Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 111 of 325
Found at i:35915093 original size:27 final size:30
Alignment explanation
Indices: 35915048--35915102 Score: 71
Period size: 27 Copynumber: 1.9 Consensus size: 30
35915038 GCTCGAATGC
*
35915048 TTTCTGTTCTCTTTTCTCT-ATTCTTTTTG
1 TTTCTGTTCTCTTTACTCTGATTCTTTTTG
*
35915077 TTTCT-TT-TCTTTACTCTGTTTCTTTT
1 TTTCTGTTCTCTTTACTCTGATTCTTTT
35915103 ATTCACTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 9 0.39
28 9 0.39
29 5 0.22
ACGTcount: A:0.04, C:0.20, G:0.05, T:0.71
Consensus pattern (30 bp):
TTTCTGTTCTCTTTACTCTGATTCTTTTTG
Found at i:35927831 original size:30 final size:30
Alignment explanation
Indices: 35927789--35927847 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
35927779 TAAGACTCAT
*
35927789 ACTTTAGTAAAATGACCATTTTGCCCTTAA
1 ACTTTAGTAAAATGACCATTTTACCCTTAA
* *
35927819 ACTTT-GTAAAAATTACGATTTTACCCTTA
1 ACTTTAGT-AAAATGACCATTTTACCCTTA
35927848 GGCCCGAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.34, C:0.19, G:0.08, T:0.39
Consensus pattern (30 bp):
ACTTTAGTAAAATGACCATTTTACCCTTAA
Found at i:35933210 original size:46 final size:46
Alignment explanation
Indices: 35933154--35933314 Score: 151
Period size: 46 Copynumber: 3.3 Consensus size: 46
35933144 AAATTAGCAG
*
35933154 TACACTACATGATAAAAACAATATTTTCCAAGTGCATAACTAGTAT
1 TACACCACATGATAAAAACAATATTTTCCAAGTGCATAACTAGTAT
* * * *
35933200 TACACCACATGATAACTAAAAATTAATAATATTATCCAAGTACATAATTAGTAG
1 TACACCACATG---A-TAAAAA-CAAT-AT-TT-TCCAAGTGCATAACTAGTAT
* * ** * *
35933254 TACACCATATGGTAACTACAATATTATCTAAGTGCATAACTAGTAT
1 TACACCACATGATAAAAACAATATTTTCCAAGTGCATAACTAGTAT
35933300 TACACCACATGATAA
1 TACACCACATGATAA
35933315 CTAAAAATTA
Statistics
Matches: 90, Mismatches: 17, Indels: 16
0.73 0.14 0.13
Matches are distributed among these distances:
46 39 0.43
47 1 0.01
48 2 0.02
49 4 0.04
50 10 0.11
51 3 0.03
52 2 0.02
53 2 0.02
54 27 0.30
ACGTcount: A:0.44, C:0.17, G:0.09, T:0.30
Consensus pattern (46 bp):
TACACCACATGATAAAAACAATATTTTCCAAGTGCATAACTAGTAT
Found at i:35933238 original size:54 final size:54
Alignment explanation
Indices: 35933173--35933366 Score: 215
Period size: 54 Copynumber: 3.7 Consensus size: 54
35933163 TGATAAAAAC
* *
35933173 AATATTTTCCAAGTGCATAACTAGTATTACACCACATGATAACTAAAAATTAAT
1 AATATTATCCAAGTACATAACTAGTATTACACCACATGATAACTAAAAATTAAT
* * * * *
35933227 AATATTATCCAAGTACATAATTAGTAGTACACCATATGGTAAC-------T-AC
1 AATATTATCCAAGTACATAACTAGTATTACACCACATGATAACTAAAAATTAAT
* *
35933273 AATATTATCTAAGTGCATAACTAGTATTACACCACATGATAACTAAAAATTAAT
1 AATATTATCCAAGTACATAACTAGTATTACACCACATGATAACTAAAAATTAAT
*
35933327 AATATTATCCAAGTACATAATTAGTAGTACTACACCACAT
1 AATATTATCCAAGTACATAACTAGTA-T--TACACCACAT
35933367 TAAAGAATAT
Statistics
Matches: 112, Mismatches: 17, Indels: 19
0.76 0.11 0.13
Matches are distributed among these distances:
46 38 0.34
47 1 0.01
53 1 0.01
54 61 0.54
55 1 0.01
57 10 0.09
ACGTcount: A:0.44, C:0.17, G:0.08, T:0.31
Consensus pattern (54 bp):
AATATTATCCAAGTACATAACTAGTATTACACCACATGATAACTAAAAATTAAT
Found at i:35933318 original size:100 final size:100
Alignment explanation
Indices: 35933171--35933356 Score: 354
Period size: 100 Copynumber: 1.9 Consensus size: 100
35933161 CATGATAAAA
*
35933171 ACAATATTTTCCAAGTGCATAACTAGTATTACACCACATGATAACTAAAAATTAATAATATTATC
1 ACAATATTATCCAAGTGCATAACTAGTATTACACCACATGATAACTAAAAATTAATAATATTATC
35933236 CAAGTACATAATTAGTAGTACACCATATGGTAACT
66 CAAGTACATAATTAGTAGTACACCATATGGTAACT
*
35933271 ACAATATTATCTAAGTGCATAACTAGTATTACACCACATGATAACTAAAAATTAATAATATTATC
1 ACAATATTATCCAAGTGCATAACTAGTATTACACCACATGATAACTAAAAATTAATAATATTATC
35933336 CAAGTACATAATTAGTAGTAC
66 CAAGTACATAATTAGTAGTAC
35933357 TACACCACAT
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
100 84 1.00
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (100 bp):
ACAATATTATCCAAGTGCATAACTAGTATTACACCACATGATAACTAAAAATTAATAATATTATC
CAAGTACATAATTAGTAGTACACCATATGGTAACT
Found at i:35933382 original size:100 final size:98
Alignment explanation
Indices: 35933145--35933356 Score: 334
Period size: 100 Copynumber: 2.1 Consensus size: 98
35933135 TAATATTATA
* * * * *
35933145 AATTAGCAGTACACTACATGATAAAAACAATATTTTCCAAGTGCATAACTAGTATTACACCACAT
1 AATTAGTAGTACACCACATG-T-AACACAATATTATCTAAGTGCATAACTAGTATTACACCACAT
35933210 GATAACTAAAAATTAATAATATTATCCAAGTACAT
64 GATAACTAAAAATTAATAATATTATCCAAGTACAT
*
35933245 AATTAGTAGTACACCATATGGTAACTACAATATTATCTAAGTGCATAACTAGTATTACACCACAT
1 AATTAGTAGTACACCACAT-GTAAC-ACAATATTATCTAAGTGCATAACTAGTATTACACCACAT
35933310 GATAACTAAAAATTAATAATATTATCCAAGTACAT
64 GATAACTAAAAATTAATAATATTATCCAAGTACAT
35933345 AATTAGTAGTAC
1 AATTAGTAGTAC
35933357 TACACCACAT
Statistics
Matches: 104, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
99 2 0.02
100 101 0.97
101 1 0.01
ACGTcount: A:0.45, C:0.16, G:0.09, T:0.30
Consensus pattern (98 bp):
AATTAGTAGTACACCACATGTAACACAATATTATCTAAGTGCATAACTAGTATTACACCACATGA
TAACTAAAAATTAATAATATTATCCAAGTACAT
Found at i:35934352 original size:32 final size:32
Alignment explanation
Indices: 35934311--35934389 Score: 124
Period size: 32 Copynumber: 2.5 Consensus size: 32
35934301 TGTCAATCAT
35934311 TTCAATATCCAACAAGC-TTAAAACATAATAAA
1 TTCAATATCCAACAA-CTTTAAAACATAATAAA
*
35934343 TTCAATATCCAACAACTTTAAAACATAATAAT
1 TTCAATATCCAACAACTTTAAAACATAATAAA
*
35934375 TTCAAAATCCAACAA
1 TTCAATATCCAACAA
35934390 ATTAATTTCA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
31 1 0.02
32 43 0.98
ACGTcount: A:0.52, C:0.20, G:0.01, T:0.27
Consensus pattern (32 bp):
TTCAATATCCAACAACTTTAAAACATAATAAA
Found at i:35934388 original size:21 final size:21
Alignment explanation
Indices: 35934371--35934417 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 21
35934361 TAAAACATAA
35934371 TAATTTCAAAATCCAACAAAT
1 TAATTTCAAAATCCAACAAAT
*
35934392 TAATTTCAATATCCAACCAATAT
1 TAATTTCAAAATCCAA-CAA-AT
35934415 TAA
1 TAA
35934418 AAAAATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 15 0.65
22 3 0.13
23 5 0.22
ACGTcount: A:0.49, C:0.19, G:0.00, T:0.32
Consensus pattern (21 bp):
TAATTTCAAAATCCAACAAAT
Found at i:35946891 original size:19 final size:19
Alignment explanation
Indices: 35946854--35946892 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
35946844 TGTTGATAAC
*
35946854 AAGCACACCCTAGAAGAAG
1 AAGCACACCCAAGAAGAAG
* *
35946873 AAGCACATCCAAGATGAAG
1 AAGCACACCCAAGAAGAAG
35946892 A
1 A
35946893 GGAGAGGCTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.49, C:0.23, G:0.21, T:0.08
Consensus pattern (19 bp):
AAGCACACCCAAGAAGAAG
Found at i:35949496 original size:40 final size:40
Alignment explanation
Indices: 35949459--35949590 Score: 230
Period size: 40 Copynumber: 3.3 Consensus size: 40
35949449 GCTACTCGTT
* *
35949459 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
35949499 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
35949539 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
35949579 CAAATGCCTTCG
1 CAAATGCCTTCG
35949591 AATCTTAGTC
Statistics
Matches: 89, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
40 87 0.98
41 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:35949628 original size:80 final size:81
Alignment explanation
Indices: 35949459--35949644 Score: 236
Period size: 80 Copynumber: 2.3 Consensus size: 81
35949449 GCTACTCGTT
* *
35949459 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGAACTTAACCCG
* * *
35949523 GATTTAGTAACTCGCA
66 AATATAGTAACTAGCA
* **
35949539 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACAAATGCCTTC-GAATCTTAGTCC
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGAA-CTTAACCC
* *
35949602 GAATATGGTCACTTAGCA
65 GAATATAGTAAC-TAGCA
35949620 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
35949645 CATCATTCAA
Statistics
Matches: 92, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
79 2 0.02
80 80 0.87
81 10 0.11
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGAACTTAACCCG
AATATAGTAACTAGCA
Found at i:35951481 original size:15 final size:15
Alignment explanation
Indices: 35951461--35951489 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
35951451 ATTAAATTAG
35951461 GTATATATATAATAA
1 GTATATATATAATAA
35951476 GTATATATATAATA
1 GTATATATATAATA
35951490 TGATTTTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (15 bp):
GTATATATATAATAA
Found at i:35955890 original size:14 final size:14
Alignment explanation
Indices: 35955871--35955898 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
35955861 TCAGAACTCT
35955871 TGCTTATTGTCTAA
1 TGCTTATTGTCTAA
35955885 TGCTTATTGTCTAA
1 TGCTTATTGTCTAA
35955899 CTTTACTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.14, G:0.14, T:0.50
Consensus pattern (14 bp):
TGCTTATTGTCTAA
Found at i:35960017 original size:20 final size:20
Alignment explanation
Indices: 35959979--35960026 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
35959969 TAAATTCTAA
* **
35959979 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
35959999 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
35960019 AAA-ATAAA
1 AAAGATAAA
35960027 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:35960067 original size:15 final size:15
Alignment explanation
Indices: 35960047--35960078 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
35960037 TAAATAATCC
*
35960047 TAATAATTATCTTAA
1 TAATAATTATCCTAA
35960062 TAATAATTATCCTAA
1 TAATAATTATCCTAA
35960077 TA
1 TA
35960079 TAAATAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (15 bp):
TAATAATTATCCTAA
Found at i:35968280 original size:25 final size:25
Alignment explanation
Indices: 35968241--35968319 Score: 113
Period size: 25 Copynumber: 3.2 Consensus size: 25
35968231 TCATTAGGGT
*
35968241 TACCAATTTATAGCTTGTGAGAGCA
1 TACCGATTTATAGCTTGTGAGAGCA
* *
35968266 TACGGATTTATAGCTTGTAAGAGCA
1 TACCGATTTATAGCTTGTGAGAGCA
* *
35968291 TACCGATTCATAGCTCGTGAGAGCA
1 TACCGATTTATAGCTTGTGAGAGCA
35968316 TACC
1 TACC
35968320 AATCTTCAGC
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 47 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (25 bp):
TACCGATTTATAGCTTGTGAGAGCA
Found at i:35968330 original size:25 final size:25
Alignment explanation
Indices: 35968302--35968368 Score: 84
Period size: 25 Copynumber: 2.7 Consensus size: 25
35968292 ACCGATTCAT
35968302 AGCTCGTGA-GAGCATACCAATCTTC
1 AGCTCGT-ATGAGCATACCAATCTTC
**
35968327 AGCTCAAATGAGCATACCAAT-TTAC
1 AGCTCGTATGAGCATACCAATCTT-C
35968352 AGCTCGTATGAGCATAC
1 AGCTCGTATGAGCATAC
35968369 ATGTACATGA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
24 3 0.08
25 33 0.92
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (25 bp):
AGCTCGTATGAGCATACCAATCTTC
Found at i:35976787 original size:26 final size:26
Alignment explanation
Indices: 35976758--35976822 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
35976748 ATTTTAATCT
*
35976758 AATTTAATATAAAAATATTTATATTA-
1 AATTTAAT-TAAAAATAATTATATTAG
* *
35976784 AATTATATTTAATAATAATTATATTAG
1 AATT-TAATTAAAAATAATTATATTAG
*
35976811 AATATAATTAAA
1 AATTTAATTAAA
35976823 TTATTTTTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
26 25 0.81
27 6 0.19
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.45
Consensus pattern (26 bp):
AATTTAATTAAAAATAATTATATTAG
Found at i:35976804 original size:21 final size:20
Alignment explanation
Indices: 35976780--35976839 Score: 56
Period size: 21 Copynumber: 3.1 Consensus size: 20
35976770 AAATATTTAT
35976780 ATTAAATTATATTTAATAATA
1 ATTAAATTAT-TTTAATAATA
**
35976801 ATT--A-TATTAGAAT-ATA
1 ATTAAATTATTTTAATAATA
35976817 ATTAAATTATTTTTAATAATA
1 ATTAAATTA-TTTTAATAATA
35976838 AT
1 AT
35976840 CCTATTAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 10
0.68 0.09 0.23
Matches are distributed among these distances:
16 6 0.20
17 4 0.13
18 4 0.13
19 3 0.10
20 5 0.17
21 8 0.27
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (20 bp):
ATTAAATTATTTTAATAATA
Found at i:35976817 original size:16 final size:17
Alignment explanation
Indices: 35976784--35976825 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
35976774 ATTTATATTA
*
35976784 AATTATATT-TAATAAT
1 AATTATATTAGAATAAT
35976800 AATTATATTAGAAT-AT
1 AATTATATTAGAATAAT
*
35976816 AATTAAATTA
1 AATTATATTA
35976826 TTTTTAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 20 0.87
17 3 0.13
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (17 bp):
AATTATATTAGAATAAT
Found at i:35976846 original size:37 final size:37
Alignment explanation
Indices: 35976780--35976855 Score: 107
Period size: 37 Copynumber: 2.1 Consensus size: 37
35976770 AAATATTTAT
* *
35976780 ATTAAATTATATTTAATAATAATTATATTAGAATATA
1 ATTAAATTATATTTAATAATAATCATATTAAAATATA
* * *
35976817 ATTAAATTATTTTTAATAATAATCCTATTAAAATTTA
1 ATTAAATTATATTTAATAATAATCATATTAAAATATA
35976854 AT
1 AT
35976856 AATAATAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (37 bp):
ATTAAATTATATTTAATAATAATCATATTAAAATATA
Found at i:35980309 original size:4 final size:4
Alignment explanation
Indices: 35980300--35980351 Score: 104
Period size: 4 Copynumber: 13.0 Consensus size: 4
35980290 TGCTATTGAG
35980300 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
35980348 ATGT
1 ATGT
35980352 GCAGATTATG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 48 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:35987174 original size:15 final size:16
Alignment explanation
Indices: 35987154--35987186 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
35987144 ATATATACAT
35987154 AAAAGAAAAA-TTTTG
1 AAAAGAAAAACTTTTG
35987169 AAAAGAAAAACTTTTG
1 AAAAGAAAAACTTTTG
35987185 AA
1 AA
35987187 CCGACAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.61, C:0.03, G:0.12, T:0.24
Consensus pattern (16 bp):
AAAAGAAAAACTTTTG
Found at i:35993004 original size:14 final size:14
Alignment explanation
Indices: 35992985--35993011 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
35992975 GAAATTGGTT
35992985 TAAATTTGGAAGTC
1 TAAATTTGGAAGTC
35992999 TAAATTTGGAAGT
1 TAAATTTGGAAGT
35993012 TATGATAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.04, G:0.22, T:0.37
Consensus pattern (14 bp):
TAAATTTGGAAGTC
Found at i:36001625 original size:22 final size:21
Alignment explanation
Indices: 36001590--36001662 Score: 62
Period size: 22 Copynumber: 3.5 Consensus size: 21
36001580 AAAAGGTATC
* *
36001590 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
36001611 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
36001634 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
36001653 TGC-AATCATA
1 TACAAATCATA
36001663 ACTAAGATTG
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.42, C:0.16, G:0.07, T:0.34
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:36001633 original size:23 final size:22
Alignment explanation
Indices: 36001590--36001647 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
36001580 AAAAGGTATC
* *
36001590 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
36001611 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
36001634 TGCATATCATATCT
1 TACAAATCATATCT
36001648 AAGATTGCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:36001650 original size:19 final size:19
Alignment explanation
Indices: 36001626--36001748 Score: 195
Period size: 19 Copynumber: 6.8 Consensus size: 19
36001616 AATCATATCT
36001626 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
36001645 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
*
36001663 ACTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
36001680 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
36001699 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
36001717 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
36001734 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
36001749 TGAAGATTAT
Statistics
Matches: 96, Mismatches: 2, Indels: 12
0.87 0.02 0.11
Matches are distributed among these distances:
17 31 0.32
18 31 0.32
19 34 0.35
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:36001694 original size:54 final size:54
Alignment explanation
Indices: 36001626--36001748 Score: 237
Period size: 54 Copynumber: 2.3 Consensus size: 54
36001616 AATCATATCT
36001626 TCTAAGATTGCATATCATATCTAAGATTGCAATCATAACTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATAACTAAGATTGTATCATA
*
36001680 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATAACTAAGATTGTATCATA
36001734 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
36001749 TGAAGATTAT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
54 68 1.00
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (54 bp):
TCTAAGATTGCATATCATATCTAAGATTGCAATCATAACTAAGATTGTATCATA
Found at i:36001745 original size:35 final size:36
Alignment explanation
Indices: 36001626--36001745 Score: 181
Period size: 35 Copynumber: 3.3 Consensus size: 36
36001616 AATCATATCT
*
36001626 TCTAAGATTGCATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGCA-ATCATATCTAAGATTGCTATCATA
* *
36001663 ACTAAGATTG-TATCATATCTAAGATTGCATATCATA
1 TCTAAGATTGCAATCATATCTAAGATTGC-TATCATA
36001699 TCTAAGATTGCAATCATATCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATATCTAAGATTGCTATCATA
36001734 TCTAAGATTGCA
1 TCTAAGATTGCA
36001746 TATTGAAGAT
Statistics
Matches: 76, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
35 36 0.47
36 15 0.20
37 25 0.33
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.36
Consensus pattern (36 bp):
TCTAAGATTGCAATCATATCTAAGATTGCTATCATA
Found at i:36004932 original size:40 final size:40
Alignment explanation
Indices: 36004884--36004963 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
36004874 AAATTAGATA
36004884 AGAATGAATTATTAGTCTAATGGTTAAGTGATAATGGTTT
1 AGAATGAATTATTAGTCTAATGGTTAAGTGATAATGGTTT
36004924 AGAATGAATTATTAGTCTAATGGTTAAGTGATAATGGTTT
1 AGAATGAATTATTAGTCTAATGGTTAAGTGATAATGGTTT
36004964 CACCCTAGAG
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:0.35, C:0.03, G:0.23, T:0.40
Consensus pattern (40 bp):
AGAATGAATTATTAGTCTAATGGTTAAGTGATAATGGTTT
Found at i:36009319 original size:16 final size:13
Alignment explanation
Indices: 36009272--36009322 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 13
36009262 TAATTAGTAG
*
36009272 TATATAATA-AAA
1 TATATAATATGAA
36009284 TATATAATATGAA
1 TATATAATATGAA
36009297 TAGTATAATATTTAGAA
1 TA-TATAATA--T-GAA
36009314 TATATAATA
1 TATATAATA
36009323 ATATAAAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
12 9 0.27
13 4 0.12
14 7 0.21
16 8 0.24
17 5 0.15
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (13 bp):
TATATAATATGAA
Found at i:36009348 original size:15 final size:15
Alignment explanation
Indices: 36009281--36009359 Score: 65
Period size: 16 Copynumber: 5.2 Consensus size: 15
36009271 GTATATAATA
36009281 AAATATATAAT--AT
1 AAATATATAATAAAT
* **
36009294 GAATAGTATAATATTT
1 AAATA-TATAATAAAT
36009310 AGAATATATAATAATAT
1 A-AATATATAATAA-AT
*
36009327 AAA-ATATAGTAAAT
1 AAATATATAATAAAT
36009341 AAATATATAATATAAT
1 AAATATATAATA-AAT
36009357 AAA
1 AAA
36009360 AAATAAATAA
Statistics
Matches: 52, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
13 4 0.08
14 11 0.21
15 15 0.29
16 16 0.31
17 6 0.12
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (15 bp):
AAATATATAATAAAT
Found at i:36009363 original size:23 final size:22
Alignment explanation
Indices: 36009337--36009382 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 22
36009327 AAAATATAGT
36009337 AAATAAATATATAATATA-ATAAA
1 AAATAAATA-AT-ATATACATAAA
36009360 AAATAAATAATATATACATAAA
1 AAATAAATAATATATACATAAA
36009382 A
1 A
36009383 TATATTAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 5 0.23
22 8 0.36
23 9 0.41
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (22 bp):
AAATAAATAATATATACATAAA
Found at i:36010610 original size:48 final size:48
Alignment explanation
Indices: 36010548--36010658 Score: 190
Period size: 48 Copynumber: 2.4 Consensus size: 48
36010538 TTGTTTGGGT
36010548 TTGGG-TGTAA-CGGGTTAATAGATTTTGGGCCAAAGGTTTAAGCTAA
1 TTGGGTTGTAACCGGGTTAATAGATTTTGGGCCAAAGGTTTAAGCTAA
* *
36010594 TTGGGTTGTAACCGGGTTAATAGATTTTGGGCTAAAGGTTTAGGCTAA
1 TTGGGTTGTAACCGGGTTAATAGATTTTGGGCCAAAGGTTTAAGCTAA
36010642 TTGGGTTGTAACCGGGT
1 TTGGGTTGTAACCGGGT
36010659 GCTGGGTTTT
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
46 5 0.08
47 5 0.08
48 51 0.84
ACGTcount: A:0.24, C:0.09, G:0.32, T:0.34
Consensus pattern (48 bp):
TTGGGTTGTAACCGGGTTAATAGATTTTGGGCCAAAGGTTTAAGCTAA
Found at i:36011776 original size:27 final size:27
Alignment explanation
Indices: 36011729--36011832 Score: 124
Period size: 27 Copynumber: 3.9 Consensus size: 27
36011719 CGAGGCTGCT
*
36011729 AGATATTGTGAC-GAAGTCACCAGATAC
1 AGATATTGTGACAG-AGCCACCAGATAC
*
36011756 AGATATTGTGGCAGAGCCACCAGA-AC
1 AGATATTGTGACAGAGCCACCAGATAC
36011782 AGATATATGTGACAGAGCCACCAGAT-C
1 AGATAT-TGTGACAGAGCCACCAGATAC
* *
36011809 AGATAATTGTGGCATAGCCACCAG
1 AGAT-ATTGTGACAGAGCCACCAG
36011833 GACGCTTCCT
Statistics
Matches: 68, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
26 8 0.12
27 57 0.84
28 3 0.04
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (27 bp):
AGATATTGTGACAGAGCCACCAGATAC
Found at i:36011818 original size:54 final size:53
Alignment explanation
Indices: 36011729--36011832 Score: 149
Period size: 54 Copynumber: 1.9 Consensus size: 53
36011719 CGAGGCTGCT
*
36011729 AGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCAGAGCCACCAGAAC
1 AGATATTGTGACGAAGCCACCAGATACAGATATTGTGGCAGAGCCACCAGAAC
*
36011782 AGATATATGTGAC-AGAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAG
1 AGATAT-TGTGACGA-AGCCACCAGATACAGAT-ATTGTGGCAGAGCCACCAG
36011833 GACGCTTCCT
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
53 12 0.26
54 34 0.74
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (53 bp):
AGATATTGTGACGAAGCCACCAGATACAGATATTGTGGCAGAGCCACCAGAAC
Found at i:36011965 original size:26 final size:27
Alignment explanation
Indices: 36011936--36012011 Score: 82
Period size: 26 Copynumber: 2.8 Consensus size: 27
36011926 CAAAATTAAC
* *
36011936 CCTAGGGGTATAATGGTAATTTTGC-A
1 CCTAGGGGTATAATAGTAATTTTCCAA
* *
36011962 CCTAGGGTTATAACAGTAATTTTCCATA
1 CCTAGGGGTATAATAGTAATTTTCCA-A
* *
36011990 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATAATAGTAATTT
36012012 AGCTACTTTT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
26 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.37
Consensus pattern (27 bp):
CCTAGGGGTATAATAGTAATTTTCCAA
Found at i:36013489 original size:26 final size:26
Alignment explanation
Indices: 36013459--36013566 Score: 207
Period size: 26 Copynumber: 4.2 Consensus size: 26
36013449 TGAAATTCCC
36013459 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
36013485 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
36013511 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
36013537 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
36013563 ATCA
1 ATCA
36013567 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.36, C:0.27, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:36015812 original size:40 final size:40
Alignment explanation
Indices: 36015768--36015861 Score: 118
Period size: 40 Copynumber: 2.4 Consensus size: 40
36015758 CACCGGCCTA
* *
36015768 AAGCTTGCTAGGCACTGAGCCCGATA-AGTACACTGGCATG
1 AAGCTTGCTAGGCACTGAGCCCGATAGA-TACACTAGCACG
* * * *
36015808 AAGCTTACTAGGTATTTAGCCCGATAGATACACTAGCACG
1 AAGCTTGCTAGGCACTGAGCCCGATAGATACACTAGCACG
36015848 AAGCTTGCTAGGCA
1 AAGCTTGCTAGGCA
36015862 ACAAGGCCCC
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
40 44 0.98
41 1 0.02
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.22
Consensus pattern (40 bp):
AAGCTTGCTAGGCACTGAGCCCGATAGATACACTAGCACG
Found at i:36019871 original size:22 final size:23
Alignment explanation
Indices: 36019846--36019901 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 23
36019836 AAATTATTGT
36019846 TTATAAAATA-TAAAA-TTACTTA
1 TTATAAAATATTAAAATTTAC-TA
36019868 TTATATAAATAATTAAAATTTACTA
1 TTATA-AAAT-ATTAAAATTTACTA
36019893 TT-TAAAATA
1 TTATAAAATA
36019902 AAAGTAATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
22 6 0.20
23 8 0.27
24 3 0.10
25 9 0.30
26 4 0.13
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (23 bp):
TTATAAAATATTAAAATTTACTA
Found at i:36019886 original size:25 final size:23
Alignment explanation
Indices: 36019849--36019902 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 23
36019839 TTATTGTTTA
36019849 TAAAAT-A-TAAAA-TTACTTATT
1 TAAAATAATTAAAATTTAC-TATT
36019870 ATATAAATAATTAAAATTTACTATT
1 -TA-AAATAATTAAAATTTACTATT
36019895 TAAAATAA
1 TAAAATAA
36019903 AAGTAATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
22 2 0.07
23 10 0.36
24 3 0.11
25 9 0.32
26 4 0.14
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.41
Consensus pattern (23 bp):
TAAAATAATTAAAATTTACTATT
Found at i:36036548 original size:27 final size:27
Alignment explanation
Indices: 36036518--36036695 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
36036508 ATATTAAGTC
* * *
36036518 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
36036545 CGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
36036573 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
** * *
36036600 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
36036627 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* *
36036654 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
36036681 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
36036696 GTACAATTTA
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 105 0.80
28 26 0.20
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:36036602 original size:55 final size:54
Alignment explanation
Indices: 36036518--36036695 Score: 232
Period size: 54 Copynumber: 3.3 Consensus size: 54
36036508 ATATTAAGTC
* * *
36036518 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAA-T
* * * *
36036573 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
* ** *
36036627 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
36036681 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
36036696 GTACAATTTA
Statistics
Matches: 107, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
53 1 0.01
54 60 0.56
55 46 0.43
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:36036684 original size:81 final size:82
Alignment explanation
Indices: 36036539--36036694 Score: 235
Period size: 81 Copynumber: 1.9 Consensus size: 82
36036529 TGCTATATAA
* *
36036539 TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCTACATAGTCAACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
36036604 CACTTAGTGCCGCATGG
66 CACTTAGTGCCGCATGG
* * **
36036621 TCAATTCGCACACTTAGTG-CATCATATTC-ATTTCGCACACTTAGTGCAACATAGTCAAATCGC
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGC
36036684 ACACTTAGTGC
65 ACACTTAGTGC
36036695 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 43 0.64
82 24 0.36
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (82 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
CACTTAGTGCCGCATGG
Found at i:36044816 original size:27 final size:27
Alignment explanation
Indices: 36044786--36044963 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
36044776 ATATTAAGTC
* * *
36044786 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
36044813 CGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
36044841 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
** * *
36044868 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
36044895 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* *
36044922 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
36044949 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
36044964 GTACAATTTA
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 105 0.80
28 26 0.20
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:36044870 original size:55 final size:54
Alignment explanation
Indices: 36044786--36044963 Score: 232
Period size: 54 Copynumber: 3.3 Consensus size: 54
36044776 ATATTAAGTC
* * *
36044786 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAA-T
* * * *
36044841 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
* ** *
36044895 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
36044949 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
36044964 GTACAATTTA
Statistics
Matches: 107, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
53 1 0.01
54 60 0.56
55 46 0.43
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:36044952 original size:81 final size:82
Alignment explanation
Indices: 36044807--36044962 Score: 235
Period size: 81 Copynumber: 1.9 Consensus size: 82
36044797 TGCTATATAA
* *
36044807 TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCTACATAGTCAACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
36044872 CACTTAGTGCCGCATGG
66 CACTTAGTGCCGCATGG
* * **
36044889 TCAATTCGCACACTTAGTG-CATCATATTC-ATTTCGCACACTTAGTGCAACATAGTCAAATCGC
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGC
36044952 ACACTTAGTGC
65 ACACTTAGTGC
36044963 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 43 0.64
82 24 0.36
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (82 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
CACTTAGTGCCGCATGG
Found at i:36051586 original size:13 final size:13
Alignment explanation
Indices: 36051568--36051601 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
36051558 TTGGGATATC
36051568 AGAACAAAAATTA
1 AGAACAAAAATTA
*
36051581 AGAACACATAATTA
1 AGAACA-AAAATTA
36051595 AGAACAA
1 AGAACAA
36051602 GTTAAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.65, C:0.12, G:0.09, T:0.15
Consensus pattern (13 bp):
AGAACAAAAATTA
Found at i:36057772 original size:13 final size:13
Alignment explanation
Indices: 36057750--36057781 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
36057740 GAGATATCAA
36057750 AACAAGAATTAAG
1 AACAAGAATTAAG
*
36057763 AACAATAATTAAG
1 AACAAGAATTAAG
36057776 AACAAG
1 AACAAG
36057782 TTAAATATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.62, C:0.09, G:0.12, T:0.16
Consensus pattern (13 bp):
AACAAGAATTAAG
Found at i:36065880 original size:46 final size:46
Alignment explanation
Indices: 36065824--36065936 Score: 158
Period size: 46 Copynumber: 2.5 Consensus size: 46
36065814 TATTTGGGCA
* * *
36065824 TCCGAACTCGTTTAGTTGAGTCCGAGTTCACTTA-TGGATGCGAATG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTACT-GATGCGAACG
*
36065870 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTACTGATGCGAACG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTACTGATGCGAACG
36065916 -CCTGAGCTCGTTGAGTTGAGT
1 TCC-GAGCTCGTTGAGTTGAGT
36065937 TCGATCGTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
45 2 0.03
46 58 0.95
47 1 0.02
ACGTcount: A:0.19, C:0.20, G:0.28, T:0.32
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTACTGATGCGAACG
Found at i:36068787 original size:17 final size:19
Alignment explanation
Indices: 36068754--36068789 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
36068744 AAAGTTATGA
36068754 AAATGAGTAGAAAAATGTG
1 AAATGAGTAGAAAAATGTG
36068773 AAATGAG-AG-AAAATGTG
1 AAATGAGTAGAAAAATGTG
36068790 TAACACCCCG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
18 2 0.12
19 7 0.41
ACGTcount: A:0.53, C:0.00, G:0.28, T:0.19
Consensus pattern (19 bp):
AAATGAGTAGAAAAATGTG
Found at i:36070300 original size:39 final size:39
Alignment explanation
Indices: 36070242--36070342 Score: 107
Period size: 40 Copynumber: 2.6 Consensus size: 39
36070232 ACCCAATTAT
*
36070242 CTTCGGGAT-TTAGCCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCGGATATAACCACTAGCACAAAGGC
*** *
36070280 CTTCGGGTCTTAGTCCGGATATGGTCACTAGCACAAATGC
1 CTTCGGGTCTTAG-CCGGATATAACCACTAGCACAAAGGC
*
36070320 CTTCGGGACTTAGCCCGGATATA
1 CTTCGGGTCTTAG-CCGGATATA
36070343 GTAACTCACA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
37 1 0.02
38 11 0.21
39 16 0.31
40 24 0.46
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.25
Consensus pattern (39 bp):
CTTCGGGTCTTAGCCGGATATAACCACTAGCACAAAGGC
Found at i:36070332 original size:40 final size:41
Alignment explanation
Indices: 36070278--36070491 Score: 251
Period size: 40 Copynumber: 5.3 Consensus size: 41
36070268 CTCGCACAAG
* * * *
36070278 GCCTTCGGGTCTTAGTCCGGATA-TGGTCACTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATTAGTAACTAGCACAAAT
36070318 GCCTTCGGGACTTAGCCCGGATA-TAGTAACTCA-CACAAAT
1 GCCTTCGGGACTTAGCCCGGATATTAGTAACT-AGCACAAAT
* * *
36070358 GCCTTCGGGGCTTACCCCGGA-ATTAGTAACTCGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATTAGTAACTAGCACAAAT
* * *
36070398 GCCTTCGGGGCTTAGCCCGGA-ATTAGTAACTCGTACAAAT
1 GCCTTCGGGACTTAGCCCGGATATTAGTAACTAGCACAAAT
* * *
36070438 GCCTTCGGGACTTAGCCC-GAAATTAATCACTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATTAGTAACTAGCACAAAT
*
36070478 GTCTTCGGGACTTA
1 GCCTTCGGGACTTA
36070492 ACCCCGTTAG
Statistics
Matches: 155, Mismatches: 15, Indels: 8
0.87 0.08 0.04
Matches are distributed among these distances:
39 3 0.02
40 151 0.97
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (41 bp):
GCCTTCGGGACTTAGCCCGGATATTAGTAACTAGCACAAAT
Found at i:36070378 original size:80 final size:80
Alignment explanation
Indices: 36070242--36070491 Score: 292
Period size: 80 Copynumber: 3.1 Consensus size: 80
36070232 ACCCAATTAT
* *** * * * *
36070242 CTTCGGGATTTAG-CCGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAGTCCGG-ATATGG
1 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAG
36070304 TCACTAGCACAAATGC
65 TCACTAGCACAAATGC
* * *
36070320 CTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGGCTTACCCCGGAATTAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
* *
36070385 AACTCGCACAAATGC
66 CACTAGCACAAATGC
* * * *
36070400 CTTCGGGGCTTAGCCCGGA-ATTAGTAACTCGTACAAATGCCTTCGGGACTTAGCCCGAAATTAA
1 CTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG
*
36070464 TCACTAGCACAAATGT
65 TCACTAGCACAAATGC
36070480 CTTCGGGACTTA
1 CTTCGGGACTTA
36070492 ACCCCGTTAG
Statistics
Matches: 145, Mismatches: 23, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
78 12 0.08
79 17 0.12
80 114 0.79
81 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
CACTAGCACAAATGC
Found at i:36075583 original size:40 final size:40
Alignment explanation
Indices: 36075518--36075742 Score: 285
Period size: 40 Copynumber: 5.7 Consensus size: 40
36075508 GGATATAACC
* * * * * *
36075518 ACTCGCAC-AAGGCCTTCGGGTCTTAGTCCAG-ATATGGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
*
36075557 ACTAGCACAAATGCCTTCGGGACTTAGCCCGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
*
36075597 ACTCGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
36075637 ACTCGCACAAATGCCTTCGGGGCTTAGCCCGAAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
36075677 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAATC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
36075717 ACTAGCACAAATGTCTTCGGGACTTA
1 ACTCGCACAAATGCCTTCGGGACTTA
36075743 ACCCCGTTAG
Statistics
Matches: 168, Mismatches: 16, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
39 7 0.04
40 159 0.95
41 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:36081377 original size:27 final size:27
Alignment explanation
Indices: 36081340--36081544 Score: 259
Period size: 27 Copynumber: 7.6 Consensus size: 27
36081330 TAAATTGTAC
36081340 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
36081367 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
36081394 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
36081420 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
36081448 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
36081476 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
36081503 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
36081530 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
36081545 GACTCAATAT
Statistics
Matches: 156, Mismatches: 19, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
27 133 0.85
28 23 0.15
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:36081479 original size:109 final size:108
Alignment explanation
Indices: 36081341--36081544 Score: 320
Period size: 109 Copynumber: 1.9 Consensus size: 108
36081331 AAATTGTACA
* *
36081341 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGT
36081406 GCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
66 GCGAAATGAATAT-ATAGCACTAAGTGTGCGAATTGACCATGCG
*
36081449 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTG
** * *
36081514 TGCGAGTTGATTATATAGCACTGAGTGTGCG
65 TGCGAAATGAATATATAGCACTAAGTGTGCG
36081545 GACTCAATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
108 17 0.20
109 70 0.80
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (108 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGT
GCGAAATGAATATATAGCACTAAGTGTGCGAATTGACCATGCG
Found at i:36089450 original size:27 final size:27
Alignment explanation
Indices: 36089413--36089617 Score: 259
Period size: 27 Copynumber: 7.6 Consensus size: 27
36089403 TAAATTGTAC
36089413 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
36089440 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
36089467 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
36089493 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
36089521 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
36089549 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
36089576 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
36089603 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
36089618 GACTCAATAT
Statistics
Matches: 156, Mismatches: 19, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
27 133 0.85
28 23 0.15
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:36089552 original size:109 final size:108
Alignment explanation
Indices: 36089414--36089617 Score: 320
Period size: 109 Copynumber: 1.9 Consensus size: 108
36089404 AAATTGTACA
* *
36089414 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGT
36089479 GCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
66 GCGAAATGAATAT-ATAGCACTAAGTGTGCGAATTGACCATGCG
*
36089522 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTG
** * *
36089587 TGCGAGTTGATTATATAGCACTGAGTGTGCG
65 TGCGAAATGAATATATAGCACTAAGTGTGCG
36089618 GACTCAATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
108 17 0.20
109 70 0.80
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (108 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGT
GCGAAATGAATATATAGCACTAAGTGTGCGAATTGACCATGCG
Found at i:36095828 original size:77 final size:77
Alignment explanation
Indices: 36095738--36095905 Score: 255
Period size: 77 Copynumber: 2.2 Consensus size: 77
36095728 ATGGCCTGAC
*
36095738 ACACAGTCGTGTGGGACACACGGGCATATCCCAAGCTGTATTGATACATGGGATAAAAGCATATA
1 ACACAGTCGTGTGGGACACACGAGCATATCCCAAGCTGTATTGATACATGGGATAAAAGCATATA
36095803 CACGGTTAATAG
66 CACGGTTAATAG
* * * * * * *
36095815 ACACAGTCGTGTGGGATACACGAGCTTCTCCGAAGTTGTGTTGATACATGGGCTAAAAGCATATA
1 ACACAGTCGTGTGGGACACACGAGCATATCCCAAGCTGTATTGATACATGGGATAAAAGCATATA
36095880 CACGGTTAATAG
66 CACGGTTAATAG
*
36095892 ACACGGTCGTGTGG
1 ACACAGTCGTGTGG
36095906 CCCAACACGG
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
77 82 1.00
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (77 bp):
ACACAGTCGTGTGGGACACACGAGCATATCCCAAGCTGTATTGATACATGGGATAAAAGCATATA
CACGGTTAATAG
Found at i:36097965 original size:6 final size:6
Alignment explanation
Indices: 36097954--36098018 Score: 51
Period size: 6 Copynumber: 10.5 Consensus size: 6
36097944 TTCCATTTTA
* * * * *
36097954 TTTATT TTTATT TTTATT TTCAAT TGTAAT TTTATT TTTATT GTTAATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT -TTTATT
36098003 GTTT-TAT TTTATT TTT
1 -TTTAT-T TTTATT TTT
36098019 TAGACTTATA
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
6 38 0.79
7 10 0.21
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.74
Consensus pattern (6 bp):
TTTATT
Found at i:36097987 original size:24 final size:25
Alignment explanation
Indices: 36097959--36098018 Score: 79
Period size: 24 Copynumber: 2.4 Consensus size: 25
36097949 TTTTATTTAT
36097959 TTTTATTTTTATT-TTCAATTG-TAA
1 TTTTATTTTTATTGTT-AATTGTTAA
*
36097983 TTTTATTTTTATTGTTAATTGTTTTA
1 TTTTATTTTTATTGTTAATTG-TTAA
36098009 TTTTATTTTT
1 TTTTATTTTT
36098019 TAGACTTATA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 18 0.56
25 2 0.06
26 12 0.38
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.73
Consensus pattern (25 bp):
TTTTATTTTTATTGTTAATTGTTAA
Found at i:36110524 original size:40 final size:40
Alignment explanation
Indices: 36110469--36110593 Score: 173
Period size: 40 Copynumber: 3.1 Consensus size: 40
36110459 GCTTGCAATG
* * *
36110469 CATTGACTTGGTTATGTTACCGTAAGCATGTTAAGCATGC
1 CATTGAATTGATTATGTTACCATAAGCATGTTAAGCATGC
36110509 CATTGAATTGATTATGTTACCATAAGCATGTTAA-CTATGC
1 CATTGAATTGATTATGTTACCATAAGCATGTTAAGC-ATGC
* *
36110549 CATTGAATTGATTATGTTTCCATAAGCAT-ATAAGACATGC
1 CATTGAATTGATTATGTTACCATAAGCATGTTAAG-CATGC
36110589 CATTG
1 CATTG
36110594 TACTTAAATC
Statistics
Matches: 77, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.94
41 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (40 bp):
CATTGAATTGATTATGTTACCATAAGCATGTTAAGCATGC
Found at i:36111288 original size:50 final size:50
Alignment explanation
Indices: 36111233--36111340 Score: 189
Period size: 50 Copynumber: 2.2 Consensus size: 50
36111223 GGACTGTAAA
*
36111233 GCTTTATTTTGGACTATGGTTTATGGTTTTTGGATATGGTTTTTACGCAT
1 GCTTTATTTTGGACTATGGTTTATGGTTTTTAGATATGGTTTTTACGCAT
* *
36111283 GCTTTATTTTGGGCTATGGTTTATGGTTTTTAGATATGGTTTTTATGCAT
1 GCTTTATTTTGGACTATGGTTTATGGTTTTTAGATATGGTTTTTACGCAT
36111333 GCTTTATT
1 GCTTTATT
36111341 CAACACATTG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
50 55 1.00
ACGTcount: A:0.16, C:0.07, G:0.23, T:0.54
Consensus pattern (50 bp):
GCTTTATTTTGGACTATGGTTTATGGTTTTTAGATATGGTTTTTACGCAT
Found at i:36116952 original size:25 final size:25
Alignment explanation
Indices: 36116920--36117006 Score: 75
Period size: 25 Copynumber: 3.5 Consensus size: 25
36116910 AGCTATAAAC
* * *
36116920 GGGAAGCTCCTCCAAGCTGAATAAT
1 GGGAAGCTCATACAAGCTAAATAAT
*
36116945 GGGAAGCTCATACGAGCTAAATAAT
1 GGGAAGCTCATACAAGCTAAATAAT
* * * ** * *
36116970 GGAAAGATTATACAAGCTGTAGAAC
1 GGGAAGCTCATACAAGCTAAATAAT
36116995 GGGAAGCTCATA
1 GGGAAGCTCATA
36117007 AGAGATGAAA
Statistics
Matches: 47, Mismatches: 15, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
25 47 1.00
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.20
Consensus pattern (25 bp):
GGGAAGCTCATACAAGCTAAATAAT
Found at i:36126623 original size:44 final size:42
Alignment explanation
Indices: 36126549--36126647 Score: 112
Period size: 44 Copynumber: 2.3 Consensus size: 42
36126539 CAATATGTGT
**
36126549 TTTCGTGTAAGACCACGTTTGGGATGTTGGCATCGACT-TATGA
1 TTTCGTGTAAGACCACGTTTGGGACATTGGCATC-A-TATATGA
* *
36126592 TTTACGTGTAAGACCACGTCTT-GGACATTGGCTTCATATTTGA
1 TTT-CGTGTAAGACCACGT-TTGGGACATTGGCATCATATATGA
36126635 TTTCGTGTAAGAC
1 TTTCGTGTAAGAC
36126648 TCTGTCTGGG
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
42 11 0.22
43 11 0.22
44 25 0.51
45 2 0.04
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.36
Consensus pattern (42 bp):
TTTCGTGTAAGACCACGTTTGGGACATTGGCATCATATATGA
Found at i:36129352 original size:30 final size:30
Alignment explanation
Indices: 36129295--36129352 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
36129285 TTTTCGGGCT
* * * **
36129295 TAGGGGTAAAATGGTTATTTTGTCAAAGTC
1 TAGGGGCAAAATGGTCATTGTACCAAAGTC
36129325 TAGGGGCAAAATGGTCATTGTACCAAAG
1 TAGGGGCAAAATGGTCATTGTACCAAAG
36129353 ATAGAATTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.33, C:0.10, G:0.28, T:0.29
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTGTACCAAAGTC
Found at i:36129736 original size:46 final size:46
Alignment explanation
Indices: 36129683--36129847 Score: 154
Period size: 46 Copynumber: 3.5 Consensus size: 46
36129673 TGTGAGCTAG
* * **
36129683 TGTAAGACATGTATGGGACATGCATCGGCCACGTTATGAGAGCCAA
1 TGTAAGACATGTCTGGGACATGCATCGGACACGAGATGAGAGCCAA
* * * * *
36129729 TGTAAGACCATGTCTGGGACATGGCAT-TGACATTGAGATGAGTGCTAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGACA-CGAGATGAGAGCCAA
* * * *
36129777 TGTAAGACATGTCTGGGACATGCATCGGTCTCGAGACGTA-AGTCAA
1 TGTAAGACATGTCTGGGACATGCATCGGACACGAGATG-AGAGCCAA
*
36129823 TGTAAGACATGTTTGGGACATGCAT
1 TGTAAGACATGTCTGGGACATGCAT
36129848 TGGCTACGAA
Statistics
Matches: 95, Mismatches: 19, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
46 42 0.44
47 33 0.35
48 20 0.21
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.25
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCATCGGACACGAGATGAGAGCCAA
Found at i:36129906 original size:44 final size:43
Alignment explanation
Indices: 36129681--36129906 Score: 152
Period size: 46 Copynumber: 5.0 Consensus size: 43
36129671 ATTGTGAGCT
* *
36129681 AGTGTAAGACATGTATGGGACATGCATCGGCCACGTTATGAGA-GCC
1 AGTGTAAGACATGTATGGGACATGCATCGG-CACG--A-GATATGTC
* * * * *
36129727 AATGTAAGACCATGTCTGGGACATGGCATTGACATTGAGATGA-GTGC
1 AGTGTAAGA-CATGTATGGGACAT-GCATCGGCA-CGAGAT-ATGT-C
* * *
36129774 TAGTGTAAGACATGTCTGGGACATGCATCGGTCTCGAGACGTAAGTC
1 -AGTGTAAGACATGTATGGGACATGCATCGG-CACGAGA--TATGTC
* * * *
36129821 AATGTAAGACATGTTTGGGACATGCATTGGCTACGAAATATGTC
1 AGTGTAAGACATGTATGGGACATGCATCGGC-ACGAGATATGTC
*
36129865 AGTGTAAGACCATGTATGGGAGATGGCATCGGCAC-AGATATG
1 AGTGTAAGA-CATGTATGGGACAT-GCATCGGCACGAGATATG
36129907 CTAGAGCCTG
Statistics
Matches: 144, Mismatches: 23, Indels: 28
0.74 0.12 0.14
Matches are distributed among these distances:
44 19 0.13
45 17 0.12
46 58 0.40
47 33 0.23
48 17 0.12
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.25
Consensus pattern (43 bp):
AGTGTAAGACATGTATGGGACATGCATCGGCACGAGATATGTC
Found at i:36137354 original size:43 final size:42
Alignment explanation
Indices: 36137233--36137389 Score: 185
Period size: 43 Copynumber: 3.7 Consensus size: 42
36137223 TGTGTTTTCG
* *
36137233 TGTAAGAGCACGTCTGGGACGTTGGCATTG-ACTTATGATTTACA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGTA-TT-TGA-TTACA
* * * *
36137277 TGTAAGACCACATTTGGGACGTTGGCATCGTATTTGATTTCT
1 TGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGATTACA
36137319 TGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCG-TATTTGATTACA
36137362 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
36137390 TGTACGAGCT
Statistics
Matches: 97, Mismatches: 10, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
41 1 0.01
42 28 0.29
43 38 0.39
44 29 0.30
45 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.32
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGATTACA
Found at i:36148704 original size:12 final size:13
Alignment explanation
Indices: 36148687--36148715 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
36148677 CTCTTTCATT
36148687 ATTTAAAA-TATA
1 ATTTAAAACTATA
36148699 ATTTAAAACTATA
1 ATTTAAAACTATA
36148712 ATTT
1 ATTT
36148716 TACAAGGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (13 bp):
ATTTAAAACTATA
Found at i:36150309 original size:43 final size:41
Alignment explanation
Indices: 36150246--36150366 Score: 120
Period size: 43 Copynumber: 2.9 Consensus size: 41
36150236 AACTCGTACA
* * *
36150246 ATGCCATATCCCAGATATGGTCTTACATGT-TATCAAATATCG
1 ATGCCATGTCCCAGACATGGTCTTACACGTATATCAAAT-T-G
*
36150288 ATGCCACTGTCCCAGACATGGTCTTACACGTAATCTCAAATTG
1 ATGCCA-TGTCCCAGACATGGTCTTACACGT-ATATCAAATTG
* * *
36150331 ATTCTAATGTCCCAGACATGGTCTTCCACG-ATATCA
1 ATGC-CATGTCCCAGACATGGTCTTACACGTATATCA
36150367 CATCTCAGAA
Statistics
Matches: 67, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
41 5 0.07
42 6 0.09
43 47 0.70
44 2 0.03
45 7 0.10
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.31
Consensus pattern (41 bp):
ATGCCATGTCCCAGACATGGTCTTACACGTATATCAAATTG
Found at i:36153139 original size:17 final size:17
Alignment explanation
Indices: 36153117--36153150 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
36153107 TAATTATTAT
36153117 TAAATATAATTTAATAA
1 TAAATATAATTTAATAA
36153134 TAAATATAATTTAATAA
1 TAAATATAATTTAATAA
36153151 CATTCTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TAAATATAATTTAATAA
Found at i:36153165 original size:55 final size:57
Alignment explanation
Indices: 36153043--36153173 Score: 148
Period size: 58 Copynumber: 2.3 Consensus size: 57
36153033 TTATTAAATT
*
36153043 TTAATA-AGATTATTATTAAAAATAATTTAATAAAAATAATAAATAGTTTAACTATATT
1 TTAATATA-ATTATTATTAAAAATAATTTAATAAAAATAATAAATA-TTTAACTATATC
* *
36153101 TTAACATAATTATTATTAAATATAATTTAATAATAAAT-AT-AAT-TTAATAAC-AT-TC
1 TTAATATAATTATTATTAAAAATAATTTAATAA-AAATAATAAATATT--TAACTATATC
36153156 TTAATATAATTATTATTA
1 TTAATATAATTATTATTA
36153174 TATGAATTAA
Statistics
Matches: 65, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
55 20 0.31
56 2 0.03
57 7 0.11
58 31 0.48
59 5 0.08
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (57 bp):
TTAATATAATTATTATTAAAAATAATTTAATAAAAATAATAAATATTTAACTATATC
Found at i:36156075 original size:44 final size:44
Alignment explanation
Indices: 36156027--36156115 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
36156017 TCCTCTCTTC
36156027 TTCTATTTTCTTTTTCTCCTTCTTTTCTTCTCTAGCCGAAACAT
1 TTCTATTTTCTTTTTCTCCTTCTTTTCTTCTCTAGCCGAAACAT
* *
36156071 TTCTATTTTCTTTTTCTCCTTCTTTTCTTCTCTATCTGAAACAT
1 TTCTATTTTCTTTTTCTCCTTCTTTTCTTCTCTAGCCGAAACAT
36156115 T
1 T
36156116 CCTACCATTC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.13, C:0.26, G:0.03, T:0.57
Consensus pattern (44 bp):
TTCTATTTTCTTTTTCTCCTTCTTTTCTTCTCTAGCCGAAACAT
Found at i:36167742 original size:44 final size:41
Alignment explanation
Indices: 36167706--36167784 Score: 117
Period size: 39 Copynumber: 2.0 Consensus size: 41
36167696 TAAATGCAGA
36167706 ACACATATTAATGATGTTCAAACCATGACATAATT-AA-AG
1 ACACATATTAATGATGTTCAAACCATGACATAATTAAATAG
* **
36167745 ACTCATATTAATGATGTTCAAATTATGACATAATTAAATA
1 ACACATATTAATGATGTTCAAACCATGACATAATTAAATA
36167785 TACAAACTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
39 32 0.91
40 2 0.06
41 1 0.03
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.33
Consensus pattern (41 bp):
ACACATATTAATGATGTTCAAACCATGACATAATTAAATAG
Found at i:36171272 original size:5 final size:5
Alignment explanation
Indices: 36171258--36171296 Score: 60
Period size: 5 Copynumber: 7.6 Consensus size: 5
36171248 TGAGGTGAGT
*
36171258 ATTGA TATTGA ATTGA ATGGA ATTGA ATTGA ATTGA ATT
1 ATTGA -ATTGA ATTGA ATTGA ATTGA ATTGA ATTGA ATT
36171297 ATGAATTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 26 0.84
6 5 0.16
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (5 bp):
ATTGA
Found at i:36173620 original size:40 final size:40
Alignment explanation
Indices: 36173576--36173803 Score: 361
Period size: 40 Copynumber: 5.7 Consensus size: 40
36173566 GCTACTAGCT
36173576 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
36173616 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
36173656 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * * *
36173696 CAACTGCCTTCAGGACTTAGCCCGGATATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
36173736 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
36173775 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
36173804 CAATCCGAAT
Statistics
Matches: 172, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
38 1 0.01
39 33 0.19
40 137 0.80
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:36180396 original size:8 final size:9
Alignment explanation
Indices: 36180373--36180407 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
36180363 TTTTTCTATC
*
36180373 TCTTTTTCT
1 TCTTTTTCA
36180382 TCTTTTTCA
1 TCTTTTTCA
36180391 TCTTTTTCA
1 TCTTTTTCA
36180400 TCTTTTTC
1 TCTTTTTC
36180408 TTCTCTCACT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.06, C:0.23, G:0.00, T:0.71
Consensus pattern (9 bp):
TCTTTTTCA
Found at i:36182808 original size:27 final size:27
Alignment explanation
Indices: 36182773--36182827 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
36182763 CAAAAAGATG
36182773 TAAAAATTAATAAAAGTATCAAAAGTT
1 TAAAAATTAATAAAAGTATCAAAAGTT
36182800 TAAAAATTAATAAAAGTATCAAAAGTT
1 TAAAAATTAATAAAAGTATCAAAAGTT
36182827 T
1 T
36182828 TCTTAACCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.58, C:0.04, G:0.07, T:0.31
Consensus pattern (27 bp):
TAAAAATTAATAAAAGTATCAAAAGTT
Found at i:36188338 original size:44 final size:39
Alignment explanation
Indices: 36188302--36188384 Score: 148
Period size: 39 Copynumber: 2.1 Consensus size: 39
36188292 TAAATGCAAA
36188302 ACACATATTAATGATGTTCAAACCATGACATAATTAAAG
1 ACACATATTAATGATGTTCAAACCATGACATAATTAAAG
* *
36188341 ACTCATATTAATGATGTTCAAACTATGACATAATTAAAG
1 ACACATATTAATGATGTTCAAACCATGACATAATTAAAG
36188380 ACACA
1 ACACA
36188385 AACTAAAATA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.46, C:0.16, G:0.10, T:0.29
Consensus pattern (39 bp):
ACACATATTAATGATGTTCAAACCATGACATAATTAAAG
Found at i:36191869 original size:56 final size:56
Alignment explanation
Indices: 36191783--36191899 Score: 225
Period size: 56 Copynumber: 2.1 Consensus size: 56
36191773 ATATGGATGT
36191783 ATGCTAATTACTCGGTAAGTTTACTTTCCAGTTATTTGAGCTTACTAAGCATAAAA
1 ATGCTAATTACTCGGTAAGTTTACTTTCCAGTTATTTGAGCTTACTAAGCATAAAA
*
36191839 ATGCTAATTACTCGGTAAGTTTACTTTCCAGTTATTTGAGCTTACTAAGCATGAAA
1 ATGCTAATTACTCGGTAAGTTTACTTTCCAGTTATTTGAGCTTACTAAGCATAAAA
36191895 ATGCT
1 ATGCT
36191900 TACCCCCTCT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 60 1.00
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (56 bp):
ATGCTAATTACTCGGTAAGTTTACTTTCCAGTTATTTGAGCTTACTAAGCATAAAA
Found at i:36198832 original size:19 final size:18
Alignment explanation
Indices: 36198791--36198835 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
36198781 ATTACTATTA
36198791 AAATA-TAAATTTATATG
1 AAATATTAAATTTATATG
36198808 AAATATTAAATTTCATGAT-
1 AAATATTAAATTT-AT-ATG
36198827 AAATATTAA
1 AAATATTAA
36198836 TATAATTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.20
18 7 0.28
19 11 0.44
20 2 0.08
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.40
Consensus pattern (18 bp):
AAATATTAAATTTATATG
Found at i:36206191 original size:3 final size:3
Alignment explanation
Indices: 36206183--36206227 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
36206173 GTATATACAT
* * *
36206183 ATA ATA ATA ATG ATG ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
36206228 TGAAAATATA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:36207424 original size:17 final size:17
Alignment explanation
Indices: 36207402--36207435 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
36207392 GACGGGTTAT
36207402 TGGGTTGTTTGGTTTAG
1 TGGGTTGTTTGGTTTAG
36207419 TGGGTTGTTTGGTTTAG
1 TGGGTTGTTTGGTTTAG
36207436 GGCCCAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.06, C:0.00, G:0.41, T:0.53
Consensus pattern (17 bp):
TGGGTTGTTTGGTTTAG
Found at i:36208199 original size:72 final size:72
Alignment explanation
Indices: 36208101--36208252 Score: 193
Period size: 72 Copynumber: 2.1 Consensus size: 72
36208091 TGAAACTTAA
** * ** *
36208101 TTTGAAAAGCAGATTTTGAAAATACCTCAAT-G-AGTCTTGAGGCTCAACTCATTTCTCGCAATA
1 TTTGAAAAGCAGAAATTGAAAATACCTC-ATCGTA-TCCTGAGGCTCAACTCACCTCTAGCAATA
36208164 TGAGTTGAAT
64 TGAGTTG-AT
*
36208174 TTTGAAAA-CAGAAATTGAAATTACCTCATCGTATCCTGAGGCTCAACTCACCTCTAGCAATATG
1 TTTGAAAAGCAGAAATTGAAAATACCTCATCGTATCCTGAGGCTCAACTCACCTCTAGCAATATG
36208238 AGTTGAT
66 AGTTGAT
36208245 TTTGAAAA
1 TTTGAAAA
36208253 AGTAGGAATT
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
71 12 0.17
72 49 0.70
73 9 0.13
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (72 bp):
TTTGAAAAGCAGAAATTGAAAATACCTCATCGTATCCTGAGGCTCAACTCACCTCTAGCAATATG
AGTTGAT
Found at i:36208329 original size:127 final size:127
Alignment explanation
Indices: 36208154--36208634 Score: 912
Period size: 127 Copynumber: 3.8 Consensus size: 127
36208144 TCAACTCATT
*
36208154 TCTCGCAATATGAGTTGAATT-TTGA-AAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCT
1 TCTCGCAATATAAGTTG-ATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCT
36208217 CAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGGTTCAACCCACC
65 CAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGGTTCAACCCACC
*
36208280 TCTCGCAATATAAGTTGATTCTTGACAGACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTC
1 TCTCGCAATATAAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTC
36208345 AACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGGTTCAACCCACC
66 AACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGGTTCAACCCACC
36208407 TCTCGCAATATAAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTC
1 TCTCGCAATATAAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTC
36208472 AACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGGTTCAACCCACC
66 AACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGGTTCAACCCACC
*
36208534 TCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTC
1 TCTCGCAATATAAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTC
36208599 AACTCACCTCTAGCAATATGAGTTGATTTTGAAAAA
66 AACTCACCTCTAGCAATATGAGTTGATTTTGAAAAA
36208635 CAAAAATGAA
Statistics
Matches: 349, Mismatches: 4, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
125 3 0.01
126 20 0.06
127 326 0.93
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (127 bp):
TCTCGCAATATAAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTC
AACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGGTTCAACCCACC
Found at i:36219311 original size:23 final size:23
Alignment explanation
Indices: 36219281--36219324 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
36219271 AATGCTATGC
36219281 ACAAATAGATATATACATATATA
1 ACAAATAGATATATACATATATA
36219304 ACAAATAGATATATACATATA
1 ACAAATAGATATATACATATA
36219325 ACAATGACGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.57, C:0.09, G:0.05, T:0.30
Consensus pattern (23 bp):
ACAAATAGATATATACATATATA
Found at i:36219598 original size:3 final size:3
Alignment explanation
Indices: 36219590--36219634 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
36219580 GTATATACAT
* * *
36219590 ATA ATA ATA ATG ATG ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
36219635 TGAAAATATA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:36220833 original size:17 final size:17
Alignment explanation
Indices: 36220811--36220844 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
36220801 GACGGGTTAT
*
36220811 TGGGTTGTTTGGTTTAG
1 TGGGTTGCTTGGTTTAG
36220828 TGGGTTGCTTGGTTTAG
1 TGGGTTGCTTGGTTTAG
36220845 GGCCCAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.06, C:0.03, G:0.41, T:0.50
Consensus pattern (17 bp):
TGGGTTGCTTGGTTTAG
Found at i:36227794 original size:15 final size:15
Alignment explanation
Indices: 36227774--36227845 Score: 50
Period size: 14 Copynumber: 5.1 Consensus size: 15
36227764 ATAATATAAT
36227774 TATTTTTATATTAAA
1 TATTTTTATATTAAA
36227789 TA--TTT-TA--AAA
1 TATTTTTATATTAAA
*
36227799 TA-TTTTATTTTAAA
1 TATTTTTATATTAAA
*
36227813 TTATATTTTGAAATTAAA
1 -TAT-TTTT-ATATTAAA
36227831 TATTTTT-TATTAAA
1 TATTTTTATATTAAA
36227845 T
1 T
36227846 TATATTAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 17
0.68 0.06 0.26
Matches are distributed among these distances:
10 5 0.11
11 3 0.07
12 3 0.07
13 3 0.07
14 10 0.22
15 4 0.09
16 4 0.09
17 7 0.16
18 6 0.13
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (15 bp):
TATTTTTATATTAAA
Found at i:36227815 original size:29 final size:33
Alignment explanation
Indices: 36227749--36227815 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 33
36227739 TATAATTATC
*
36227749 ATTAAATATAATTTAATAATATAATTATTTTTAT
1 ATTAAATAT-ATTTAATAATATAATTATTTTTAA
*
36227783 ATTAAATAT-TTTAA-AATAT-TTTA-TTTTAA
1 ATTAAATATATTTAATAATATAATTATTTTTAA
36227812 ATTA
1 ATTA
36227816 TATTTTGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
29 9 0.29
30 3 0.10
31 5 0.16
32 5 0.16
34 9 0.29
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (33 bp):
ATTAAATATATTTAATAATATAATTATTTTTAA
Found at i:36228237 original size:44 final size:44
Alignment explanation
Indices: 36228187--36228270 Score: 150
Period size: 44 Copynumber: 1.9 Consensus size: 44
36228177 AATTTTAAAC
* *
36228187 TAAATTATAATTATTTTTAAATGTGTAATTATTACAACTTCTAT
1 TAAATTATAATTATTTTTAAATGTATAATTATCACAACTTCTAT
36228231 TAAATTATAATTATTTTTAAATGTATAATTATCACAACTT
1 TAAATTATAATTATTTTTAAATGTATAATTATCACAACTT
36228271 ATATATAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.49
Consensus pattern (44 bp):
TAAATTATAATTATTTTTAAATGTATAATTATCACAACTTCTAT
Found at i:36229454 original size:7 final size:7
Alignment explanation
Indices: 36229442--36229469 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
36229432 ATCAAGGGAC
36229442 TATACAT
1 TATACAT
36229449 TATACAT
1 TATACAT
36229456 TATACAT
1 TATACAT
36229463 TATACAT
1 TATACAT
36229470 ATGAAATGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (7 bp):
TATACAT
Found at i:36233238 original size:43 final size:43
Alignment explanation
Indices: 36233173--36233331 Score: 160
Period size: 43 Copynumber: 3.7 Consensus size: 43
36233163 GGAATTAAGA
* * *
36233173 AATTCGAGCTCGTTGAGCGGTCCGAGTTCATGATATAGGTGAG
1 AATTCGAGCTCGTTGAGTGGTCCAAGTTCATGATATATGTGAG
* * *
36233216 AATTCGAACTTGTTGAGTGGTCCAAGTTCGTGATATATGTG-G
1 AATTCGAGCTCGTTGAGTGGTCCAAGTTCATGATATATGTGAG
* * * *** * *
36233258 CATCCGAGCTCCTTGAGTGGTTTGAGTTCATTATAGATGTGAG
1 AATTCGAGCTCGTTGAGTGGTCCAAGTTCATGATATATGTGAG
*
36233301 CA-TCTGAGCTCGTTGAGTGGTCCAAGTTCAT
1 AATTC-GAGCTCGTTGAGTGGTCCAAGTTCAT
36233332 AATGGACGTG
Statistics
Matches: 92, Mismatches: 22, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
42 32 0.35
43 60 0.65
ACGTcount: A:0.22, C:0.16, G:0.29, T:0.33
Consensus pattern (43 bp):
AATTCGAGCTCGTTGAGTGGTCCAAGTTCATGATATATGTGAG
Found at i:36236069 original size:45 final size:45
Alignment explanation
Indices: 36235959--36236265 Score: 417
Period size: 45 Copynumber: 6.9 Consensus size: 45
36235949 TCGAATTCAT
* * * *
36235959 TCACCGGCATT-TCGCCTGCTAGGCTC-GAGGCTCG-ATA-TCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT-ATC
* * **
36236001 TGACCAGCATTATAGTTTGCTAGGCTCGAAA-GCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTC-AAAGGCCCGAATAGTATC
* *
36236046 TCATCGGCATTGTAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
**
36236091 TCACTAGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* *
36236136 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCAAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* *
36236181 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
36236226 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
36236266 ATCAAATCCA
Statistics
Matches: 234, Mismatches: 25, Indels: 9
0.87 0.09 0.03
Matches are distributed among these distances:
42 9 0.04
43 12 0.05
44 7 0.03
45 205 0.88
46 1 0.00
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:36238815 original size:45 final size:45
Alignment explanation
Indices: 36238747--36238836 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
36238737 TAGCCAACAC
*
36238747 TTAGGCTATTCTCCAAGCTTTATGTTGTCCTTAATTCTCTCCCAT
1 TTAGGCTATTCTCCAAGCCTTATGTTGTCCTTAATTCTCTCCCAT
*
36238792 TTAGGCTATTTTCCAAGCCTTATGTTGTCCTTAATTCTCTCCCAT
1 TTAGGCTATTCTCCAAGCCTTATGTTGTCCTTAATTCTCTCCCAT
36238837 GCTTATTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.18, C:0.27, G:0.11, T:0.44
Consensus pattern (45 bp):
TTAGGCTATTCTCCAAGCCTTATGTTGTCCTTAATTCTCTCCCAT
Found at i:36240090 original size:16 final size:16
Alignment explanation
Indices: 36240071--36240102 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
36240061 AATTGTTTTA
36240071 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
36240087 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
36240103 ACTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:36240367 original size:50 final size:50
Alignment explanation
Indices: 36240302--36240689 Score: 431
Period size: 50 Copynumber: 7.7 Consensus size: 50
36240292 ATCGAAGCTC
* *
36240302 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
* * * * *
36240352 TCTGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACGTAACCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
* * ** *
36240402 TCTGATACACGTAGTAGCCTGCACTTAATACTACACATGTGATCAAAGTTAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGA-CCTA-TCAA
* * *
36240454 -CAGGTACACGTAGTAGCCTGCACGTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
* ** * * * *
36240503 TCTGGTACACGTAGTAGCCTGCATTTAGTACTACACACATAACTTAACCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
* * ** *
36240553 TCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGA-CCTA-TCAA
* ** * *
36240605 -CAGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTA-CAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
36240653 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
36240690 CGTGGCTCAC
Statistics
Matches: 275, Mismatches: 57, Indels: 13
0.80 0.17 0.04
Matches are distributed among these distances:
48 2 0.01
49 35 0.13
50 162 0.59
51 74 0.27
52 2 0.01
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (50 bp):
TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
Found at i:36240506 original size:101 final size:100
Alignment explanation
Indices: 36240313--36240691 Score: 343
Period size: 101 Copynumber: 3.8 Consensus size: 100
36240303 CTGGTACGCA
** * *
36240313 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACGTAGTAGCCTACACTT
1 TAGTAGCCTGCACTTAGTACTACACATGTGACAAATCAATCAGGTACACGTAGTAGCCTACACGT
* * *
36240378 AGTACTACACACGTGACGTAACCATCTGATACACG
66 AGTACTACACACGCGACCTAACAATCTGATACACG
* * *
36240413 TAGTAGCCTGCACTTAATACTACACATGTGATCAAAGTTAA-CAGGTACACGTAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CAAA-TCAATCAGGTACACGTAGTAGCCTACAC
* * *
36240477 GTAGTACTACACATGCGACCTATCAATCTGGTACACG
64 GTAGTACTACACACGCGACCTAACAATCTGATACACG
* ** * * * * * * *
36240514 TAGTAGCCTGCATTTAGTACTACACACATAACTTAA-CCATCTGATACACGTAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACATGTGAC-AAATCAATCAGGTACACGTAGTAGCCTACACG
* * * * * * ** *
36240578 TAGTACTACACACGTGATCGAAGTTAA-CAGGTATGCA
65 TAGTACTACACACGCGACCTAA--CAATCTGATACACG
* ** * * *
36240615 TAGTAGCCTGCACTTAGTACTACACATGCGACCTA-CAATCTGGTACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACATGTGACAAATCAATCAGGTACACGTAGTAGCCTACACGT
36240679 AGTACTACACACG
66 AGTACTACACACG
36240692 TGGCTCACAA
Statistics
Matches: 230, Mismatches: 43, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
99 1 0.00
100 110 0.48
101 114 0.50
102 5 0.02
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (100 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACAAATCAATCAGGTACACGTAGTAGCCTACACGT
AGTACTACACACGCGACCTAACAATCTGATACACG
Found at i:36240579 original size:151 final size:151
Alignment explanation
Indices: 36240305--36240690 Score: 639
Period size: 151 Copynumber: 2.6 Consensus size: 151
36240295 GAAGCTCTCT
* *
36240305 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACGTAGTAGC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
* * *
36240370 CTACACTTAGTACTACACACGTGACGTAACCATCTGATACACGTAGTAGCCTGCACTTAATACTA
66 CTGCACTTAGTACTACACACATAACGTAACCATCTGATACACGTAGTAGCCTGCACTTAATACTA
*
36240435 CACATGTGATCAAAGTTAACA
131 CACACGTGATCAAAGTTAACA
* *
36240456 GGTACACGTAGTAGCCTGCACGTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
* * *
36240521 CTGCATTTAGTACTACACACATAACTTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
66 CTGCACTTAGTACTACACACATAACGTAACCATCTGATACACGTAGTAGCCTGCACTTAATACTA
*
36240586 CACACGTGATCGAAGTTAACA
131 CACACGTGATCAAAGTTAACA
**
36240607 GGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTA-CAATCTGGTACACGTAGTAGC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
36240671 CTGCACTTAGTACTACACAC
66 CTGCACTTAGTACTACACAC
36240691 GTGGCTCACA
Statistics
Matches: 218, Mismatches: 17, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
150 40 0.18
151 178 0.82
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (151 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
CTGCACTTAGTACTACACACATAACGTAACCATCTGATACACGTAGTAGCCTGCACTTAATACTA
CACACGTGATCAAAGTTAACA
Found at i:36241071 original size:19 final size:20
Alignment explanation
Indices: 36241043--36241089 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
36241033 AAGAACATGT
36241043 TATATCATCAAAATAATCACA
1 TATAT-ATCAAAATAATCACA
* *
36241064 TA-ATATCAAATTATTCACA
1 TATATATCAAAATAATCACA
36241083 TATATAT
1 TATATAT
36241090 ATACTTACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
TATATATCAAAATAATCACA
Found at i:36241362 original size:30 final size:30
Alignment explanation
Indices: 36241305--36241363 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
36241295 CAAAAATCAT
* *
36241305 ACTTTTACAAATTTACATTTTGACCCCTAA
1 ACTTTCACAAATTTACACTTTGACCCCTAA
* * *
36241335 ACTTTCACATATTTGCACTTTGGCCCCTA
1 ACTTTCACAAATTTACACTTTGACCCCTA
36241364 GGCTCGTAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.27, C:0.27, G:0.07, T:0.39
Consensus pattern (30 bp):
ACTTTCACAAATTTACACTTTGACCCCTAA
Found at i:36246098 original size:47 final size:46
Alignment explanation
Indices: 36246011--36246119 Score: 137
Period size: 47 Copynumber: 2.3 Consensus size: 46
36246001 AAAGCTATAG
* * * *
36246011 CCCAGCCATGGTCTTACAAGGATCACATATCACATTGATGCCATAT
1 CCCAGACATGGTCTTACAAGAAGCACATATCACACTGATGCCATAT
** * *
36246057 CCCAGATGTGGTCTTACACAGAAGCTCATATCACACTGATGCCATGT
1 CCCAGACATGGTCTTACA-AGAAGCACATATCACACTGATGCCATAT
36246104 CCCAGACATGGTCTTA
1 CCCAGACATGGTCTTA
36246120 TACGGGAACA
Statistics
Matches: 52, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
46 15 0.29
47 37 0.71
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (46 bp):
CCCAGACATGGTCTTACAAGAAGCACATATCACACTGATGCCATAT
Found at i:36247176 original size:40 final size:40
Alignment explanation
Indices: 36247132--36247219 Score: 167
Period size: 40 Copynumber: 2.2 Consensus size: 40
36247122 GTCCAACCCA
*
36247132 TATTATTTTGGGCAAAATTGCTCTTTAAGTCTCTCTTATT
1 TATTATTTTGGGAAAAATTGCTCTTTAAGTCTCTCTTATT
36247172 TATTATTTTGGGAAAAATTGCTCTTTAAGTCTCTCTTATT
1 TATTATTTTGGGAAAAATTGCTCTTTAAGTCTCTCTTATT
36247212 TATTATTT
1 TATTATTT
36247220 AAGTCATTTA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.24, C:0.12, G:0.11, T:0.52
Consensus pattern (40 bp):
TATTATTTTGGGAAAAATTGCTCTTTAAGTCTCTCTTATT
Found at i:36253097 original size:24 final size:23
Alignment explanation
Indices: 36253059--36253104 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
36253049 TGTGGAATTG
36253059 GAAAAAAACGTAAAAAAATTTCT
1 GAAAAAAACGTAAAAAAATTTCT
36253082 GAAAAAAACGTAAAAAAATTTCT
1 GAAAAAAACGTAAAAAAATTTCT
36253105 ATCTTTCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.61, C:0.09, G:0.09, T:0.22
Consensus pattern (23 bp):
GAAAAAAACGTAAAAAAATTTCT
Found at i:36257544 original size:71 final size:67
Alignment explanation
Indices: 36257465--36257602 Score: 186
Period size: 67 Copynumber: 2.0 Consensus size: 67
36257455 TCACTAGATA
* * *
36257465 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGCGAAGCCACCAGATTGCAGCGA
1 CAGATATTGTGACGAAGCCACCAGAACAG----ATATATGTGGCGAAGCCACCAGATTGCAGCGA
36257530 GGCTGC
62 GGCTGC
* * *
36257536 CAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCACCAGATTGTAGCGAGGCT
1 CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCT
36257601 GC
66 GC
36257603 TAGAACGCTT
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
67 36 0.59
71 25 0.41
ACGTcount: A:0.30, C:0.22, G:0.29, T:0.20
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCT
GC
Found at i:36257584 original size:27 final size:26
Alignment explanation
Indices: 36257536--36257587 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
36257526 GCGAGGCTGC
*
36257536 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
36257562 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
36257588 TTGTAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:36258259 original size:27 final size:27
Alignment explanation
Indices: 36258229--36258433 Score: 284
Period size: 27 Copynumber: 7.6 Consensus size: 27
36258219 GGGGAAAAAT
* * * *
36258229 GGTAATTTTACCCTATAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
36258256 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
36258283 GATAATTCTATCCTACAGGGTTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
36258310 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
36258337 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
36258364 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** * *
36258391 AATAATTCTACCTTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
36258418 GGTAATTCTACCCTAC
1 GGTAATTCTACCCTAC
36258434 TGACCCATTG
Statistics
Matches: 158, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 158 1.00
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:36258339 original size:81 final size:81
Alignment explanation
Indices: 36258230--36258433 Score: 327
Period size: 81 Copynumber: 2.5 Consensus size: 81
36258220 GGGAAAAATG
* * * * *
36258230 GTAATTTTACCCTATAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTATC
1 GTAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACC
*
36258295 CTACAGGGTTATTTCA
66 CTACAGGGGTATTTCA
*
36258311 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACC
1 GTAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACC
36258376 CTACAGGGGTATTTCA
66 CTACAGGGGTATTTCA
* *
36258392 ATAATTCTACCTTATAGGGGTATTTCGGTAATTCTACCCTAC
1 GTAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCCTAC
36258434 TGACCCATTG
Statistics
Matches: 113, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 113 1.00
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (81 bp):
GTAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACC
CTACAGGGGTATTTCA
Found at i:36260464 original size:37 final size:37
Alignment explanation
Indices: 36260406--36260550 Score: 236
Period size: 37 Copynumber: 3.9 Consensus size: 37
36260396 TAGCTCGAAT
* *
36260406 AATCCCCACACGTAGTTATCGGGTCTTACCCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
36260443 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
* * *
36260480 AATCTCCACACATAGTTATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
*
36260517 AATCTCCACACGTAGTCATCAGGTCTTACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
36260551 ATATATTTCC
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 100 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.23
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
Found at i:36260743 original size:48 final size:48
Alignment explanation
Indices: 36260683--36260980 Score: 497
Period size: 48 Copynumber: 6.2 Consensus size: 48
36260673 CGGCCACAAT
* *
36260683 ATATACACATCTCATACATATTTCACATTAGCCATTCGGCTTTACAAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
*
36260731 ATATACATATCTCATACATATTTCACATTAGCCATTCGGATTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* **
36260779 ATATATATATCTCATACATATTTCATGTTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
36260827 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* *
36260875 ATATATATATCTCATACATATTTCATATTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
*
36260923 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* *
36260971 ACATATATAT
1 ATATACATAT
36260981 ATTTATCTTG
Statistics
Matches: 233, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 233 1.00
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.36
Consensus pattern (48 bp):
ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
Found at i:36269043 original size:27 final size:26
Alignment explanation
Indices: 36268995--36269046 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
36268985 GCGAGGCTGC
*
36268995 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
36269021 CAGATATTTGTGGCGAGGCCACCAGA
1 CAGATA-TTGTGACGAAGCCACCAGA
36269047 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.33, C:0.21, G:0.27, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:36269673 original size:26 final size:27
Alignment explanation
Indices: 36269644--36269697 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
36269634 TCACACAAGT
*
36269644 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
36269670 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
36269697 T
1 T
36269698 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:36269728 original size:27 final size:27
Alignment explanation
Indices: 36269698--36269870 Score: 247
Period size: 27 Copynumber: 6.4 Consensus size: 27
36269688 GGGGCAAAAT
* * * *
36269698 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
36269725 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
36269752 GGTATTTCTAACCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
36269779 GGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
36269806 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
36269833 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
36269860 GGTAATTCTAC
1 GGTAATTCTAC
36269871 AACTTATCCA
Statistics
Matches: 129, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 129 1.00
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:36272263 original size:12 final size:12
Alignment explanation
Indices: 36272246--36272272 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
36272236 GTGCATCAAA
36272246 TTCGATTCATTT
1 TTCGATTCATTT
36272258 TTCGATTCATTT
1 TTCGATTCATTT
36272270 TTC
1 TTC
36272273 ACATACTCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.19, G:0.07, T:0.59
Consensus pattern (12 bp):
TTCGATTCATTT
Found at i:36275751 original size:46 final size:46
Alignment explanation
Indices: 36275701--36275873 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
36275691 TGGTTGAGCA
36275701 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
36275747 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
36275792 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
36275840 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
36275874 GGGGCGGGTT
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:36275857 original size:93 final size:93
Alignment explanation
Indices: 36275698--36275868 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
36275688 GGATGGTTGA
* *
36275698 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
36275763 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
36275791 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
36275856 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
36275869 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:36283291 original size:46 final size:46
Alignment explanation
Indices: 36283235--36283360 Score: 225
Period size: 46 Copynumber: 2.7 Consensus size: 46
36283225 TGGTTGAGCA
*
36283235 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
36283281 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
36283327 GCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
36283361 GGGGCGGGTT
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:36293340 original size:29 final size:29
Alignment explanation
Indices: 36293311--36293426 Score: 123
Period size: 29 Copynumber: 4.1 Consensus size: 29
36293301 ATAATGTGAT
36293311 TTGGGCCGGATGGGCCATA-GAAATGAGA
1 TTGGGCCGGATGGGCCATATGAAATGAGA
** *
36293339 TTGGGCCTAATGGGCCATATG-AATGTGAA
1 TTGGGCCGGATGGGCCATATGAAATGAG-A
* *
36293368 TTGGGCCTGATGGGCCATATGAACGTGA-A
1 TTGGGCCGGATGGGCCATATGAA-ATGAGA
* *
36293397 TTGGGTCGGATGGGCTATAT-AAATGAGA
1 TTGGGCCGGATGGGCCATATGAAATGAGA
36293425 TT
1 TT
36293427 AGACCTAGTG
Statistics
Matches: 73, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
27 3 0.04
28 27 0.37
29 40 0.55
30 1 0.01
31 2 0.03
ACGTcount: A:0.27, C:0.13, G:0.34, T:0.26
Consensus pattern (29 bp):
TTGGGCCGGATGGGCCATATGAAATGAGA
Done.