Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 145 of 290
Found at i:49387031 original size:27 final size:27
Alignment explanation
Indices: 49386944--49387042 Score: 96
Period size: 27 Copynumber: 3.6 Consensus size: 27
49386934 AAAGGTATAT
49386944 TTTCTTGTCCATAGTTTTGTGAATCGG
1 TTTCTTGTCCATAGTTTTGTGAATCGG
* * * *
49386971 TTTCTGGGT---TAGTTCCTTTATGTTATTGG
1 TTTCT-TGTCCATAG-T--TTTGTG-AATCGG
49387000 TTTCTTGTCCATAGTTTTGTGAATCGG
1 TTTCTTGTCCATAGTTTTGTGAATCGG
49387027 TTTCTTGTCCATAGTT
1 TTTCTTGTCCATAGTT
49387043 AGAAAGATTT
Statistics
Matches: 56, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
25 3 0.05
26 1 0.02
27 25 0.45
28 14 0.25
29 9 0.16
30 1 0.02
31 3 0.05
ACGTcount: A:0.13, C:0.14, G:0.21, T:0.52
Consensus pattern (27 bp):
TTTCTTGTCCATAGTTTTGTGAATCGG
Found at i:49389143 original size:26 final size:26
Alignment explanation
Indices: 49389114--49389171 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
49389104 CATCCTCAAA
49389114 CTATAATCTAGATATTAAATTGGTCT
1 CTATAATCTAGATATTAAATTGGTCT
*
49389140 CTATAATCTAGATTTTAAATTGGTCT
1 CTATAATCTAGATATTAAATTGGTCT
49389166 CTATAA
1 CTATAA
49389172 ATTTTGATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.43
Consensus pattern (26 bp):
CTATAATCTAGATATTAAATTGGTCT
Found at i:49389534 original size:20 final size:20
Alignment explanation
Indices: 49389509--49389548 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
49389499 AATATTTTCC
*
49389509 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
49389529 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
49389549 TTATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:49389563 original size:34 final size:35
Alignment explanation
Indices: 49389497--49389563 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
49389487 CAAACACCAG
*
49389497 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
49389532 AAAACATTTTCCAG-AAATTATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
49389564 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:49395467 original size:11 final size:13
Alignment explanation
Indices: 49395442--49395483 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 13
49395432 ATATTTATTT
49395442 AATTTTTATATAA
1 AATTTTTATATAA
49395455 AATTTTTA-A-AA
1 AATTTTTATATAA
49395466 AATTTTATATTATAA
1 AATTTT-TA-TATAA
49395481 AAT
1 AAT
49395484 CTTTGAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 8 0.32
12 3 0.12
13 8 0.32
14 1 0.04
15 5 0.20
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
AATTTTTATATAA
Found at i:49395492 original size:26 final size:24
Alignment explanation
Indices: 49395442--49395494 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 24
49395432 ATATTTATTT
*
49395442 AATTTTTATATAAAATTTTTAAAA
1 AATTTTTATATAAAATCTTTAAAA
49395466 AATTTTATATTATAAAATCTTTGAAAA
1 AATTTT-TA-TATAAAATCTTT-AAAA
49395493 AA
1 AA
49395495 ATATATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 6 0.24
25 2 0.08
26 11 0.44
27 6 0.24
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (24 bp):
AATTTTTATATAAAATCTTTAAAA
Found at i:49396209 original size:42 final size:43
Alignment explanation
Indices: 49396161--49396302 Score: 209
Period size: 42 Copynumber: 3.3 Consensus size: 43
49396151 AGCGTTTACA
*
49396161 AAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGC-TTAGT
1 AAAAAACGCCACTAAAGACCATGTTCTTTAGCGGCGCTTTAGT
* *
49396203 AAAAAACGCCACTAAAGACCATGTTCTTTAGGGGCGCTTTGGT
1 AAAAAACGCCACTAAAGACCATGTTCTTTAGCGGCGCTTTAGT
*
49396246 -AAAAACGCCACTAAAGACCATGTTCTTTAGCGGCGTTTTTA-T
1 AAAAAACGCCACTAAAGACCATGTTCTTTAGCGGCG-CTTTAGT
49396288 ACAAAAACGCCACTA
1 A-AAAAACGCCACTA
49396303 TTTTTGGGAT
Statistics
Matches: 90, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
42 70 0.78
43 7 0.08
44 13 0.14
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (43 bp):
AAAAAACGCCACTAAAGACCATGTTCTTTAGCGGCGCTTTAGT
Found at i:49397024 original size:14 final size:14
Alignment explanation
Indices: 49397005--49397035 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
49396995 TTTGATTGGT
*
49397005 GGAAAATATTTTCC
1 GGAAAATATTTTAC
49397019 GGAAAATATTTTAC
1 GGAAAATATTTTAC
49397033 GGA
1 GGA
49397036 TTTTCCAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.32
Consensus pattern (14 bp):
GGAAAATATTTTAC
Found at i:49397533 original size:27 final size:27
Alignment explanation
Indices: 49397446--49397544 Score: 96
Period size: 27 Copynumber: 3.6 Consensus size: 27
49397436 AAAGGTATAT
49397446 TTTCTTGTCCATAGTTTTGTGAATCGG
1 TTTCTTGTCCATAGTTTTGTGAATCGG
* * * *
49397473 TTTCTGGGT---TAGTTCCTTTATGTTATTGG
1 TTTCT-TGTCCATAG-T--TTTGTG-AATCGG
49397502 TTTCTTGTCCATAGTTTTGTGAATCGG
1 TTTCTTGTCCATAGTTTTGTGAATCGG
49397529 TTTCTTGTCCATAGTT
1 TTTCTTGTCCATAGTT
49397545 AGAAAGATTT
Statistics
Matches: 56, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
25 3 0.05
26 1 0.02
27 25 0.45
28 14 0.25
29 9 0.16
30 1 0.02
31 3 0.05
ACGTcount: A:0.13, C:0.14, G:0.21, T:0.52
Consensus pattern (27 bp):
TTTCTTGTCCATAGTTTTGTGAATCGG
Found at i:49399641 original size:26 final size:26
Alignment explanation
Indices: 49399612--49399669 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
49399602 CATCCTCAAA
49399612 CTATAATCTAGATATTAAATTGGTCT
1 CTATAATCTAGATATTAAATTGGTCT
*
49399638 CTATAATCTAGATTTTAAATTGGTCT
1 CTATAATCTAGATATTAAATTGGTCT
49399664 CTATAA
1 CTATAA
49399670 ATTTTGATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.43
Consensus pattern (26 bp):
CTATAATCTAGATATTAAATTGGTCT
Found at i:49400013 original size:14 final size:15
Alignment explanation
Indices: 49399991--49400067 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
49399981 CAATCAAACA
49399991 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
49400005 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
49400020 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
49400040 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
49400054 ACGGAAAA-CATTTT
1 CCAGAAAATCATTTT
49400068 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 22 0.44
15 14 0.28
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:49400032 original size:20 final size:20
Alignment explanation
Indices: 49400007--49400046 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
49399997 AATATTTTCC
*
49400007 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
49400027 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
49400047 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:49400052 original size:34 final size:35
Alignment explanation
Indices: 49399995--49400061 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
49399985 CAAACACCAG
*
49399995 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
49400030 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
49400062 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:49400068 original size:14 final size:14
Alignment explanation
Indices: 49400030--49400069 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
49400020 ACAGAAAAGT
*
49400030 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
49400044 AAATCATTTTACGG
1 AAAACATTTTACAG
49400058 AAAACATTTTAC
1 AAAACATTTTAC
49400070 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:49401821 original size:21 final size:21
Alignment explanation
Indices: 49401797--49401868 Score: 74
Period size: 21 Copynumber: 3.4 Consensus size: 21
49401787 TCTTTTGAGC
49401797 TTCTGTTTAACCTTTATGGGT
1 TTCTGTTTAACCTTTATGGGT
* * * *
49401818 TTCTG-TTCAGCTCTTATGAGC
1 TTCTGTTTAACCT-TTATGGGT
* *
49401839 TTCCGTTTAACCCTTATGGGT
1 TTCTGTTTAACCTTTATGGGT
49401860 TTCTGTTTA
1 TTCTGTTTA
49401869 GCACTTCTGT
Statistics
Matches: 38, Mismatches: 11, Indels: 4
0.72 0.21 0.08
Matches are distributed among these distances:
20 5 0.13
21 29 0.76
22 4 0.11
ACGTcount: A:0.14, C:0.19, G:0.18, T:0.49
Consensus pattern (21 bp):
TTCTGTTTAACCTTTATGGGT
Found at i:49401826 original size:42 final size:42
Alignment explanation
Indices: 49401776--49401894 Score: 143
Period size: 42 Copynumber: 2.9 Consensus size: 42
49401766 TCATATAAGT
*
49401776 TTTC-GTTCAGATCTTTTGAGCTTCTGTTTAACCTTTATGGG
1 TTTCTGTTCAGATCTTATGAGCTTCTGTTTAACCTTTATGGG
* * *
49401817 TTTCTGTTCAGCTCTTATGAGCTTCCGTTTAACCCTTATGGG
1 TTTCTGTTCAGATCTTATGAGCTTCTGTTTAACCTTTATGGG
* * * *
49401859 TTTCTGTTTAGCA-CTTCTGTGCTTCTGTTCAACCTT
1 TTTCTGTTCAG-ATCTTATGAGCTTCTGTTTAACCTT
49401895 CGGGCTTCTG
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
41 4 0.06
42 61 0.94
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (42 bp):
TTTCTGTTCAGATCTTATGAGCTTCTGTTTAACCTTTATGGG
Found at i:49402950 original size:18 final size:19
Alignment explanation
Indices: 49402910--49402952 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
49402900 ATGCACCTAA
49402910 GGAAAATTTTAAAATTTTG
1 GGAAAATTTTAAAATTTTG
* *
49402929 GGAAATTTTTGAAATTTT-
1 GGAAAATTTTAAAATTTTG
49402947 GGAAAA
1 GGAAAA
49402953 AAATTTCTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.40
Consensus pattern (19 bp):
GGAAAATTTTAAAATTTTG
Found at i:49409950 original size:14 final size:15
Alignment explanation
Indices: 49409919--49409951 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
49409909 ACAATGTCAT
*
49409919 ATAACATTGATTGAG
1 ATAACATTGATAGAG
49409934 ATAACATTGA-AGAG
1 ATAACATTGATAGAG
49409948 ATAA
1 ATAA
49409952 ATTAACAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.48, C:0.06, G:0.18, T:0.27
Consensus pattern (15 bp):
ATAACATTGATAGAG
Found at i:49415127 original size:19 final size:19
Alignment explanation
Indices: 49415103--49415149 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
49415093 ACAAAACAAG
*
49415103 ATCAAAAGAAAGCCTGCGA
1 ATCAAAAGAAAGCCTGCAA
* *
49415122 ATCAAAAGGAAGGCTGCAA
1 ATCAAAAGAAAGCCTGCAA
*
49415141 ATTAAAAGA
1 ATCAAAAGA
49415150 GAAAACAACC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.51, C:0.15, G:0.21, T:0.13
Consensus pattern (19 bp):
ATCAAAAGAAAGCCTGCAA
Found at i:49425334 original size:22 final size:23
Alignment explanation
Indices: 49425309--49425357 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
49425299 GATTTTGTGG
** *
49425309 TTTAATTTTGGAATAAA-TTTTA
1 TTTAATTTTAAAACAAATTTTTA
49425331 TTTAATTTTAAAACAAATTTTTA
1 TTTAATTTTAAAACAAATTTTTA
49425354 TTTA
1 TTTA
49425358 TTTCTTTACA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (23 bp):
TTTAATTTTAAAACAAATTTTTA
Found at i:49446425 original size:30 final size:31
Alignment explanation
Indices: 49446376--49446451 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 31
49446366 TATGAAAATG
* * * * *
49446376 AAATATATACAGACATATATGTAGGTATGTGT
1 AAATATATATA-AAATATATATAGGTACGTAT
49446408 AAATAT-TATAAAATATATATAGGTACGTAT
1 AAATATATATAAAATATATATAGGTACGTAT
*
49446438 ATATATATATAAAA
1 AAATATATATAAAA
49446452 AGGATAAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
30 21 0.57
31 10 0.27
32 6 0.16
ACGTcount: A:0.49, C:0.04, G:0.12, T:0.36
Consensus pattern (31 bp):
AAATATATATAAAATATATATAGGTACGTAT
Found at i:49448310 original size:84 final size:85
Alignment explanation
Indices: 49448214--49448413 Score: 228
Period size: 87 Copynumber: 2.3 Consensus size: 85
49448204 TTTCTTCTGT
*
49448214 CTGCTCCACTACTGCTTAGGGAGATAAGACTTGAT-GC-GATCTGCTCCACTACTGCTTAAGG-A
1 CTGCTCCACTACTGCTTAGGGAGATAAGAC-TGATGGCTAATCTGCTCCACTACTGCTT-AGGAA
* *
49448276 GATAGGA-TCTACCATATTTGAC
64 GATAAGATTC-ACCATATTCGAC
* * *
49448298 CTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
1 CTGCTCCACTACTGCTTAGGGAGATAAGACTGATGGC-T-AATCTGCTCCACTACTGCTTAGGAA
* * * *
49448363 GATAAGATTCGCCGTCTTCGAT
64 GATAAGATTCACCATATTCGAC
*
49448385 CTACTCCACTACTGCTTAGGGAGATAAGA
1 CTGCTCCACTACTGCTTAGGGAGATAAGA
49448414 TCTGTGGTCT
Statistics
Matches: 98, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
83 3 0.03
84 31 0.32
86 3 0.03
87 59 0.60
88 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (85 bp):
CTGCTCCACTACTGCTTAGGGAGATAAGACTGATGGCTAATCTGCTCCACTACTGCTTAGGAAGA
TAAGATTCACCATATTCGAC
Found at i:49448424 original size:44 final size:44
Alignment explanation
Indices: 49448213--49448425 Score: 188
Period size: 44 Copynumber: 5.0 Consensus size: 44
49448203 GTTTCTTCTG
* *
49448213 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-T-G-ATGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTCGTCTTCGA
* * ** * * *
49448253 TCTGCTCCACTACTGCTTAAGGAGATAGGATCTACCATATTTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTCGTCTTCGA
* * * **
49448297 CCTGCTCCACTACTGCTTAGGGAGATAGGA-CTGGT-GGCTTAAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCT-GTCGTCTTCGA
* * *
49448340 TCTGCTTCACTACTGCTTAGGAAGATAAGAT-TCGCCGTCTTCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCT-GTCGTCTTCGA
* *
49448384 TCTACTCCACTACTGCTTAGGGAGATAAGATCTGTGGTCTTC
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTCGTCTTC
49448426 AGTCTGGTCT
Statistics
Matches: 136, Mismatches: 29, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
40 28 0.21
41 2 0.01
43 33 0.24
44 72 0.53
45 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (44 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTCGTCTTCGA
Found at i:49448532 original size:86 final size:86
Alignment explanation
Indices: 49448436--49449032 Score: 953
Period size: 86 Copynumber: 6.9 Consensus size: 86
49448426 AGTCTGGTCT
* *
49448436 GCTGTTAACGCAGGAAGGCAAGATCTGTTTCTTTAACCAGCTCCACTGCAACCGATAGAGGCAAG
1 GCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAG
49448501 GCTTTGTTTTCGATCTGCTTC
66 GCTTTGTTTTCGATCTGCTTC
* * *
49448522 GCTGTTAACGCAGGAAGGCAAGATCTGCTTATTTAACCAGCTCCACTACAACCGATGGAGGCAAT
1 GCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAG
*
49448587 GCTTTGTTTTTGATCTGCTTC
66 GCTTTGTTTTCGATCTGCTTC
* *
49448608 GCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGTAACCGATAGAGGCAAG
1 GCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAG
49448673 GCTTTGTTTTCGATCTGCTTC
66 GCTTTGTTTTCGATCTGCTTC
* * * *
49448694 GCTGTTAACGCAGGAAGACAAGATCTACTTCTTTAACCAACTCCACTACAACCGATGGAGGCAAG
1 GCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAG
*
49448759 GCTTTGTTTTCGATCTACTTC
66 GCTTTGTTTTCGATCTGCTTC
* * * * *
49448780 GCTATTAACACAGGAAGGCAAGATCTGTTTCTTTAACCAGCTCCACTGCAACTGATAGAGGCAAG
1 GCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAG
* *
49448845 GCTTTGTTTTCAATCTGCTTT
66 GCTTTGTTTTCGATCTGCTTC
*
49448866 GCTGTTAACGCAGAAAGGC-AGAATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAA
1 GCTGTTAACGCAGGAAGGCAAG-ATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAA
49448930 GGCTTTGTTTTCGATCTGCTTC
65 GGCTTTGTTTTCGATCTGCTTC
* * *
49448952 GCTGTTAACGCAGGAAGGCATGATCTACTTCTTTAACCAGCTCCACTACAACCGATGGAGGCAAG
1 GCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAG
*
49449017 GCTTTGTTTTTGATCT
66 GCTTTGTTTTCGATCT
49449033 TCACTGATCT
Statistics
Matches: 465, Mismatches: 44, Indels: 4
0.91 0.09 0.01
Matches are distributed among these distances:
85 2 0.00
86 462 0.99
87 1 0.00
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (86 bp):
GCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAG
GCTTTGTTTTCGATCTGCTTC
Found at i:49448541 original size:43 final size:43
Alignment explanation
Indices: 49448494--49448715 Score: 127
Period size: 43 Copynumber: 5.2 Consensus size: 43
49448484 CAACCGATAG
*
49448494 AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGA
1 AGGCAAGGCTTTGTTTTTGATCTGCTTCGCTGTTAACGCAGGA
* * * * * * * **
49448537 AGGCAA-GATCTGCTTATTTAACCAGCTCCACT-ACAAC-CGATGG-
1 AGGCAAGGCTTTG-TT-TTTGATCTGCTTCGCTGTTAACGC-A-GGA
*
49448580 AGGCAATGCTTTGTTTTTGATCTGCTTCGCTGTTAACGCAGGA
1 AGGCAAGGCTTTGTTTTTGATCTGCTTCGCTGTTAACGCAGGA
* * * * * * * *
49448623 AGGCAA-GATCTGCTTCTTTAACCAGCTCCACTG-TAAC-C-GATA
1 AGGCAAGGCTTTG-TT-TTTGATCTGCTTCGCTGTTAACGCAG-GA
*
49448665 GAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGA
1 -AGGCAAGGCTTTGTTTTTGATCTGCTTCGCTGTTAACGCAGGA
*
49448709 AGACAAG
1 AGGCAAG
49448716 ATCTACTTCT
Statistics
Matches: 126, Mismatches: 37, Indels: 32
0.65 0.19 0.16
Matches are distributed among these distances:
41 1 0.01
42 35 0.28
43 54 0.43
44 35 0.28
45 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (43 bp):
AGGCAAGGCTTTGTTTTTGATCTGCTTCGCTGTTAACGCAGGA
Found at i:49450255 original size:7 final size:7
Alignment explanation
Indices: 49450243--49450287 Score: 60
Period size: 7 Copynumber: 6.9 Consensus size: 7
49450233 TTAGCCTCTC
49450243 CATTTTT
1 CATTTTT
49450250 CA-TTTT
1 CATTTTT
49450256 CATTTTT
1 CATTTTT
49450263 CATTTTT
1 CATTTTT
*
49450270 CA-TTCT
1 CATTTTT
49450276 CATTTTT
1 CATTTTT
49450283 C-TTTT
1 CATTTT
49450288 CTTTTCTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
6 15 0.44
7 19 0.56
ACGTcount: A:0.13, C:0.18, G:0.00, T:0.69
Consensus pattern (7 bp):
CATTTTT
Found at i:49450261 original size:13 final size:13
Alignment explanation
Indices: 49450246--49450292 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
49450236 GCCTCTCCAT
49450246 TTTTCA-TTTTCA
1 TTTTCATTTTTCA
49450258 TTTTTCATTTTTCA
1 -TTTTCATTTTTCA
*
49450272 TTCTCATTTTTC-
1 TTTTCATTTTTCA
49450284 TTTTC-TTTT
1 TTTTCATTTT
49450293 CTTTTTTGAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
11 4 0.13
12 4 0.13
13 17 0.55
14 6 0.19
ACGTcount: A:0.11, C:0.17, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTCATTTTTCA
Found at i:49450395 original size:97 final size:95
Alignment explanation
Indices: 49450213--49450395 Score: 210
Period size: 97 Copynumber: 1.9 Consensus size: 95
49450203 GGCCTAACGC
49450213 GCCCTTTCCGGGTTTTCCCCTTAGCCTCTCCATTTTTCATTTTCATTTTTCATTTTTCATTCTCA
1 GCCCTTTCCGGGTTTTCCCCTTAGCCTCTCCA-TTTTCATTTTCA-TTTTCATTTTTCATTCTCA
***
49450278 TTTTTCTTTTCTTTTCTTTTTTGACTCAGAGT
64 TTTTTCTTAGATTTTCTTTTTTGACTCAGAGT
* * * * * *
49450310 GCCCTTTGCGGGTTTTCGCTTTGGCCTCTCC-TTTTCTTTTTC-TTTTC-TTTTTCATTCTGATT
1 GCCCTTTCCGGGTTTTCCCCTTAGCCTCTCCATTTTCATTTTCATTTTCATTTTTCATTCTCA-T
49450372 TTTTCATCTAGATTTCTCTTTTTT
65 TTTTC-T-TAGATTT-TCTTTTTT
49450396 CATTCTTCTT
Statistics
Matches: 73, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
92 12 0.16
93 11 0.15
94 1 0.01
95 14 0.19
96 8 0.11
97 27 0.37
ACGTcount: A:0.08, C:0.25, G:0.10, T:0.57
Consensus pattern (95 bp):
GCCCTTTCCGGGTTTTCCCCTTAGCCTCTCCATTTTCATTTTCATTTTCATTTTTCATTCTCATT
TTTCTTAGATTTTCTTTTTTGACTCAGAGT
Found at i:49454678 original size:37 final size:37
Alignment explanation
Indices: 49454637--49454713 Score: 84
Period size: 37 Copynumber: 2.1 Consensus size: 37
49454627 ACATGTAAAT
49454637 AAATAAATAAAAAAAT-TAACAAAATTATAAAAATATG
1 AAATAAATAAAAAAATAT-ACAAAATTATAAAAATATG
* * * * * *
49454674 AAATATATATACATATATATAAAATTATGAAAATATG
1 AAATAAATAAAAAAATATACAAAATTATAAAAATATG
49454711 AAA
1 AAA
49454714 AAAAACATAT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
37 32 0.97
38 1 0.03
ACGTcount: A:0.65, C:0.03, G:0.04, T:0.29
Consensus pattern (37 bp):
AAATAAATAAAAAAATATACAAAATTATAAAAATATG
Found at i:49458245 original size:18 final size:16
Alignment explanation
Indices: 49458211--49458246 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
49458201 TAATATAATA
49458211 TATTTTTAATAACTTT
1 TATTTTTAATAACTTT
49458227 TATTTTGTAATATACTTT
1 TATTTT-TAATA-ACTTT
49458245 TA
1 TA
49458247 AAAACCCTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.33
17 5 0.28
18 7 0.39
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.61
Consensus pattern (16 bp):
TATTTTTAATAACTTT
Found at i:49467630 original size:19 final size:19
Alignment explanation
Indices: 49467594--49467630 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
49467584 CATATAATAA
*
49467594 TAAAATTATACTTTAATTC
1 TAAAATTATAATTTAATTC
*
49467613 TAAATTTATAATTTAATT
1 TAAAATTATAATTTAATT
49467631 TTGATATCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.51
Consensus pattern (19 bp):
TAAAATTATAATTTAATTC
Found at i:49468829 original size:18 final size:19
Alignment explanation
Indices: 49468803--49468838 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
49468793 TAAAAAATTA
49468803 TTTTAAAAATTAAAAAAAG
1 TTTTAAAAATTAAAAAAAG
49468822 TTTT-AAAATTAAAAAAA
1 TTTTAAAAATTAAAAAAA
49468839 TAAATATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (19 bp):
TTTTAAAAATTAAAAAAAG
Found at i:49471532 original size:10 final size:10
Alignment explanation
Indices: 49471517--49471553 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
49471507 GGTGCTGCCG
49471517 GAAAAAGAGA
1 GAAAAAGAGA
49471527 GAAAAAGAGA
1 GAAAAAGAGA
*
49471537 GAAAGAGAAGA
1 GAAAAAG-AGA
49471548 GAAAAA
1 GAAAAA
49471554 AAAAGGTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 16 0.67
11 8 0.33
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (10 bp):
GAAAAAGAGA
Found at i:49471815 original size:81 final size:80
Alignment explanation
Indices: 49471723--49471946 Score: 228
Period size: 75 Copynumber: 2.8 Consensus size: 80
49471713 AGGGTTTAGA
*
49471723 TGTTACTTAGTATTATTGTTAGTAAAAAACTAATATTATTATTATGGTTAGTTATTAGGATTAGT
1 TGTTAGTTAGTATTATTGTTAGT-AAAAACTAATATTATTATTATGGTTAGTTATTA-GATTAGT
49471788 AAAACCCTAATTATTAT
64 AAAACCCTAATTATTAT
* ** * * * **
49471805 T-TTAGTTAGTATGATTGTTAGT----TTTTACATTA-TATTATTGTTAGTTATTATTTGTAGTA
1 TGTTAGTTAGTATTATTGTTAGTAAAAACTAATATTATTATTATGGTTAGTTATTAGAT-TAGTA
49471864 AAACCCTAATTATTAT
65 AAACCCTAATTATTAT
* *
49471880 TGTTAGTTAGTATTATT-TTGAGTATAAAACTATTATTATTGTTATTGTGTTAGTTATTAAGATT
1 TGTTAGTTAGTATTATTGTT-AGTA-AAAACTAATATTATTATTA-TG-GTTAGTTATT-AGATT
49471944 AGT
61 AGT
49471947 GGTTAAACGT
Statistics
Matches: 111, Mismatches: 19, Indels: 22
0.73 0.12 0.14
Matches are distributed among these distances:
74 1 0.01
75 41 0.37
76 23 0.21
81 24 0.22
82 5 0.05
83 1 0.01
84 14 0.13
85 2 0.02
ACGTcount: A:0.32, C:0.04, G:0.13, T:0.50
Consensus pattern (80 bp):
TGTTAGTTAGTATTATTGTTAGTAAAAACTAATATTATTATTATGGTTAGTTATTAGATTAGTAA
AACCCTAATTATTAT
Found at i:49471885 original size:37 final size:37
Alignment explanation
Indices: 49471784--49471893 Score: 109
Period size: 37 Copynumber: 2.9 Consensus size: 37
49471774 TTATTAGGAT
49471784 TAGTAAAACCCTAATTATTATT-TTAGTTAGTATGATTG
1 TAGTAAAACCCTAATTATTATTGTTAGTTAGTAT--TTG
*** * * *
49471822 TTAGTTTTTA-CATTA-TATTATTGTTAGTTATTATTTG
1 -TAG-TAAAACCCTAATTATTATTGTTAGTTAGTATTTG
49471859 TAGTAAAACCCTAATTATTATTGTTAGTTAGTATT
1 TAGTAAAACCCTAATTATTATTGTTAGTTAGTATT
49471894 ATTTTGAGTA
Statistics
Matches: 55, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
35 2 0.04
36 6 0.11
37 22 0.40
38 7 0.13
39 16 0.29
40 2 0.04
ACGTcount: A:0.31, C:0.06, G:0.12, T:0.51
Consensus pattern (37 bp):
TAGTAAAACCCTAATTATTATTGTTAGTTAGTATTTG
Found at i:49475031 original size:12 final size:12
Alignment explanation
Indices: 49475014--49475048 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
49475004 GTTCGGGATC
49475014 TGGCTGGGGCTT
1 TGGCTGGGGCTT
49475026 TGGCTGGGGCTT
1 TGGCTGGGGCTT
* *
49475038 CGGCTCGGGCT
1 TGGCTGGGGCT
49475049 CTTGTTCTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.00, C:0.23, G:0.49, T:0.29
Consensus pattern (12 bp):
TGGCTGGGGCTT
Found at i:49476395 original size:156 final size:152
Alignment explanation
Indices: 49476042--49476793 Score: 618
Period size: 158 Copynumber: 4.8 Consensus size: 152
49476032 CTGCAAGTTC
* * *
49476042 AAAAAAAGTTTAGTAAAAAACCCTTATTTCGGCCATTTATTCGTACTATTTTCCCAAATGTTATT
1 AAAAAAA--TTAGTAAAAAACCCTTA-TTC-GCCATTTGTTCG---TATTTTCCCGAATTTTATT
* * * * *
49476107 ACTGTCAATAAAAATATATTACTTTCGTATTTTATTATTTTACATTATTTTAATACATTATGTTT
59 ACTTTCAAT-AAAATATATTATTTTTGTATTTTATTATTTTACATTATTTCAGTACATTATGTTT
*
49476172 G--A-AGTGTATTAATTA-TT-T--TTTTT
123 GAAATATTGTATTAATTATTTCTGATTTTT
* * *
49476195 ---AAACTTAGTAAAAAACCCTTATCCTGCCATTTGCTCGTATTATTTTCCCGAATTTTATTACT
1 AAAAAAATTAGTAAAAAACCCTTATTC-GCCATTTGTTCG---TATTTTCCCGAATTTTATTACT
* *
49476257 TTCAATAAAATATATTATTTTTGTATTTTATTATTTTATATTATTTCAGTACATTTTGTTTGAAA
62 TTCAATAAAATATATTATTTTTGTATTTTATTATTTTACATTATTTCAGTACATTATGTTTGAAA
49476322 TATTTGTATTAATTATTTCTGAATTTTT
127 TA-TTGTATTAATTATTTCTG-ATTTTT
* * *
49476350 AAAAAAATTAGTAAAAAACTCTTACTTCGGTCC-TTTGTTCGTATTTTTTTCTCTGCATTTTATT
1 AAAAAAATTAGTAAAAAACCCTTA-TTC-G-CCATTTGTTCGTA---TTTTC-CCGAATTTTATT
*
49476414 ACTTT--A-AAAATATCA-TATTTTCT-AATTTTATTATTTTACATTATTTCAGTACATTATGTT
59 ACTTTCAATAAAATAT-ATTATTTT-TGTATTTTATTATTTTACATTATTTCAGTACATTATGTT
* * *
49476474 TG-AA-ATT-TATTAATT-TAGTGTGGTTTTT
122 TGAAATATTGTATTAATTAT-TTCTGATTTTT
* ** * * ** *
49476502 AAATAAATTTTTTTAAAAAAACCCTTATTCCTCCCCTTTACTCATTATTTTCCCGAATTTTATTA
1 AAA-AAA-ATTAGT-AAAAAACCCTTATT-C-GCCATTTGTTC-GTATTTTCCCGAATTTTATTA
* *
49476567 CTTTCAATAAAAATATATTATTTTTGTATTTTATTATTTTATATTATTTCAGTACATTTTGTTTG
60 CTTTCAAT-AAAATATATTATTTTTGTATTTTATTATTTTACATTATTTCAGTACATTATGTTTG
49476632 AAATATTTGTATTAATTATTTCTGAATTTTT
124 AAATA-TTGTATTAATTATTTCTG-ATTTTT
* * *
49476663 AAAAAATTTAGTAAAAAACTCTTACTTCGACCTTTTGTTCGTATTTTTTTCTCC-ACATTTTATT
1 AAAAAAATTAGTAAAAAACCCTTA-TTCG-CCATTTGTTCGTA---TTTTC-CCGA-ATTTTATT
* * *
49476727 ACTTT-AA-AAAATATCA-TATTTTCT-AATTTTATTATTTTACATTATTTTAGTACATTATATT
59 ACTTTCAATAAAATAT-ATTATTTT-TGTATTTTATTATTTTACATTATTTCAGTACATTATGTT
49476788 TGAAAT
122 TGAAAT
49476794 TTATTAATTT
Statistics
Matches: 492, Mismatches: 59, Indels: 91
0.77 0.09 0.14
Matches are distributed among these distances:
146 50 0.10
147 39 0.08
148 18 0.04
149 1 0.00
150 14 0.03
151 2 0.00
152 25 0.05
153 19 0.04
154 10 0.02
155 25 0.05
156 55 0.11
157 53 0.11
158 93 0.19
159 25 0.05
160 39 0.08
161 24 0.05
ACGTcount: A:0.31, C:0.11, G:0.07, T:0.51
Consensus pattern (152 bp):
AAAAAAATTAGTAAAAAACCCTTATTCGCCATTTGTTCGTATTTTCCCGAATTTTATTACTTTCA
ATAAAATATATTATTTTTGTATTTTATTATTTTACATTATTTCAGTACATTATGTTTGAAATATT
GTATTAATTATTTCTGATTTTT
Found at i:49476676 original size:313 final size:310
Alignment explanation
Indices: 49476042--49476819 Score: 1105
Period size: 313 Copynumber: 2.5 Consensus size: 310
49476032 CTGCAAGTTC
* * * * * * * * *
49476042 AAAAAAAGTTTAGTAAAAAACCCTTATTTCGGCCATTTATTCGTACTATTTTC-CCAAATGTTAT
1 AAAAAAA--TTAGTAAAAAACTCTTACTTCGACCTTTTGTTCGTATTTTTTTCTCCACATTTTAT
* * *
49476106 TACTGTCAATAAAAATAT-ATTACTTTCGT-ATTTTATTATTTTACATTATTTTAATACATTATG
64 TACT-T-TA-AAAAATATCA-TATTTTC-TAATTTTATTATTTTACATTATTTTAGTACATTATG
* * *
49476169 TTTGAAGTGTATTAA-TTA-T-T-TTTTT---TAAACTTAGTAAAAAACCCTTATCCTGCCATTT
124 TTTGAAATTTATTAATTTAGTGTGTTTTTAAATAAACTTAGTAAAAAACCCTTATCCTCCCATTT
*
49476227 GCTCGTATTATTTTCCCGAATTTTATTACTTTCAATAAAATATATTATTTTTGTATTTTATTATT
189 ACTCG-ATTATTTTCCCGAATTTTATTACTTTCAATAAAATATATTATTTTTGTATTTTATTATT
49476292 TTATATTATTTCAGTACATTTTGTTTGAAATATTTGTATTAATTATTTCTGAATTTTT
253 TTATATTATTTCAGTACATTTTGTTTGAAATATTTGTATTAATTATTTCTGAATTTTT
* **
49476350 AAAAAAATTAGTAAAAAACTCTTACTTCGGTCC-TTTGTTCGTATTTTTTTCTCTGCATTTTATT
1 AAAAAAATTAGTAAAAAACTCTTACTTC-GACCTTTTGTTCGTATTTTTTTCTCCACATTTTATT
*
49476414 ACTTT-AAAAATATCATATTTTCTAATTTTATTATTTTACATTATTTCAGTACATTATGTTTGAA
65 ACTTTAAAAAATATCATATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAA
* ** *
49476478 ATTTATTAATTTAGTGTGGTTTTTAAATAAATTTTTTTAAAAAAACCCTTATTCCTCCCCTTTAC
130 ATTTATTAATTTAGTGT-GTTTTTAAATAAA-CTTAGT-AAAAAACCCTTA-TCCTCCCATTTAC
49476543 TC-ATTATTTTCCCGAATTTTATTACTTTCAATAAAAATATATTATTTTTGTATTTTATTATTTT
191 TCGATTATTTTCCCGAATTTTATTACTTTCAAT-AAAATATATTATTTTTGTATTTTATTATTTT
49476607 ATATTATTTCAGTACATTTTGTTTGAAATATTTGTATTAATTATTTCTGAATTTTT
255 ATATTATTTCAGTACATTTTGTTTGAAATATTTGTATTAATTATTTCTGAATTTTT
*
49476663 AAAAAATTTAGTAAAAAACTCTTACTTCGACCTTTTGTTCGTATTTTTTTCTCCACATTTTATTA
1 AAAAAAATTAGTAAAAAACTCTTACTTCGACCTTTTGTTCGTATTTTTTTCTCCACATTTTATTA
*
49476728 CTTTAAAAAATATCATATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATATTTGAAA
66 CTTTAAAAAATATCATATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAA
49476793 TTTATTAATTTAGTGTGTTTTTAAATA
131 TTTATTAATTTAGTGTGTTTTTAAATA
49476820 TACCATTTTT
Statistics
Matches: 424, Mismatches: 28, Indels: 31
0.88 0.06 0.06
Matches are distributed among these distances:
302 1 0.00
303 59 0.14
304 4 0.01
305 1 0.00
306 36 0.08
307 14 0.03
308 12 0.03
311 4 0.01
312 36 0.08
313 171 0.40
314 86 0.20
ACGTcount: A:0.31, C:0.11, G:0.07, T:0.51
Consensus pattern (310 bp):
AAAAAAATTAGTAAAAAACTCTTACTTCGACCTTTTGTTCGTATTTTTTTCTCCACATTTTATTA
CTTTAAAAAATATCATATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAA
TTTATTAATTTAGTGTGTTTTTAAATAAACTTAGTAAAAAACCCTTATCCTCCCATTTACTCGAT
TATTTTCCCGAATTTTATTACTTTCAATAAAATATATTATTTTTGTATTTTATTATTTTATATTA
TTTCAGTACATTTTGTTTGAAATATTTGTATTAATTATTTCTGAATTTTT
Found at i:49477158 original size:4 final size:4
Alignment explanation
Indices: 49477149--49477280 Score: 69
Period size: 4 Copynumber: 31.8 Consensus size: 4
49477139 AAAATTACCT
* * * *
49477149 TTTC TTTC TTTC TTT- TTCC TTCC TTCCC TCTTC TTTC TTTT TTTC -TTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TT-TC T-TTC TTTC TTTC TTTC TTTC
* *
49477197 TTCTCC TTTCC TTTTC TTTC CTTC -TT- TTTC TTTC TTTCC TCTCC TTTCC
1 TT-T-C TTT-C -TTTC TTTC TTTC TTTC TTTC TTTC TTT-C T-TTC TTT-C
49477246 TTTTC TTTC -TT- TTTC TTTC TTTC TTTC TTCTC TTT
1 -TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT-TC TTT
49477281 TCCCTCTCAT
Statistics
Matches: 105, Mismatches: 7, Indels: 32
0.73 0.05 0.22
Matches are distributed among these distances:
3 13 0.12
4 61 0.58
5 20 0.19
6 11 0.10
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (4 bp):
TTTC
Found at i:49477194 original size:33 final size:33
Alignment explanation
Indices: 49477149--49477259 Score: 127
Period size: 33 Copynumber: 3.3 Consensus size: 33
49477139 AAAATTACCT
* * *
49477149 TTTCTTTCTTTCTTTTTCCTTCCTTCCCTCTTC
1 TTTCTTTTTTTCTTTTTCCTTCCTTTCCTTTTC
*
49477182 TTTCTTTTTTTCTTCTT-C-TCCTTTCCTTTTC
1 TTTCTTTTTTTCTTTTTCCTTCCTTTCCTTTTC
49477213 TTTCCTTCTTTTTCTTTCTTTCCTCTCCTTTCCTTTTC
1 TTT-CTT-TTTTTC-TT-TTTCCT-TCCTTTCCTTTTC
49477251 TTTCTTTTT
1 TTTCTTTTT
49477260 CTTTCTTTCT
Statistics
Matches: 66, Mismatches: 5, Indels: 11
0.80 0.06 0.13
Matches are distributed among these distances:
31 14 0.21
32 4 0.06
33 21 0.32
34 2 0.03
35 2 0.03
36 4 0.06
37 3 0.05
38 16 0.24
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (33 bp):
TTTCTTTTTTTCTTTTTCCTTCCTTTCCTTTTC
Found at i:49477227 original size:14 final size:14
Alignment explanation
Indices: 49477148--49477282 Score: 71
Period size: 14 Copynumber: 9.4 Consensus size: 14
49477138 AAAAATTACC
*
49477148 TTTTCTTTCTTTCT
1 TTTTCTTTCCTTCT
* *
49477162 TTTTCCTTCCTTCCC
1 TTTTCTTTCCTT-CT
* * *
49477177 TCTTCTTTCTTTTT
1 TTTTCTTTCCTTCT
*
49477191 TTCTTCTTCTCCTTTCC
1 TT-TTCTT-TCC-TTCT
49477208 TTTTCTTTCCTTCT
1 TTTTCTTTCCTTCT
* *
49477222 TTTTCTTTCTTTCC
1 TTTTCTTTCCTTCT
* *
49477236 TCTCCTTTCCTT-T
1 TTTTCTTTCCTTCT
49477249 TCTTTCTTT--TTCTT
1 T-TTTCTTTCCTTC-T
49477263 TCTTTCTTT-CTTCT
1 T-TTTCTTTCCTTCT
49477277 CTTTTC
1 -TTTTC
49477283 CCTCTCATTC
Statistics
Matches: 91, Mismatches: 21, Indels: 18
0.70 0.16 0.14
Matches are distributed among these distances:
12 2 0.02
13 1 0.01
14 55 0.60
15 22 0.24
16 7 0.08
17 4 0.04
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTCTTTCCTTCT
Found at i:49477245 original size:38 final size:37
Alignment explanation
Indices: 49477148--49477283 Score: 145
Period size: 38 Copynumber: 3.6 Consensus size: 37
49477138 AAAAATTACC
* **
49477148 TTTTCTTTCTTTCTTTTTCC-TTCCTTCCCTCTTCTT-T
1 TTTTCTTTCTTTC-TTCTCCTTTCCTTTTCT-TTCTTCT
49477185 CTTTT-TTTC-TTCTTCTCCTTTCCTTTTCTTTCCTTCT
1 -TTTTCTTTCTTTCTTCTCCTTTCCTTTTCTTT-CTTCT
* *
49477222 TTTTCTTTCTTTCCTCTCCTTTCCTTTTCTTTCTTTT
1 TTTTCTTTCTTTCTTCTCCTTTCCTTTTCTTTCTTCT
*
49477259 TCTTTCTTTCTTTCTTCTCTTTTCC
1 T-TTTCTTTCTTTCTTCTCCTTTCC
49477284 CTCTCATTCT
Statistics
Matches: 85, Mismatches: 7, Indels: 12
0.82 0.07 0.12
Matches are distributed among these distances:
35 7 0.08
36 18 0.21
37 14 0.16
38 46 0.54
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (37 bp):
TTTTCTTTCTTTCTTCTCCTTTCCTTTTCTTTCTTCT
Found at i:49479589 original size:23 final size:23
Alignment explanation
Indices: 49479512--49479590 Score: 59
Period size: 25 Copynumber: 3.2 Consensus size: 23
49479502 ATACAGTGAG
*
49479512 CAATGGAAATTGTCTGCTGTTTT
1 CAATGGAAATTGTCTGCTATTTT
* * * * *
49479535 CAATTCAGACAGTTTTTTGATATTGTT
1 CAA-T-GGA-AATTGTCTGCTATT-TT
49479562 GCAATGGAAATTGTCTGCTATTTT
1 -CAATGGAAATTGTCTGCTATTTT
49479586 CAATG
1 CAATG
49479591 AAACTGGAAA
Statistics
Matches: 40, Mismatches: 11, Indels: 10
0.66 0.18 0.16
Matches are distributed among these distances:
23 8 0.20
24 3 0.08
25 12 0.30
26 11 0.28
27 3 0.08
28 3 0.08
ACGTcount: A:0.25, C:0.13, G:0.19, T:0.43
Consensus pattern (23 bp):
CAATGGAAATTGTCTGCTATTTT
Found at i:49479635 original size:22 final size:22
Alignment explanation
Indices: 49479594--49479682 Score: 69
Period size: 23 Copynumber: 4.0 Consensus size: 22
49479584 TTCAATGAAA
49479594 CTGGAAATTG--TTGCATTTGTT
1 CTGGAAATTGTTTTG-ATTTGTT
* *
49479615 -TTGATATTGTTCTTGATTTGTT
1 CTGGAAATTGTT-TTGATTTGTT
*
49479637 CTGGAAATTGTTTTGA-TAGTCT
1 CTGGAAATTGTTTTGATTTGT-T
*
49479659 GCTGGAAATTGTTCTTAATTTGTT
1 -CTGGAAATTGTT-TTGATTTGTT
49479683 AGTGAGTAGA
Statistics
Matches: 53, Mismatches: 7, Indels: 13
0.73 0.10 0.18
Matches are distributed among these distances:
20 7 0.13
21 3 0.06
22 12 0.23
23 24 0.45
24 4 0.08
25 3 0.06
ACGTcount: A:0.19, C:0.08, G:0.21, T:0.52
Consensus pattern (22 bp):
CTGGAAATTGTTTTGATTTGTT
Found at i:49484162 original size:47 final size:47
Alignment explanation
Indices: 49484105--49484432 Score: 269
Period size: 47 Copynumber: 7.2 Consensus size: 47
49484095 ATATAAGAAC
* *
49484105 ATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 ATTTAATATTAAGAATTTTATGAAATTATATATAATTATTAAATTAT
** *
49484152 ATTTAATATTAATTA-TTT-T-AAATTATATA-AATTCATATAAGA--AA
1 ATTTAATATTAAGAATTTTATGAAATTATATATAATT-AT-TAA-ATTAT
* * *
49484196 ATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 ATTTAATATTAAGAATTTTATGAAATTATATATAATTATTAAATTAT
** *
49484243 ATTTAATATTAATTA-TTT-T-AAATTATATA-AATTCATATAAGA--AA
1 ATTTAATATTAAGAATTTTATGAAATTATATATAATT-AT-TAA-ATTAT
* * *
49484287 ATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 ATTTAATATTAAGAATTTTATGAAATTATATATAATTATTAAATTAT
** *
49484334 ATTTAATATTAATTA-TTT-T-AAATTATATA-AATTCATATAAGA--AA
1 ATTTAATATTAAGAATTTTATGAAATTATATATAATT-AT-TAA-ATTAT
* * *
49484378 ATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTAT
1 ATTTAATATTAAGAATTTTATGAAATTATATATAATTATTAAATTAT
49484425 ATTTAATA
1 ATTTAATA
49484433 ATAATTATAT
Statistics
Matches: 218, Mismatches: 36, Indels: 54
0.71 0.12 0.18
Matches are distributed among these distances:
43 9 0.04
44 72 0.33
45 24 0.11
46 24 0.11
47 80 0.37
48 9 0.04
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (47 bp):
ATTTAATATTAAGAATTTTATGAAATTATATATAATTATTAAATTAT
Found at i:49484495 original size:91 final size:91
Alignment explanation
Indices: 49484088--49484476 Score: 724
Period size: 91 Copynumber: 4.3 Consensus size: 91
49484078 ATGATTTTAG
* *
49484088 TAAATTCATATAAGAACATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
49484153 TTTAATATTAATTATTTTAAATTATA
66 TTTAATATTAATTATTTTAAATTATA
49484179 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
49484244 TTTAATATTAATTATTTTAAATTATA
66 TTTAATATTAATTATTTTAAATTATA
49484270 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
49484335 TTTAATATTAATTATTTTAAATTATA
66 TTTAATATTAATTATTTTAAATTATA
*
49484361 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
* *
49484426 TTTAATAATAATTATATTAAATTATA
66 TTTAATATTAATTATTTTAAATTATA
*
49484452 CAAATTCATATAAGAAAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
49484477 CTAATAATTA
Statistics
Matches: 292, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
91 292 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TTTAATATTAATTATTTTAAATTATA
Found at i:49484566 original size:59 final size:57
Alignment explanation
Indices: 49484478--49484787 Score: 182
Period size: 61 Copynumber: 5.3 Consensus size: 57
49484468 AATTTATTAC
*
49484478 TAATAATTATTTTAAATT-T-TATTA-A-ATCATATATTTTAATTAAAATATATTTAA
1 TAATAATTA-TTTAAATTATATTTTATATATCATATATTTTAATTAAAATATATTTAA
* * * ** * * *
49484532 TAATAATTATTTCAAATTATATTTTATACTATCATATACTATGATTTTAGTAAATTCTTA
1 TAATAATTATTT-AAATTATATTTTATA-TATCATATATTTTAATTAAAATATATT-TAA
* * * * *
49484592 TAAGAA-TATTGATTATTAAGAATTTTATTAAATCATATATTTTAATTAAAATATATTTAA
1 TAATAATTATTTA-AATT-A-TATTTTA-TATATCATATATTTTAATTAAAATATATTTAA
* * ** * * *
49484652 TAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATA
1 TAATAATTAT-TTAAATTATATTTTATA-TATCATATATTTTAATTAAAATATATTTA-A
* * * * * * *
49484712 TAAGAA-TATTGATTAGTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
1 TAATAATTATT--TAAATTA-TATTTTA-TATATCATATATTTTAATTAAAATATATTTAA
49484772 TAATAATTATGTTAAA
1 TAATAATTAT-TTAAA
49484788 ATATGATTAA
Statistics
Matches: 184, Mismatches: 51, Indels: 36
0.68 0.19 0.13
Matches are distributed among these distances:
53 3 0.02
54 14 0.08
55 1 0.01
56 4 0.02
57 1 0.01
58 4 0.02
59 56 0.30
60 34 0.18
61 60 0.33
62 7 0.04
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (57 bp):
TAATAATTATTTAAATTATATTTTATATATCATATATTTTAATTAAAATATATTTAA
Found at i:49484622 original size:120 final size:120
Alignment explanation
Indices: 49484492--49484787 Score: 522
Period size: 120 Copynumber: 2.5 Consensus size: 120
49484482 AATTATTTTA
49484492 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTAT-TTCAAATTATATTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTT
* * *
49484556 TATACTATCATATACTATGATTTTAGTAAATTCTTATAAGAATATTGATTATTAAG
65 TATACTATCATATACTATGATTTGAGTAAATTCATATAAGAATATTGATTAGTAAG
49484612 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
* *
49484677 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTAGTAAG
66 ATACTATCATATACTATGATTTGAGTAAATTCATATAAGAATATTGATTAGTAAG
*
49484732 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
49484788 ATATGATTAA
Statistics
Matches: 169, Mismatches: 6, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
120 167 0.99
121 2 0.01
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (120 bp):
AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
ATACTATCATATACTATGATTTGAGTAAATTCATATAAGAATATTGATTAGTAAG
Found at i:49484761 original size:18 final size:17
Alignment explanation
Indices: 49484733--49484767 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
49484723 ATTAGTAAGA
*
49484733 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
49484750 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
49484768 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:49485021 original size:16 final size:16
Alignment explanation
Indices: 49485000--49485048 Score: 89
Period size: 16 Copynumber: 3.1 Consensus size: 16
49484990 TTGATTTGTT
49485000 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
49485016 ATTACGTCTCTATTCC
1 ATTACGCCTCTATTCC
49485032 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
49485048 A
1 A
49485049 ATACAGCGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.20, C:0.35, G:0.06, T:0.39
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:49500152 original size:110 final size:110
Alignment explanation
Indices: 49499869--49500518 Score: 1162
Period size: 110 Copynumber: 5.9 Consensus size: 110
49499859 GAAATTCAAG
* * *
49499869 AGGATATTT-GACTATTTGGTTAAATGAGAAAAATCGACACCCAGCACATTAGGGCATGTTTTCT
1 AGGATATTTAG-CCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCT
* * *
49499933 CGAATTTCCAAA-AGCAAAACATTGCCTTATTTTAAAATTTTTAAA
65 CGAATTTCCAAACGGCAAAATATTGCCTTATTTTGAAATTTTTAAA
* *
49499978 AGGATATTAAGCCATTT-GTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
1 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
49500042 GAATTTCCAAACGGCAAAATATTGCCTTATTTTGAAATTTTTAAA
66 GAATTTCCAAACGGCAAAATATTGCCTTATTTTGAAATTTTTAAA
49500087 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
1 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
49500152 GAATTTCCAAACGGCAAAATATTGCCTTATTTTGAAATTTTTAAA
66 GAATTTCCAAACGGCAAAATATTGCCTTATTTTGAAATTTTTAAA
49500197 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
1 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
49500262 GAATTTCCAAACGGCAAAATATTGCCTTATTTTGAAATTTTTAAA
66 GAATTTCCAAACGGCAAAATATTGCCTTATTTTGAAATTTTTAAA
49500307 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
1 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
49500372 GAATTTCCAAACGGCAAAATATTGCCTTATTTTGAAATTTTTAAA
66 GAATTTCCAAACGGCAAAATATTGCCTTATTTTGAAATTTTTAAA
*
49500417 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGACATGTTTTCTC
1 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
* * *
49500482 AAATTTCCAAACGGCAAAACATTACCTTATTTTGAAA
66 GAATTTCCAAACGGCAAAATATTGCCTTATTTTGAAA
49500519 AATTTTCCTT
Statistics
Matches: 524, Mismatches: 14, Indels: 5
0.97 0.03 0.01
Matches are distributed among these distances:
108 55 0.10
109 59 0.11
110 410 0.78
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (110 bp):
AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
GAATTTCCAAACGGCAAAATATTGCCTTATTTTGAAATTTTTAAA
Found at i:49501035 original size:31 final size:31
Alignment explanation
Indices: 49500986--49501051 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
49500976 CATATATACT
* *
49500986 TATATAACTATCATAAAATATAAAAAGTATG
1 TATATAACTATCATAAAATATAAAAAATATA
*
49501017 TATATAAGTAT-ATAAAAATATAAAAAATATA
1 TATATAACTATCAT-AAAATATAAAAAATATA
49501048 TATA
1 TATA
49501052 CTCCTATATA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 2 0.06
31 29 0.94
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (31 bp):
TATATAACTATCATAAAATATAAAAAATATA
Found at i:49501172 original size:30 final size:28
Alignment explanation
Indices: 49501134--49501208 Score: 96
Period size: 30 Copynumber: 2.6 Consensus size: 28
49501124 AAAAGTGTTA
* *
49501134 AAAAGGGACTAAATCGAAGTAAAAGCAAC
1 AAAAGGGACTAAATCGAAATAAAA-AAAC
* *
49501163 AACACGGGACGAAATCGAAATAAAAAAAC
1 AA-AAGGGACTAAATCGAAATAAAAAAAC
49501192 AAAAGGGACTAAATCGA
1 AAAAGGGACTAAATCGA
49501209 GAGAAAAATA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
28 13 0.33
29 7 0.18
30 19 0.49
ACGTcount: A:0.56, C:0.15, G:0.20, T:0.09
Consensus pattern (28 bp):
AAAAGGGACTAAATCGAAATAAAAAAAC
Found at i:49502860 original size:132 final size:132
Alignment explanation
Indices: 49502620--49502890 Score: 434
Period size: 132 Copynumber: 2.1 Consensus size: 132
49502610 CGTTATTGTT
* * * ** *
49502620 GATCTGCTCCACTACTGCTTAGGGGGACAGAATCTACAGTCTTTGACCTACTCCACTACTGCTTA
1 GATCTGCCCCACTACTGCTTAGAGGGACAGAATCTACAATCTTCAACCTACTCCACTACTACTTA
* *
49502685 GGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATATTGGGAAGATAATATTCACCATCT
66 GGGTGATAGGACCAATGGCTTAAATCTGCTTCTCCACTATATTGGGAAGATAAGATTCACCATCT
49502750 TC
131 TC
* *
49502752 GATCTGCCCCACTACTGCTTAGAGTGACAGAATCTGCAATCTTCAACCTACTCCACTACTACTTA
1 GATCTGCCCCACTACTGCTTAGAGGGACAGAATCTACAATCTTCAACCTACTCCACTACTACTTA
*
49502817 GGGTGATAGGACCAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGATAAGATTCACCATCT
66 GGGTGATAGGACCAATGGCTTAAATCTGCTTCTCCACTATATTGGGAAGATAAGATTCACCATCT
*
49502882 TT
131 TC
49502884 GATCTGC
1 GATCTGC
49502891 TCCATTACAA
Statistics
Matches: 127, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
132 127 1.00
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.30
Consensus pattern (132 bp):
GATCTGCCCCACTACTGCTTAGAGGGACAGAATCTACAATCTTCAACCTACTCCACTACTACTTA
GGGTGATAGGACCAATGGCTTAAATCTGCTTCTCCACTATATTGGGAAGATAAGATTCACCATCT
TC
Found at i:49502933 original size:43 final size:43
Alignment explanation
Indices: 49502879--49503022 Score: 107
Period size: 44 Copynumber: 3.3 Consensus size: 43
49502869 AGATTCACCA
* *
49502879 TCTTTGATCTGCTCCATTACAACCGAGGGAGGCAAGGCTTGTG
1 TCTTCGATCTGCTCCATTACAACCGAGGGAGGCAAGGATTGTG
* *
49502922 TCTTCGATCTGCTTCGC-TGT-CAA-TGAAGGAAGGCAA-GATCTGTTG
1 TCTTCGATCTGC-TC-CAT-TACAACCG-AGGGAGGCAAGGAT-TG-TG
* * * * * * *
49502967 TCTTCAACCAGCTCCATCACAACCAAGAGAGGCAAGGTTTGTG
1 TCTTCGATCTGCTCCATTACAACCGAGGGAGGCAAGGATTGTG
49503010 TCTTCGATCTGCT
1 TCTTCGATCTGCT
49503023 TCGCTGTCAA
Statistics
Matches: 75, Mismatches: 16, Indels: 20
0.68 0.14 0.18
Matches are distributed among these distances:
43 27 0.36
44 33 0.44
45 15 0.20
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.28
Consensus pattern (43 bp):
TCTTCGATCTGCTCCATTACAACCGAGGGAGGCAAGGATTGTG
Found at i:49502981 original size:88 final size:88
Alignment explanation
Indices: 49502889--49504810 Score: 3029
Period size: 88 Copynumber: 21.8 Consensus size: 88
49502879 TCTTTGATCT
* * * *
49502889 GCTCCATTACAACCGAGGGAGGCAAGGCTTGTGTCTTCGATCTGCTTCGCTGTCAATGAAGGAAG
1 GCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGAAGGAAG
*
49502954 GCAAGATCTGTTGTCTTCAACCA
66 GCAAGATCTTTTGTCTTCAACCA
* * * *
49502977 GCTCCATCACAACCAAGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGAAAG
1 GCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGAAGGAAG
*
49503042 GCAAGATCTGTTGTCTTCAACCA
66 GCAAGATCTTTTGTCTTCAACCA
* * *
49503065 GCTTCATCACAACTGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTTGCTGTCAAT-ACAGGAA
1 GCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGA-AGGAA
* *
49503129 GGAAAGATCTGTTGTCTTCAACCA
65 GGCAAGATCTTTTGTCTTCAACCA
* * * * *
49503153 GCTCCACCACAACCGAGGGAGGCAAGGTTTATGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAG
1 GCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGAAGGAAG
49503218 GCAAGATCTTTTGTCTTCAACCA
66 GCAAGATCTTTTGTCTTCAACCA
* *
49503241 GCTTCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAAT-ACAAGAA
1 GCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGA-AGGAA
*
49503305 GGCAATATCTTTTGTCTTCAACCA
65 GGCAAGATCTTTTGTCTTCAACCA
* * *
49503329 GCTCCATCACAATCGAGAGAGGCAAGGTTTGTGTCTTTGACGTGCTTCGCTGTCAAT-ACAGGAA
1 GCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGA-AGGAA
*
49503393 GGCAAGATCTTTTGTCTTTAACCA
65 GGCAAGATCTTTTGTCTTCAACCA
* *
49503417 GCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCAATGCAGGAAG
1 GCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGAAGGAAG
49503482 GCAAGATCTTTTGTCTTCAACCA
66 GCAAGATCTTTTGTCTTCAACCA
* * *
49503505 GCTTCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCAATGCAGGAAG
1 GCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGAAGGAAG
49503570 GCAAGATCTTTTGTCTTCAACCA
66 GCAAGATCTTTTGTCTTCAACCA
* * *
49503593 GCTTCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCAATGCAGGAAG
1 GCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGAAGGAAG
49503658 GCAAGATCTTTTGTCTTCAACCA
66 GCAAGATCTTTTGTCTTCAACCA
* * *
49503681 GCTTCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCAATGCAGGAAG
1 GCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGAAGGAAG
49503746 GCAAGATCTTTTGTCTTCAACCA
66 GCAAGATCTTTTGTCTTCAACCA
* * *
49503769 GCTTCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCAATGCAGGAAG
1 GCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGAAGGAAG
49503834 GCAAGATCTTTTGTCTTCAACCA
66 GCAAGATCTTTTGTCTTCAACCA
* * *
49503857 GCTTCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCAATGCAGGAAG
1 GCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGAAGGAAG
49503922 GCAAGATCTTTTGTCTTCAACCA
66 GCAAGATCTTTTGTCTTCAACCA
* * *
49503945 GCTTCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCAATGCAGGAAG
1 GCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGAAGGAAG
49504010 GCAAGATCTTTTGTCTTCAACCA
66 GCAAGATCTTTTGTCTTCAACCA
*
49504033 GCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAG
1 GCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGAAGGAAG
49504098 GCAAGATCTTTTGTCTTCAACCA
66 GCAAGATCTTTTGTCTTCAACCA
* * * *
49504121 ACTCCATCACAACTGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTATCAAT-ACAGAAA
1 GCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGA-AGGAA
49504185 GGCAAGATCTTTTGTCTT-ATACCA
65 GGCAAGATCTTTTGTCTTCA-ACCA
**
49504209 GCTTTATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAAT-ACAGGAA
1 GCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGA-AGGAA
* *
49504273 GGCAAGATCTTTTGTCTTCAGCCT
65 GGCAAGATCTTTTGTCTTCAACCA
*
49504297 GCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAG
1 GCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGAAGGAAG
*
49504362 GCAAGATCTTTTATCTTCAACCA
66 GCAAGATCTTTTGTCTTCAACCA
* *
49504385 GCTCCATCACAACCGAGAGAGGCAAGGTTCGTGTCTTCGACCTGCTTCGCTGTCAAT-ACAGAAA
1 GCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGA-AGGAA
49504449 GGCAAGATCTTTTGTCTTCAACCA
65 GGCAAGATCTTTTGTCTTCAACCA
*
49504473 GCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAAT-ACAGAAA
1 GCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGA-AGGAA
49504537 GGCAAGATCTTTTGTCTTCAACCA
65 GGCAAGATCTTTTGTCTTCAACCA
* *
49504561 GCTCCATCACAACCGAGAGAGACAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAAT-ACAGAAA
1 GCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGA-AGGAA
49504625 GGCAAGATCTTTTGTCTTCAACCA
65 GGCAAGATCTTTTGTCTTCAACCA
* *
49504649 GCTCCATCACAACCGAGAGAGACAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAAT-ACAGAAA
1 GCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGA-AGGAA
49504713 GGCAAGATCTTTTGTCTTCAACCA
65 GGCAAGATCTTTTGTCTTCAACCA
* * * * *
49504737 GTTCCATCACAATCGAGAGAGGAAAGATTTGTGTCTTTGACCTGCTTCGCTGTCAAT-ACAGGAA
1 GCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGA-AGGAA
*
49504801 GGTAAGATCT
65 GGCAAGATCT
49504811 GCAACTTCAT
Statistics
Matches: 1744, Mismatches: 81, Indels: 18
0.95 0.04 0.01
Matches are distributed among these distances:
87 1 0.00
88 1742 1.00
89 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (88 bp):
GCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGAAGGAAG
GCAAGATCTTTTGTCTTCAACCA
Found at i:49505941 original size:21 final size:21
Alignment explanation
Indices: 49505923--49505982 Score: 111
Period size: 21 Copynumber: 2.9 Consensus size: 21
49505913 AGGATCACCA
*
49505923 CATGCCCCAATCTGATCACTT
1 CATGCCCCATTCTGATCACTT
49505944 CATGCCCCATTCTGATCACTT
1 CATGCCCCATTCTGATCACTT
49505965 CATGCCCCATTCTGATCA
1 CATGCCCCATTCTGATCA
49505983 ATATTTAAGC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.22, C:0.38, G:0.10, T:0.30
Consensus pattern (21 bp):
CATGCCCCATTCTGATCACTT
Found at i:49511070 original size:78 final size:78
Alignment explanation
Indices: 49510974--49511922 Score: 1875
Period size: 78 Copynumber: 12.2 Consensus size: 78
49510964 GTATTTACAT
*
49510974 ATATATGTATATA-G-ATTATAAAATACAAAGATATGTAAAATATAAGTATGTACGTTAATTTAT
1 ATATATGCATATATGCATTATAAAATACAAAGATATGTAAAATATAAGTATGTACGTTAATTTAT
49511037 AAAAACAAGAAAA
66 AAAAACAAGAAAA
49511050 ATATATGCATATATGCATTATAAAATACAAAGATATGTAAAATATAAGTATGTACGTTAATTTAT
1 ATATATGCATATATGCATTATAAAATACAAAGATATGTAAAATATAAGTATGTACGTTAATTTAT
49511115 AAAAACAAGAAAA
66 AAAAACAAGAAAA
49511128 ATATATGCATATATGCATTATAAAATACAAAGATATGTAAAATATAAGTATGTACGTTAATTTAT
1 ATATATGCATATATGCATTATAAAATACAAAGATATGTAAAATATAAGTATGTACGTTAATTTAT
49511193 AAAAACAAGAAAA
66 AAAAACAAGAAAA
49511206 ATATATGCATATATGCATTATAAAATACAAAGATATGTAAAATATAAGTATGTACGTTAATTTAT
1 ATATATGCATATATGCATTATAAAATACAAAGATATGTAAAATATAAGTATGTACGTTAATTTAT
49511271 AAAAACAAGAAAA
66 AAAAACAAGAAAA
49511284 ATATATGCATATATGCATTATAAAATACAAAGATATGTAAAATATAAGTATGTACGTTAATTTAT
1 ATATATGCATATATGCATTATAAAATACAAAGATATGTAAAATATAAGTATGTACGTTAATTTAT
49511349 AAAAACAAGAAAA
66 AAAAACAAGAAAA
49511362 ATATATGCATATATGCATTATAAAATACAAAGATATGTAAAATATAAGTATGTACGTTAATTTAT
1 ATATATGCATATATGCATTATAAAATACAAAGATATGTAAAATATAAGTATGTACGTTAATTTAT
49511427 AAAAACAAGAAAA
66 AAAAACAAGAAAA
49511440 ATATATGCATATATGCATTATAAAATACAAAGATATGTAAAATATAAGTATGTACGTTAATTTAT
1 ATATATGCATATATGCATTATAAAATACAAAGATATGTAAAATATAAGTATGTACGTTAATTTAT
49511505 AAAAACAAGAAAA
66 AAAAACAAGAAAA
49511518 ATATATGCATATATGCATTATAAAATACAAAGATATGTAAAATATAAGTATGTACGTTAATTTAT
1 ATATATGCATATATGCATTATAAAATACAAAGATATGTAAAATATAAGTATGTACGTTAATTTAT
49511583 AAAAACAAGAAAA
66 AAAAACAAGAAAA
49511596 ATATATGCATATATGCATTATAAAATACAAAGATATGTAAAATATAAGTATGTACGTTAATTTAT
1 ATATATGCATATATGCATTATAAAATACAAAGATATGTAAAATATAAGTATGTACGTTAATTTAT
49511661 AAAAACAAGAAAA
66 AAAAACAAGAAAA
49511674 ATATATGCATATATGCATTATAAAATACAAAGATATGTAAAATATAAGTATGTACGTTAATTTAT
1 ATATATGCATATATGCATTATAAAATACAAAGATATGTAAAATATAAGTATGTACGTTAATTTAT
49511739 AAAAACAAGAAAA
66 AAAAACAAGAAAA
49511752 ATATATGCATATATGCATTATAAAATACAAAGATATGTAAAATATAAGTATGTACGTTAATTTAT
1 ATATATGCATATATGCATTATAAAATACAAAGATATGTAAAATATAAGTATGTACGTTAATTTAT
49511817 AAAAACAAGAAAA
66 AAAAACAAGAAAA
49511830 ATATATGCATATATGCATTATAAAATACAAAGATATGTAAAATATAAGTATGTACGTTAATTTAT
1 ATATATGCATATATGCATTATAAAATACAAAGATATGTAAAATATAAGTATGTACGTTAATTTAT
49511895 AAAAACAAGAAAA
66 AAAAACAAGAAAA
49511908 ATATATGCATATATG
1 ATATATGCATATATG
49511923 GGATATGCTT
Statistics
Matches: 870, Mismatches: 1, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
76 12 0.01
77 1 0.00
78 857 0.99
ACGTcount: A:0.52, C:0.06, G:0.10, T:0.31
Consensus pattern (78 bp):
ATATATGCATATATGCATTATAAAATACAAAGATATGTAAAATATAAGTATGTACGTTAATTTAT
AAAAACAAGAAAA
Found at i:49514201 original size:3 final size:3
Alignment explanation
Indices: 49514193--49514236 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
49514183 ATCACATGTT
49514193 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
49514237 TGGATGTAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:49518575 original size:3 final size:3
Alignment explanation
Indices: 49518567--49518592 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
49518557 ATCACATGTT
49518567 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
49518593 TGGATGTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:49522210 original size:43 final size:43
Alignment explanation
Indices: 49522171--49522298 Score: 211
Period size: 43 Copynumber: 3.0 Consensus size: 43
49522161 AGAATCTCGT
*
49522171 ATCGATGCCAATAGCTCAGCTATGGTCTTACACGAAATCTCAA
1 ATCGATGCCAATAGCCCAGCTATGGTCTTACACGAAATCTCAA
49522214 ATCGATGCCAATAGCCCAGCTATGGTCTTACACGAAATCTCAA
1 ATCGATGCCAATAGCCCAGCTATGGTCTTACACGAAATCTCAA
* * **
49522257 ATTGATGCCAATAGCCCATCTATGGTCTTACATAAAATCTCA
1 ATCGATGCCAATAGCCCAGCTATGGTCTTACACGAAATCTCA
49522299 CCTCGGAAGT
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 80 1.00
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.27
Consensus pattern (43 bp):
ATCGATGCCAATAGCCCAGCTATGGTCTTACACGAAATCTCAA
Found at i:49522464 original size:30 final size:31
Alignment explanation
Indices: 49522422--49522483 Score: 117
Period size: 30 Copynumber: 2.0 Consensus size: 31
49522412 TCAAATCAAC
49522422 TCGGCAATATATATCCATAAACAATTCAAAT
1 TCGGCAATATATATCCATAAACAATTCAAAT
49522453 TCGGC-ATATATATCCATAAACAATTCAAAT
1 TCGGCAATATATATCCATAAACAATTCAAAT
49522483 T
1 T
49522484 TTATAATGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 26 0.84
31 5 0.16
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.31
Consensus pattern (31 bp):
TCGGCAATATATATCCATAAACAATTCAAAT
Found at i:49522523 original size:31 final size:31
Alignment explanation
Indices: 49522413--49522526 Score: 106
Period size: 31 Copynumber: 3.7 Consensus size: 31
49522403 ATCCAATGCT
*
49522413 CAAATC-AACTCGGCAATATATATCCATAAA
1 CAAATCAAATTCGGCAATATATATCCATAAA
*
49522443 CAATTCAAATTCGGC-ATATATATCCATAAA
1 CAAATCAAATTCGGCAATATATATCCATAAA
* **** * ** *
49522473 CAATTCAAATTTTATAATGTATATATATATA
1 CAAATCAAATTCGGCAATATATATCCATAAA
*
49522504 CAAATCAAATTCGGCAATGTATA
1 CAAATCAAATTCGGCAATATATA
49522527 AAACATATAC
Statistics
Matches: 67, Mismatches: 15, Indels: 3
0.79 0.18 0.04
Matches are distributed among these distances:
30 31 0.46
31 36 0.54
ACGTcount: A:0.45, C:0.17, G:0.07, T:0.32
Consensus pattern (31 bp):
CAAATCAAATTCGGCAATATATATCCATAAA
Found at i:49523528 original size:11 final size:11
Alignment explanation
Indices: 49523500--49523529 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
49523490 TCTAAATAGC
*
49523500 TCATTTATATA
1 TCATTTGTATA
49523511 TCATTTGTATA
1 TCATTTGTATA
49523522 TCATTTGT
1 TCATTTGT
49523530 TCATTAACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.27, C:0.10, G:0.07, T:0.57
Consensus pattern (11 bp):
TCATTTGTATA
Found at i:49527966 original size:24 final size:24
Alignment explanation
Indices: 49527939--49527985 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
49527929 GATAACCATA
**
49527939 TATCGAGAAGTTCAAAAGAGCCAG
1 TATCGAGAAACTCAAAAGAGCCAG
*
49527963 TATCGAGAAACTCCAAAGAGCCA
1 TATCGAGAAACTCAAAAGAGCCA
49527986 TTAATTAAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.43, C:0.21, G:0.21, T:0.15
Consensus pattern (24 bp):
TATCGAGAAACTCAAAAGAGCCAG
Found at i:49532975 original size:24 final size:24
Alignment explanation
Indices: 49532948--49533036 Score: 99
Period size: 24 Copynumber: 3.7 Consensus size: 24
49532938 CTCTTCGGAG
49532948 CTTCCCGATATTGGCTCGCTTGAA
1 CTTCCCGATATTGGCTCGCTTGAA
* *
49532972 CTTCTCGATATTGGCTCACTTGAA
1 CTTCCCGATATTGGCTCGCTTGAA
* * *
49532996 CTTCTCGATATTAGCTCG-TATGAG
1 CTTCCCGATATTGGCTCGCT-TGAA
* *
49533020 CTTCCCGTTAATGGCTC
1 CTTCCCGATATTGGCTC
49533037 TCTAGAGCTT
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
23 1 0.02
24 54 0.98
ACGTcount: A:0.18, C:0.27, G:0.19, T:0.36
Consensus pattern (24 bp):
CTTCCCGATATTGGCTCGCTTGAA
Found at i:49533069 original size:25 final size:24
Alignment explanation
Indices: 49533015--49533098 Score: 89
Period size: 25 Copynumber: 3.4 Consensus size: 24
49533005 ATTAGCTCGT
*
49533015 ATGAGCTTCCCGTTAATGGCTCTC
1 ATGAGCTTCCCGTTAATGGCTCAC
*
49533039 -TAGAGCTTTCCGTTACATGGCTCAC
1 AT-GAGCTTCCCGTTA-ATGGCTCAC
* *
49533064 ATGAGCTTCCCATTAAATGGCTCAA
1 ATGAGCTTCCCGTT-AATGGCTCAC
*
49533089 AAGAGCTTCC
1 ATGAGCTTCC
49533099 ATTTATGTGC
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
23 1 0.02
24 12 0.24
25 35 0.70
26 2 0.04
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (24 bp):
ATGAGCTTCCCGTTAATGGCTCAC
Found at i:49533117 original size:49 final size:49
Alignment explanation
Indices: 49533009--49533118 Score: 116
Period size: 49 Copynumber: 2.2 Consensus size: 49
49532999 CTCGATATTA
* *** *
49533009 GCTCGTATGAGCTTCCCGTTAATGGCTCTCTAGAGCTTTCCGTTACATG
1 GCTCGTATGAGCTTCCCATTAATGGCTCAAAAGAGCTTTCCATTACATG
** *
49533058 GCTCACATGAGCTTCCCATTAAATGGCTCAAAAGAGC-TTCCATT-TATG
1 GCTCGTATGAGCTTCCCATT-AATGGCTCAAAAGAGCTTTCCATTACATG
49533106 TGCTCGTATGAGC
1 -GCTCGTATGAGC
49533119 AGTTTCGAAT
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
48 3 0.06
49 33 0.67
50 13 0.27
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.32
Consensus pattern (49 bp):
GCTCGTATGAGCTTCCCATTAATGGCTCAAAAGAGCTTTCCATTACATG
Found at i:49543603 original size:42 final size:41
Alignment explanation
Indices: 49543545--49543669 Score: 124
Period size: 43 Copynumber: 2.9 Consensus size: 41
49543535 GTCGATTTGA
*
49543545 GATTTACGTGTAAGACCATGTTTGGGACATCGGCATCGTATAC
1 GATTT-CGTGTAAGACCATGTCTGGGACAT-GGCATCGTATAC
* * **
49543588 GATTTCGTGTAAGACCCTGTCTAGGACAGTGGCATCGATATTT
1 GATTTCGTGTAAGACCATGTCTGGGACA-TGGCATCG-TATAC
* * * *
49543631 GATTACATGTAAGACCACGTCTGAGACATTGGCATCGTA
1 GATTTCGTGTAAGACCATGTCTGGGACA-TGGCATCGTA
49543670 AGAGCTTCCG
Statistics
Matches: 68, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
42 29 0.43
43 39 0.57
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (41 bp):
GATTTCGTGTAAGACCATGTCTGGGACATGGCATCGTATAC
Found at i:49547140 original size:18 final size:18
Alignment explanation
Indices: 49547101--49547143 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
49547091 AAAAAAAGGC
49547101 TTTGAAATTGAATAACGA
1 TTTGAAATTGAATAACGA
* *
49547119 TTTGTAAATT-AATAATGT
1 TTTG-AAATTGAATAACGA
49547137 TTTGAAA
1 TTTGAAA
49547144 ACAAACGACA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 3 0.14
18 14 0.64
19 5 0.23
ACGTcount: A:0.42, C:0.02, G:0.14, T:0.42
Consensus pattern (18 bp):
TTTGAAATTGAATAACGA
Found at i:49547489 original size:25 final size:25
Alignment explanation
Indices: 49547459--49547540 Score: 87
Period size: 25 Copynumber: 3.3 Consensus size: 25
49547449 TTAAACTAAA
*
49547459 ACTGAAACTGTCTTTA-ATAGTATAT
1 ACTGAAACTGT-TATAGATAGTATAT
* *
49547484 CCTGAAATTGTTATAGATAGTATAT
1 ACTGAAACTGTTATAGATAGTATAT
* *
49547509 ACTGAGACTATTATAGATAG-ACTAT
1 ACTGAAACTGTTATAGATAGTA-TAT
49547534 ACTGAAA
1 ACTGAAA
49547541 ACACTTAAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
24 4 0.09
25 43 0.91
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (25 bp):
ACTGAAACTGTTATAGATAGTATAT
Found at i:49553125 original size:18 final size:18
Alignment explanation
Indices: 49553086--49553128 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
49553076 AAAAAAAGGC
49553086 TTTGAAATTGAATAACGA
1 TTTGAAATTGAATAACGA
* *
49553104 TTTGTAAATT-AATAATGT
1 TTTG-AAATTGAATAACGA
49553122 TTTGAAA
1 TTTGAAA
49553129 ACGAACGACA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 3 0.14
18 14 0.64
19 5 0.23
ACGTcount: A:0.42, C:0.02, G:0.14, T:0.42
Consensus pattern (18 bp):
TTTGAAATTGAATAACGA
Found at i:49556330 original size:21 final size:21
Alignment explanation
Indices: 49556304--49556346 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
49556294 GGTTCGCTGT
*
49556304 ATTGGATTAGAGGTGTATTGG
1 ATTGGATTAGAGGTGTAATGG
49556325 ATTGGATTAGAGGTGTAATGG
1 ATTGGATTAGAGGTGTAATGG
49556346 A
1 A
49556347 ATAGAGGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (21 bp):
ATTGGATTAGAGGTGTAATGG
Found at i:49556346 original size:16 final size:16
Alignment explanation
Indices: 49556327--49556359 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
49556317 TGTATTGGAT
*
49556327 TGGATTAGAGGTGTAA
1 TGGAATAGAGGTGTAA
49556343 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
49556359 T
1 T
49556360 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.30
Consensus pattern (16 bp):
TGGAATAGAGGTGTAA
Found at i:49556404 original size:45 final size:44
Alignment explanation
Indices: 49556338--49556432 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
49556328 GGATTAGAGG
* *
49556338 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
49556383 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
49556427 TGTAAT
1 TGTAAT
49556433 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:49556615 original size:18 final size:17
Alignment explanation
Indices: 49556594--49556628 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
49556584 TTATTATTTA
*
49556594 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
49556612 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
49556629 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:49556622 original size:28 final size:27
Alignment explanation
Indices: 49556552--49556624 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
49556542 TTTATTATCA
*
49556552 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
49556580 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
49556607 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
49556625 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:49556741 original size:144 final size:147
Alignment explanation
Indices: 49556513--49556784 Score: 478
Period size: 144 Copynumber: 1.9 Consensus size: 147
49556503 ATGATTATTG
49556513 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTA--TATTATCAAAAATAAATAATTTAATCATATTTAA
*
49556578 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
64 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
49556643 AGAAATTTGTTTTGGTAAA
129 AGAAATTTGTTTTGGTAAA
*
49556662 TTATT-TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAAC
1 TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
*
49556724 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAGTTCTTAATAATTA
66 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
49556785 ATATTCTTAT
Statistics
Matches: 120, Mismatches: 3, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
144 91 0.76
145 1 0.01
148 23 0.19
149 5 0.04
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAG
AAATTTGTTTTGGTAAA
Found at i:49558043 original size:11 final size:11
Alignment explanation
Indices: 49558029--49558055 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
49558019 AAAAATCAAT
49558029 ACAAAAGTTTC
1 ACAAAAGTTTC
49558040 ACAAAAGTTTC
1 ACAAAAGTTTC
49558051 ACAAA
1 ACAAA
49558056 CTAATTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.22
Consensus pattern (11 bp):
ACAAAAGTTTC
Found at i:49560318 original size:15 final size:15
Alignment explanation
Indices: 49560298--49560328 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
49560288 ATATTATGTA
49560298 TAATTGAGGTAAAAT
1 TAATTGAGGTAAAAT
49560313 TAATTGAGGTAAAAT
1 TAATTGAGGTAAAAT
49560328 T
1 T
49560329 TGAAGGTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.19, T:0.35
Consensus pattern (15 bp):
TAATTGAGGTAAAAT
Found at i:49564064 original size:16 final size:16
Alignment explanation
Indices: 49564024--49564056 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
49564014 AAATATACCA
*
49564024 AATTATGTATATAATT
1 AATTATTTATATAATT
49564040 AATTATTTATATAATT
1 AATTATTTATATAATT
49564056 A
1 A
49564057 TTTTTTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (16 bp):
AATTATTTATATAATT
Found at i:49564154 original size:22 final size:24
Alignment explanation
Indices: 49564121--49564169 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 24
49564111 TGGCACCGCC
*
49564121 AAATAAAAAAT-CAATTTGAAAAA
1 AAATAAAAAATCCAATTTAAAAAA
49564144 AAAT-AAAAATCCAATTTAAAAAA
1 AAATAAAAAATCCAATTTAAAAAA
49564167 AAA
1 AAA
49564170 CTTAAGGGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 6 0.25
23 18 0.75
ACGTcount: A:0.71, C:0.06, G:0.02, T:0.20
Consensus pattern (24 bp):
AAATAAAAAATCCAATTTAAAAAA
Found at i:49564242 original size:24 final size:24
Alignment explanation
Indices: 49564210--49564261 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
49564200 TCAATATTTC
49564210 TTTTAAAAAATAAAT-TAAAATTCAA
1 TTTTAAAAAA-AAATATAAAATT-AA
*
49564235 TTTT-AAAAAATATATAAAATTAA
1 TTTTAAAAAAAAATATAAAATTAA
49564258 TTTT
1 TTTT
49564262 TTGGTGGTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 9 0.36
24 12 0.48
25 4 0.16
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (24 bp):
TTTTAAAAAAAAATATAAAATTAA
Found at i:49564263 original size:25 final size:25
Alignment explanation
Indices: 49564210--49564261 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
49564200 TCAATATTTC
49564210 TTTTAAAAAATAAATTAAAATTCAA
1 TTTTAAAAAATAAATTAAAATTCAA
*
49564235 TTTTAAAAAATATA-TAAAATT-AA
1 TTTTAAAAAATAAATTAAAATTCAA
49564258 TTTT
1 TTTT
49564262 TTGGTGGTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 6 0.23
24 7 0.27
25 13 0.50
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (25 bp):
TTTTAAAAAATAAATTAAAATTCAA
Found at i:49575482 original size:25 final size:25
Alignment explanation
Indices: 49575437--49575484 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
49575427 GTTTAAGTGC
*
49575437 AGAATTCTCTTTGAGTTTTTCTCCA
1 AGAATTCTCTTTGAGGTTTTCTCCA
49575462 AGAATTCTCTCTTG-GGTTTTCTC
1 AGAATTCTCT-TTGAGGTTTTCTC
49575485 TAGAAGTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 18 0.86
26 3 0.14
ACGTcount: A:0.17, C:0.21, G:0.15, T:0.48
Consensus pattern (25 bp):
AGAATTCTCTTTGAGGTTTTCTCCA
Found at i:49586677 original size:6 final size:6
Alignment explanation
Indices: 49586666--49586716 Score: 95
Period size: 6 Copynumber: 8.7 Consensus size: 6
49586656 TTATAAAATA
49586666 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATAT-
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
49586713 TATA
1 TATA
49586717 AAAACGTATG
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 4 0.09
6 41 0.91
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (6 bp):
TATATG
Found at i:49588101 original size:10 final size:10
Alignment explanation
Indices: 49588086--49588127 Score: 77
Period size: 10 Copynumber: 4.3 Consensus size: 10
49588076 ACAACATAAC
49588086 TAAATATATA
1 TAAATATATA
49588096 TAAATATATA
1 TAAATATATA
49588106 TAAATATATA
1 TAAATATATA
49588116 TAAATA-ATA
1 TAAATATATA
49588125 TAA
1 TAA
49588128 CTTTTTAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
9 6 0.19
10 26 0.81
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
TAAATATATA
Found at i:49588743 original size:41 final size:41
Alignment explanation
Indices: 49588655--49588799 Score: 141
Period size: 41 Copynumber: 3.5 Consensus size: 41
49588645 TAAAAACAGA
* * * * * *
49588655 TTCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTG-ATTCAG
1 TTCACCGGCACTTAGCCTGCTAGACATATAGTCTGAAAT-AT
*
49588696 TACACCGGCACTTAGCCTGCTAGACATATAGTCTGAAATAT
1 TTCACCGGCACTTAGCCTGCTAGACATATAGTCTGAAATAT
* * * *
49588737 TTCACCGGCA-TTAAGCCTGCTACACATTTAGTCTGAAGTGT
1 TTCACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATAT
* *
49588778 TTCACCGGCAATAAGCCTGCTA
1 TTCACCGGCACTTAGCCTGCTA
49588800 AGCGCTAAGC
Statistics
Matches: 88, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
40 2 0.02
41 83 0.94
42 3 0.03
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGCTAGACATATAGTCTGAAATAT
Found at i:49588814 original size:41 final size:41
Alignment explanation
Indices: 49588698--49588814 Score: 103
Period size: 41 Copynumber: 2.9 Consensus size: 41
49588688 TGATTCAGTA
* * * * * *
49588698 CACCGGCACTTAGCCTGCTAGACA-TATAGTCTGAAATATTT
1 CACCGGCAATAAGCCTGCTACACACTA-AGCCTGAAGTGTTT
* * * *
49588739 CACCGGCATTAAGCCTGCTACACATTTAGTCTGAAGTGTTT
1 CACCGGCAATAAGCCTGCTACACACTAAGCCTGAAGTGTTT
*
49588780 CACCGGCAATAAGCCTGCTA-AGCGCTAAGCCTGAA
1 CACCGGCAATAAGCCTGCTACA-CACTAAGCCTGAA
49588815 AATCTCAATT
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
40 1 0.02
41 61 0.97
42 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (41 bp):
CACCGGCAATAAGCCTGCTACACACTAAGCCTGAAGTGTTT
Found at i:49591722 original size:45 final size:45
Alignment explanation
Indices: 49591644--49591762 Score: 125
Period size: 45 Copynumber: 2.7 Consensus size: 45
49591634 ATACACTCTG
** *
49591644 CTGCAACTTCAAGGG-GACGAGATTGG-TATCTTCAACCTACTCCA
1 CTGCAACTTC-AGGGAGATAAGACTGGTTATCTTCAACCTACTCCA
* * * * *
49591688 CTGTAACTTTAGGGAGATAAGGCTGGTTATCTTCAGCCTTCTCCA
1 CTGCAACTTCAGGGAGATAAGACTGGTTATCTTCAACCTACTCCA
* *
49591733 CTGCAACTTCATGGAGATAAGACTTGTTAT
1 CTGCAACTTCAGGGAGATAAGACTGGTTAT
49591763 GGTAGACCTA
Statistics
Matches: 60, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
43 4 0.07
44 15 0.25
45 41 0.68
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (45 bp):
CTGCAACTTCAGGGAGATAAGACTGGTTATCTTCAACCTACTCCA
Found at i:49592056 original size:45 final size:45
Alignment explanation
Indices: 49591822--49592079 Score: 150
Period size: 45 Copynumber: 5.7 Consensus size: 45
49591812 TTTTAATCCA
* * ** * * *
49591822 CTCCACTGCAACTTCAGGGAGATAGGA-TTAATAGCTTAAATCTA
1 CTCCACTGCAACTTCAGAGAGATAAGATTTGTTATCTTCAATCTG
* * ** * *
49591866 CTCCACTGCAACCTCA-AGGAGATAAGATTGGTGGTTTTCAACCTG
1 CTCCACTGCAACTTCAGA-GAGATAAGATTTGTTATCTTCAATCTG
* * * * * *
49591911 CTCCATTGTAACTTCAGGGAGATAAGGTTTG--AT-GT-GATCTG
1 CTCCACTGCAACTTCAGAGAGATAAGATTTGTTATCTTCAATCTG
* * * * *
49591952 CTCTACTGTAACTTTAGAGAGATAAGATCTATAGTTTATAGCTTTAATCTA
1 CTCCACTGCAACTTCAGAGAGATAAGAT-T-T-G-TTAT--CTTCAATCTG
* *
49592003 TTCTACTGCAACTTCAGAGAGATAAGATTTGTTATCTTCAATCTG
1 CTCCACTGCAACTTCAGAGAGATAAGATTTGTTATCTTCAATCTG
* * *
49592048 CTCCACTGCAACTTCAGGGAGATGAGACTTGT
1 CTCCACTGCAACTTCAGAGAGATAAGATTTGT
49592080 CGTTTTCGAT
Statistics
Matches: 160, Mismatches: 41, Indels: 25
0.71 0.18 0.11
Matches are distributed among these distances:
41 27 0.17
42 2 0.01
43 2 0.01
44 24 0.15
45 66 0.41
47 6 0.04
48 1 0.01
49 1 0.01
50 2 0.01
51 29 0.18
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (45 bp):
CTCCACTGCAACTTCAGAGAGATAAGATTTGTTATCTTCAATCTG
Found at i:49592173 original size:50 final size:50
Alignment explanation
Indices: 49592098--49592782 Score: 519
Period size: 50 Copynumber: 13.7 Consensus size: 50
49592088 ATCTGTTCGC
* * *
49592098 CAGGGAAGTAAGATTTGCTGTTGTAGCTTCAATCTATTTAACTGCAATGT
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTTAACTGCAATGT
* ** * ** **
49592148 CAGGGAAGCAAGATTCGTTGTTGTAGCTTCAATCTATTCCACTGCACCG-
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTTAACTGCAATGT
* * *
49592197 CTAGGGAAGTAAGATTCGCTGTTGTAGCTTCAATATTTTTAATTGCAATGT
1 C-AGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTTAACTGCAATGT
* * * * * ** ****
49592248 CGGGGAAGCAAAATTCGCCGTTGTAGCTTTAATCTATTCCACTGCACCAC
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTTAACTGCAATGT
* * *
49592298 CAGGGAAGTAAGATTCACTGTTGTAGCTTCAATCTTTTTAATTGCAATGT
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTTAACTGCAATGT
* * * * * ** * *
49592348 CGGGGAAGCAAGATTCGTCGTTGCAGCTTCAATCTGTTCCACTACATTGT
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTTAACTGCAATGT
* * * *
49592398 CAGGGAAGTAAGATTCGTCGTTATGGCTTCAATCTTTTTAATTGCAATGT
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTTAACTGCAATGT
* ** * * ** ** *
49592448 CGGGGAAACAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGC
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTTAACTGCAATGT
* * * * *
49592498 CAGGGAAATAAGATTCGTCGTTGTGGCTTTAATCTTTTTAATTGCAATGT
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTTAACTGCAATGT
* *** * * * ** ** *
49592548 CAGGGAAGCAAGATTCATTGTTGTAGCTTTAATATGTTCCACTGCACCGC
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTTAACTGCAATGT
* * * * *
49592598 CAAGGAAGTAAGATTTGCCGTTGTGGCTTCAATCTTTTTAATTGTAATGT
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTTAACTGCAATGT
** * * * * ** ****
49592648 TGGGGAAGCAAGATTCACCATTGTAGCTTCAATCTGTTCCACTGCACCAC
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTTAACTGCAATGT
* * * *
49592698 CAGGGAAGTAAGATTCGTCGTGGTGGCTTCAATCTTTTTAATTGCAATGT
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTTAACTGCAATGT
**
49592748 C-GGAGAAGTAAGATTCGCTATTGTAGCTTCAATCT
1 CAGG-GAAGTAAGATTCGCCGTTGTAGCTTCAATCT
49592783 GTTCTACTAC
Statistics
Matches: 470, Mismatches: 162, Indels: 6
0.74 0.25 0.01
Matches are distributed among these distances:
49 3 0.01
50 466 0.99
51 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (50 bp):
CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTTAACTGCAATGT
Found at i:49592814 original size:100 final size:100
Alignment explanation
Indices: 49592095--49592799 Score: 932
Period size: 100 Copynumber: 7.0 Consensus size: 100
49592085 TCGATCTGTT
* * * * *
49592095 CGCCAGGGAAGTAAGATTTG-CTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGCAA
1 CGCCAGGGAAGTAAGATTCGTC-GTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAA
* *
49592159 GATTCGTTGTTGTAGCTTCAATCTATTCCACTGCAC
65 GATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCAC
* * *
49592195 CGCTAGGGAAGTAAGATTCG-CTGTTGTAGCTTCAATATTTTTAATTGCAATGTCGGGGAAGCAA
1 CGCCAGGGAAGTAAGATTCGTC-GTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAA
* * * *
49592259 AATTCGCCGTTGTAGCTTTAATCTATTCCACTGCAC
65 GATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCAC
* * *
49592295 CACCAGGGAAGTAAGATTC-ACTGTTGTAGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAA
1 CGCCAGGGAAGTAAGATTCGTC-GTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAA
* * *
49592359 GATTCG-TCGTTGCAGCTTCAATCTGTTCCACTACAT
65 GATTCGCT-GTTGTAGCTTCAATCTGTTCCACTGCAC
* * * *
49592395 TGTCAGGGAAGTAAGATTCGTCGTTATGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAACAAG
1 CGCCAGGGAAGTAAGATTCGTCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAG
49592460 ATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCAC
66 ATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCAC
* * *
49592495 CGCCAGGGAAATAAGATTCGTCGTTGTGGCTTTAATCTTTTTAATTGCAATGTCAGGGAAGCAAG
1 CGCCAGGGAAGTAAGATTCGTCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAG
** * *
49592560 ATTCATTGTTGTAGCTTTAATATGTTCCACTGCAC
66 ATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCAC
* * * * *
49592595 CGCCAAGGAAGTAAGATTTGCCGTTGTGGCTTCAATCTTTTTAATTGTAATGTTGGGGAAGCAAG
1 CGCCAGGGAAGTAAGATTCGTCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAG
* **
49592660 ATTCACCATTGTAGCTTCAATCTGTTCCACTGCAC
66 ATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCAC
* * * *
49592695 CACCAGGGAAGTAAGATTCGTCGTGGTGGCTTCAATCTTTTTAATTGCAATGTCGGAGAAGTAAG
1 CGCCAGGGAAGTAAGATTCGTCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAG
* * *
49592760 ATTCGCTATTGTAGCTTCAATCTGTTCTACTACAC
66 ATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCAC
49592795 CGCCA
1 CGCCA
49592800 AGGAGATAGG
Statistics
Matches: 533, Mismatches: 68, Indels: 8
0.88 0.11 0.01
Matches are distributed among these distances:
100 531 1.00
101 2 0.00
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.33
Consensus pattern (100 bp):
CGCCAGGGAAGTAAGATTCGTCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAG
ATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCAC
Found at i:49592860 original size:21 final size:21
Alignment explanation
Indices: 49592819--49592862 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
49592809 GATTCGCCGC
*
49592819 CTTCAGCTTTAATCCGCTCCA
1 CTTCAGCTTTAATCCACTCCA
* *
49592840 CTTCAGCTTTAATCTATTCCA
1 CTTCAGCTTTAATCCACTCCA
49592861 CT
1 CT
49592863 GCAACGCCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.20, C:0.34, G:0.07, T:0.39
Consensus pattern (21 bp):
CTTCAGCTTTAATCCACTCCA
Found at i:49593909 original size:13 final size:13
Alignment explanation
Indices: 49593891--49593927 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
49593881 TTGGCCTCTC
49593891 ATTTTTCTTTTTT
1 ATTTTTCTTTTTT
*
49593904 ATTTTTCTTTTCT
1 ATTTTTCTTTTTT
49593917 -TTTTTCTTTTT
1 ATTTTTCTTTTT
49593928 GTATCAAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.05, C:0.11, G:0.00, T:0.84
Consensus pattern (13 bp):
ATTTTTCTTTTTT
Found at i:49593916 original size:18 final size:18
Alignment explanation
Indices: 49593893--49593927 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
49593883 GGCCTCTCAT
49593893 TTTTCTTTTTTATTTTTC
1 TTTTCTTTTTTATTTTTC
*
49593911 TTTTCTTTTTTCTTTTT
1 TTTTCTTTTTTATTTTT
49593928 GTATCAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.86
Consensus pattern (18 bp):
TTTTCTTTTTTATTTTTC
Found at i:49599605 original size:26 final size:26
Alignment explanation
Indices: 49599540--49599605 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
49599530 TTTAAACCAA
*
49599540 ATTTTTCAAAAGTACCTCTCAAAAGT
1 ATTTTTTAAAAGTACCTCTCAAAAGT
* * * * * *
49599566 ATATTTTCACAGTACTTTTCAAAATT
1 ATTTTTTAAAAGTACCTCTCAAAAGT
49599592 ATTTTTTAAAAGTA
1 ATTTTTTAAAAGTA
49599606 ATGAAAAACT
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.38, C:0.14, G:0.06, T:0.42
Consensus pattern (26 bp):
ATTTTTTAAAAGTACCTCTCAAAAGT
Found at i:49600027 original size:35 final size:32
Alignment explanation
Indices: 49599995--49600100 Score: 96
Period size: 32 Copynumber: 3.3 Consensus size: 32
49599985 ACCAAAAATT
49599995 TATTTTAAAAATTAAAACAAAAATTAAAAAAAAAG
1 TATTTTAAAAATT--AA-AAAAATTAAAAAAAAAG
*
49600030 TATTTTTAAAATTAAAAAAATT---AAAAAAG
1 TATTTTAAAAATTAAAAAAATTAAAAAAAAAG
** *
49600059 TATTTTAAAAAAATT-TTAAAATT-TAAAAAAAG
1 TATTTT--AAAAATTAAAAAAATTAAAAAAAAAG
49600091 TATTTTAAAA
1 TATTTTAAAA
49600101 GTATTTTAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 13
0.79 0.05 0.16
Matches are distributed among these distances:
29 13 0.21
30 10 0.16
31 6 0.10
32 20 0.32
33 2 0.03
35 12 0.19
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (32 bp):
TATTTTAAAAATTAAAAAAATTAAAAAAAAAG
Found at i:49600068 original size:11 final size:11
Alignment explanation
Indices: 49600054--49600111 Score: 57
Period size: 11 Copynumber: 5.4 Consensus size: 11
49600044 AAAAAATTAA
49600054 AAAAGTATTTT
1 AAAAGTATTTT
**
49600065 AAAAAAATTTT
1 AAAAGTATTTT
**
49600076 AAAA-T-TTAAA
1 AAAAGTATT-TT
49600086 AAAAGTATTTT
1 AAAAGTATTTT
49600097 AAAAGTATTTT
1 AAAAGTATTTT
49600108 AAAA
1 AAAA
49600112 ATAAAAAAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
9 2 0.05
10 4 0.11
11 29 0.78
12 2 0.05
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:49600117 original size:31 final size:29
Alignment explanation
Indices: 49600022--49600120 Score: 108
Period size: 32 Copynumber: 3.2 Consensus size: 29
49600012 CAAAAATTAA
* **
49600022 AAAAAAAGTATTTTTAAAATTAAAAAAAT
1 AAAAAAAGTATTTTAAAAATTTTAAAAAT
* *
49600051 TAAAAAAGTATTTTAAAAAAATTTTAAAATTT
1 AAAAAAAGTATTTT--AAAAATTTTAAAA-AT
49600083 AAAAAAAGTATTTTAAAAGTATTTTAAAAAT
1 AAAAAAAGTATTTTAAAA--ATTTTAAAAAT
49600114 AAAAAAA
1 AAAAAAA
49600121 TAAAAATATT
Statistics
Matches: 58, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
29 13 0.22
30 4 0.07
31 18 0.31
32 23 0.40
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (29 bp):
AAAAAAAGTATTTTAAAAATTTTAAAAAT
Found at i:49602888 original size:23 final size:23
Alignment explanation
Indices: 49602840--49602934 Score: 102
Period size: 23 Copynumber: 4.1 Consensus size: 23
49602830 CCAGATTTCA
* *
49602840 CCACAAGGGCATTACAGAATACG
1 CCACAAGGGCATTACAAAATATG
*
49602863 CCACACGGGCATTACAAAATATG
1 CCACAAGGGCATTACAAAATATG
*
49602886 CCACATA-GGTATTACAAAATATG
1 CCACA-AGGGCATTACAAAATATG
** * *
49602909 CCACAAAAGCTTTACAAATTATG
1 CCACAAGGGCATTACAAAATATG
49602932 CCA
1 CCA
49602935 TAAAGGTTTA
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
22 1 0.02
23 60 0.98
ACGTcount: A:0.41, C:0.24, G:0.15, T:0.20
Consensus pattern (23 bp):
CCACAAGGGCATTACAAAATATG
Found at i:49602939 original size:22 final size:22
Alignment explanation
Indices: 49602874--49602946 Score: 83
Period size: 23 Copynumber: 3.2 Consensus size: 22
49602864 CACACGGGCA
* *
49602874 TTACAAAATATGCCACATAGGT
1 TTACAAAATATGCCAAAAAGGT
*
49602896 ATTACAAAATATGCCACAAAAGCT
1 -TTACAAAATATGCCA-AAAAGGT
* *
49602920 TTACAAATTATGCCATAAAGGT
1 TTACAAAATATGCCAAAAAGGT
49602942 TTACA
1 TTACA
49602947 TAAAACATCA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
22 10 0.23
23 29 0.67
24 4 0.09
ACGTcount: A:0.44, C:0.18, G:0.11, T:0.27
Consensus pattern (22 bp):
TTACAAAATATGCCAAAAAGGT
Found at i:49603304 original size:104 final size:104
Alignment explanation
Indices: 49603164--49603356 Score: 296
Period size: 104 Copynumber: 1.9 Consensus size: 104
49603154 AGTCTGATTA
* * * * *
49603164 GCAATGTATCTGCCCTACCAGAGGCATCACAATTGGTCGTGTTACTCATTTACCACAGAATGCAC
1 GCAATGTACCTACCCTACCAGAGGCACCACAATTGGTCATGTTACTCATTTACCACAGAAGGCAC
* *
49603229 TTACCTAGATTCATTTACACTTCTTACACATATCTGAAG
66 TTACCCAGATTCATTCACACTTCTTACACATATCTGAAG
* *
49603268 GCAATGTACCTACTCTACCAGAGGCACCACAATTGGTTATGTTACTCATTTACCACAGAAGGCAC
1 GCAATGTACCTACCCTACCAGAGGCACCACAATTGGTCATGTTACTCATTTACCACAGAAGGCAC
*
49603333 TTACCCAGATTCGTTCACACTTCT
66 TTACCCAGATTCATTCACACTTCT
49603357 GACGAACTCA
Statistics
Matches: 79, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
104 79 1.00
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (104 bp):
GCAATGTACCTACCCTACCAGAGGCACCACAATTGGTCATGTTACTCATTTACCACAGAAGGCAC
TTACCCAGATTCATTCACACTTCTTACACATATCTGAAG
Found at i:49604955 original size:3 final size:3
Alignment explanation
Indices: 49604947--49605000 Score: 99
Period size: 3 Copynumber: 18.0 Consensus size: 3
49604937 ACTAGTTGAC
*
49604947 AGA AGA AGA AAA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
49604995 AGA AGA
1 AGA AGA
49605001 GGTGCCAAAC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:49605128 original size:20 final size:21
Alignment explanation
Indices: 49605100--49605149 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
49605090 GCCACATTTG
*
49605100 TTTTCTCTTCTTCTTCTTT-T
1 TTTTTTCTTCTTCTTCTTTCT
*
49605120 TTTTTTCTTTTTCTTCTTTCT
1 TTTTTTCTTCTTCTTCTTTCT
*
49605141 TCTTTTCTT
1 TTTTTTCTT
49605150 ACAATTTTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTTTCTTCTTCTTCTTTCT
Found at i:49605373 original size:3 final size:3
Alignment explanation
Indices: 49605359--49605395 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
49605349 GAATTCTGCC
*
49605359 TCT TCT TTT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
49605396 TTACTACCCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TCT
Found at i:49605551 original size:20 final size:20
Alignment explanation
Indices: 49605513--49605552 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
49605503 TTTTTTTTCT
* *
49605513 AAAGTTTAGTGACTGATTTG
1 AAAGTTGAGTGACTAATTTG
*
49605533 AAAGTTGAGTGATTAATTTG
1 AAAGTTGAGTGACTAATTTG
49605553 TTATTGGAAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.03, G:0.25, T:0.40
Consensus pattern (20 bp):
AAAGTTGAGTGACTAATTTG
Found at i:49606084 original size:9 final size:9
Alignment explanation
Indices: 49606036--49606104 Score: 61
Period size: 9 Copynumber: 7.6 Consensus size: 9
49606026 GCATGTGATG
49606036 AAAAATGAT-
1 AAAAAT-ATA
49606045 AAAAATATA
1 AAAAATATA
**
49606054 AATTA-ATA
1 AAAAATATA
*
49606062 AAAAATATT
1 AAAAATATA
*
49606071 AAAAATGTA
1 AAAAATATA
49606080 AAAAATATTGA
1 AAAAATA-T-A
49606091 AAAAATATA
1 AAAAATATA
49606100 AAAAA
1 AAAAA
49606105 AATTANACTT
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
8 8 0.17
9 30 0.62
10 2 0.04
11 8 0.17
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (9 bp):
AAAAATATA
Found at i:49606084 original size:20 final size:19
Alignment explanation
Indices: 49606059--49606109 Score: 68
Period size: 20 Copynumber: 2.7 Consensus size: 19
49606049 ATATAAATTA
49606059 ATAAAAAATATT-AAAAAT
1 ATAAAAAATATTAAAAAAT
*
49606077 GTAAAAAATATTGAAAAAAT
1 ATAAAAAATATT-AAAAAAT
*
49606097 ATAAAAAAAATTA
1 ATAAAAAATATTA
49606110 NACTTTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 11 0.39
19 1 0.04
20 16 0.57
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (19 bp):
ATAAAAAATATTAAAAAAT
Found at i:49606585 original size:19 final size:19
Alignment explanation
Indices: 49606371--49606577 Score: 355
Period size: 19 Copynumber: 10.8 Consensus size: 19
49606361 AATTTTCTAT
49606371 ATTTTATAATTTTTTACTA
1 ATTTTATAATTTTTTACTA
49606390 ATTTTATAATTTTTTACTA
1 ATTTTATAATTTTTTACTA
49606409 ATTTTATAATTTTTTACTA
1 ATTTTATAATTTTTTACTA
49606428 ATTTTATAATTTTTTACTA
1 ATTTTATAATTTTTTACTA
49606447 ATTTTATAATTTTTTACTA
1 ATTTTATAATTTTTTACTA
49606466 ATTTTATAATTTTTTACTA
1 ATTTTATAATTTTTTACTA
49606485 ATTTTATAATTTTTTACTA
1 ATTTTATAATTTTTTACTA
49606504 ATTTTATAATTTTTTACTA
1 ATTTTATAATTTTTTACTA
49606523 ATTTTATAATTTATTTTA-TGA
1 ATTTTATAA-TT-TTTTACT-A
49606544 ATTTTATAA-TTTTTACTA
1 ATTTTATAATTTTTTACTA
* *
49606562 TTTTTATAAGTTTTTA
1 ATTTTATAATTTTTTA
49606578 TGATTTTTTT
Statistics
Matches: 182, Mismatches: 1, Indels: 10
0.94 0.01 0.05
Matches are distributed among these distances:
18 14 0.08
19 150 0.82
20 3 0.02
21 15 0.08
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.63
Consensus pattern (19 bp):
ATTTTATAATTTTTTACTA
Found at i:49606595 original size:19 final size:20
Alignment explanation
Indices: 49606372--49606602 Score: 77
Period size: 19 Copynumber: 11.6 Consensus size: 20
49606362 ATTTTCTATA
*
49606372 TTTTATAATTTTTTACTAA--
1 TTTTATATTTTTTTA-TAAGT
*
49606391 TTTTATAATTTTTTACTAA--
1 TTTTATATTTTTTTA-TAAGT
*
49606410 TTTTATAATTTTTTACTAA--
1 TTTTATATTTTTTTA-TAAGT
*
49606429 TTTTATAATTTTTTACTAA--
1 TTTTATATTTTTTTA-TAAGT
*
49606448 TTTTATAATTTTTTACTAA--
1 TTTTATATTTTTTTA-TAAGT
*
49606467 TTTTATAATTTTTTACTAA--
1 TTTTATATTTTTTTA-TAAGT
*
49606486 TTTTATAATTTTTTACTAA--
1 TTTTATATTTTTTTA-TAAGT
*
49606505 TTTTATAATTTTTTACTAA--
1 TTTTATATTTTTTTA-TAAGT
49606524 TTTTATAATTTATTTTATGAA-T
1 TTTTAT-ATTT-TTTTAT-AAGT
*
49606546 TTTATAATTTTTACTATTTTTATAAGT
1 TTT-T-A----TA-TTTTTTTATAAGT
49606573 TTTTATGATTTTTTTAT-AG-
1 TTTTAT-ATTTTTTTATAAGT
49606592 TTTTATATTTT
1 TTTTATATTTT
49606603 ATAATGATTT
Statistics
Matches: 196, Mismatches: 3, Indels: 27
0.87 0.01 0.12
Matches are distributed among these distances:
18 5 0.03
19 145 0.74
20 6 0.03
21 16 0.08
22 4 0.02
23 1 0.01
24 1 0.01
25 1 0.01
26 3 0.02
27 11 0.06
28 3 0.02
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.65
Consensus pattern (20 bp):
TTTTATATTTTTTTATAAGT
Found at i:49606612 original size:11 final size:10
Alignment explanation
Indices: 49606369--49606633 Score: 98
Period size: 9 Copynumber: 27.7 Consensus size: 10
49606359 TAAATTTTCT
49606369 ATATTTTATA
1 ATATTTTATA
49606379 AT-TTTT-TA
1 ATATTTTATA
*
49606387 CTAATTTTATA
1 AT-ATTTTATA
49606398 AT-TTTT-TA
1 ATATTTTATA
*
49606406 CTAATTTTATA
1 AT-ATTTTATA
49606417 AT-TTTT-TA
1 ATATTTTATA
*
49606425 CTAATTTTATA
1 AT-ATTTTATA
49606436 AT-TTTT-TA
1 ATATTTTATA
*
49606444 CTAATTTTATA
1 AT-ATTTTATA
49606455 AT-TTTT-TA
1 ATATTTTATA
*
49606463 CTAATTTTATA
1 AT-ATTTTATA
49606474 AT-TTTT-TA
1 ATATTTTATA
*
49606482 CTAATTTTATA
1 AT-ATTTTATA
49606493 AT-TTTT-TA
1 ATATTTTATA
*
49606501 CTAATTTTATA
1 AT-ATTTTATA
49606512 AT-TTTT-TA
1 ATATTTTATA
*
49606520 CTAATTTTATA
1 AT-ATTTTATA
*
49606531 ATTTATTTTATG
1 A--TATTTTATA
49606543 A-ATTTTATA
1 ATATTTTATA
49606552 AT-TTTTACT-
1 ATATTTTA-TA
49606561 AT-TTTTATA
1 ATATTTTATA
*
49606570 AGT-TTTTATG
1 A-TATTTTATA
*
49606580 AT-TTTT-TT
1 ATATTTTATA
*
49606588 ATAGTTT-T-
1 ATATTTTATA
49606596 ATATTTTATA
1 ATATTTTATA
49606606 ATGATTTT-TA
1 AT-ATTTTATA
49606616 TATATTTTA-A
1 -ATATTTTATA
49606626 ATAATTTT
1 AT-ATTTT
49606634 CTATAATTTT
Statistics
Matches: 196, Mismatches: 22, Indels: 74
0.67 0.08 0.25
Matches are distributed among these distances:
8 34 0.17
9 65 0.33
10 58 0.30
11 30 0.15
12 8 0.04
13 1 0.01
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.63
Consensus pattern (10 bp):
ATATTTTATA
Found at i:49606748 original size:15 final size:15
Alignment explanation
Indices: 49606728--49606757 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
49606718 TTTTTTATAA
49606728 ATTTTTAATATTTTT
1 ATTTTTAATATTTTT
*
49606743 ATTTTTATTATTTTT
1 ATTTTTAATATTTTT
49606758 TCTACATGTA
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:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
ATTTTTAATATTTTT
Found at i:49610150 original size:21 final size:21
Alignment explanation
Indices: 49610126--49610168 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
49610116 TTATTAATAA
49610126 GACTAAGTCCTAG-GAAGATTT
1 GACTAAGTCCTAGAG-AGATTT
*
49610147 GACTAAGTCTTAGAGAGATTT
1 GACTAAGTCCTAGAGAGATTT
49610168 G
1 G
49610169 TTAGCTTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.30
Consensus pattern (21 bp):
GACTAAGTCCTAGAGAGATTT
Found at i:49618902 original size:41 final size:41
Alignment explanation
Indices: 49618815--49618918 Score: 113
Period size: 41 Copynumber: 2.5 Consensus size: 41
49618805 GAATGTAATA
* *
49618815 CAGACTTTAAGTCTAGCAGGCTTGATGCCGGTGAAATAATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCAGTG-AATAATTT
* * *
49618857 -AGACTTTATGTCTAGCAGGCTTAATGTCATTG-ATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCAGTGAATA-ATTT
* *
49618897 CAGACTATAGGTCTAGCAGGCT
1 CAGACTTTAAGTCTAGCAGGCT
49618919 AAAAGCCGGT
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
39 3 0.06
40 4 0.08
41 46 0.87
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (41 bp):
CAGACTTTAAGTCTAGCAGGCTTAATGCCAGTGAATAATTT
Found at i:49624140 original size:21 final size:21
Alignment explanation
Indices: 49624102--49624145 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
49624092 TCTCACAAGC
*
49624102 TTTTGTTTAACTCATATGAGT
1 TTTTGTTTAACCCATATGAGT
* *
49624123 TTTTGTTTAACCCTTATGGGT
1 TTTTGTTTAACCCATATGAGT
49624144 TT
1 TT
49624146 CCGTTCAGCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.18, C:0.11, G:0.16, T:0.55
Consensus pattern (21 bp):
TTTTGTTTAACCCATATGAGT
Found at i:49627176 original size:17 final size:15
Alignment explanation
Indices: 49627157--49627185 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
49627147 TGTCCGGTAT
49627157 TATT-TTGCTCGTGA
1 TATTATTGCTCGTGA
49627171 TATTATTGCTCGTGA
1 TATTATTGCTCGTGA
49627186 GGATATTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.17, C:0.14, G:0.21, T:0.48
Consensus pattern (15 bp):
TATTATTGCTCGTGA
Found at i:49633838 original size:20 final size:20
Alignment explanation
Indices: 49633815--49633854 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
49633805 ATTATCTAAA
* *
49633815 TAGATATGTTGTTATATATT
1 TAGATATCTTATTATATATT
49633835 TAGATATCTTATTATATATT
1 TAGATATCTTATTATATATT
49633855 ATATAATAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.55
Consensus pattern (20 bp):
TAGATATCTTATTATATATT
Found at i:49635391 original size:29 final size:29
Alignment explanation
Indices: 49635357--49635416 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
49635347 ACCCAACAAA
49635357 GTAAATTGGTTCAAGTAAGTAATTTTTGT
1 GTAAATTGGTTCAAGTAAGTAATTTTTGT
49635386 GTAAATTGGTTCAAGTAAGTAATTTTTGT
1 GTAAATTGGTTCAAGTAAGTAATTTTTGT
49635415 GT
1 GT
49635417 CGTAGTTTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.30, C:0.03, G:0.22, T:0.45
Consensus pattern (29 bp):
GTAAATTGGTTCAAGTAAGTAATTTTTGT
Found at i:49636876 original size:25 final size:26
Alignment explanation
Indices: 49636830--49636878 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
49636820 AGTTTTCTTT
49636830 TCTTTTCATTTTTAGATAAGATTTTC
1 TCTTTTCATTTTTAGATAAGATTTTC
* *
49636856 TCTTTTC-TTTTTAGGTTAGATTT
1 TCTTTTCATTTTTAGATAAGATTT
49636879 ATTTTTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.18, C:0.10, G:0.10, T:0.61
Consensus pattern (26 bp):
TCTTTTCATTTTTAGATAAGATTTTC
Done.