Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 34 of 250
Found at i:10204907 original size:27 final size:27
Alignment explanation
Indices: 10204876--10204929 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
10204866 TGGATAAAAG
10204876 AAAGACTAGTATCATAAACTAAATGTC
1 AAAGACTAGTATCATAAACTAAATGTC
10204903 AAAGACTAGTATCATAAACTAAATGTC
1 AAAGACTAGTATCATAAACTAAATGTC
10204930 TAGTAACTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.48, C:0.15, G:0.11, T:0.26
Consensus pattern (27 bp):
AAAGACTAGTATCATAAACTAAATGTC
Found at i:10205351 original size:22 final size:22
Alignment explanation
Indices: 10205326--10205370 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
10205316 GGAGGGGCTC
10205326 ATCTCTTATAAGGACTAAGATA
1 ATCTCTTATAAGGACTAAGATA
10205348 ATCTCTTATAAGGACTAAGATA
1 ATCTCTTATAAGGACTAAGATA
10205370 A
1 A
10205371 GTAAGTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.31
Consensus pattern (22 bp):
ATCTCTTATAAGGACTAAGATA
Found at i:10207038 original size:30 final size:28
Alignment explanation
Indices: 10206999--10207101 Score: 67
Period size: 30 Copynumber: 3.6 Consensus size: 28
10206989 TTAAATTAGT
*
10206999 AATGGTAAAATTATATTTTGACCCTTTAAA
1 AATGATAAAA-TATATTTTGA-CCTTTAAA
10207029 AATGATAAAA-AT-TTGATTGAACTCTTTAAA
1 AATGATAAAATATATT--TTG-AC-CTTTAAA
*
10207059 AATGAT-AAAGATA--TTGA-CTATT-AA
1 AATGATAAAATATATTTTGACCT-TTAAA
10207083 AATGATAAAATTATATTTT
1 AATGATAAAA-TATATTTT
10207102 TATTATTATA
Statistics
Matches: 60, Mismatches: 2, Indels: 24
0.70 0.02 0.28
Matches are distributed among these distances:
24 10 0.17
25 5 0.08
26 4 0.07
27 5 0.08
28 4 0.07
29 7 0.12
30 25 0.42
ACGTcount: A:0.46, C:0.06, G:0.10, T:0.39
Consensus pattern (28 bp):
AATGATAAAATATATTTTGACCTTTAAA
Found at i:10207372 original size:62 final size:58
Alignment explanation
Indices: 10207200--10207374 Score: 181
Period size: 60 Copynumber: 2.9 Consensus size: 58
10207190 AAAAAACACT
* *
10207200 AAAATAAATTTTTAAACAATAAAATTTATATATTATTACGAGATGACCATACTAATTGAG
1 AAAAT-AATTTTTAAACAAT-AAATTTATATATTATCATGAGATGACCATACTAATTGAG
* * *
10207260 AAAATAATTCTTCAAACAATATATTGTATATATTATCATGAGATCG-CCATACTAATTGATTT
1 AAAATAATT-TTTAAACAATAAATT-TATATATTATCATGAGAT-GACCATACTAATTGA--G
* * * *
10207322 ATCAATAATTTTTAAACAATAGATTATATATATTATCATAAAATGACCATACT
1 A-AAATAATTTTTAAACAATAAATT-TATATATTATCATGAGATGACCATACT
10207375 GTATCAAATA
Statistics
Matches: 97, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
59 8 0.08
60 43 0.44
61 2 0.02
62 37 0.38
63 7 0.07
ACGTcount: A:0.45, C:0.11, G:0.07, T:0.37
Consensus pattern (58 bp):
AAAATAATTTTTAAACAATAAATTTATATATTATCATGAGATGACCATACTAATTGAG
Found at i:10209202 original size:20 final size:20
Alignment explanation
Indices: 10209150--10209202 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
10209140 ATATTTCATA
**
10209150 TATGTATGTATATAAGAATG
1 TATGTATGTATGCAAGAATG
* * *
10209170 TATGCATGCATGCAAGCATG
1 TATGTATGTATGCAAGAATG
10209190 TATGTATGTATGC
1 TATGTATGTATGC
10209203 TTGTTTTTTA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.32, C:0.09, G:0.23, T:0.36
Consensus pattern (20 bp):
TATGTATGTATGCAAGAATG
Found at i:10211986 original size:16 final size:16
Alignment explanation
Indices: 10211965--10212034 Score: 104
Period size: 16 Copynumber: 4.4 Consensus size: 16
10211955 TTTGGTTCGC
* *
10211965 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
* *
10211981 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
10211997 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
10212013 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
10212029 TGTAAT
1 TGTAAT
10212035 AGCAAATCAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 52 1.00
ACGTcount: A:0.31, C:0.00, G:0.36, T:0.33
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:10212118 original size:39 final size:43
Alignment explanation
Indices: 10212013--10212122 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 43
10212003 GGAATAGAGG
10212013 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT--A
* * *
10212058 TGTAATGGAATAGAGGCGTAATAG-TAATCTTA-TGTTTGG-T-
1 TGTAATGGAATAGAGGTGTAATAGCAAATC-AACTGTTTGGTTA
10212098 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
10212123 TAATGGAAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
39 20 0.34
40 2 0.03
43 1 0.02
44 11 0.19
45 24 0.41
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.32
Consensus pattern (43 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
Found at i:10212406 original size:16 final size:16
Alignment explanation
Indices: 10212362--10212408 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
10212352 TACTATAAAA
*
10212362 TATAATTTAACATA-AT
1 TATAA-TTAAAATATAT
*
10212378 TATTATT-AAATATAT
1 TATAATTAAAATATAT
10212393 TATAATTAAAATATAT
1 TATAATTAAAATATAT
10212409 AATTTAGTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 4 0.15
15 10 0.38
16 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TATAATTAAAATATAT
Found at i:10212480 original size:120 final size:121
Alignment explanation
Indices: 10212246--10212782 Score: 868
Period size: 120 Copynumber: 4.5 Consensus size: 121
10212236 ATTTAATTAT
* * *
10212246 ATTTAAACATAATAATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
*
10212311 ATCAATA-TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
* * *
10212366 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAGTAAAATTCTTAAAA
1 ATTTGAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
* * *
10212430 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
10212486 ATTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
*
10212550 ATCAAAATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
* * *
10212606 ATTTGAA-TTAATTAATATTAAAAATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
*
10212670 ATCAACATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
* * * *
10212726 ATTTGAA-GTAATTAATATTAAAAATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTTGAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
10212783 TAAAATAATT
Statistics
Matches: 397, Mismatches: 18, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
119 63 0.16
120 332 0.84
121 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (121 bp):
ATTTGAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
Found at i:10212528 original size:18 final size:17
Alignment explanation
Indices: 10212507--10212541 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
10212497 TTATTATTAA
*
10212507 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
10212525 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
10212542 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:10212558 original size:16 final size:15
Alignment explanation
Indices: 10212533--10212562 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
10212523 ATATATAATT
10212533 TAATAAAATTCTTAA
1 TAATAAAATTCTTAA
10212548 TAATCAAAATTCTTA
1 TAAT-AAAATTCTTA
10212563 TATGAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (15 bp):
TAATAAAATTCTTAA
Found at i:10212781 original size:59 final size:58
Alignment explanation
Indices: 10212463--10212771 Score: 164
Period size: 59 Copynumber: 5.2 Consensus size: 58
10212453 CTCAAATCAT
* * * *
10212463 AATATATGATACTATAAAAGATAATTTAACATAATTATTATTAAATATATTTTAATTAA
1 AATATATGATACTATAAAATATAATTTGA-ATAATTAATATTAAAAATATTTTAATTAA
* * * * * ** * ** * ** * *
10212522 AATATATAAT-TTAATAAAATTCTTAATAATCAA-AATTCTTATATGAATTTACTAAAATCAT
1 AATATATGATACT-ATAAAA-T-ATAAT-TTGAATAATTAATAT-TAAAAATATTTTAATTAA
10212583 AATATATGATACTATAAAATATAATTTGAATTAATTAATATTAAAAATATTTTAATTAA
1 AATATATGATACTATAAAATATAATTTGAA-TAATTAATATTAAAAATATTTTAATTAA
* * * * * ** * *
10212642 AATATAT-A-A-T-T-TAATAAAATTCTTAATAATCAACATTCTTATATGAATTTACTAAAATCA
1 AATATATGATACTATAAAATATAATT-TGAATAATTAATATT-AAAAAT--ATTT--T--AATTA
*
10212702 T
58 A
10212703 AATATATGATACTATAAAATATAATTTGAAGTAATTAATATTAAAAATATTTTAATTAA
1 AATATATGATACTATAAAATATAATTTGAA-TAATTAATATTAAAAATATTTTAATTAA
10212762 AATATATGAT
1 AATATATGAT
10212772 TTAATAAAAT
Statistics
Matches: 179, Mismatches: 49, Indels: 44
0.66 0.18 0.16
Matches are distributed among these distances:
54 17 0.09
55 7 0.04
56 1 0.01
57 5 0.03
58 5 0.03
59 51 0.28
60 16 0.09
61 43 0.24
62 4 0.02
63 5 0.03
64 1 0.01
65 7 0.04
66 17 0.09
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.41
Consensus pattern (58 bp):
AATATATGATACTATAAAATATAATTTGAATAATTAATATTAAAAATATTTTAATTAA
Found at i:10212833 original size:47 final size:46
Alignment explanation
Indices: 10212764--10212931 Score: 143
Period size: 47 Copynumber: 3.7 Consensus size: 46
10212754 TTAATTAAAA
*
10212764 TATATG-ATTTAATAAAATTTAAAATAATTATAACTAATAAATTTTCT
1 TATATGAATTT-ATATAATTTAAAATAATTATAA-TAATAAATTTTCT
* * *
10212811 TATATGAATTTGTATAATTTAAAATAATTAT--TATTAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATAATAATAAAT-T-TTCT
* * * *
10212856 TA-AT-AATAATATATAATTTCATAA-AATTCGTGATAATAAATTTTCT
1 TATATGAAT-TTATATAATTT-AAAATAATT-ATAATAATAAATTTTCT
*
10212902 TATATGAATTTATACAATTTAAAATAATTA
1 TATATGAATTTATATAATTTAAAATAATTA
10212932 ATATTAAATA
Statistics
Matches: 95, Mismatches: 14, Indels: 25
0.71 0.10 0.19
Matches are distributed among these distances:
43 3 0.03
44 22 0.23
45 9 0.09
46 8 0.08
47 46 0.48
48 7 0.07
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.45
Consensus pattern (46 bp):
TATATGAATTTATATAATTTAAAATAATTATAATAATAAATTTTCT
Found at i:10212840 original size:101 final size:92
Alignment explanation
Indices: 10212779--10212955 Score: 254
Period size: 91 Copynumber: 1.9 Consensus size: 92
10212769 GATTTAATAA
* *
10212779 AATTT-AAAATAATT-ATAACTAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTAT
1 AATTTCAAAA-AATTCATAA-TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAA
10212842 TATTAAATATAATTTAA-TAATAATATAT
64 TATTAAATATAATTTAATTAATAATATAT
* * * *
10212870 AATTTCATAAAATTCGTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATA
1 AATTTCAAAAAATTCATAATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATA
10212935 TTAAATATAATTTAA-TAATAA
66 TTAAATATAATTTAATTAATAA
10212956 AATGTTCTTA
Statistics
Matches: 78, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
91 73 0.94
92 5 0.06
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (92 bp):
AATTTCAAAAAATTCATAATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATA
TTAAATATAATTTAATTAATAATATAT
Found at i:10212951 original size:17 final size:15
Alignment explanation
Indices: 10212920--10212958 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
10212910 TTTATACAAT
10212920 TTAAAATAATTAATA
1 TTAAAATAATTAATA
10212935 TTAAATATAATTTAATA
1 TTAAA-ATAA-TTAATA
*
10212952 ATAAAAT
1 TTAAAAT
10212959 GTTCTTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 5 0.24
16 6 0.29
17 10 0.48
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TTAAAATAATTAATA
Found at i:10217327 original size:29 final size:29
Alignment explanation
Indices: 10217290--10217346 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
10217280 ATTGTGAAAA
*
10217290 ATTACAAAATGATCACCTAACTATTAAAC
1 ATTACAAAATAATCACCTAACTATTAAAC
* **
10217319 ATTATAAAATAATCATTTAACTATTAAA
1 ATTACAAAATAATCACCTAACTATTAAA
10217347 TTTTGTATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.51, C:0.14, G:0.02, T:0.33
Consensus pattern (29 bp):
ATTACAAAATAATCACCTAACTATTAAAC
Found at i:10217398 original size:24 final size:25
Alignment explanation
Indices: 10217340--10217400 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
10217330 ATCATTTAAC
*
10217340 TATTAAATTTTGTATTTTGATCACCC
1 TATTAAATTTTGTATTTT-ATCACCA
* *
10217366 TATTCAATTTTGTATTTT-TCATCA
1 TATTAAATTTTGTATTTTATCACCA
*
10217390 TATTGAATTTT
1 TATTAAATTTT
10217401 TAGGTGTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 14 0.45
26 17 0.55
ACGTcount: A:0.26, C:0.11, G:0.07, T:0.56
Consensus pattern (25 bp):
TATTAAATTTTGTATTTTATCACCA
Found at i:10222496 original size:23 final size:23
Alignment explanation
Indices: 10222466--10222511 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
10222456 ACAGTTAATG
10222466 CATTTTGTAACAGTTATGAAATA
1 CATTTTGTAACAGTTATGAAATA
*
10222489 CATTTTGTAATAGTTATGAAATA
1 CATTTTGTAACAGTTATGAAATA
10222512 AATTGACATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.39, C:0.07, G:0.13, T:0.41
Consensus pattern (23 bp):
CATTTTGTAACAGTTATGAAATA
Found at i:10227545 original size:44 final size:42
Alignment explanation
Indices: 10227497--10227646 Score: 151
Period size: 44 Copynumber: 3.4 Consensus size: 42
10227487 CAGCTCTACT
10227497 GCAACTTCAGAGAGATAAGACTTGTATCTTTAACCTGCTCCACA
1 GCAACTTCAG-GAGATAAGACTT-TATCTTTAACCTGCTCCACA
* * * *
10227541 GCAACTTCAGGAGATAAG-GTTAATGGCTTCT-ATCTGCTCCACT
1 GCAACTTCAGGAGATAAGACTTTAT--CTT-TAACCTGCTCCACA
* * *
10227584 GTAACTTCAGAGAGATAAGACTTATATCTTCAACCTACTCCACA
1 GCAACTTCAG-GAGATAAGACTT-TATCTTTAACCTGCTCCACA
10227628 GCAACTTCAGGCAGATAAG
1 GCAACTTCAGG-AGATAAG
10227647 GTTAATGGCT
Statistics
Matches: 86, Mismatches: 12, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
41 2 0.02
42 2 0.02
43 31 0.36
44 47 0.55
45 2 0.02
46 2 0.02
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (42 bp):
GCAACTTCAGGAGATAAGACTTTATCTTTAACCTGCTCCACA
Found at i:10227590 original size:87 final size:87
Alignment explanation
Indices: 10227436--10227691 Score: 323
Period size: 87 Copynumber: 2.9 Consensus size: 87
10227426 AGGATCGTAA
* * * * * ** * * *
10227436 CTTCCACCTGCCCCACTGCAAGTTCAGGGGGATAAGGTTTGTGGCTTCCATCAGCTCTACTGCAA
1 CTTCAACCTGCTCCACAGCAACTTCA-GGAGATAAGGTTAATGGCTTCCATCTGCTCCACTGTAA
*
10227501 CTTCAGAGAGATAAGACTTGTAT
65 CTTCAGAGAGATAAGACTTATAT
* *
10227524 CTTTAACCTGCTCCACAGCAACTTCAGGAGATAAGGTTAATGGCTTCTATCTGCTCCACTGTAAC
1 CTTCAACCTGCTCCACAGCAACTTCAGGAGATAAGGTTAATGGCTTCCATCTGCTCCACTGTAAC
10227589 TTCAGAGAGATAAGACTTATAT
66 TTCAGAGAGATAAGACTTATAT
* * * *
10227611 CTTCAACCTACTCCACAGCAACTTCAGGCAGATAAGGTTAATGGCTTCCATCTACTCCATTATAA
1 CTTCAACCTGCTCCACAGCAACTTCAGG-AGATAAGGTTAATGGCTTCCATCTGCTCCACTGTAA
* *
10227676 CTTCGGGGAGATAAGA
65 CTTCAGAGAGATAAGA
10227692 TTCGCCATGA
Statistics
Matches: 146, Mismatches: 21, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
87 79 0.54
88 67 0.46
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (87 bp):
CTTCAACCTGCTCCACAGCAACTTCAGGAGATAAGGTTAATGGCTTCCATCTGCTCCACTGTAAC
TTCAGAGAGATAAGACTTATAT
Found at i:10227666 original size:44 final size:43
Alignment explanation
Indices: 10227534--10227669 Score: 159
Period size: 44 Copynumber: 3.1 Consensus size: 43
10227524 CTTTAACCTG
* *
10227534 CTCCACAGCAACTTCAGGAGATAAGGTTAATGGCTTCTATCTG
1 CTCCACAGCAACTTCAGGAGATAAGGTTAATGGCTTCAATCTA
* * * *
10227577 CTCCACTGTAACTTCAGAGAGATAAGACTTATAT--CTTCAACCTA
1 CTCCACAGCAACTTCAG-GAGATAAG-GTTA-ATGGCTTCAATCTA
*
10227621 CTCCACAGCAACTTCAGGCAGATAAGGTTAATGGCTTCCATCTA
1 CTCCACAGCAACTTCAGG-AGATAAGGTTAATGGCTTCAATCTA
10227665 CTCCA
1 CTCCA
10227670 TTATAACTTC
Statistics
Matches: 76, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
42 2 0.03
43 19 0.25
44 50 0.66
45 3 0.04
46 2 0.03
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (43 bp):
CTCCACAGCAACTTCAGGAGATAAGGTTAATGGCTTCAATCTA
Found at i:10227678 original size:44 final size:42
Alignment explanation
Indices: 10227543--10227690 Score: 129
Period size: 44 Copynumber: 3.4 Consensus size: 42
10227533 GCTCCACAGC
* * *
10227543 AACTTCAGGAGATAAGGTTAATGGCTTCTATCTGCTCCACTGT
1 AACTTCAGGAGATAAGGTTAATGGCTTCAATCTACTCCA-TAT
* * * *
10227586 AACTTCAGAGAGATAAGACTTATAT--CTTCAACCTACTCCACAGC
1 AACTTCAG-GAGATAAG-GTTA-ATGGCTTCAATCTACTCCATA-T
*
10227630 AACTTCAGGCAGATAAGGTTAATGGCTTCCATCTACTCCATTAT
1 AACTTCAGG-AGATAAGGTTAATGGCTTCAATCTACTCCA-TAT
*
10227674 AACTTCGGGGAGATAAG
1 AACTTC-AGGAGATAAG
10227691 ATTCGCCATG
Statistics
Matches: 83, Mismatches: 13, Indels: 17
0.73 0.12 0.15
Matches are distributed among these distances:
42 2 0.02
43 12 0.14
44 61 0.73
45 6 0.07
46 2 0.02
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.28
Consensus pattern (42 bp):
AACTTCAGGAGATAAGGTTAATGGCTTCAATCTACTCCATAT
Found at i:10227836 original size:45 final size:45
Alignment explanation
Indices: 10227772--10227931 Score: 157
Period size: 45 Copynumber: 3.6 Consensus size: 45
10227762 CCTGTTCCAT
* * *
10227772 TGCAACTTCAGGGAAATAAGATTTATTATCTTCAATCTGCTTCAC
1 TGCAACTTCAGGGAGATAAGATTTGTAATCTTCAATCTGCTTCAC
* *
10227817 TGCAACTTCAGGGAGATAAGACTTGGTAAT-TTCAACCTGC-TCTAC
1 TGCAACTTCAGGGAGATAAGA-TTTGTAATCTTCAATCTGCTTC-AC
* * * ** * *
10227862 TGCATA-TTCAGAGAGATGAGGTTTGCGA-CTTCAATCTGCTCCGC
1 TGCA-ACTTCAGGGAGATAAGATTTGTAATCTTCAATCTGCTTCAC
10227906 TGCAACTTCAGGGAGATAAGATTTGT
1 TGCAACTTCAGGGAGATAAGATTTGT
10227932 CATGGTAACT
Statistics
Matches: 91, Mismatches: 18, Indels: 13
0.75 0.15 0.11
Matches are distributed among these distances:
43 1 0.01
44 36 0.40
45 48 0.53
46 6 0.07
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (45 bp):
TGCAACTTCAGGGAGATAAGATTTGTAATCTTCAATCTGCTTCAC
Found at i:10235367 original size:19 final size:20
Alignment explanation
Indices: 10235345--10235389 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
10235335 TCGTGAAACT
*
10235345 TAATGCATATG-ATGAAATG
1 TAATGCAGATGAATGAAATG
10235364 TAATGCAGATGAATGAAATG
1 TAATGCAGATGAATGAAATG
10235384 -AATGCA
1 TAATGCA
10235390 AAAAGAGGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.27
Consensus pattern (20 bp):
TAATGCAGATGAATGAAATG
Found at i:10242889 original size:40 final size:40
Alignment explanation
Indices: 10242840--10242946 Score: 112
Period size: 40 Copynumber: 2.7 Consensus size: 40
10242830 AGATCCAGTA
* *
10242840 TTAGTGGCGCTTCTTT-AAAAACGCCGCTATATGTAC-ACCT
1 TTAGCGGCGCTT-TTTAAAAAACGCCACTA-ATGTACGACCT
** * *
10242880 TTAGCGGCGCTTTTTGGAAAACGCCACTAATGTTCGATCT
1 TTAGCGGCGCTTTTTAAAAAACGCCACTAATGTACGACCT
10242920 TTAGCGGCG-TTTTTCAAAAAACGCCAC
1 TTAGCGGCGCTTTTT-AAAAAACGCCAC
10242947 CAAAAATGAA
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
39 13 0.23
40 44 0.77
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (40 bp):
TTAGCGGCGCTTTTTAAAAAACGCCACTAATGTACGACCT
Found at i:10243180 original size:22 final size:24
Alignment explanation
Indices: 10243130--10243189 Score: 56
Period size: 22 Copynumber: 2.7 Consensus size: 24
10243120 ATATGGTTAA
*
10243130 GGGTTTAATGTTTAT-AAGTTACT
1 GGGTTTAAGGTTTATGAAGTTACT
*
10243153 -GTTTTAAGGTTTATGAA-TTA-T
1 GGGTTTAAGGTTTATGAAGTTACT
* *
10243174 GGGTTTAGGGATTATG
1 GGGTTTAAGGTTTATG
10243190 GTTTAAGGGT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
21 1 0.03
22 27 0.90
23 2 0.07
ACGTcount: A:0.25, C:0.02, G:0.27, T:0.47
Consensus pattern (24 bp):
GGGTTTAAGGTTTATGAAGTTACT
Found at i:10243212 original size:7 final size:7
Alignment explanation
Indices: 10243200--10243305 Score: 52
Period size: 7 Copynumber: 14.9 Consensus size: 7
10243190 GTTTAAGGGT
10243200 GGTTTAA
1 GGTTTAA
10243207 GGTTT-A
1 GGTTTAA
*
10243213 GGTGTTAG
1 GGT-TTAA
*
10243221 GGGTTAA
1 GGTTTAA
* * *
10243228 GGGTCAGG
1 GGTTTA-A
*
10243236 GGTTTAT
1 GGTTTAA
10243243 GGTTTAA
1 GGTTTAA
*
10243250 GGTTTAT
1 GGTTTAA
* *
10243257 GTTTTAT
1 GGTTTAA
** *
10243264 GACTTAT
1 GGTTTAA
10243271 GGTTTAA
1 GGTTTAA
10243278 GGTTTAA
1 GGTTTAA
*
10243285 GGATTAA
1 GGTTTAA
*
10243292 GAGTTTAG
1 G-GTTTAA
10243300 GGTTTA
1 GGTTTA
10243306 GATTAATTAG
Statistics
Matches: 76, Mismatches: 19, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
6 4 0.05
7 61 0.80
8 11 0.14
ACGTcount: A:0.23, C:0.02, G:0.33, T:0.42
Consensus pattern (7 bp):
GGTTTAA
Found at i:10243253 original size:14 final size:14
Alignment explanation
Indices: 10243236--10243305 Score: 68
Period size: 14 Copynumber: 4.9 Consensus size: 14
10243226 AAGGGTCAGG
10243236 GGTTTATGGTTTAA
1 GGTTTATGGTTTAA
* *
10243250 GGTTTATGTTTTAT
1 GGTTTATGGTTTAA
**
10243264 GACTTATGGTTTAA
1 GGTTTATGGTTTAA
* *
10243278 GGTTTAAGGATTAA
1 GGTTTATGGTTTAA
*
10243292 GAGTTTAGGGTTTA
1 G-GTTTATGGTTTA
10243306 GATTAATTAG
Statistics
Matches: 43, Mismatches: 12, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
14 33 0.77
15 10 0.23
ACGTcount: A:0.24, C:0.01, G:0.27, T:0.47
Consensus pattern (14 bp):
GGTTTATGGTTTAA
Found at i:10243534 original size:21 final size:21
Alignment explanation
Indices: 10243510--10243556 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
10243500 TTAGGGTGTA
10243510 GGTTTATGGTCTAAGATTTAG
1 GGTTTATGGTCTAAGATTTAG
* *
10243531 GGTTTATGGTCTAGGATTTTG
1 GGTTTATGGTCTAAGATTTAG
10243552 GGTTT
1 GGTTT
10243557 GAAGTTTGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.17, C:0.04, G:0.32, T:0.47
Consensus pattern (21 bp):
GGTTTATGGTCTAAGATTTAG
Found at i:10243836 original size:21 final size:21
Alignment explanation
Indices: 10243812--10243858 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
10243802 TTAGGGTGTA
10243812 GGTTTATGGTCTAAGATTTAG
1 GGTTTATGGTCTAAGATTTAG
* *
10243833 GGTTTATGGTCTAGGATTTTG
1 GGTTTATGGTCTAAGATTTAG
10243854 GGTTT
1 GGTTT
10243859 GAAGTTTGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.17, C:0.04, G:0.32, T:0.47
Consensus pattern (21 bp):
GGTTTATGGTCTAAGATTTAG
Found at i:10244886 original size:14 final size:13
Alignment explanation
Indices: 10244858--10244893 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
10244848 CCCATTGAAA
*
10244858 CCCCTAAAATTTC
1 CCCCTAAAATTTT
10244871 CCCCTAAAATTTT
1 CCCCTAAAATTTT
10244884 CCCCTAAAAT
1 CCCCTAAAAT
10244894 CAGTATCCCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.33, C:0.36, G:0.00, T:0.31
Consensus pattern (13 bp):
CCCCTAAAATTTT
Found at i:10245721 original size:3 final size:3
Alignment explanation
Indices: 10245706--10245741 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
10245696 TGTTAGGGAG
* *
10245706 TTA TTA GTA TTA TTA TTA TTA TTA TAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10245742 ATATAATTAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:10245746 original size:15 final size:15
Alignment explanation
Indices: 10245706--10245763 Score: 64
Period size: 15 Copynumber: 3.9 Consensus size: 15
10245696 TGTTAGGGAG
* *
10245706 TTATTAGTATTATTA
1 TTATTAATATAATTA
*
10245721 TTATTATTATAATTA
1 TTATTAATATAATTA
10245736 TTATTAATATAATTA
1 TTATTAATATAATTA
* *
10245751 GTAATAA-ATAATT
1 TTATTAATATAATT
10245764 TCATGAAATA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (15 bp):
TTATTAATATAATTA
Found at i:10247144 original size:40 final size:40
Alignment explanation
Indices: 10247089--10247168 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
10247079 GGAGAATGGG
10247089 AACTTGTTGGAATTGGTTGATACAAGGATTGGCTCAGATT
1 AACTTGTTGGAATTGGTTGATACAAGGATTGGCTCAGATT
10247129 AACTTGTTGGAATTGGTTGATACAAGGATTGGCTCAGATT
1 AACTTGTTGGAATTGGTTGATACAAGGATTGGCTCAGATT
10247169 GCAACATAGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.28, C:0.10, G:0.28, T:0.35
Consensus pattern (40 bp):
AACTTGTTGGAATTGGTTGATACAAGGATTGGCTCAGATT
Found at i:10248429 original size:23 final size:23
Alignment explanation
Indices: 10248402--10249156 Score: 585
Period size: 23 Copynumber: 32.9 Consensus size: 23
10248392 GTTGTAATGT
*
10248402 TGCAAATTGAAGTGTTTAAGTAC
1 TGCAAATTGAAGTGTTTAAGTGC
10248425 TGCAAATTGAAGTGTTT-AGTTGC
1 TGCAAATTGAAGTGTTTAAG-TGC
* * *
10248448 TGGAAATTG-AGATGTTTTA-TCAC
1 TGCAAATTGAAG-TGTTTAAGT-GC
* * * *
10248471 TG-TAATTG-AGCTGTATAAATGT
1 TGCAAATTGAAG-TGTTTAAGTGC
** * *
10248493 TGTTAATTGAAATGTTAAAGTGC
1 TGCAAATTGAAGTGTTTAAGTGC
10248516 TGCAAATTGAAGTGTTTTAA-TGC
1 TGCAAATTGAAGTG-TTTAAGTGC
*
10248539 T-CTAAATTGAAGTGTTAAAGTGC
1 TGC-AAATTGAAGTGTTTAAGTGC
10248562 TGCAAATTGAAGTGTTTGAA-TGC
1 TGCAAATTGAAGTGTTT-AAGTGC
* * *
10248585 TGTAAATTGAAGTGTTTAAATGT
1 TGCAAATTGAAGTGTTTAAGTGC
** * *
10248608 TGTTAATTGAAATGTTAAAGTGC
1 TGCAAATTGAAGTGTTTAAGTGC
10248631 TGCAAATTGAAGTGTTTTAA-TGC
1 TGCAAATTGAAGTG-TTTAAGTGC
* * *
10248654 TGTAAATTGAAGTGTTAAAGTGT
1 TGCAAATTGAAGTGTTTAAGTGC
* *
10248677 TGCAAGTTAAAGTGTTTGAA-TGC
1 TGCAAATTGAAGTGTTT-AAGTGC
* * *
10248700 TGTAAATTGAAGTGTTTAAATGT
1 TGCAAATTGAAGTGTTTAAGTGC
** * *
10248723 TGTTAATTGAAATGTTAAAGTGC
1 TGCAAATTGAAGTGTTTAAGTGC
10248746 TGCAAATTGAAGTGTTTTAA-TGC
1 TGCAAATTGAAGTG-TTTAAGTGC
* *
10248769 TGTAAATTGAAGTGTTAAAGTGC
1 TGCAAATTGAAGTGTTTAAGTGC
*
10248792 TGCAAATTGAAGTGTTTGAA-TGT
1 TGCAAATTGAAGTGTTT-AAGTGC
* *
10248815 TGTAAATTGAAGTGTTTAAATGC
1 TGCAAATTGAAGTGTTTAAGTGC
* *
10248838 TGTAAATTGAAGTGTTAAAGTGC
1 TGCAAATTGAAGTGTTTAAGTGC
*
10248861 TGCAAATTGAAGTGTTTGAA-TGT
1 TGCAAATTGAAGTGTTT-AAGTGC
* *
10248884 TGTAAATTGAAGTGTTTAAATGC
1 TGCAAATTGAAGTGTTTAAGTGC
* * * * *
10248907 TGTAAATTGAACTGCTTAAATGT
1 TGCAAATTGAAGTGTTTAAGTGC
* *
10248930 TGCACATTGAAGTGTTTAAGTAC
1 TGCAAATTGAAGTGTTTAAGTGC
10248953 -GACAAATTGAAGTGTTT-AGTTGC
1 TG-CAAATTGAAGTGTTTAAG-TGC
* * * *
10248976 TGGACATTG-AGATGTTTTA-TCTC
1 TGCAAATTGAAG-TGTTTAAGT-GC
* * * * *
10248999 TG-TAATTGAGGTGTATAAATGT
1 TGCAAATTGAAGTGTTTAAGTGC
** *
10249021 TGTTAATTG-AGATGTTAAAGTGC
1 TGCAAATTGAAG-TGTTTAAGTGC
*
10249044 TGCAAATTGAAGTGTTAAAGTGC
1 TGCAAATTGAAGTGTTTAAGTGC
*
10249067 TGCAAATTGAAGTGTTAAAGTGC
1 TGCAAATTGAAGTGTTTAAGTGC
** * *
10249090 TGCAAATTGAAGCCTTTAAATGT
1 TGCAAATTGAAGTGTTTAAGTGC
* * * *
10249113 TGTAAATTGAAGTGCTTAAATGT
1 TGCAAATTGAAGTGTTTAAGTGC
10249136 TGCAAATTGAAGTGTTTAAGT
1 TGCAAATTGAAGTGTTTAAGT
10249157 ACTTATTTTG
Statistics
Matches: 591, Mismatches: 107, Indels: 68
0.77 0.14 0.09
Matches are distributed among these distances:
22 58 0.10
23 506 0.86
24 27 0.05
ACGTcount: A:0.32, C:0.06, G:0.23, T:0.38
Consensus pattern (23 bp):
TGCAAATTGAAGTGTTTAAGTGC
Found at i:10248635 original size:115 final size:115
Alignment explanation
Indices: 10248402--10249152 Score: 809
Period size: 115 Copynumber: 6.5 Consensus size: 115
10248392 GTTGTAATGT
* * * *
10248402 TGCAAATTGAAGTG-TTTAAGTACTGCAAATTGAAGTGTT-TAGTTGCTGGAAATTG-AGATGTT
1 TGCAAATTGAAGTGTTTTAA-TGCTGTAAATTGAAGTGTTAAAG-TGCTGCAAATTGAAG-TGTT
* * * *
10248464 T-TATCACTGT-AATTG-AGCTGTATAAATGTTGTTAATTGAAATGTTAAAGTGC
63 TGAAT-GCTGTAAATTGAAG-TGTTTAAATGTTGTAAATTGAAATGTTAAAGTGC
*
10248516 TGCAAATTGAAGTGTTTTAATGCTCTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGA
1 TGCAAATTGAAGTGTTTTAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGA
*
10248581 ATGCTGTAAATTGAAGTGTTTAAATGTTGTTAATTGAAATGTTAAAGTGC
66 ATGCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAATGTTAAAGTGC
* * *
10248631 TGCAAATTGAAGTGTTTTAATGCTGTAAATTGAAGTGTTAAAGTGTTGCAAGTTAAAGTGTTTGA
1 TGCAAATTGAAGTGTTTTAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGA
*
10248696 ATGCTGTAAATTGAAGTGTTTAAATGTTGTTAATTGAAATGTTAAAGTGC
66 ATGCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAATGTTAAAGTGC
10248746 TGCAAATTGAAGTGTTTTAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGA
1 TGCAAATTGAAGTGTTTTAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGA
* * *
10248811 ATGTTGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGC
66 ATGCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAATGTTAAAGTGC
* * * * * *
10248861 TGCAAATTGAAGTGTTTGAATGTTGTAAATTGAAGTGTTTAAA-TGCTGTAAATTGAACTGCTTA
1 TGCAAATTGAAGTGTTTTAATGCTGTAAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTTTG
* * * * * * *
10248925 AATGTTGCACATTGAAGTGTTT-AA-GTACGACAAATTGAAGTGTT-TAGTTGC
65 AATGCTGTAAATTGAAGTGTTTAAATGT-TG-TAAATTGAAATGTTAAAG-TGC
* * * * * **
10248976 TGGACATTG-AGATGTTTT-ATCTCTGT-AATTGAGGTGTATAAA-TGTTGTTAATTG-AGATG-
1 TGCAAATTGAAG-TGTTTTAAT-GCTGTAAATTGAAGTGT-TAAAGTGCTGCAAATTGAAG-TGT
* * * * *
10249035 TTAAAGTGCTGCAAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTTAAAGTGC
62 TTGAA-TGCTGTAAATTGAAGTGTTTAAA-TGTTGTAAATTGAAATGTTAAAGTGC
** * * *
10249090 TGCAAATTGAAGCCTTTAAATGTTGTAAATTGAAGTGCTTAAA-TGTTGCAAATTGAAGTGTTT
1 TGCAAATTGAAGTGTTTTAATGCTGTAAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTTT
10249153 AAGTACTTAT
Statistics
Matches: 557, Mismatches: 55, Indels: 48
0.84 0.08 0.07
Matches are distributed among these distances:
113 10 0.02
114 131 0.24
115 403 0.72
116 13 0.02
ACGTcount: A:0.32, C:0.06, G:0.23, T:0.38
Consensus pattern (115 bp):
TGCAAATTGAAGTGTTTTAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGA
ATGCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAATGTTAAAGTGC
Found at i:10249878 original size:43 final size:42
Alignment explanation
Indices: 10249830--10249941 Score: 138
Period size: 42 Copynumber: 2.6 Consensus size: 42
10249820 TAATTTTTTT
10249830 TAAAGGTCATATTCTTTAGCGGCGTTTGT-GAGAAAAACGTCGC
1 TAAAGGTCATATT-TTTAGCGGCGTTTGTAG-GAAAAACGTCGC
* *
10249873 TAAAGGTCCAT-TTTATAGCGGCGTTTGTAGGAAAAGCGTCGC
1 TAAAGGT-CATATTTTTAGCGGCGTTTGTAGGAAAAACGTCGC
* *
10249915 TAAAGGTCATGACTTTTAGTGGCGTTT
1 TAAAGGTCAT-ATTTTTAGCGGCGTTT
10249942 TTCCCACAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
41 3 0.05
42 32 0.53
43 22 0.37
44 3 0.05
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32
Consensus pattern (42 bp):
TAAAGGTCATATTTTTAGCGGCGTTTGTAGGAAAAACGTCGC
Found at i:10249959 original size:43 final size:43
Alignment explanation
Indices: 10249912--10250029 Score: 150
Period size: 43 Copynumber: 2.7 Consensus size: 43
10249902 GGAAAAGCGT
* *
10249912 CGCTAAAGGTCATGACTTTTAGTGGCGTTTTTCCC-ACAAACGC
1 CGCTAAAAG-CATGACTTTTAGCGGCGTTTTTCCCAACAAACGC
** *
10249955 CGCTAAAAGCACTGACTTTTAGCGGC-ACTTCCCCAACAAACGC
1 CGCTAAAAGCA-TGACTTTTAGCGGCGTTTTTCCCAACAAACGC
10249998 CGCTAAAAGCCATGACTTTTAGCGGCGTTTTT
1 CGCTAAAAG-CATGACTTTTAGCGGCGTTTTT
10250030 TGTGGCGCTT
Statistics
Matches: 63, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
42 7 0.11
43 52 0.83
44 4 0.06
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.27
Consensus pattern (43 bp):
CGCTAAAAGCATGACTTTTAGCGGCGTTTTTCCCAACAAACGC
Found at i:10253012 original size:47 final size:47
Alignment explanation
Indices: 10252944--10253126 Score: 215
Period size: 47 Copynumber: 3.9 Consensus size: 47
10252934 CATGACAACA
* * *
10252944 TGTGATATGTGATTTCTGTATAAGACCATAGCTGGGATATGGCATTGG
1 TGTGATATGTG-CTTCCGTATAAGACCATAGCTGGGATATGGCATCGG
* * *
10252992 TGTGATATGAGCTTCCGTATAAAACCATATCTGGGATATGGCATCGG
1 TGTGATATGTGCTTCCGTATAAGACCATAGCTGGGATATGGCATCGG
* * * * *
10253039 TATGATATGTGCTTCTGTGTAAGACCATATCTGGGATATGGCATCAG
1 TGTGATATGTGCTTCCGTATAAGACCATAGCTGGGATATGGCATCGG
* * * *
10253086 TGTGATATGTG-ATCCGTGTAAGACCATGGCTGGGCTATGGC
1 TGTGATATGTGCTTCCGTATAAGACCATAGCTGGGATATGGC
10253127 TTTGTTGTGT
Statistics
Matches: 117, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
46 25 0.21
47 82 0.70
48 10 0.09
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (47 bp):
TGTGATATGTGCTTCCGTATAAGACCATAGCTGGGATATGGCATCGG
Found at i:10256272 original size:12 final size:12
Alignment explanation
Indices: 10256255--10256279 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10256245 AAGATGAGCA
10256255 TGATGAGCATAT
1 TGATGAGCATAT
10256267 TGATGAGCATAT
1 TGATGAGCATAT
10256279 T
1 T
10256280 AGAGTAGTGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (12 bp):
TGATGAGCATAT
Found at i:10276846 original size:19 final size:20
Alignment explanation
Indices: 10276822--10276866 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
10276812 TATTGTTTCA
10276822 TTGCTT-CTTTATCTTTGAG
1 TTGCTTCCTTTATCTTTGAG
*
10276841 TTGCTTCCACTTTATTTTTGAG
1 TTGCTT-C-CTTTATCTTTGAG
10276863 TTGC
1 TTGC
10276867 AAGAGTTAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 6 0.27
22 16 0.73
ACGTcount: A:0.11, C:0.18, G:0.16, T:0.56
Consensus pattern (20 bp):
TTGCTTCCTTTATCTTTGAG
Found at i:10292617 original size:79 final size:80
Alignment explanation
Indices: 10292486--10292633 Score: 228
Period size: 79 Copynumber: 1.9 Consensus size: 80
10292476 TATTCGGATG
* * *
10292486 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAG-CCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGTCCCGAACGCA
10292550 TTTGTGCGAGTTACT
66 TTTGTGCGAGTTACT
* *
10292565 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACTGGGCTAAGTCCCGAACGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAGTCCCGAACGC
10292629 ATTTG
65 ATTTG
10292634 AGCAAGTAGC
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
78 2 0.03
79 47 0.76
80 13 0.21
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGTCCCGAACGCA
TTTGTGCGAGTTACT
Found at i:10292647 original size:40 final size:40
Alignment explanation
Indices: 10292486--10292633 Score: 228
Period size: 40 Copynumber: 3.7 Consensus size: 40
10292476 TATTCGGATG
* *
10292486 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
10292526 A-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
10292565 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
10292605 ATAACTGGGCTAAGTCCCGAACGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
10292634 AGCAAGTAGC
Statistics
Matches: 99, Mismatches: 6, Indels: 6
0.89 0.05 0.05
Matches are distributed among these distances:
39 35 0.35
40 64 0.65
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:10292655 original size:79 final size:79
Alignment explanation
Indices: 10292486--10292666 Score: 224
Period size: 79 Copynumber: 2.3 Consensus size: 79
10292476 TATTCGGATG
* * *
10292486 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAACGCAT
* *
10292551 TTGTGCGAGTTACT
66 TTGAGCAAGTTACT
* *
10292565 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACTGGGCTAAGTCCCGAACGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAG-CCCGAACGC
10292629 ATTTGAGCAAG-TAGCT
64 ATTTGAGCAAGTTA-CT
* * *
10292645 ATATCC-GGCTAAATTCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
10292667 TACTTGGTTT
Statistics
Matches: 89, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
78 2 0.02
79 63 0.71
80 24 0.27
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.24
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAACGCAT
TTGAGCAAGTTACT
Found at i:10300031 original size:12 final size:12
Alignment explanation
Indices: 10300016--10300056 Score: 66
Period size: 12 Copynumber: 3.5 Consensus size: 12
10300006 AAATTACAGT
10300016 AAAAATTATTTA
1 AAAAATTATTTA
10300028 AAAAATTATTTA
1 AAAAATTATTTA
*
10300040 AAATATT-TTTA
1 AAAAATTATTTA
10300051 AAAAAT
1 AAAAAT
10300057 AAATCTGCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
11 9 0.33
12 18 0.67
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
AAAAATTATTTA
Found at i:10302034 original size:31 final size:30
Alignment explanation
Indices: 10301996--10302056 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 30
10301986 AAAACCAACC
*
10301996 TATAATTACTTGTTTAGTGGTAGTTTTAAAG
1 TATAATTACTTGTTTAGTAGTAG-TTTAAAG
10302027 TATAATTACTTGTTTAGTAGTAGTTTAAAG
1 TATAATTACTTGTTTAGTAGTAGTTTAAAG
10302057 ACTTATTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 7 0.24
31 22 0.76
ACGTcount: A:0.31, C:0.03, G:0.18, T:0.48
Consensus pattern (30 bp):
TATAATTACTTGTTTAGTAGTAGTTTAAAG
Found at i:10305140 original size:20 final size:20
Alignment explanation
Indices: 10305095--10305142 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
10305085 CTAAAACATA
* *
10305095 TAAAAAATATAAAACAAATT
1 TAAAAAATATAAAAAAAAAT
*
10305115 TTAAAAATA-AAAAGAAAAAT
1 TAAAAAATATAAAA-AAAAAT
10305135 TAAAAAAT
1 TAAAAAAT
10305143 TTTACCTAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (20 bp):
TAAAAAATATAAAAAAAAAT
Found at i:10305768 original size:3 final size:3
Alignment explanation
Indices: 10305762--10305887 Score: 71
Period size: 3 Copynumber: 41.0 Consensus size: 3
10305752 TCGTTCCTAA
* * * *
10305762 TAT TAT TAA TAC TAT TAT T-T CTAT TAT TAT TAT TAT TAT TGT TTT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT
* * ** *
10305807 TAT TAA TAT TCT GGT TAT TAAA TAT TAT TAT T-T TAAT GTAT TAT TAT
1 TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT T-AT -TAT TAT TAT
*
10305854 T-T CTAGT TAT TAT TAT T-T CTAA TAT TAT TAT TAT
1 TAT -TA-T TAT TAT TAT TAT -TAT TAT TAT TAT TAT
10305888 ATATAATATT
Statistics
Matches: 95, Mismatches: 17, Indels: 22
0.71 0.13 0.16
Matches are distributed among these distances:
2 5 0.05
3 80 0.84
4 8 0.08
5 2 0.02
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:10305848 original size:16 final size:16
Alignment explanation
Indices: 10305829--10305885 Score: 82
Period size: 16 Copynumber: 3.6 Consensus size: 16
10305819 GGTTATTAAA
10305829 TATTATTATTT-TAAT
1 TATTATTATTTCTAAT
*
10305844 GTATTATTATTTCTAGT
1 -TATTATTATTTCTAAT
10305861 TATTATTATTTCTAA-
1 TATTATTATTTCTAAT
10305876 TATTATTATT
1 TATTATTATT
10305886 ATATATAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
15 10 0.26
16 25 0.66
17 3 0.08
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.63
Consensus pattern (16 bp):
TATTATTATTTCTAAT
Found at i:10305894 original size:18 final size:18
Alignment explanation
Indices: 10305860--10305898 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
10305850 TTATTTCTAG
* *
10305860 TTATTATTATTTCTAATA
1 TTATTATTATATATAATA
10305878 TTATTATTATATATAATA
1 TTATTATTATATATAATA
10305896 TTA
1 TTA
10305899 GTGTGTGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (18 bp):
TTATTATTATATATAATA
Found at i:10306226 original size:13 final size:13
Alignment explanation
Indices: 10306208--10306234 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10306198 CATTTCTTCA
10306208 TTATTTTTTATTT
1 TTATTTTTTATTT
10306221 TTATTTTTTATTT
1 TTATTTTTTATTT
10306234 T
1 T
10306235 AATACTCTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTATTTTTTATTT
Found at i:10306315 original size:18 final size:18
Alignment explanation
Indices: 10306294--10306335 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
10306284 GTTTTTTCTT
10306294 TATATATTATATTAT-TTG
1 TATATATT-TATTATATTG
*
10306312 TATAT-TTTATTGTATTG
1 TATATATTTATTATATTG
10306329 TATATAT
1 TATATAT
10306336 ATTTTTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 5 0.24
17 10 0.48
18 6 0.29
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (18 bp):
TATATATTTATTATATTG
Found at i:10306317 original size:16 final size:16
Alignment explanation
Indices: 10306296--10306356 Score: 54
Period size: 16 Copynumber: 3.8 Consensus size: 16
10306286 TTTTTCTTTA
10306296 TATATTATATTATTTG
1 TATATTATATTATTTG
* *
10306312 TATATTTTATTGTATTG
1 TATATTATATTAT-TTG
*
10306329 TATA-TATATT-TTTA
1 TATATTATATTATTTG
*
10306343 AATAATTATATTAT
1 TAT-ATTATATTAT
10306357 GTATATATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
14 4 0.11
15 2 0.06
16 22 0.61
17 8 0.22
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (16 bp):
TATATTATATTATTTG
Found at i:10306518 original size:25 final size:25
Alignment explanation
Indices: 10306480--10306527 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
10306470 ATTATTGTTG
* *
10306480 TTAATATTAGTATATGTATATATCT
1 TTAATATTAGTATAGGTACATATCT
10306505 TTAATATATA-TATAGGTACATAT
1 TTAATAT-TAGTATAGGTACATAT
10306528 TTATGTGACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 18 0.90
26 2 0.10
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (25 bp):
TTAATATTAGTATAGGTACATATCT
Found at i:10307282 original size:16 final size:16
Alignment explanation
Indices: 10307261--10307298 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
10307251 GTCCTTCTCA
10307261 AAAATCAAAAGAATTG
1 AAAATCAAAAGAATTG
10307277 AAAATCAAAAGAATTG
1 AAAATCAAAAGAATTG
10307293 AAAATC
1 AAAATC
10307299 CTCGTGTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.63, C:0.08, G:0.11, T:0.18
Consensus pattern (16 bp):
AAAATCAAAAGAATTG
Found at i:10314730 original size:16 final size:16
Alignment explanation
Indices: 10314709--10314746 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
10314699 GTCCTTCTCA
10314709 AAAATCAAAAGAATTG
1 AAAATCAAAAGAATTG
10314725 AAAATCAAAAGAATTG
1 AAAATCAAAAGAATTG
10314741 AAAATC
1 AAAATC
10314747 CTCGTGTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.63, C:0.08, G:0.11, T:0.18
Consensus pattern (16 bp):
AAAATCAAAAGAATTG
Found at i:10315449 original size:74 final size:77
Alignment explanation
Indices: 10315319--10315462 Score: 213
Period size: 74 Copynumber: 1.9 Consensus size: 77
10315309 ACAATTATTT
* ** *
10315319 AACATTGTTTTCTTACCAAATTAATATTTAAATACTATTTTGTATTTGTTTTTCAAATTAAACTA
1 AACATTGTTTTCTTACCAAATTAATATTTAAATACTACTTTGTATTAATTTATCAAATTAAACTA
10315384 AAAATGTTACCA
66 AAAATGTTACCA
* *
10315396 AACATT-TTTT-TTATCAAATTAATATTT-AGTACTACTTTGTATTAATTTATCAAATTAAACTA
1 AACATTGTTTTCTTACCAAATTAATATTTAAATACTACTTTGTATTAATTTATCAAATTAAACTA
10315458 AAAAT
66 AAAAT
10315463 ATTTCTAAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
74 35 0.57
75 16 0.26
76 4 0.07
77 6 0.10
ACGTcount: A:0.40, C:0.10, G:0.04, T:0.46
Consensus pattern (77 bp):
AACATTGTTTTCTTACCAAATTAATATTTAAATACTACTTTGTATTAATTTATCAAATTAAACTA
AAAATGTTACCA
Found at i:10317024 original size:22 final size:24
Alignment explanation
Indices: 10316990--10317033 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
10316980 TAATATTCAA
*
10316990 TATATATTGAAATTTTAAAAAATG
1 TATATATTGAAATTTAAAAAAATG
10317014 TATATA-T-AAATTTAAAAAAA
1 TATATATTGAAATTTAAAAAAA
10317034 AACTAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 12 0.63
23 1 0.05
24 6 0.32
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.39
Consensus pattern (24 bp):
TATATATTGAAATTTAAAAAAATG
Found at i:10320359 original size:148 final size:148
Alignment explanation
Indices: 10320091--10320386 Score: 592
Period size: 148 Copynumber: 2.0 Consensus size: 148
10320081 AATGCAATCT
10320091 ATATCACCGATTTGCAACAAAAAGAATCATTCAAGGGCTAACTTGTATTTTTCCTTACAATACTA
1 ATATCACCGATTTGCAACAAAAAGAATCATTCAAGGGCTAACTTGTATTTTTCCTTACAATACTA
10320156 CCAAGTTCAAAAACTTTCACTTATCATCTGCTCACTCTTACAAAATCTGAGAATTATCGAACCAT
66 CCAAGTTCAAAAACTTTCACTTATCATCTGCTCACTCTTACAAAATCTGAGAATTATCGAACCAT
10320221 AAACGAACTTTATACAAA
131 AAACGAACTTTATACAAA
10320239 ATATCACCGATTTGCAACAAAAAGAATCATTCAAGGGCTAACTTGTATTTTTCCTTACAATACTA
1 ATATCACCGATTTGCAACAAAAAGAATCATTCAAGGGCTAACTTGTATTTTTCCTTACAATACTA
10320304 CCAAGTTCAAAAACTTTCACTTATCATCTGCTCACTCTTACAAAATCTGAGAATTATCGAACCAT
66 CCAAGTTCAAAAACTTTCACTTATCATCTGCTCACTCTTACAAAATCTGAGAATTATCGAACCAT
10320369 AAACGAACTTTATACAAA
131 AAACGAACTTTATACAAA
10320387 TCAAGCAAAA
Statistics
Matches: 148, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
148 148 1.00
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (148 bp):
ATATCACCGATTTGCAACAAAAAGAATCATTCAAGGGCTAACTTGTATTTTTCCTTACAATACTA
CCAAGTTCAAAAACTTTCACTTATCATCTGCTCACTCTTACAAAATCTGAGAATTATCGAACCAT
AAACGAACTTTATACAAA
Found at i:10322155 original size:37 final size:37
Alignment explanation
Indices: 10322105--10322178 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
10322095 GTCCTAAAAC
10322105 TTGAGCAAATTTTATAATGTAATATTTATTTTTTTAA
1 TTGAGCAAATTTTATAATGTAATATTTATTTTTTTAA
10322142 TTGAGCAAATTTTATAATGTAATATTTATTTTTTTAA
1 TTGAGCAAATTTTATAATGTAATATTTATTTTTTTAA
10322179 CATGTTAATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.35, C:0.03, G:0.08, T:0.54
Consensus pattern (37 bp):
TTGAGCAAATTTTATAATGTAATATTTATTTTTTTAA
Found at i:10327044 original size:15 final size:15
Alignment explanation
Indices: 10327009--10327050 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
10326999 TTAAGAATTT
*
10327009 TATTAAATTAT-ATA
1 TATTTAATTATAATA
10327023 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
10327037 TATTTAATAATAAT
1 TATTTAATTATAAT
10327051 TATGTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:10327285 original size:45 final size:44
Alignment explanation
Indices: 10327203--10327293 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
10327193 ACCTCTATTC
*
10327203 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACACCTCTATTCCATTA
*** * *
10327247 CATTCAACCAAACAGTTGATTTGCTATTACATCTCTATTCCATTA
1 CATTCAACCAAACACAAGA-TTACTATTACACCTCTATTCCATTA
10327292 CA
1 CA
10327294 CCTCTATTCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 16 0.40
45 24 0.60
ACGTcount: A:0.34, C:0.27, G:0.05, T:0.33
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACACCTCTATTCCATTA
Found at i:10327293 original size:16 final size:16
Alignment explanation
Indices: 10327272--10327325 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
10327262 TTGATTTGCT
*
10327272 ATTACATCTCTATTCC
1 ATTACACCTCTATTCC
10327288 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
10327304 ATTACACCTCTAATCC
1 ATTACACCTCTATTCC
*
10327320 AATACA
1 ATTACA
10327326 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.31, C:0.33, G:0.00, T:0.35
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:10328268 original size:22 final size:20
Alignment explanation
Indices: 10328232--10328276 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
10328222 TACATGTGGT
10328232 AAATAATAAAATAAATAATTAA
1 AAATAATAAAATAAAT--TTAA
* *
10328254 AAATAATACATTAAATTTAA
1 AAATAATAAAATAAATTTAA
10328274 AAA
1 AAA
10328277 ACAACTCTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 7 0.33
22 14 0.67
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (20 bp):
AAATAATAAAATAAATTTAA
Found at i:10328687 original size:27 final size:27
Alignment explanation
Indices: 10328649--10328714 Score: 98
Period size: 27 Copynumber: 2.4 Consensus size: 27
10328639 ATAGTATACA
*
10328649 AGTTGAGCCTATTTG-CTAGGCGCGACT
1 AGTTGAGCCTATTTGAC-AGGCGCAACT
10328676 AGTTGAGCCTATTTGACAGGCGCAACT
1 AGTTGAGCCTATTTGACAGGCGCAACT
*
10328703 AGTTGTGCCTAT
1 AGTTGAGCCTAT
10328715 CTCAGAGGCG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 35 0.97
28 1 0.03
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.30
Consensus pattern (27 bp):
AGTTGAGCCTATTTGACAGGCGCAACT
Found at i:10328723 original size:27 final size:27
Alignment explanation
Indices: 10328649--10328725 Score: 75
Period size: 27 Copynumber: 2.9 Consensus size: 27
10328639 ATAGTATACA
* * *
10328649 AGTTGAGCCTATTTGC-TAGGCGCGACT
1 AGTTGAGCCTATCT-CACAGGCGCAACT
* *
10328676 AGTTGAGCCTATTTGACAGGCGCAACT
1 AGTTGAGCCTATCTCACAGGCGCAACT
* *
10328703 AGTTGTGCCTATCTCAGAGGCGC
1 AGTTGAGCCTATCTCACAGGCGC
10328726 GAATGGTGGG
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.21, C:0.23, G:0.29, T:0.27
Consensus pattern (27 bp):
AGTTGAGCCTATCTCACAGGCGCAACT
Found at i:10331985 original size:30 final size:31
Alignment explanation
Indices: 10331935--10331993 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
10331925 TACTAACAAA
* *
10331935 ATAATTATAAAATATATTTTTAAGAAAATAC
1 ATAACTATAAAATATATTTTTAAAAAAATAC
10331966 ATAACTATAAAAT-TATTTTTAAAAAAAT
1 ATAACTATAAAATATATTTTTAAAAAAAT
10331994 TCATGTACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 14 0.54
31 12 0.46
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (31 bp):
ATAACTATAAAATATATTTTTAAAAAAATAC
Found at i:10332078 original size:21 final size:22
Alignment explanation
Indices: 10332035--10332078 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
10332025 TATTTGTGGG
**
10332035 TGTTAAATTTTTTTAATTAAAA
1 TGTTAAATAATTTTAATTAAAA
10332057 TGTTAAATAATTTTAA-TAAAA
1 TGTTAAATAATTTTAATTAAAA
10332078 T
1 T
10332079 TATTTATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (22 bp):
TGTTAAATAATTTTAATTAAAA
Found at i:10332729 original size:19 final size:19
Alignment explanation
Indices: 10332707--10332790 Score: 59
Period size: 19 Copynumber: 4.3 Consensus size: 19
10332697 CAAAAATTTA
10332707 TAACATAATCCTAAATTAT
1 TAACATAATCCTAAATTAT
*
10332726 TAACAAATTAATCCTAAAATAAT
1 TAAC--A-TAATCCT-AAATTAT
*
10332749 T-ACA-AA-CACAAAAAATTA-
1 TAACATAATC-C--TAAATTAT
10332767 TAACATAATCCTAAATTAT
1 TAACATAATCCTAAATTAT
10332786 TAACA
1 TAACA
10332791 AATTAATTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 22
0.66 0.05 0.29
Matches are distributed among these distances:
17 1 0.02
18 10 0.20
19 17 0.34
20 4 0.08
21 2 0.04
22 9 0.18
23 7 0.14
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (19 bp):
TAACATAATCCTAAATTAT
Found at i:10332734 original size:60 final size:60
Alignment explanation
Indices: 10332632--10332810 Score: 286
Period size: 60 Copynumber: 3.0 Consensus size: 60
10332622 ATACTAAACT
* * * *
10332632 AAACACAATAATTTATAACTTAATCCTAAATTACTAATAAATTAATTTTAAAATAATTAC
1 AAACACAAAAATTTATAACATAATCCTAAATTATTAACAAATTAATTTTAAAATAATTAC
* **
10332692 ATACACAAAAATTTATAACATAATCCTAAATTATTAACAAATTAATCCTAAAATAATTAC
1 AAACACAAAAATTTATAACATAATCCTAAATTATTAACAAATTAATTTTAAAATAATTAC
*
10332752 AAACACAAAAAATTATAACATAATCCTAAATTATTAACAAATTAATTTTAAAATAATTA
1 AAACACAAAAATTTATAACATAATCCTAAATTATTAACAAATTAATTTTAAAATAATTA
10332811 TAAAAAAGAA
Statistics
Matches: 108, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 108 1.00
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (60 bp):
AAACACAAAAATTTATAACATAATCCTAAATTATTAACAAATTAATTTTAAAATAATTAC
Found at i:10332753 original size:22 final size:22
Alignment explanation
Indices: 10332712--10332754 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
10332702 ATTTATAACA
*
10332712 TAATCCTAAATTATTAACAAAT
1 TAATCCTAAATAATTAACAAAT
10332734 TAATCCTAAAATAATT-ACAAA
1 TAATCCT-AAATAATTAACAAA
10332755 CACAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (22 bp):
TAATCCTAAATAATTAACAAAT
Found at i:10332886 original size:14 final size:15
Alignment explanation
Indices: 10332862--10332904 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
10332852 ATAGACACTA
10332862 AACATAAATAATTTAT
1 AACA-AAATAATTTAT
*
10332878 AA-AAAATAATTAAT
1 AACAAAATAATTTAT
*
10332892 AACAAAAAAATTT
1 AACAAAATAATTT
10332905 CACAACATCT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 12 0.52
15 9 0.39
16 2 0.09
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (15 bp):
AACAAAATAATTTAT
Found at i:10332990 original size:14 final size:13
Alignment explanation
Indices: 10332968--10333032 Score: 53
Period size: 13 Copynumber: 4.8 Consensus size: 13
10332958 AATAATTACC
10332968 TTTTT-TTCTTTCT
1 TTTTTCTTC-TTCT
10332981 TTTTTCTTCTTCT
1 TTTTTCTTCTTCT
*
10332994 TCTTTTTTTCTTCT
1 T-TTTTCTTCTTCT
*
10333008 CTTTTCTCTCTT-T
1 TTTTTCT-TCTTCT
*
10333021 TCTTTCTCTCTT
1 TTTTTCT-TCTT
10333033 TCGGTGGGTG
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
13 26 0.59
14 18 0.41
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTTTCTTCTTCT
Found at i:10332998 original size:20 final size:19
Alignment explanation
Indices: 10332971--10333034 Score: 69
Period size: 19 Copynumber: 3.3 Consensus size: 19
10332961 AATTACCTTT
10332971 TTTTCTTTCTTTT-TTCTTC
1 TTTTCTTTCTTTTCTTC-TC
10332990 TTCTTCTTT-TTTTCTTCTC
1 TT-TTCTTTCTTTTCTTCTC
*
10333009 TTTTCTCTCTTTTCTTTCTC
1 TTTTCTTTCTTTTC-TTCTC
10333029 TCTTTC
1 T-TTTC
10333035 GGTGGGTGAG
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
18 5 0.13
19 15 0.38
20 15 0.38
21 4 0.10
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTTCTTTCTTTTCTTCTC
Found at i:10333007 original size:27 final size:28
Alignment explanation
Indices: 10332967--10333034 Score: 86
Period size: 27 Copynumber: 2.5 Consensus size: 28
10332957 TAATAATTAC
*
10332967 CTTTTTTTCTTTCTTTTTTCT-TCTTCTT
1 CTTTTTTTCTTTCTCTTTTCTCTCTT-TT
10332995 CTTTTTTTC-TTCTCTTTTCTCTCTTTT
1 CTTTTTTTCTTTCTCTTTTCTCTCTTTT
* *
10333022 CTTTCTCTCTTTC
1 CTTTTTTTCTTTC
10333035 GGTGGGTGAG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 19 0.54
28 16 0.46
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (28 bp):
CTTTTTTTCTTTCTCTTTTCTCTCTTTT
Found at i:10333012 original size:28 final size:27
Alignment explanation
Indices: 10332967--10333034 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 27
10332957 TAATAATTAC
10332967 CTTTTTTTCTTTCTTTTT-TCTTCTTCTT
1 CTTTTTTTCTTTCTTTTTCTC-TCTT-TT
10332995 CTTTTTTTC-TTCTCTTTTCTCTCTTTT
1 CTTTTTTTCTTTCT-TTTTCTCTCTTTT
* *
10333022 CTTTCTCTCTTTC
1 CTTTTTTTCTTTC
10333035 GGTGGGTGAG
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
27 13 0.37
28 20 0.57
29 2 0.06
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (27 bp):
CTTTTTTTCTTTCTTTTTCTCTCTTTT
Found at i:10333019 original size:22 final size:21
Alignment explanation
Indices: 10332967--10333033 Score: 68
Period size: 22 Copynumber: 3.2 Consensus size: 21
10332957 TAATAATTAC
* *
10332967 CTTTTTTTC-TTTCTTT-TTT
1 CTTTTCTTCTTTTCTTTCTCT
10332986 CTTCTTCTTCTTTT-TTTCTTCT
1 CTT-TTCTTCTTTTCTTTC-TCT
10333008 CTTTTCTCTCTTTTCTTTCTCT
1 CTTTTCT-TCTTTTCTTTCTCT
10333030 CTTT
1 CTTT
10333034 CGGTGGGTGA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
19 3 0.08
20 8 0.20
21 7 0.17
22 18 0.45
23 4 0.10
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (21 bp):
CTTTTCTTCTTTTCTTTCTCT
Found at i:10333028 original size:11 final size:10
Alignment explanation
Indices: 10332971--10333034 Score: 57
Period size: 9 Copynumber: 6.5 Consensus size: 10
10332961 AATTACCTTT
10332971 TTTTCTT-TC
1 TTTTCTTCTC
10332980 TTTT-TTCTTC
1 TTTTCTTC-TC
10332990 TTCTTCTT-T-
1 TT-TTCTTCTC
10332999 TTTTCTTCTC
1 TTTTCTTCTC
10333009 TTTTC-TCTC
1 TTTTCTTCTC
10333018 TTTTCTTTCTC
1 TTTTC-TTCTC
10333029 TCTTTC
1 T-TTTC
10333035 GGTGGGTGAG
Statistics
Matches: 46, Mismatches: 0, Indels: 15
0.75 0.00 0.25
Matches are distributed among these distances:
8 7 0.15
9 16 0.35
10 10 0.22
11 7 0.15
12 6 0.13
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (10 bp):
TTTTCTTCTC
Found at i:10333338 original size:26 final size:28
Alignment explanation
Indices: 10333287--10333357 Score: 85
Period size: 27 Copynumber: 2.6 Consensus size: 28
10333277 GAATTAAATA
* *
10333287 TTTTTAATAAAAATAAAAAATAATAT-T
1 TTTTTAATACAAACAAAAAATAATATAT
10333314 TTATTTAA-ACAAACAAAAAA-AATATAT
1 TT-TTTAATACAAACAAAAAATAATATAT
*
10333341 TTTTTAATATAAACAAA
1 TTTTTAATACAAACAAA
10333358 GGAGTCGCGT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
26 10 0.26
27 23 0.61
28 5 0.13
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (28 bp):
TTTTTAATACAAACAAAAAATAATATAT
Found at i:10335975 original size:40 final size:40
Alignment explanation
Indices: 10335920--10336144 Score: 272
Period size: 40 Copynumber: 5.6 Consensus size: 40
10335910 TATTCGGATG
10335920 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
10335960 ATATCTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * * *
10336003 ATACCCGGACTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * *
10336043 ATTTCCGGGCTAAGACCCGAAGGCATGTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * * *
10336083 ATATCCGGGTTAAGTCCCGAAGACATTTGTGCGAGTTGCG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
10336123 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
10336145 TACTTGGTTT
Statistics
Matches: 157, Mismatches: 25, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
39 13 0.08
40 108 0.69
41 1 0.01
43 35 0.22
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:10336068 original size:83 final size:80
Alignment explanation
Indices: 10335924--10336144 Score: 259
Period size: 83 Copynumber: 2.7 Consensus size: 80
10335914 CGGATGATAT
* * * *
10335924 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCTGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATGTG
*
10335989 TGCGAGTAGTTGCTATAC
66 TGC--G-AGTTACTATAC
* * *
10336007 CCGGACTAAGTCCCGAAGGCATTTGTGCTAGTGACTATTTCCGGGCTAAGACCCGAAGGCATGTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATGTG
*
10336072 TGCGAGTTACTATAT
66 TGCGAGTTACTATAC
* * * *
10336087 CCGGGTTAAGTCCCGAAGACATTTGTGCGAGTTG-CGATATCC-GGCTAA-ATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGA-CCCGAAGG
10336145 TACTTGGTTT
Statistics
Matches: 121, Mismatches: 15, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
78 1 0.01
79 14 0.12
80 42 0.35
81 3 0.02
83 61 0.50
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATGTG
TGCGAGTTACTATAC
Found at i:10339121 original size:24 final size:24
Alignment explanation
Indices: 10339094--10339140 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
10339084 TTAGACTAGA
*
10339094 TCTAATCCTAAGTTCTAAATTTAG
1 TCTAATCCTAAGCTCTAAATTTAG
*
10339118 TCTAATTCTAAGCTCTAAATTTA
1 TCTAATCCTAAGCTCTAAATTTA
10339141 AGTTAAGTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.34, C:0.17, G:0.06, T:0.43
Consensus pattern (24 bp):
TCTAATCCTAAGCTCTAAATTTAG
Found at i:10339242 original size:12 final size:12
Alignment explanation
Indices: 10339222--10339286 Score: 58
Period size: 12 Copynumber: 5.3 Consensus size: 12
10339212 CTAAGTTTAA
10339222 TCTAATTCTAAG
1 TCTAATTCTAAG
* *
10339234 TCTAGTTCTAAA
1 TCTAATTCTAAG
* *
10339246 ACTAGTTCTAAAG
1 TCTAATTCT-AAG
*
10339259 GCTAATTCTAAG
1 TCTAATTCTAAG
* *
10339271 ACCAATTCTAAG
1 TCTAATTCTAAG
10339283 TCTA
1 TCTA
10339287 TATGATAATT
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
12 33 0.79
13 9 0.21
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.35
Consensus pattern (12 bp):
TCTAATTCTAAG
Found at i:10339279 original size:25 final size:25
Alignment explanation
Indices: 10339225--10339281 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
10339215 AGTTTAATCT
* * *
10339225 AATTCT-AAGTCTAGTTCTAAAACT
1 AATTCTAAAGGCTAATTCTAAAACC
* *
10339249 AGTTCTAAAGGCTAATTCTAAGACC
1 AATTCTAAAGGCTAATTCTAAAACC
10339274 AATTCTAA
1 AATTCTAA
10339282 GTCTATATGA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
24 5 0.19
25 21 0.81
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.33
Consensus pattern (25 bp):
AATTCTAAAGGCTAATTCTAAAACC
Found at i:10342954 original size:16 final size:16
Alignment explanation
Indices: 10342933--10342966 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
10342923 ACCACAGAAC
10342933 CTTAATTAGAGTAACA
1 CTTAATTAGAGTAACA
10342949 CTTAATTAGAGTAACA
1 CTTAATTAGAGTAACA
10342965 CT
1 CT
10342967 CTTCCTTCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (16 bp):
CTTAATTAGAGTAACA
Found at i:10348617 original size:14 final size:14
Alignment explanation
Indices: 10348598--10348639 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
10348588 CACAACCATT
10348598 TCCACACTCACATA
1 TCCACACTCACATA
* *
10348612 TCCACA-AC-CATT
1 TCCACACTCACATA
10348624 TCCACACTCACATA
1 TCCACACTCACATA
10348638 TC
1 TC
10348640 ACAACAAAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 4
0.73 0.13 0.13
Matches are distributed among these distances:
12 9 0.41
13 2 0.09
14 11 0.50
ACGTcount: A:0.33, C:0.43, G:0.00, T:0.24
Consensus pattern (14 bp):
TCCACACTCACATA
Found at i:10348624 original size:26 final size:25
Alignment explanation
Indices: 10348588--10348644 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 25
10348578 TTAACCTATG
10348588 CACAACCATTTCCACACTCACATAT
1 CACAACCATTTCCACACTCACATAT
10348613 CCACAACCATTTCCACACTCACATAT
1 -CACAACCATTTCCACACTCACATAT
10348639 CACAAC
1 CACAAC
10348645 AAAACCTTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 6 0.19
26 25 0.81
ACGTcount: A:0.37, C:0.42, G:0.00, T:0.21
Consensus pattern (25 bp):
CACAACCATTTCCACACTCACATAT
Found at i:10348884 original size:24 final size:25
Alignment explanation
Indices: 10348855--10348920 Score: 98
Period size: 25 Copynumber: 2.7 Consensus size: 25
10348845 GTACTTTTTT
10348855 CGTCAATTCATCCTTTGCA-TATAC
1 CGTCAATTCATCCTTTGCATTATAC
* * *
10348879 CGTCAATTCCTTCTTTGCATTTTAC
1 CGTCAATTCATCCTTTGCATTATAC
10348904 CGTCAATTCATCCTTTG
1 CGTCAATTCATCCTTTG
10348921 ACACAGAATG
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
24 17 0.47
25 19 0.53
ACGTcount: A:0.20, C:0.29, G:0.09, T:0.42
Consensus pattern (25 bp):
CGTCAATTCATCCTTTGCATTATAC
Found at i:10353540 original size:21 final size:20
Alignment explanation
Indices: 10353516--10353555 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
10353506 CATGTATTTT
10353516 AATGATTGATGATAGATTATG
1 AATGATTGATGATAG-TTATG
*
10353537 AATGTTTGATGATAGTTAT
1 AATGATTGATGATAGTTAT
10353556 ACAAGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (20 bp):
AATGATTGATGATAGTTATG
Found at i:10353563 original size:20 final size:21
Alignment explanation
Indices: 10353521--10353563 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
10353511 ATTTTAATGA
*
10353521 TTGATGATAGATTATGAATGT
1 TTGATGATAGATTATGAAAGT
10353542 TTGATGATAG-TTAT-ACAAGT
1 TTGATGATAGATTATGA-AAGT
10353562 TT
1 TT
10353564 TGTTAAGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 9 0.45
21 10 0.50
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (21 bp):
TTGATGATAGATTATGAAAGT
Found at i:10354899 original size:6 final size:6
Alignment explanation
Indices: 10354888--10354919 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
10354878 CACCATAAGG
*
10354888 GTAACA GTAACA GTAACA GTAACA ATAACA GT
1 GTAACA GTAACA GTAACA GTAACA GTAACA GT
10354920 CAAGTACTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.16, G:0.16, T:0.19
Consensus pattern (6 bp):
GTAACA
Found at i:10361761 original size:34 final size:34
Alignment explanation
Indices: 10361717--10361784 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
10361707 GCATAGTTGA
* *
10361717 ACAGTCTTGGGCCTAAGCCCTTTTCAGTATCAGTG
1 ACAGTCTTGGGCCTAAGCCCATCTCAGTA-CAGTG
*
10361752 ACAGT-TTGGGCCTTAGCCCATCTCAGTACAGTG
1 ACAGTCTTGGGCCTAAGCCCATCTCAGTACAGTG
10361785 TCAAAAATGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 5 0.17
34 20 0.67
35 5 0.17
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.29
Consensus pattern (34 bp):
ACAGTCTTGGGCCTAAGCCCATCTCAGTACAGTG
Found at i:10368474 original size:164 final size:163
Alignment explanation
Indices: 10368191--10368590 Score: 481
Period size: 164 Copynumber: 2.5 Consensus size: 163
10368181 GTTAACACTA
* * * *
10368191 TATTAAAAAAAAAGACCACAGAGAACCTAGTTAACACTCCAAATTTAATCTTCTCTCTTCAATTT
1 TATTAAAAAAAAA-ACCGCAAAGAACCTAGCTAACACTCCAAATTTAATCTTCTCTCTTCAATTC
* * * * *
10368256 CTACTGAGTCCTTATCAAAAGTCTCTCGACTTCTATGTAATCGATAACAAGATCAACAAAACAAA
65 CAACTGAGTCCTTATCAAAAATCTCTCAACATCTATATAATCGATAACAAGATCAACAAAACAAA
* * * ** *
10368321 CCATTGTCGATAAGCACCTCCAGACAAAGGACCT
130 CCATTATCAATAAGCACCTCAAGACAAAACACAT
* *
10368355 TATTAAAAAAAAACACCGTAAAGAACTTAGCTAACACTCCAAATTTAATCTTCTCTCTTCAATTC
1 TATTAAAAAAAAA-ACCGCAAAGAACCTAGCTAACACTCCAAATTTAATCTTCTCTCTTCAATTC
* * * *
10368420 CAACT-AGGTCCTTATTAAAAATCTCTCAACATCTATATAATCGGTAGA-AAGATCAATAAAATA
65 CAACTGA-GTCCTTATCAAAAATCTCTCAACATCTATATAATCGATA-ACAAGATCAACAAAACA
10368483 AACCATTATCAATAAGCACCTCAAGACAAAACACAT
128 AACCATTATCAATAAGCACCTCAAGACAAAACACAT
** * *
10368519 TATT---AAAAAAAGGGCAAAGAACCTAACTAACACTCCAAATTTAATCTTCTCTTTTCAAATTC
1 TATTAAAAAAAAAACCGCAAAGAACCTAGCTAACACTCCAAATTTAATCTTCTCTCTTC-AATTC
10368581 CAA-TGA-TCCT
65 CAACTGAGTCCT
10368591 AAAACCCAAT
Statistics
Matches: 204, Mismatches: 28, Indels: 13
0.83 0.11 0.05
Matches are distributed among these distances:
159 4 0.02
160 41 0.20
161 15 0.07
163 1 0.00
164 142 0.70
165 1 0.00
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.27
Consensus pattern (163 bp):
TATTAAAAAAAAAACCGCAAAGAACCTAGCTAACACTCCAAATTTAATCTTCTCTCTTCAATTCC
AACTGAGTCCTTATCAAAAATCTCTCAACATCTATATAATCGATAACAAGATCAACAAAACAAAC
CATTATCAATAAGCACCTCAAGACAAAACACAT
Found at i:10373140 original size:39 final size:40
Alignment explanation
Indices: 10373063--10373209 Score: 120
Period size: 40 Copynumber: 3.7 Consensus size: 40
10373053 TAGCTCCTCG
* * *
10373063 TTCAAGTGCCTTCGGGACATAGCCCGG-TTATAGTAACTCA
1 TTCAA-TGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
* *
10373103 TTCAATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCG
1 TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** * * * *
10373142 CACGAATGCCTTCGGGACTTAACCCGGAAT-TAGTATCTCG
1 TTC-AATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** *
10373182 CACAAAGGCCTTCGGGACTTAACCCGGA
1 TTC-AATGCCTTCGGGACTTAACCCGGA
10373210 ATTAATAACT
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
39 27 0.29
40 65 0.71
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
Found at i:10373220 original size:80 final size:80
Alignment explanation
Indices: 10373109--10373289 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 80
10373099 CTCATTCAAT
* * *
10373109 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
10373172 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
10373188 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
10373252 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
10373269 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
10373290 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 7 0.08
80 71 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:10373249 original size:40 final size:40
Alignment explanation
Indices: 10373106--10373289 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
10373096 TAACTCATTC
* *
10373106 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
10373146 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
10373186 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
10373226 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
10373267 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
10373290 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:10381028 original size:81 final size:80
Alignment explanation
Indices: 10380927--10381149 Score: 204
Period size: 80 Copynumber: 2.8 Consensus size: 80
10380917 CTCGTTCAAG
* * ** *
10380927 TGCCTTCGGGACATAGCCCGGTTATATAGTAACTCATTC-AATGCCTTCGGGACTTAACCCGGAT
1 TGCCTTCGGGACATAACCCGG-AAT-TAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGA-
* *
10380991 TTTAA-AACTCGCACGAA
63 ATTAATAACTCGCACAAA
* * *
10381008 TGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAGGCCTTCGGGACTTAACCCGGAATT
1 TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
10381073 AATAACTCGCACAAA
66 AATAACTCGCACAAA
* * ** * * *
10381088 TACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGA-CATAACCCGGAAT-TAGTAACTCA-CACAAAGGCCTTCGGGACTTAACCCGGA
10381150 CAGCATTCAA
Statistics
Matches: 119, Mismatches: 18, Indels: 11
0.80 0.12 0.07
Matches are distributed among these distances:
79 18 0.15
80 76 0.64
81 25 0.21
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (80 bp):
TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
AATAACTCGCACAAA
Found at i:10381058 original size:80 final size:80
Alignment explanation
Indices: 10380969--10381149 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 80
10380959 CTCATTCAAT
* * *
10380969 GCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-A
1 GCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA
*
10381031 TTAGT-A-TCTCGCACAAA
64 -TAGTCACT-TAGCACAAA
**
10381048 GGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATAT
1 -GCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATACCTTCGGATCTTAACCCGGATAT
10381113 AGTCACTTAGCACAAA
65 AGTCACTTAGCACAAA
*
10381129 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
10381150 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 7 0.08
80 71 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:10381109 original size:40 final size:40
Alignment explanation
Indices: 10380966--10381149 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
10380956 TAACTCATTC
* *
10380966 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
10381006 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
10381046 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
10381086 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
10381127 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
10381150 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:10385723 original size:35 final size:35
Alignment explanation
Indices: 10385638--10385708 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
10385628 CACATCGAAG
*
10385638 CGTTCAAACCATTTTATGTTGTTTATCTAGAAAAA
1 CGTTCAAACCATTTTATGTTGTTGATCTAGAAAAA
10385673 CGTTCAAACCATTTTATGTTGTTGATCTAGAAAAA
1 CGTTCAAACCATTTTATGTTGTTGATCTAGAAAAA
10385708 C
1 C
10385709 TTACTTAGTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (35 bp):
CGTTCAAACCATTTTATGTTGTTGATCTAGAAAAA
Found at i:10386572 original size:27 final size:26
Alignment explanation
Indices: 10386537--10386648 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
10386527 AGAATGGCTG
* *
10386537 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
10386563 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
10386591 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
10386618 CCAGATCAGATAATTGTGGTATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
10386645 CCAG
1 CCAG
10386649 GACGCTTCCT
Statistics
Matches: 77, Mismatches: 5, Indels: 7
0.87 0.06 0.08
Matches are distributed among these distances:
26 6 0.08
27 54 0.70
28 17 0.22
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:10386601 original size:54 final size:54
Alignment explanation
Indices: 10386537--10386648 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
10386527 AGAATGGCTG
*
10386537 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
10386591 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGTATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
10386645 CCAG
1 CCAG
10386649 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:10403001 original size:50 final size:50
Alignment explanation
Indices: 10402901--10403333 Score: 375
Period size: 50 Copynumber: 8.6 Consensus size: 50
10402891 GTGAGAACAC
* * *** *
10402901 ACTATGTGCAGGCTACTATGTGTTTAAGATAGTTTTAGGTCACGTGTGTAGT
1 ACTAAGTGCAGGCTACTACGTGTACCAGATAG--TTAGGTCACATGTGTAGT
* * * *
10402953 ACTCAGTGCAGGCTACTACGTGTACTAGATTGTTTGGTCACATGTGTAGT
1 ACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGT
* * * * * * * *
10403003 ACAAAGTGCAAGTTACTATGCGTACCCGATAGCTTCGATCACATGTGTAGT
1 ACTAAGTGCAGGCTACTACGTGTACCAGATAG-TTAGGTCACATGTGTAGT
* * * * **
10403054 ACAAAGTGCATGCTACTACGTGTATCAGATGGTTAGGTCATGTGTGTAGT
1 ACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGT
* * * * * * *
10403104 ACTAAGTGGAGGGTACTACATGTACCAAATTA-TTAGATCGCATGTGTATT
1 ACTAAGTGCAGGCTACTACGTGTACCAGA-TAGTTAGGTCACATGTGTAGT
* * ** * * * *
10403154 ACTAAGTGTAGGCTACTATGCATACCCA-ATAGCTTTGATGACGTGTGTAGT
1 ACTAAGTGCAGGCTACTACGTGTA-CCAGATAG-TTAGGTCACATGTGTAGT
* * * * *
10403205 ACTAAGTGCAGGCTACTACGTGTATCGGATGGTCAGGTCACCTGTGTAGT
1 ACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGT
*
10403255 ACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACATGTGTAGT
1 ACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGT
* *
10403305 ACTAAGTGCAGGCTACTATGCGTACCAGA
1 ACTAAGTGCAGGCTACTACGTGTACCAGA
10403334 GAGCTTCGGT
Statistics
Matches: 301, Mismatches: 74, Indels: 14
0.77 0.19 0.04
Matches are distributed among these distances:
49 2 0.01
50 193 0.64
51 81 0.27
52 25 0.08
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.31
Consensus pattern (50 bp):
ACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGT
Found at i:10403093 original size:101 final size:100
Alignment explanation
Indices: 10402940--10403333 Score: 362
Period size: 101 Copynumber: 3.9 Consensus size: 100
10402930 TAGTTTTAGG
* * * * *
10402940 TCACGTGTGTAGTACTCAGTGCAGGCTACTACGTGTACTAGATTGTTTGGTCACATGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCACATGTGTAGTAC
* * * * *
10403005 AAAGTGCAAGTTACTATGCGTACCCGATAGCTTCGA
66 TAAGTGCAGGCTACTACGCGTACCAGATAG-TTCGA
* * * **
10403041 TCACATGTGTAGTACAAAGTGCATGCTACTACGTGTATCAGATGGTTAGGTCATGTGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCACATGTGTAGTAC
* * ** * *
10403106 TAAGTGGAGGGTACTACATGTACCAAATTA-TTAGA
66 TAAGTGCAGGCTACTACGCGTACCAGA-TAGTTCGA
* * * * ** * * * * *
10403141 TCGCATGTGTATTACTAAGTGTAGGCTACTATGCATACCCA-ATAGCTTTGATGACGTGTGTAGT
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGAT-GGTTAGGTCACATGTGTAGT
* * * * *
10403205 ACTAAGTGCAGGCTACTACGTGTATCGGAT-GGTCAGG
64 ACTAAGTGCAGGCTACTACGCGTACCAGATAGTTC-GA
* *
10403242 TCACCTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACATGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCACATGTGTAGTAC
*
10403307 TAAGTGCAGGCTACTATGCGTACCAGA
66 TAAGTGCAGGCTACTACGCGTACCAGA
10403334 GAGCTTCGGT
Statistics
Matches: 227, Mismatches: 60, Indels: 13
0.76 0.20 0.04
Matches are distributed among these distances:
100 79 0.35
101 146 0.64
102 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.30
Consensus pattern (100 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCACATGTGTAGTAC
TAAGTGCAGGCTACTACGCGTACCAGATAGTTCGA
Found at i:10403212 original size:151 final size:151
Alignment explanation
Indices: 10402906--10403330 Score: 562
Period size: 151 Copynumber: 2.8 Consensus size: 151
10402896 AACACACTAT
* * * * *
10402906 GTGCAGGCTACTATGTGTTTAAGATAGTTTTAGGTCACGTGTGTAGTACTCAGTGCAGGCTACTA
1 GTGCAGGCTACTACGTGTATCAGAT-G-GTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTA
* * * * * *
10402971 CGTGTACTAGATTGTTTGGTCACATGTGTAGTACAAAGTGCAAGTTACTATGCGTACCCGATAGC
64 CGTGTACCAGATTGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCAATAGC
10403036 TTCGATCACATGTGTAGTACAAA
129 TTCGATCACATGTGTAGTACAAA
* * * * *
10403059 GTGCATGCTACTACGTGTATCAGATGGTTAGGTCATGTGTGTAGTACTAAGTGGAGGGTACTACA
1 GTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACG
* * * * * * *
10403124 TGTACCAAATTATTAGATCGCATGTGTATTACTAAGTGTAGGCTACTATGCATACCCAATAGCTT
66 TGTACCAGATTGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCAATAGCTT
* * * *
10403189 TGATGACGTGTGTAGTACTAA
131 CGATCACATGTGTAGTACAAA
* * *
10403210 GTGCAGGCTACTACGTGTATCGGATGGTCAGGTCACCTGTGTAGTACTAAGTGCAGGCTACTACG
1 GTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACG
10403275 TGTACCAGATTGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
66 TGTACCAGATTGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
10403331 AGAGAGCTTC
Statistics
Matches: 230, Mismatches: 42, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
151 208 0.90
152 1 0.00
153 21 0.09
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (151 bp):
GTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACG
TGTACCAGATTGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCAATAGCTT
CGATCACATGTGTAGTACAAA
Found at i:10403277 original size:26 final size:26
Alignment explanation
Indices: 10403198--10403278 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
10403188 TTGATGACGT
10403198 GTGTAGTACTAAGTGCAGGCTACTAC
1 GTGTAGTACTAAGTGCAGGCTACTAC
**
10403224 GTGTA-T-CGGA-TGGTCAGG-T-C-ACC
1 GTGTAGTACTAAGT-G-CAGGCTACTA-C
10403247 TGTGTAGTACTAAGTGCAGGCTACTAC
1 -GTGTAGTACTAAGTGCAGGCTACTAC
10403274 GTGTA
1 GTGTA
10403279 CCAGATTGTT
Statistics
Matches: 41, Mismatches: 4, Indels: 20
0.63 0.06 0.31
Matches are distributed among these distances:
22 1 0.02
23 3 0.07
24 9 0.22
25 10 0.24
26 14 0.34
27 3 0.07
28 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (26 bp):
GTGTAGTACTAAGTGCAGGCTACTAC
Found at i:10410713 original size:42 final size:42
Alignment explanation
Indices: 10410664--10410778 Score: 133
Period size: 43 Copynumber: 2.7 Consensus size: 42
10410654 TATTGAGATA
* * *
10410664 ACATGTAAGACGATATCTAGGATATGACATCGATATGAGACGT
1 ACATGTAAGACCATATCTGGGATATGACATCGATACGAGA-GT
* * * * *
10410707 -CGTGTAAGACCATAGCTGGGCTATTGGCATCGATACGAGATT
1 ACATGTAAGACCATATCTGGGATA-TGACATCGATACGAGAGT
10410749 ACATGTAAGACCATATCTGGGATATGACAT
1 ACATGTAAGACCATATCTGGGATATGACAT
10410779 TGGTACGTTA
Statistics
Matches: 58, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
42 24 0.41
43 34 0.59
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (42 bp):
ACATGTAAGACCATATCTGGGATATGACATCGATACGAGAGT
Found at i:10412287 original size:38 final size:38
Alignment explanation
Indices: 10412243--10412322 Score: 160
Period size: 38 Copynumber: 2.1 Consensus size: 38
10412233 TGTTATTGTT
10412243 GTTTTACATGAAATCTATCTGGCTATGATCATATTGAA
1 GTTTTACATGAAATCTATCTGGCTATGATCATATTGAA
10412281 GTTTTACATGAAATCTATCTGGCTATGATCATATTGAA
1 GTTTTACATGAAATCTATCTGGCTATGATCATATTGAA
10412319 GTTT
1 GTTT
10412323 ATGTTAATGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.41
Consensus pattern (38 bp):
GTTTTACATGAAATCTATCTGGCTATGATCATATTGAA
Found at i:10412770 original size:49 final size:51
Alignment explanation
Indices: 10412707--10412939 Score: 177
Period size: 51 Copynumber: 4.6 Consensus size: 51
10412697 AATGGTTTTT
* * *
10412707 GGTCACGTGTGTAGTACTAAGTGCA-GCTACTACGTGTACCAGATAG-TTG
1 GGTCACATGTGTAGTACTAAGTGCAGGCCACTACGTGTACCAGATAGCTTC
* * * ** *
10412756 GGTCGCATGTGTAGTACTAAGTGTAGACCACTGTGCGTACCCA-ATAGCTTC
1 GGTCACATGTGTAGTACTAAGTGCAGGCCACTACGTGTA-CCAGATAGCTTC
* * ** ** * *
10412807 GATCACATGTGTGGTACTAAGTGCAGGCCACTACGTGTAAGAGACGGTTTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCCACTACGTGTACCAGATAGCTTC
* * * *
10412858 GGTCACA-GATGTAGTACTAAGTGCAGGCTACTATGTGCACTAGATAGCTTC
1 GGTCACATG-TGTAGTACTAAGTGCAGGCCACTACGTGTACCAGATAGCTTC
* * * * * *
10412909 GGTTACAAGGGTGGTAATATGTGCAGGCCAC
1 GGTCACATGTGTAGTACTAAGTGCAGGCCAC
10412940 CGTGTATCTA
Statistics
Matches: 138, Mismatches: 40, Indels: 10
0.73 0.21 0.05
Matches are distributed among these distances:
49 22 0.16
50 14 0.10
51 101 0.73
52 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.27
Consensus pattern (51 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCCACTACGTGTACCAGATAGCTTC
Found at i:10419729 original size:28 final size:27
Alignment explanation
Indices: 10419628--10419729 Score: 80
Period size: 28 Copynumber: 3.5 Consensus size: 27
10419618 TCAGTGTTAA
* *
10419628 CTGGGCCTTAGCCCATATCAATATTAAT
1 CTGGGCC-TAGCCCATATCAGTATCAAT
*
10419656 CTGGGCCATAGCCCCT-TACAGTATCAGAGTAT
1 CTGGGCC-TAGCCCATAT-CAGTATC--A--AT
*
10419688 ATTGGGCCTAGCCCATATCAGTATCAAT
1 -CTGGGCCTAGCCCATATCAGTATCAAT
10419716 CTGGGCCGTAGCCC
1 CTGGGCC-TAGCCC
10419730 TATTACAAGT
Statistics
Matches: 59, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
27 7 0.12
28 27 0.46
30 2 0.03
32 16 0.27
33 7 0.12
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (27 bp):
CTGGGCCTAGCCCATATCAGTATCAAT
Found at i:10419749 original size:60 final size:59
Alignment explanation
Indices: 10419629--10419756 Score: 161
Period size: 60 Copynumber: 2.1 Consensus size: 59
10419619 CAGTGTTAAC
* *
10419629 TGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTATCAGAGTATAT
1 TGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAG-ATCAGAGTATAT
* *
10419690 TGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACA-AGTC-GAGATATAT
1 TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTACAGA-TCAGAG-TATAT
10419750 TGGGCCT
1 TGGGCCT
10419757 TGGCTATATT
Statistics
Matches: 60, Mismatches: 4, Indels: 7
0.85 0.06 0.10
Matches are distributed among these distances:
59 4 0.07
60 45 0.75
61 11 0.18
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (59 bp):
TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGATCAGAGTATAT
Found at i:10422216 original size:19 final size:18
Alignment explanation
Indices: 10422180--10422223 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
10422170 ATATATGCAG
10422180 TAAT-ATTTTTCAAATAA
1 TAATAATTTTTCAAATAA
*
10422197 TAATAATTTTATCTAATAA
1 TAATAATTTT-TCAAATAA
*
10422216 TACTAATT
1 TAATAATT
10422224 AAAATTTCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (18 bp):
TAATAATTTTTCAAATAA
Found at i:10424863 original size:20 final size:21
Alignment explanation
Indices: 10424833--10424872 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
10424823 TCCTTTTTGG
10424833 AAGGTGGATATCACAATACCC
1 AAGGTGGATATCACAATACCC
*
10424854 AAGG-GGATATCGCAATACC
1 AAGGTGGATATCACAATACC
10424873 AATGAAGGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (21 bp):
AAGGTGGATATCACAATACCC
Found at i:10429606 original size:85 final size:85
Alignment explanation
Indices: 10429449--10429638 Score: 238
Period size: 85 Copynumber: 2.2 Consensus size: 85
10429439 CTTTAGCCCA
* * * *
10429449 CACATCCAAGGCACCAAGGTGCCACTGCTGCTCGAGGCACCCGCACATCCAACGTCTTAGGTTGC
1 CACATCCAA-GCACCAAGGTGCCAATACTGCTCGAGGCACCCGCACATCCAACGACTAAGGTTGC
* * *
10429514 CTATGGTGTCCGAGGCTCCCG
65 CGATGGTGCCCGAAGCTCCCG
* * * * *
10429535 CACATCCAAGCACCAAGGTGCCAATACTGCTCGAGGCTCCTGGACATCCGAGGCACTAAGG-TGC
1 CACATCCAAGCACCAAGGTGCCAATACTGCTCGAGGCACCCGCACATCCAACG-ACTAAGGTTGC
*
10429599 CGGTGGTGCCCGAAGCTCCCG
65 CGATGGTGCCCGAAGCTCCCG
10429620 CACATCCAAGCACCAAGGT
1 CACATCCAAGCACCAAGGT
10429639 ACTGATGGTA
Statistics
Matches: 90, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
85 76 0.84
86 14 0.16
ACGTcount: A:0.23, C:0.35, G:0.26, T:0.16
Consensus pattern (85 bp):
CACATCCAAGCACCAAGGTGCCAATACTGCTCGAGGCACCCGCACATCCAACGACTAAGGTTGCC
GATGGTGCCCGAAGCTCCCG
Found at i:10429698 original size:128 final size:126
Alignment explanation
Indices: 10429566--10429958 Score: 382
Period size: 128 Copynumber: 3.1 Consensus size: 126
10429556 CAATACTGCT
* *
10429566 CGAGGCTCCTGGACATCCGAGGCACTAAGGTGCCGGTGGTGCCCGAAGCTCCCGCACATCCAAGC
1 CGAGGCTCCTGGACATCC-AGGCACTAAGGTGCCGATGGTGCCCGAGGCTCCCGCACATCCAAGC
* * * * *
10429631 ACCAAGGTACTGATGGTACCCGAGGCTCTCACACGACCAAGGGCCTAGGTTACCGATGGTGCC
65 ACCAAGGT-CTGATGGTGCTCGAGGCTCTCGCACGACCAAGGGCCTAGGTTGCTGATGGTGCC
* * * *
10429694 CGAGGCT-CTCGCG-CGA-CCAAAGGC-CT-AGGTTACCGATGGTGTCCGTGGCTCCCGGACATC
1 CGAGGCTCCT-G-GAC-ATCC--AGGCACTAAGG-TGCCGATGGTGCCCGAGGCTCCCGCACATC
* * * * * * * *
10429754 CAAGCACCAAGGTGTCGATAGTGTTTGAGGCTCCCGCATGACTAAGGGCCTAGTTTGCTGATGGT
60 CAAGCACCAAGGTCT-GATGGTGCTCGAGGCTCTCGCACGACCAAGGGCCTAGGTTGCTGATGGT
*
10429819 GTC
124 GCC
* * * * * * *
10429822 CGAGGCTCCTGCACATCCAAGCACCAAGGTGCCGATGCTGCTCGAGGCTCCCGCACATTCGAGGC
1 CGAGGCTCCTGGACATCCAGGCACTAAGGTGCCGATGGTGCCCGAGGCTCCCGCACA-TCCAAGC
* *
10429887 ACCAAGGTGCCGATGGTGCTCGAGGCTCTCGCACAACCAAGGGCCTAGGTTGCTGATGGTGCC
65 ACCAAGGT-CTGATGGTGCTCGAGGCTCTCGCACGACCAAGGGCCTAGGTTGCTGATGGTGCC
*
10429950 CGATGCTCC
1 CGAGGCTCC
10429959 GGCACGACCA
Statistics
Matches: 208, Mismatches: 44, Indels: 26
0.75 0.16 0.09
Matches are distributed among these distances:
126 3 0.01
127 30 0.14
128 167 0.80
129 8 0.04
ACGTcount: A:0.20, C:0.31, G:0.30, T:0.19
Consensus pattern (126 bp):
CGAGGCTCCTGGACATCCAGGCACTAAGGTGCCGATGGTGCCCGAGGCTCCCGCACATCCAAGCA
CCAAGGTCTGATGGTGCTCGAGGCTCTCGCACGACCAAGGGCCTAGGTTGCTGATGGTGCC
Found at i:10429899 original size:43 final size:42
Alignment explanation
Indices: 10429449--10429927 Score: 249
Period size: 43 Copynumber: 11.2 Consensus size: 42
10429439 CTTTAGCCCA
*
10429449 CACATCCAAGGCACCAAGGTGCC-ACTGCTGCTCGAGGCACCCG
1 CACATCCAA-GCACCAAGGTGCCGA-TGCTGCTCGAGGCTCCCG
* ** * *
10429492 CACATCCAA-CGTCTTAGGTTGCCTATGGTG-TCCGAGGCTCCCG
1 CACATCCAAGC-ACCAAGG-TGCCGATGCTGCT-CGAGGCTCCCG
* * *
10429535 CACATCCAAGCACCAAGGTGCCAATACTGCTCGAGGCTCCTG
1 CACATCCAAGCACCAAGGTGCCGATGCTGCTCGAGGCTCCCG
* * * * * * *
10429577 GACATCCGAGGCACTAAGGTGCCGGTGGTGCCCGAAGCTCCCG
1 CACATCC-AAGCACCAAGGTGCCGATGCTGCTCGAGGCTCCCG
* * * * * * *
10429620 CACATCCAAGCACCAAGGTACTGATGGTACCCGAGGCTCTCA
1 CACATCCAAGCACCAAGGTGCCGATGCTGCTCGAGGCTCCCG
** * * * * *
10429662 CACGA-CCAAGGGCCTAGGTTACCGATGGTGCCCGAGGCTCTCG
1 CAC-ATCCAAGCACCAAGG-TGCCGATGCTGCTCGAGGCTCCCG
* * * * * *
10429705 CGCGA-CCAAAG-GCCTAGGTTACCGATGGTG-TCCGTGGCTCCCG
1 CAC-ATCC-AAGCACCAAGG-TGCCGATGCTGCT-CGAGGCTCCCG
* * * *
10429748 GACATCCAAGCACCAAGGTGTCGATAG-TGTTTGAGGCTCCCG
1 CACATCCAAGCACCAAGGTGCCGAT-GCTGCTCGAGGCTCCCG
* * ** * * * * *
10429790 CATGA-CTAAGGGCCTAGTTTGCTGATGGTG-TCCGAGGCTCCTG
1 CA-CATCCAAGCACCAAG-GTGCCGATGCTGCT-CGAGGCTCCCG
10429833 CACATCCAAGCACCAAGGTGCCGATGCTGCTCGAGGCTCCCG
1 CACATCCAAGCACCAAGGTGCCGATGCTGCTCGAGGCTCCCG
* * * *
10429875 CACATTCGAGGCACCAAGGTGCCGATGGTGCTCGAGGCTCTCG
1 CACA-TCCAAGCACCAAGGTGCCGATGCTGCTCGAGGCTCCCG
*
10429918 CACAACCAAG
1 CACATCCAAG
10429928 GGCCTAGGTT
Statistics
Matches: 337, Mismatches: 77, Indels: 45
0.73 0.17 0.10
Matches are distributed among these distances:
41 1 0.00
42 126 0.37
43 205 0.61
44 5 0.01
ACGTcount: A:0.21, C:0.33, G:0.28, T:0.18
Consensus pattern (42 bp):
CACATCCAAGCACCAAGGTGCCGATGCTGCTCGAGGCTCCCG
Found at i:10429902 original size:85 final size:85
Alignment explanation
Indices: 10429726--10429927 Score: 198
Period size: 85 Copynumber: 2.4 Consensus size: 85
10429716 GCCTAGGTTA
* * * * * *
10429726 CCGATGGTGTCCGTGGCTCCCGGACATCCAAGCACCAAGGTGTCGATAGTGTTTGAGGCTCCCGC
1 CCGATGGTGTCCGAGGCTCCTGCACATCCAAGCACCAAGGTGCCGATAGTGCTCGAGGCTCCCGC
* * * *
10429791 ATGACTAAGGGCCTAGTTTG
66 ATCACTAAGGACCAAGTGTG
*
10429811 CTGATGGTGTCCGAGGCTCCTGCACATCCAAGCACCAAGGTGCCGAT-GCTGCTCGAGGCTCCCG
1 CCGATGGTGTCCGAGGCTCCTGCACATCCAAGCACCAAGGTGCCGATAG-TGCTCGAGGCTCCCG
* *
10429875 CA-CATTCGAGGCACCAAG-GTG
65 CATCACT-AAGG-ACCAAGTGTG
*
10429896 CCGATGGTG-CTCGAGGCT-CTCGCACAACCAAG
1 CCGATGGTGTC-CGAGGCTCCT-GCACATCCAAG
10429928 GGCCTAGGTT
Statistics
Matches: 97, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
84 6 0.06
85 87 0.90
86 4 0.04
ACGTcount: A:0.20, C:0.31, G:0.30, T:0.20
Consensus pattern (85 bp):
CCGATGGTGTCCGAGGCTCCTGCACATCCAAGCACCAAGGTGCCGATAGTGCTCGAGGCTCCCGC
ATCACTAAGGACCAAGTGTG
Found at i:10438533 original size:46 final size:46
Alignment explanation
Indices: 10438384--10438553 Score: 163
Period size: 46 Copynumber: 3.7 Consensus size: 46
10438374 ATGCAACCCG
* * ***
10438384 CCATAAGCGAACTCAGACTCAACTCAACGAGCTC-GGGGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
* * *
10438429 CCATAAGTGAACTCGGACTCAACTCAAC-AGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC--A-GAC-A-TTCGCAT
*
10438478 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
*
10438521 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTT
10438554 GGATGCTCAA
Statistics
Matches: 101, Mismatches: 13, Indels: 21
0.75 0.10 0.16
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 7 0.07
45 29 0.29
46 45 0.45
47 7 0.07
48 2 0.02
49 3 0.03
50 2 0.02
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
Found at i:10438547 original size:92 final size:91
Alignment explanation
Indices: 10438391--10438559 Score: 268
Period size: 92 Copynumber: 1.8 Consensus size: 91
10438381 CCGCCATAAG
***
10438391 CGAACTCAGACTCAACTCAACGAGCTCGGGGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 CGAACTCAGACTCAACTCAACGAGCTCGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
10438456 C-AGTTCGGATGCCTAGTTACATCTCA
66 CGAGTT-GGATGCCTAGTTACATCTCA
* *
10438482 CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTC-GACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
10438547 ACGAGTTGGATGC
65 ACGAGTTGGATGC
10438560 TCAACCATCC
Statistics
Matches: 71, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
91 25 0.35
92 42 0.59
93 4 0.06
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (91 bp):
CGAACTCAGACTCAACTCAACGAGCTCGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTGGATGCCTAGTTACATCTCA
Found at i:10445175 original size:17 final size:17
Alignment explanation
Indices: 10445153--10445192 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
10445143 AAAAGGAAGG
10445153 AGTAAGCATAAATGCTT
1 AGTAAGCATAAATGCTT
10445170 AGTAAGCATAAATGCTT
1 AGTAAGCATAAATGCTT
10445187 AGTAAG
1 AGTAAG
10445193 TTCATATGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.42, C:0.10, G:0.20, T:0.28
Consensus pattern (17 bp):
AGTAAGCATAAATGCTT
Done.