGCTGATATGT
2492846 ATATGGGTACATTA
1 ATATGGGTACATTA
2492860 TCGGCATATC
Statistics
Matches: 70, Mismatches: 8, Indels: 30
0.65 0.07 0.28
Matches are distributed among these distances:
34 20 0.29
35 6 0.09
36 1 0.01
38 1 0.01
41 1 0.01
43 1 0.01
44 6 0.09
45 34 0.49
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.30
Consensus pattern (44 bp):
ATATGGGTACATTAGTGGCATGAAAGATGCCTTAGCTGATATGT
Found at i:2493491 original size:2 final size:2
Alignment explanation
Indices: 2493484--2493568 Score: 170
Period size: 2 Copynumber: 42.5 Consensus size: 2
2493474 AGAAAGGATG
2493484 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
2493526 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
2493568 A
1 A
2493569 TATATATATA
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 83 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:2493573 original size:2 final size:2
Alignment explanation
Indices: 2493568--2493594 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2493558 ACACACACAC
2493568 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
2493595 ATGTATAACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2494651 original size:75 final size:75
Alignment explanation
Indices: 2494494--2494699 Score: 270
Period size: 75 Copynumber: 2.7 Consensus size: 75
2494484 CAAAGTCAAA
* * * * *
2494494 AATTCCAGATTGCTCAGAGGGAACTGATTCCCCCCATAGGAGGAACCGATTCCCCCCTGAATGGT
1 AATTCCAGAATGCTCGGAGGGAACCGATT-CCCCCATAGGAGGAACCGATTCCCCCCTAAATAGT
2494559 TTGGCTCCAAG
65 TTGGCTCCAAG
*
2494570 ATTTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTAAATAGTT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTAAATAGTT
* * *
2494635 TTGTTCCGAG
66 TGGCTCCAAG
* * * *
2494645 AATTCCAGTATGCTCGGAGGGAACCGATCCCCCCCA-AGGGGGTACCGATTCCCCC
1 AATTCCAGAATGCTCGGAGGGAACCGAT-TCCCCCATAGGAGGAACCGATTCCCCC
2494700 TTGTACAACG
Statistics
Matches: 115, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
75 84 0.73
76 31 0.27
ACGTcount: A:0.24, C:0.31, G:0.24, T:0.21
Consensus pattern (75 bp):
AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTAAATAGTT
TGGCTCCAAG
Found at i:2500526 original size:21 final size:21
Alignment explanation
Indices: 2500500--2500539 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2500490 CCCCATTTGA
*
2500500 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
2500521 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
2500540 TGGGGTTTTG
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:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:2502494 original size:15 final size:15
Alignment explanation
Indices: 2502474--2502515 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 15
2502464 TCAACATTAT
*
2502474 ATTTTGGATTGTTTG
1 ATTTTGGATTGTTGG
2502489 ATTTTGTGGATTGTTGG
1 A-TTT-TGGATTGTTGG
2502506 ATTTTGGATT
1 ATTTTGGATT
2502516 TATGGATGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 7 0.29
16 6 0.25
17 11 0.46
ACGTcount: A:0.14, C:0.00, G:0.29, T:0.57
Consensus pattern (15 bp):
ATTTTGGATTGTTGG
Found at i:2502500 original size:17 final size:17
Alignment explanation
Indices: 2502478--2502511 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
2502468 CATTATATTT
*
2502478 TGGATTGTTTGATTTTG
1 TGGATTGTTGGATTTTG
2502495 TGGATTGTTGGATTTTG
1 TGGATTGTTGGATTTTG
2502512 GATTTATGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.32, T:0.56
Consensus pattern (17 bp):
TGGATTGTTGGATTTTG
Found at i:2503272 original size:74 final size:73
Alignment explanation
Indices: 2503109--2503314 Score: 252
Period size: 74 Copynumber: 2.8 Consensus size: 73
2503099 CAAAGTCAAA
* **
2503109 AATTCCAGATTGCTCAGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTGAATGGT
1 AATTCCAGA-TGCTCAGAGGGAACCGATT-CCCCCATAGGAGGAACCGATT-CCCCCTAAACAGT
2503174 TTGGCTCCGAG
63 TTGGCTCCGAG
* *
2503185 ATTTCCAGAATGCTCAGAGGGAACCGATTCCCCTATAGGAGGAACCGATTCCCCCTAAACAGTTT
1 AATTCCAG-ATGCTCAGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCTAAACAGTTT
* *
2503250 TGTTCCGAG
65 GGCTCCGAG
* * * *
2503259 AATTCCAGTATGCTCGGAGGGAACCGATCCCCCCCA-AGGGGGTACCGATTCCCCCT
1 AATTCCAG-ATGCTCAGAGGGAACCGAT-TCCCCCATAGGAGGAACCGATTCCCCCT
2503315 TGTAAAACGG
Statistics
Matches: 114, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
74 62 0.54
75 25 0.22
76 26 0.23
77 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.24, T:0.21
Consensus pattern (73 bp):
AATTCCAGATGCTCAGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCTAAACAGTTTG
GCTCCGAG
Found at i:2505259 original size:78 final size:79
Alignment explanation
Indices: 2505138--2505297 Score: 252
Period size: 78 Copynumber: 2.0 Consensus size: 79
2505128 AACCATTTTG
* *
2505138 AATAAGATAGAAAAGTTGAGATAAATTCTAAAAGAATTCATAATTAATGGTTAAAACATGAAGTT
1 AATAAGATAGAAAAGTGGAGATAAATTCTAAAAGAATTCATAATTAACGGTTAAAACATGAAGTT
2505203 GAAAATGTTATGTA
66 GAAAATGTTATGTA
* * *
2505217 AATAAG-TGAGAAAAGTGGAGAT-AATTCTAAACGAATTTATAATTAACGTTTAAAACATGAAGT
1 AATAAGAT-AGAAAAGTGGAGATAAATTCTAAAAGAATTCATAATTAACGGTTAAAACATGAAGT
2505280 TGAAAATGTTATGTA
65 TGAAAATGTTATGTA
2505295 AAT
1 AAT
2505298 TAGCGATGAA
Statistics
Matches: 75, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
78 56 0.75
79 19 0.25
ACGTcount: A:0.48, C:0.04, G:0.17, T:0.31
Consensus pattern (79 bp):
AATAAGATAGAAAAGTGGAGATAAATTCTAAAAGAATTCATAATTAACGGTTAAAACATGAAGTT
GAAAATGTTATGTA
Found at i:2508871 original size:20 final size:20
Alignment explanation
Indices: 2508833--2508871 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
2508823 AGACCAAAGT
2508833 CTATCTTTGATATTGAAAAA
1 CTATCTTTGATATTGAAAAA
*
2508853 CTAT-TTTGATTTTGAAAAA
1 CTATCTTTGATATTGAAAAA
2508872 TAAGCGTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.44
Consensus pattern (20 bp):
CTATCTTTGATATTGAAAAA
Found at i:2509955 original size:12 final size:12
Alignment explanation
Indices: 2509938--2509962 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2509928 CTTAGGTAAA
2509938 GGTGGGGAAAAG
1 GGTGGGGAAAAG
2509950 GGTGGGGAAAAG
1 GGTGGGGAAAAG
2509962 G
1 G
2509963 CTAATTAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.60, T:0.08
Consensus pattern (12 bp):
GGTGGGGAAAAG
Found at i:2516084 original size:23 final size:23
Alignment explanation
Indices: 2516050--2516132 Score: 69
Period size: 23 Copynumber: 3.5 Consensus size: 23
2516040 ATTACATTCT
*
2516050 TGTACTCTTGTATTAGTGCTTTG
1 TGTACTCCTGTATTAGTGCTTTG
*
2516073 TGTACTCCTGTATTAG-GACCATTG
1 TGTACTCCTGTATTAGTG--CTTTG
* * *
2516097 GGTACTCTTGTAATTAGTGCATTCG
1 TGTACTCCTGT-ATTAGTGC-TTTG
*
2516122 TATACTCCTGT
1 TGTACTCCTGT
2516133 CAATATGTGT
Statistics
Matches: 46, Mismatches: 9, Indels: 8
0.73 0.14 0.13
Matches are distributed among these distances:
22 1 0.02
23 15 0.33
24 14 0.30
25 15 0.33
26 1 0.02
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.43
Consensus pattern (23 bp):
TGTACTCCTGTATTAGTGCTTTG
Found at i:2516108 original size:24 final size:23
Alignment explanation
Indices: 2516051--2516119 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 23
2516041 TTACATTCTT
* *
2516051 GTACTCTTGTATTAGTGCTTTGT
1 GTACTCTTGTATTAGTGCATTGG
*
2516074 GTACTCCTGTATTAG-GACCATTGG
1 GTACTCTTGTATTAGTG--CATTGG
2516098 GTACTCTTGTAATTAGTGCATT
1 GTACTCTTGT-ATTAGTGCATT
2516120 CGTATACTCC
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
22 1 0.03
23 14 0.37
24 17 0.45
25 5 0.13
26 1 0.03
ACGTcount: A:0.19, C:0.16, G:0.22, T:0.43
Consensus pattern (23 bp):
GTACTCTTGTATTAGTGCATTGG
Found at i:2516348 original size:15 final size:15
Alignment explanation
Indices: 2516304--2516349 Score: 56
Period size: 17 Copynumber: 2.9 Consensus size: 15
2516294 AAAATGAACT
2516304 AAAAAGGAATAGTAC
1 AAAAAGGAATAGTAC
**
2516319 AATGAAATAAATAGTAC
1 AA--AAAGGAATAGTAC
2516336 AAAAAGGAATAGTA
1 AAAAAGGAATAGTA
2516350 GGGGAAAAGG
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 12 0.48
17 13 0.52
ACGTcount: A:0.61, C:0.04, G:0.17, T:0.17
Consensus pattern (15 bp):
AAAAAGGAATAGTAC
Found at i:2522068 original size:110 final size:110
Alignment explanation
Indices: 2521872--2522081 Score: 305
Period size: 110 Copynumber: 1.9 Consensus size: 110
2521862 GGGTGTTCGA
* * **
2521872 AATTTGGAGAGTCGTATTAACCTCAGGGGGCATTCATCCATTGTAGCAATTATACACATTGGGGC
1 AATTTGGAGAGCCATATTAACCTCAGGGGGCATTCATCCATTGTAGCAATTATACACATCAGGGC
*
2521937 GAATTCGCTTCTAAGGCAGTGGATTACCATGACACGGTTGTACGG
66 GAATTCGCTTCTAAGGCAGTGGATTACCAAGACACGGTTGTACGG
* * ** *
2521982 AATTTGGAGAGCCATGTTAACCTC-GGGGGTCATTCGTCCATTGTAGTGATTGTACACATCAGGG
1 AATTTGGAGAGCCATATTAACCTCAGGGGG-CATTCATCCATTGTAGCAATTATACACATCAGGG
*
2522046 CGAATTCGCTTCTAAGGTAGTGGATTACCAAGACAC
65 CGAATTCGCTTCTAAGGCAGTGGATTACCAAGACAC
2522082 ATTTATCGTT
Statistics
Matches: 88, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
109 5 0.06
110 83 0.94
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (110 bp):
AATTTGGAGAGCCATATTAACCTCAGGGGGCATTCATCCATTGTAGCAATTATACACATCAGGGC
GAATTCGCTTCTAAGGCAGTGGATTACCAAGACACGGTTGTACGG
Found at i:2530299 original size:20 final size:20
Alignment explanation
Indices: 2530276--2530313 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2530266 CACATGTTAA
2530276 AGAATGCATCGAGGCACTGT
1 AGAATGCATCGAGGCACTGT
*
2530296 AGAATGCATCGATGCACT
1 AGAATGCATCGAGGCACT
2530314 TCAAGGGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.21
Consensus pattern (20 bp):
AGAATGCATCGAGGCACTGT
Found at i:2534790 original size:5 final size:5
Alignment explanation
Indices: 2534775--2534843 Score: 50
Period size: 5 Copynumber: 13.8 Consensus size: 5
2534765 GAAAAATAAC
* * * * * *
2534775 AAAAT -AAAT AAAAT AAAAT AAAGT GAAAT GAAAT GAAAT GAAAT GAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
* *
2534824 GGAAAT AAAAC AAAAT AAAA
1 -AAAAT AAAAT AAAAT AAAA
2534844 AGTAAAAGTA
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
4 4 0.07
5 47 0.84
6 5 0.09
ACGTcount: A:0.70, C:0.01, G:0.12, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:2534824 original size:15 final size:14
Alignment explanation
Indices: 2534776--2534823 Score: 60
Period size: 15 Copynumber: 3.3 Consensus size: 14
2534766 AAAAATAACA
* *
2534776 AAATAAATAAAATA
1 AAATAAATGAAATG
2534790 AAATAAAGTGAAATG
1 AAATAAA-TGAAATG
2534805 AAATGAAATGAAATG
1 AAAT-AAATGAAATG
2534820 AAAT
1 AAAT
2534824 GGAAATAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
14 7 0.23
15 20 0.67
16 3 0.10
ACGTcount: A:0.67, C:0.00, G:0.12, T:0.21
Consensus pattern (14 bp):
AAATAAATGAAATG
Found at i:2534893 original size:10 final size:9
Alignment explanation
Indices: 2534878--2534902 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
2534868 TAATGGAATT
2534878 AAAAAAAAC
1 AAAAAAAAC
2534887 AAAAAAAAC
1 AAAAAAAAC
2534896 AAAAAAA
1 AAAAAAA
2534903 TAATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:2538029 original size:18 final size:19
Alignment explanation
Indices: 2538008--2538043 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
2537998 TCACCCTAAA
2538008 CGTTTTT-TTCTCTTTTTT
1 CGTTTTTCTTCTCTTTTTT
*
2538026 CGTTTTTCTTTTCTTTTT
1 CGTTTTTCTTCTCTTTTT
2538044 CGACTTAGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.00, C:0.17, G:0.06, T:0.78
Consensus pattern (19 bp):
CGTTTTTCTTCTCTTTTTT
Found at i:2547988 original size:40 final size:40
Alignment explanation
Indices: 2547929--2548050 Score: 208
Period size: 40 Copynumber: 3.0 Consensus size: 40
2547919 TGCAGGTTTA
* * *
2547929 TAATACACTTTGGTATATATGGTGGGCACGACCTTATCTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
2547969 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
*
2548009 TAATACACTTCGGTGTATATGGTGTGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
2548049 TA
1 TA
2548051 GCACGACTGT
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 78 1.00
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
Found at i:2548249 original size:45 final size:45
Alignment explanation
Indices: 2548153--2548334 Score: 276
Period size: 45 Copynumber: 4.0 Consensus size: 45
2548143 GGTAAGTATG
*
2548153 AAAATAAGCTTACGAGCTTATGGAAT-AATGGCAAGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
** *
2548197 AAAATAAGCACACGAGCTTATGGAATAAACGGTAAGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
*
2548242 AAAATAAGCTTACGATCTTATGGAATAAATGGTAAGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
* * *
2548287 AAAATAAGCTTAGGAGCTTATGGGATTAAATGGTTAGTATATTGGT
1 AAAATAAGCTTACGAGCTTAT-GGAATAAATGGTAAGTATATTGGT
2548333 AA
1 AA
2548335 GAAATGTTAT
Statistics
Matches: 124, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
44 24 0.19
45 76 0.61
46 24 0.19
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.30
Consensus pattern (45 bp):
AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
Found at i:2551143 original size:15 final size:15
Alignment explanation
Indices: 2551134--2551197 Score: 58
Period size: 15 Copynumber: 4.3 Consensus size: 15
2551124 TAAAAAATAG
*
2551134 AAAAAG-AAAAGAAT
1 AAAAAGAAAAAGAAA
* * *
2551148 AAAAATAATAAGAAG
1 AAAAAGAAAAAGAAA
* *
2551163 AAAACGAAGAAGAAAA
1 AAAAAGAAAAAG-AAA
2551179 AAAAAGAAAAAGAAA
1 AAAAAGAAAAAGAAA
2551194 AAAA
1 AAAA
2551198 TGAGACTAAA
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
14 5 0.13
15 22 0.56
16 12 0.31
ACGTcount: A:0.80, C:0.02, G:0.14, T:0.05
Consensus pattern (15 bp):
AAAAAGAAAAAGAAA
Found at i:2551187 original size:10 final size:11
Alignment explanation
Indices: 2551132--2551195 Score: 51
Period size: 12 Copynumber: 5.6 Consensus size: 11
2551122 TATAAAAAAT
2551132 AGAAAAAGAAA
1 AGAAAAAGAAA
2551143 AGAATAAA-AATA
1 AGAA-AAAGAA-A
* *
2551155 ATAAGAAGAAA
1 AGAAAAAGAAA
*
2551166 ACGAAGAAGAAA
1 A-GAAAAAGAAA
2551178 A-AAAAAGAAAA
1 AGAAAAAG-AAA
2551189 AGAAAAA
1 AGAAAAA
2551196 AATGAGACTA
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
10 5 0.12
11 14 0.33
12 24 0.56
ACGTcount: A:0.78, C:0.02, G:0.16, T:0.05
Consensus pattern (11 bp):
AGAAAAAGAAA
Found at i:2551756 original size:14 final size:14
Alignment explanation
Indices: 2551734--2551767 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
2551724 GAACATAATC
2551734 TTTTACCTTAAATT
1 TTTTACCTTAAATT
*
2551748 TTTTCCCTTAAATT
1 TTTTACCTTAAATT
*
2551762 TGTTAC
1 TTTTAC
2551768 AATGAAACAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.03, T:0.56
Consensus pattern (14 bp):
TTTTACCTTAAATT
Found at i:2554383 original size:5 final size:5
Alignment explanation
Indices: 2554373--2554405 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
2554363 AAATGGAAAT
*
2554373 AAAAC AAAAC AAAAC AAAAC -AAAT AAAAC AAAA
1 AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAA
2554406 TAGAAGTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
4 3 0.12
5 22 0.88
ACGTcount: A:0.82, C:0.15, G:0.00, T:0.03
Consensus pattern (5 bp):
AAAAC
Found at i:2554402 original size:14 final size:15
Alignment explanation
Indices: 2554373--2554405 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
2554363 AAATGGAAAT
2554373 AAAACAAAACAAAAC
1 AAAACAAAACAAAAC
*
2554388 AAAAC-AAATAAAAC
1 AAAACAAAACAAAAC
2554402 AAAA
1 AAAA
2554406 TAGAAGTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.82, C:0.15, G:0.00, T:0.03
Consensus pattern (15 bp):
AAAACAAAACAAAAC
Found at i:2554475 original size:5 final size:5
Alignment explanation
Indices: 2554467--2554495 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
2554457 ACAAAACAAA
2554467 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
2554496 AAACAATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:2554626 original size:77 final size:78
Alignment explanation
Indices: 2554459--2554637 Score: 188
Period size: 77 Copynumber: 2.3 Consensus size: 78
2554449 AATAAAAAAC
* * *
2554459 AAAACAAAAAAATAAAATAAAATAAAATAAAATAAAAAAACAATATATATATATATATATATAAT
1 AAAACAAAAAAAT-AAATAAAATAAAAGAAAAGAAAAAAACAATATAAATATATATATATATAAT
*
2554524 AAAATGTAGTATTA
65 AAAATGTAGTATAA
** * * * *
2554538 AGTA-AATAAAATAAATAAAA-AACAGAAAAGGAAAAAATAATGATAAATATATATATATAT-AT
1 AAAACAAAAAAATAAATAAAATAAAAGAAAAGAAAAAAACAAT-ATAAATATATATATATATAAT
2554600 -AAATGTTAGGTA-AA
65 AAAATG-TA-GTATAA
*
2554614 AAAACAAAAAAATAAGTAAAATAA
1 AAAACAAAAAAATAAATAAAATAA
2554638 TATATATATA
Statistics
Matches: 81, Mismatches: 14, Indels: 11
0.76 0.13 0.10
Matches are distributed among these distances:
75 5 0.06
76 23 0.28
77 42 0.52
78 9 0.11
79 2 0.02
ACGTcount: A:0.68, C:0.02, G:0.06, T:0.24
Consensus pattern (78 bp):
AAAACAAAAAAATAAATAAAATAAAAGAAAAGAAAAAAACAATATAAATATATATATATATAATA
AAATGTAGTATAA
Found at i:2554725 original size:3 final size:3
Alignment explanation
Indices: 2554719--2554767 Score: 64
Period size: 3 Copynumber: 15.7 Consensus size: 3
2554709 AATAGTAAAA
2554719 AAT AAT -AT ATAT ATAT ATAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT A-AT A-AT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2554766 AA
1 AA
2554768 CAAAGGGCTA
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 2 0.05
3 31 0.70
4 11 0.25
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:2560567 original size:276 final size:271
Alignment explanation
Indices: 2560031--2560578 Score: 1051
Period size: 276 Copynumber: 2.0 Consensus size: 271
2560021 TGTATTGATT
2560031 TTGACATCTCCATATCAATGACAGCTTGTTGTCATCAATCTACTTAATGTTAGCCTTAAACGTAT
1 TTGACATCTCCATATCAATGACAGCTTGTTGTCATCAATCTACTTAATGTTAGCCTTAAACGTAT
2560096 TATTATTGTGTATGCCCATAATAATACTTGACTAAGGATTTTAATAATAACATTATTATATGAAC
66 TATTATTGTGTATGCCCATAATAATACTTGACTAAGGATTTTAATAATAACATTATTATATGAAC
2560161 TTTATTATCTTTCAGTTTATTTGAGACTAGAAGTATAACTGAAATCAATAATGACAATGCCTTTA
131 TTTATTATCTTTCAGTTTATTTGAGACTAGAAGTATAACTGAAATCAATAATGACAATGCCTTTA
2560226 TTCAATAAAACTGGCAAATTAAATGTATCACTACAATCATCTCATGATTGGTCTTTCGGCATACT
196 TTCAATAAAACTGGCAAATTAAATGTATCACTACAATCATCTCATGATTGGTCTTTCGGCATACT
2560291 CAGACAATCTC
261 CAGACAATCTC
2560302 TTGACATCTCCATATCAATGACAGCTTGTTGTCATCAATCTACTTAATGTTAGCCTTAAACGTAT
1 TTGACATCTCCATATCAATGACAGCTTGTTGTCATCAATCTACTTAATGTTAGCCTTAAACGTAT
2560367 TATTATTGTGTATGCCCATAATAATACTTGACTAAGGATATTTAATAATAATAACATTATTATAT
66 TATTATTGTGTATGCCCATAATAATACTTGACTAAGG--ATTT--TAATAATAACATTATTATAT
2560432 GAACTTTATTATCTTTCAGTTTATTTGAGACATAGAAGTATAACTGAAATCAATAATGACAATGC
127 GAACTTTATTATCTTTCAGTTTATTTGAGAC-TAGAAGTATAACTGAAATCAATAATGACAATGC
2560497 CTTTATTCAATAAAACTGGCAAATTAAATGTATCACTACAATCATCTCATGATTGGTCTTTCGGC
191 CTTTATTCAATAAAACTGGCAAATTAAATGTATCACTACAATCATCTCATGATTGGTCTTTCGGC
2560562 ATACTCAGACAATCTC
256 ATACTCAGACAATCTC
2560578 T
1 T
2560579 CAGTAGAACT
Statistics
Matches: 272, Mismatches: 0, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
271 102 0.38
273 4 0.01
275 51 0.19
276 115 0.42
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.37
Consensus pattern (271 bp):
TTGACATCTCCATATCAATGACAGCTTGTTGTCATCAATCTACTTAATGTTAGCCTTAAACGTAT
TATTATTGTGTATGCCCATAATAATACTTGACTAAGGATTTTAATAATAACATTATTATATGAAC
TTTATTATCTTTCAGTTTATTTGAGACTAGAAGTATAACTGAAATCAATAATGACAATGCCTTTA
TTCAATAAAACTGGCAAATTAAATGTATCACTACAATCATCTCATGATTGGTCTTTCGGCATACT
CAGACAATCTC
Found at i:2564276 original size:13 final size:13
Alignment explanation
Indices: 2564258--2564284 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2564248 AATACATGTT
2564258 AGTATTCTTACTA
1 AGTATTCTTACTA
2564271 AGTATTCTTACTA
1 AGTATTCTTACTA
2564284 A
1 A
2564285 CATTTCATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.15, G:0.07, T:0.44
Consensus pattern (13 bp):
AGTATTCTTACTA
Found at i:2565751 original size:20 final size:21
Alignment explanation
Indices: 2565713--2565751 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2565703 TAAATAGGGA
2565713 AGTACCGATACCTCCTTAACG
1 AGTACCGATACCTCCTTAACG
*
2565734 AGTATCGATACC-CCTTAA
1 AGTACCGATACCTCCTTAA
2565752 ACATCAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.31, C:0.31, G:0.13, T:0.26
Consensus pattern (21 bp):
AGTACCGATACCTCCTTAACG
Found at i:2579020 original size:11 final size:11
Alignment explanation
Indices: 2579004--2579028 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2578994 ATCATCTGAT
2579004 TCACTAATAAC
1 TCACTAATAAC
2579015 TCACTAATAAC
1 TCACTAATAAC
2579026 TCA
1 TCA
2579029 GCTTTCTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.28, G:0.00, T:0.28
Consensus pattern (11 bp):
TCACTAATAAC
Found at i:2580806 original size:13 final size:13
Alignment explanation
Indices: 2580788--2580814 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2580778 AATACATGTT
2580788 AGTATTCTTACTA
1 AGTATTCTTACTA
2580801 AGTATTCTTACTA
1 AGTATTCTTACTA
2580814 A
1 A
2580815 CATTTCATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.15, G:0.07, T:0.44
Consensus pattern (13 bp):
AGTATTCTTACTA
Found at i:2581051 original size:31 final size:31
Alignment explanation
Indices: 2580999--2581057 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
2580989 AATTCCATAT
* *
2580999 TTACCATTTACTCTACTAACTTTCTCAATGC
1 TTACCATTTACACTACAAACTTTCTCAATGC
*
2581030 TTACCATTTAGCACT-CAAACTTTGTCAA
1 TTACCATTTA-CACTACAAACTTTCTCAA
2581058 CTTTCCAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 21 0.88
32 3 0.12
ACGTcount: A:0.29, C:0.27, G:0.05, T:0.39
Consensus pattern (31 bp):
TTACCATTTACACTACAAACTTTCTCAATGC
Done.