Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 208 of 226
Found at i:62170723 original size:22 final size:23
Alignment explanation
Indices: 62170670--62170725 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
62170660 CCCGTTTTTA
* * *
62170670 ATTAAAATTAAAATTATTTTTTT
1 ATTAAAATTAAAACTATATTGTT
*
62170693 AATAAAATTAAAACTA-ATTGTT
1 ATTAAAATTAAAACTATATTGTT
62170715 ATTAAAATTAA
1 ATTAAAATTAA
62170726 TTGTTAGTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
ATTAAAATTAAAACTATATTGTT
Found at i:62170738 original size:16 final size:16
Alignment explanation
Indices: 62170701--62170740 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
62170691 TTAATAAAAT
* *
62170701 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
62170717 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
62170733 TAAAATTA
1 TAAAATTA
62170741 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:62170819 original size:59 final size:59
Alignment explanation
Indices: 62170751--62170896 Score: 249
Period size: 59 Copynumber: 2.5 Consensus size: 59
62170741 TCAAATTATT
*
62170751 AATTGTTAATTGTATTAATTGT-TGTAATAAAATCTAACATTTGACTACTAAATTTATCA
1 AATTATTAATTGTATTAATTGTAT-TAATAAAATCTAACATTTGACTACTAAATTTATCA
* *
62170810 AATTATTAATTGTATTAATTGTATTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTATTAATAAAATCTAACATTTGACTACTAAATTTATCA
62170869 AATTATTAATTGTATTAATTGTATTAAT
1 AATTATTAATTGTATTAATTGTATTAAT
62170897 TGTTGTAACA
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
59 82 0.99
60 1 0.01
ACGTcount: A:0.40, C:0.05, G:0.08, T:0.47
Consensus pattern (59 bp):
AATTATTAATTGTATTAATTGTATTAATAAAATCTAACATTTGACTACTAAATTTATCA
Found at i:62170825 original size:9 final size:9
Alignment explanation
Indices: 62170813--62170837 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
62170803 TTTATCAAAT
62170813 TATTAATTG
1 TATTAATTG
62170822 TATTAATTG
1 TATTAATTG
62170831 TATTAAT
1 TATTAAT
62170838 AAAATCTAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (9 bp):
TATTAATTG
Found at i:62170872 original size:68 final size:68
Alignment explanation
Indices: 62170804--62170929 Score: 202
Period size: 68 Copynumber: 1.9 Consensus size: 68
62170794 ACTACTAAAT
*
62170804 TTATCAAAT-TATTAATTGTATTAATTGTAT-TAATAAAATCTAACATTTGATTAGTAAATTTAT
1 TTATCAAATGTATTAATTGTATTAATTGT-TGTAACAAAATCTAACATTTGATTAGTAAATTTAT
62170867 CAAA
65 CAAA
* *
62170871 TTATTAATTGTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAA
1 TTATCAAATGTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAA
62170930 ACAAACTTGA
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
67 8 0.15
68 46 0.85
ACGTcount: A:0.41, C:0.06, G:0.08, T:0.45
Consensus pattern (68 bp):
TTATCAAATGTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAATTTATC
AAA
Found at i:62170884 original size:9 final size:9
Alignment explanation
Indices: 62170872--62170899 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
62170862 TTTATCAAAT
62170872 TATTAATTG
1 TATTAATTG
62170881 TATTAATTG
1 TATTAATTG
62170890 TATTAATTG
1 TATTAATTG
62170899 T
1 T
62170900 TGTAACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:62171035 original size:22 final size:24
Alignment explanation
Indices: 62170995--62171038 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
62170985 AAATAAACTT
62170995 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAACTATTATATTTTA
62171019 AAAATAAAAAA-TA-TATATTT
1 AAAATAAAAAACTATTATATTT
62171039 AATATTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 2 0.10
24 11 0.55
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
AAAATAAAAAACTATTATATTTTA
Found at i:62173133 original size:64 final size:64
Alignment explanation
Indices: 62173006--62173135 Score: 206
Period size: 64 Copynumber: 2.0 Consensus size: 64
62172996 CAATCCGTTC
* * *
62173006 TCCTTTAATCCTCAACATTTATTGGGGTAGGATTGTATGAGACAGTAACGTTACATGAATTGTA
1 TCCTTTAATCCTCAACATTTATTGGGATAGGATTGTATGAGACAGTAACATTACATCAATTGTA
* * *
62173070 TCCTTTAATCCTCAACATTTATTTGGATAGGATTGTATGAGACAGTAACATTACGTCATTTGTA
1 TCCTTTAATCCTCAACATTTATTGGGATAGGATTGTATGAGACAGTAACATTACATCAATTGTA
62173134 TC
1 TC
62173136 ATTTTTCCAA
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (64 bp):
TCCTTTAATCCTCAACATTTATTGGGATAGGATTGTATGAGACAGTAACATTACATCAATTGTA
Found at i:62174665 original size:17 final size:17
Alignment explanation
Indices: 62174636--62174671 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
62174626 AATCTTATTT
62174636 AAAATGAAAATTATAAA
1 AAAATGAAAATTATAAA
62174653 AAAAT-AAATATTATAAA
1 AAAATGAAA-ATTATAAA
62174670 AA
1 AA
62174672 TAGATGTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 3 0.17
17 15 0.83
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (17 bp):
AAAATGAAAATTATAAA
Found at i:62175062 original size:22 final size:23
Alignment explanation
Indices: 62175034--62175104 Score: 72
Period size: 23 Copynumber: 3.1 Consensus size: 23
62175024 TTTATATTAT
*
62175034 TTTTTTTGGTTTAAAT-AAAATA
1 TTTTTTTAGTTTAAATAAAAATA
* * *
62175056 TTTTTTTATTTTTATTAAAAATA
1 TTTTTTTAGTTTAAATAAAAATA
* * *
62175079 TTTTTTTATTTTTATTAAAAATA
1 TTTTTTTAGTTTAAATAAAAATA
62175102 TTT
1 TTT
62175105 AAATATAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
22 12 0.27
23 32 0.73
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (23 bp):
TTTTTTTAGTTTAAATAAAAATA
Found at i:62175069 original size:23 final size:24
Alignment explanation
Indices: 62175043--62175104 Score: 85
Period size: 23 Copynumber: 2.7 Consensus size: 24
62175033 TTTTTTTTGG
62175043 TTTAAAT-AAAATATTTTTTTATT
1 TTTAAATAAAAATATTTTTTTATT
*
62175066 TTT-ATTAAAAATATTTTTTTATT
1 TTTAAATAAAAATATTTTTTTATT
*
62175089 TTT-ATTAAAAATATTT
1 TTTAAATAAAAATATTT
62175105 AAATATAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
22 2 0.05
23 35 0.95
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (24 bp):
TTTAAATAAAAATATTTTTTTATT
Found at i:62175497 original size:34 final size:34
Alignment explanation
Indices: 62175454--62175524 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
62175444 ACTTAACCTT
*
62175454 TTTTAGGGGGTTTTGTAATATAAATAACTTCATA
1 TTTTAGGGGGTTTTCTAATATAAATAACTTCATA
62175488 TTTTAGGGGGTTTTCTAATATAAATAACTTCATA
1 TTTTAGGGGGTTTTCTAATATAAATAACTTCATA
62175522 TTT
1 TTT
62175525 ATGTAATGAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.31, C:0.07, G:0.15, T:0.46
Consensus pattern (34 bp):
TTTTAGGGGGTTTTCTAATATAAATAACTTCATA
Found at i:62176025 original size:27 final size:27
Alignment explanation
Indices: 62175961--62176026 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
62175951 GCTGTGGGCC
62175961 CCACCATTGGCGTCTCTCAACATGGCA
1 CCACCATTGGCGTCTCTCAACATGGCA
* * * *
62175988 CAACTAGTGGCGTCTCTCAA-ATAGGCT
1 CCACCATTGGCGTCTCTCAACAT-GGCA
62176015 CCACCATTGGCG
1 CCACCATTGGCG
62176027 CCTTTGAGAT
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
26 2 0.06
27 29 0.94
ACGTcount: A:0.23, C:0.33, G:0.21, T:0.23
Consensus pattern (27 bp):
CCACCATTGGCGTCTCTCAACATGGCA
Found at i:62176167 original size:49 final size:51
Alignment explanation
Indices: 62176113--62176220 Score: 164
Period size: 51 Copynumber: 2.1 Consensus size: 51
62176103 TTATTAAAAG
*
62176113 AAAAAAA-TTAATATAAAAAATTCATTGGCGTCTATCAGATAGGCGCCATT
1 AAAAAAATTTAATATAAAAAATTCATTGGCGCCTATCAGATAGGCGCCATT
* * * *
62176163 AAAAAAATTTAATATAAAATATTCATTGGTGCCTTTCAGATAGGCTCCATT
1 AAAAAAATTTAATATAAAAAATTCATTGGCGCCTATCAGATAGGCGCCATT
62176214 AAAAAAA
1 AAAAAAA
62176221 ATATCATTTC
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
50 7 0.13
51 45 0.87
ACGTcount: A:0.45, C:0.13, G:0.12, T:0.30
Consensus pattern (51 bp):
AAAAAAATTTAATATAAAAAATTCATTGGCGCCTATCAGATAGGCGCCATT
Found at i:62179717 original size:23 final size:22
Alignment explanation
Indices: 62179691--62179740 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
62179681 TTAAATTATA
* * *
62179691 AAAAATAAATATATTTTTTTGGT
1 AAAAACAAATATA-CTTTTTAGT
*
62179714 AAAAACAATTATACTTTTTAGT
1 AAAAACAAATATACTTTTTAGT
62179736 AAAAA
1 AAAAA
62179741 AGAATTTTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.50, C:0.04, G:0.06, T:0.40
Consensus pattern (22 bp):
AAAAACAAATATACTTTTTAGT
Found at i:62180768 original size:16 final size:17
Alignment explanation
Indices: 62180745--62180789 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
62180735 AATGCTTCAA
* *
62180745 TCTCTCCTTTCCCTTTC
1 TCTCTCCTTCCCCTCTC
62180762 T-TCTCCTTCCCCTCTC
1 TCTCTCCTTCCCCTCTC
*
62180778 TCTCTCCCTCCC
1 TCTCTCCTTCCC
62180790 TTCCATAACC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 14 0.58
17 10 0.42
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (17 bp):
TCTCTCCTTCCCCTCTC
Found at i:62186129 original size:25 final size:25
Alignment explanation
Indices: 62186101--62186150 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
62186091 CCTATATTGT
* *
62186101 TTTTATTTTGTTTTATTTTTATTCA
1 TTTTATTTTATTTTATTATTATTCA
*
62186126 TTTTATTTTATTTTCTTATTATTCA
1 TTTTATTTTATTTTATTATTATTCA
62186151 ATCCCTTGAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.18, C:0.06, G:0.02, T:0.74
Consensus pattern (25 bp):
TTTTATTTTATTTTATTATTATTCA
Found at i:62186497 original size:25 final size:25
Alignment explanation
Indices: 62186464--62186512 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
62186454 TTTTTGAGTT
* *
62186464 ATCATTGTCATTCTCATTATTATTC
1 ATCAATGTCATTATCATTATTATTC
62186489 ATCAATGTCATTATCATTATTATT
1 ATCAATGTCATTATCATTATTATT
62186513 ATAGCTGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.29, C:0.16, G:0.04, T:0.51
Consensus pattern (25 bp):
ATCAATGTCATTATCATTATTATTC
Found at i:62186591 original size:16 final size:17
Alignment explanation
Indices: 62186555--62186601 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
62186545 CCATCGCTAC
*
62186555 TATTATTTTATTTCT--
1 TATTATTTTATTTGTAA
62186570 TATTA-TTTATTTGTAA
1 TATTATTTTATTTGTAA
62186586 TATTATTTTATTTGTA
1 TATTATTTTATTTGTA
62186602 CTCATATAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 8 0.29
15 5 0.18
16 5 0.18
17 10 0.36
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (17 bp):
TATTATTTTATTTGTAA
Found at i:62189981 original size:91 final size:92
Alignment explanation
Indices: 62189858--62190050 Score: 273
Period size: 91 Copynumber: 2.1 Consensus size: 92
62189848 TTGATTTTAG
* *
62189858 TAAATTCATATAAGAACATTTTATTATTAAGAAATTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAACAATTTATTATCAAGAAATTTATGAAATTATATATCACTATTAAATTAT
* * *
62189923 ATTTAAT-ATTAATTATTTTAAATTGTA
66 ATGTAATAATT-ATCATTTTAAATTATA
* * * *
62189950 TAAATTCATATTAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTAT
1 TAAATTCATATAAGAACAATTTATTATCAAGAAATTTATGAAATTATATATCACTATTAAATTAT
62190014 ATGTAATAATTATCATTTTAAATTATA
66 ATGTAATAATTATCATTTTAAATTATA
*
62190041 CAAATTCATA
1 TAAATTCATA
62190051 AAATATAATT
Statistics
Matches: 90, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
91 72 0.80
92 18 0.20
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (92 bp):
TAAATTCATATAAGAACAATTTATTATCAAGAAATTTATGAAATTATATATCACTATTAAATTAT
ATGTAATAATTATCATTTTAAATTATA
Found at i:62190099 original size:28 final size:27
Alignment explanation
Indices: 62190068--62190143 Score: 68
Period size: 28 Copynumber: 2.8 Consensus size: 27
62190058 ATTTATTAGT
62190068 TATAATTATTTTAAATTTTATTAAATCA
1 TATAATTATTTTAAATTTTATTAAAT-A
* * *
62190096 TAT-ATT-TTAATTAAAATATATTTAATA
1 TATAATTATT--TTAAATTTTATTAAATA
*
62190123 T-TAATTATTTCAAATTTTATT
1 TATAATTATTTTAAATTTTATT
62190144 TTATAGTATC
Statistics
Matches: 38, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
26 12 0.32
27 8 0.21
28 18 0.47
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (27 bp):
TATAATTATTTTAAATTTTATTAAATA
Found at i:62190235 original size:18 final size:17
Alignment explanation
Indices: 62190202--62190255 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 17
62190192 ATTATTAAGA
62190202 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
62190219 ATTTTAATT--ATAATAT
1 ATTTT-ATTAAATTATAT
*
62190235 ATTTAATT-AATT-TAT
1 ATTTTATTAAATTATAT
62190250 ATTTTA
1 ATTTTA
62190256 CAGTATCATA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
15 11 0.35
16 12 0.39
17 5 0.16
18 3 0.10
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:62190244 original size:33 final size:33
Alignment explanation
Indices: 62190189--62190359 Score: 93
Period size: 33 Copynumber: 4.8 Consensus size: 33
62190179 TATAAGAATA
* *
62190189 TTAATTATTAAGA-ATTTTATTAAATTATATATT
1 TTAATTA-TAATATATTTAATTAAATTATATATT
62190222 TTAATTATAATATATTTAATT-AATT-TATATT
1 TTAATTATAATATATTTAATTAAATTATATATT
* *
62190253 TTACAGTATCATATATTATGGTTTGAA-TAAATTCATATAAGAATA
1 TTA-A-T-T-ATA-A-TAT-ATTT-AATTAAATT-ATAT----ATT
*
62190298 TTAATTATTAAGA-A-TTATATTAAATTATATATT
1 TTAATTA-TAATATATTTA-ATTAAATTATATATT
*
62190331 TTAATTATAATATATTTAATAATAATTAT
1 TTAATTATAATATATTTAATTA-AATTAT
62190360 GTTTAAATAT
Statistics
Matches: 107, Mismatches: 9, Indels: 43
0.67 0.06 0.27
Matches are distributed among these distances:
31 9 0.08
32 13 0.12
33 28 0.26
34 10 0.09
35 3 0.03
36 2 0.02
37 10 0.09
38 10 0.09
39 6 0.06
40 1 0.01
41 5 0.05
42 3 0.03
43 1 0.01
44 1 0.01
45 5 0.05
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (33 bp):
TTAATTATAATATATTTAATTAAATTATATATT
Found at i:62190266 original size:109 final size:108
Alignment explanation
Indices: 62190135--62190350 Score: 387
Period size: 109 Copynumber: 2.0 Consensus size: 108
62190125 AATTATTTCA
* *
62190135 AATTTTATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAA
1 AATTTTATTTTACAGTATCATATATTATGATTTGAATAAATTCATATAAGAATATTAATTATTAA
*
62190200 GAATTTTATTAAATTATATATTTTAATTATAATATATTTAATT
66 GAATTATATTAAATTATATATTTTAATTATAATATATTTAATT
*
62190243 AATTTATATTTTACAGTATCATATATTATGGTTTGAATAAATTCATATAAGAATATTAATTATTA
1 AATTT-TATTTTACAGTATCATATATTATGATTTGAATAAATTCATATAAGAATATTAATTATTA
62190308 AGAATTATATTAAATTATATATTTTAATTATAATATATTTAAT
65 AGAATTATATTAAATTATATATTTTAATTATAATATATTTAAT
62190351 AATAATTATG
Statistics
Matches: 103, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
108 5 0.05
109 98 0.95
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.50
Consensus pattern (108 bp):
AATTTTATTTTACAGTATCATATATTATGATTTGAATAAATTCATATAAGAATATTAATTATTAA
GAATTATATTAAATTATATATTTTAATTATAATATATTTAATT
Found at i:62190345 original size:16 final size:16
Alignment explanation
Indices: 62190324--62190365 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
62190314 ATATTAAATT
*
62190324 ATATATTTTAATTATA
1 ATATATTTTAATAATA
62190340 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
62190355 AT-TATGTTTAA
1 ATATAT-TTTAA
62190366 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:62190380 original size:109 final size:109
Alignment explanation
Indices: 62190150--62190380 Score: 342
Period size: 109 Copynumber: 2.1 Consensus size: 109
62190140 TATTTTATAG
* * *
62190150 TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 TATCATAAATTATGATTTGAATAAATTCATATAAGAATATTAATTATTAAGAATTATATTAAATT
* *
62190215 ATATATTTTAATTATAATATATTTAATTAATTTATATTTTACAG
66 ATATATTTTAATTATAATATATTTAATTAATTTATAGTTTACAA
* *
62190259 TATCATATATTATGGTTTGAATAAATTCATATAAGAATATTAATTATTAAGAATTATATTAAATT
1 TATCATAAATTATGATTTGAATAAATTCATATAAGAATATTAATTATTAAGAATTATATTAAATT
62190324 ATATATTTTAATTATAATATATTTAA-TAATAATTAT-GTTTA-AA
66 ATATATTTTAATTATAATATATTTAATTAAT--TTATAGTTTACAA
*
62190367 TATGATTAAATTAT
1 TATCA-TAAATTAT
62190381 TTATTATTGA
Statistics
Matches: 112, Mismatches: 7, Indels: 6
0.90 0.06 0.05
Matches are distributed among these distances:
108 9 0.08
109 99 0.88
110 4 0.04
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (109 bp):
TATCATAAATTATGATTTGAATAAATTCATATAAGAATATTAATTATTAAGAATTATATTAAATT
ATATATTTTAATTATAATATATTTAATTAATTTATAGTTTACAA
Found at i:62190496 original size:18 final size:17
Alignment explanation
Indices: 62190468--62190502 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
62190458 ATTATTAAGA
*
62190468 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
62190485 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
62190503 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:62190536 original size:75 final size:75
Alignment explanation
Indices: 62190300--62190538 Score: 191
Period size: 75 Copynumber: 3.1 Consensus size: 75
62190290 TAAGAATATT
*
62190300 AATTATTAAGAATTATATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTATATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
62190365 AATATGATTA
66 AATATGATTA
* ** * * * *
62190375 AATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATA-A--CAATAATAATT
1 AATTATTAAGAATT-ATATT-A-AA--TTA-TATATTTTAATTAA-AATATATTTAATAATAATT
**** * * *
62190437 -TACCAAAACAAAT-TTCTGCT
59 AT-GTTTAA-ATATGAT-T--A
*
62190457 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTATATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
62190522 AATATGATTA
66 AATATGATTA
62190532 AATTATT
1 AATTATT
62190539 TATTATTGAT
Statistics
Matches: 117, Mismatches: 30, Indels: 34
0.65 0.17 0.19
Matches are distributed among these distances:
75 22 0.19
76 17 0.15
77 8 0.07
78 16 0.14
79 16 0.14
80 8 0.07
81 15 0.13
82 15 0.13
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.46
Consensus pattern (75 bp):
AATTATTAAGAATTATATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
AATATGATTA
Found at i:62190606 original size:157 final size:157
Alignment explanation
Indices: 62190299--62190615 Score: 589
Period size: 157 Copynumber: 2.0 Consensus size: 157
62190289 ATAAGAATAT
*
62190299 TAATTATTAAGAATTATATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTATATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
*
62190364 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
62190429 TAATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTATGC
*
62190456 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTATATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
62190521 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
62190586 TAATTATTTACCAAAACAAATTTATGC
131 TAATAATTTACCAAAACAAATTTATGC
62190613 TAA
1 TAA
62190616 GGGTATTCTA
Statistics
Matches: 155, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
157 155 1.00
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTATATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:62190752 original size:45 final size:44
Alignment explanation
Indices: 62190663--62190757 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
62190653 TTACACCTCT
*
62190663 ATTACATTCAACCAAACACAGGATTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACACAGGATTACTATTACACCTCTATTCC
*** *
62190707 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACACAGGA-TTACTATTACACCTCTATTCC
62190752 ATTACA
1 ATTACA
62190758 CCTCTATTCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 20 0.44
45 25 0.56
ACGTcount: A:0.34, C:0.27, G:0.06, T:0.33
Consensus pattern (44 bp):
ATTACATTCAACCAAACACAGGATTACTATTACACCTCTATTCC
Found at i:62190757 original size:16 final size:16
Alignment explanation
Indices: 62190736--62190789 Score: 90
Period size: 16 Copynumber: 3.4 Consensus size: 16
62190726 TTGATTTGCT
62190736 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
62190752 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
62190768 ATTACACCTCTAATCC
1 ATTACACCTCTATTCC
*
62190784 AATACA
1 ATTACA
62190790 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.31, C:0.35, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:62191032 original size:19 final size:20
Alignment explanation
Indices: 62190988--62191033 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
62190978 ACAAGTAAAT
*
62190988 TTAATAATTAATAATTTTAA
1 TTAATATTTAATAATTTTAA
**
62191008 AAAATATTTAATAA-TTTAA
1 TTAATATTTAATAATTTTAA
62191027 TTAATAT
1 TTAATAT
62191034 AGTTTTAATT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
TTAATATTTAATAATTTTAA
Found at i:62191609 original size:73 final size:73
Alignment explanation
Indices: 62191485--62191630 Score: 238
Period size: 73 Copynumber: 2.0 Consensus size: 73
62191475 AGGGCTTTTC
* * *
62191485 TTGATGGCGGCAAGATGTAATCGCATATGAGTTTTTGTGAGAGTTTCATGGTAACTATGTAGAGA
1 TTGAGGGCGGCAAGATGTAATCGCATACGAGTATTTGTGAGAGTTTCATGGTAACTATGTAGAGA
62191550 ATTTTGTT
66 ATTTTGTT
* * *
62191558 TTGAGGGCGGCAAGATTTAGTCTCATACGAGTATTTGTGAGAGTTTCATGGTAACTATGTAGAGA
1 TTGAGGGCGGCAAGATGTAATCGCATACGAGTATTTGTGAGAGTTTCATGGTAACTATGTAGAGA
62191623 ATTTTGTT
66 ATTTTGTT
62191631 CCCGAGCTAG
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
73 67 1.00
ACGTcount: A:0.26, C:0.09, G:0.27, T:0.38
Consensus pattern (73 bp):
TTGAGGGCGGCAAGATGTAATCGCATACGAGTATTTGTGAGAGTTTCATGGTAACTATGTAGAGA
ATTTTGTT
Found at i:62202350 original size:21 final size:23
Alignment explanation
Indices: 62202308--62202351 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
62202298 TTAAAAAGAA
*
62202308 GAGATATGATCAGAACTAATAAT
1 GAGATATGATCAGAAATAATAAT
62202331 GAGAT-TGATCA-AAATAATAAT
1 GAGATATGATCAGAAATAATAAT
62202352 ACTAAATTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
22 6 0.30
23 5 0.25
ACGTcount: A:0.50, C:0.07, G:0.16, T:0.27
Consensus pattern (23 bp):
GAGATATGATCAGAAATAATAAT
Found at i:62211465 original size:14 final size:15
Alignment explanation
Indices: 62211440--62211468 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
62211430 ATATTCAATT
62211440 ATTATCTCTATTAAA
1 ATTATCTCTATTAAA
62211455 ATTAT-TCTATTAAA
1 ATTATCTCTATTAAA
62211469 TTTACTAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATCTCTATTAAA
Found at i:62212617 original size:17 final size:16
Alignment explanation
Indices: 62212595--62212626 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
62212585 ACTGGTAATT
62212595 TTTTTTTGTTAATTACG
1 TTTTTTTG-TAATTACG
62212612 TTTTTTTGTAATTAC
1 TTTTTTTGTAATTAC
62212627 ATGTGTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.19, C:0.06, G:0.09, T:0.66
Consensus pattern (16 bp):
TTTTTTTGTAATTACG
Found at i:62213697 original size:19 final size:20
Alignment explanation
Indices: 62213675--62213720 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
62213665 AAATTACAAA
62213675 AAAAATT-AAAATAATTT-TT
1 AAAAATTCAAAAT-ATTTATT
*
62213694 AAAAATTCAAAATGTTTATT
1 AAAAATTCAAAATATTTATT
62213714 AAAAATT
1 AAAAATT
62213721 TCCAAAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (20 bp):
AAAAATTCAAAATATTTATT
Found at i:62213718 original size:21 final size:21
Alignment explanation
Indices: 62213674--62213728 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 21
62213664 AAAATTACAA
62213674 AAAAAATT-AAAATAATTTTT
1 AAAAAATTCAAAATAATTTTT
*
62213694 -AAAAATTCAAAAT-GTTTATT
1 AAAAAATTCAAAATAATTT-TT
*
62213714 AAAAATTTCCAAAAT
1 AAAAAATT-CAAAAT
62213729 TTAGATTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
19 10 0.34
20 7 0.24
21 6 0.21
22 6 0.21
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.36
Consensus pattern (21 bp):
AAAAAATTCAAAATAATTTTT
Found at i:62220676 original size:10 final size:10
Alignment explanation
Indices: 62220645--62220680 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
62220635 GTGTGTGTGT
*
62220645 GAGAGAGAGA
1 GAGAGAGAGG
62220655 GAGAGAGAGG
1 GAGAGAGAGG
*
62220665 GAGAGAGTGG
1 GAGAGAGAGG
62220675 GAGAGA
1 GAGAGA
62220681 AACCTTGTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.56, T:0.03
Consensus pattern (10 bp):
GAGAGAGAGG
Found at i:62230743 original size:7 final size:7
Alignment explanation
Indices: 62230694--62230741 Score: 62
Period size: 7 Copynumber: 6.9 Consensus size: 7
62230684 CCCCCATCTT
62230694 TTTTTTC
1 TTTTTTC
*
62230701 TTATTTC
1 TTTTTTC
*
62230708 TTATTTC
1 TTTTTTC
62230715 TTTTTTC
1 TTTTTTC
62230722 TTTTTTC
1 TTTTTTC
62230729 TTTCTTT-
1 TTT-TTTC
62230736 TTTTTT
1 TTTTTT
62230742 TTGCATTTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
6 3 0.08
7 32 0.84
8 3 0.08
ACGTcount: A:0.04, C:0.12, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTTTTC
Found at i:62231774 original size:17 final size:15
Alignment explanation
Indices: 62231750--62231786 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 15
62231740 TATTAATCAA
62231750 TTAAAAATTAATATTT
1 TTAAAAATTAAT-TTT
62231766 TTAATAAATTAATTTT
1 TTAA-AAATTAATTTT
62231782 TTAAA
1 TTAAA
62231787 CAGCGTTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 1 0.05
16 11 0.55
17 8 0.40
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TTAAAAATTAATTTT
Found at i:62233151 original size:51 final size:52
Alignment explanation
Indices: 62233055--62233152 Score: 126
Period size: 51 Copynumber: 1.9 Consensus size: 52
62233045 TTGCATTAAT
* *
62233055 TTTTTTTTAATTTTAATTAATGTTTATAATTAATAAATATATTATTTTCAAG
1 TTTTTATTAATTTTAATTAATGTTTATAATTAATAAACATATTATTTTCAAG
* * * * *
62233107 TTTTTATTATTTTTAATTCAT-TTTTTAATTAATAAACCTTTTATTT
1 TTTTTATTAATTTTAATTAATGTTTATAATTAATAAACATATTATTT
62233153 ATAAAATTAA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
51 21 0.54
52 18 0.46
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (52 bp):
TTTTTATTAATTTTAATTAATGTTTATAATTAATAAACATATTATTTTCAAG
Found at i:62235958 original size:19 final size:19
Alignment explanation
Indices: 62235931--62235991 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
62235921 TATATTATTG
62235931 GAATC-CTTACAAATTACT
1 GAATCACTTACAAATTACT
* * *
62235949 GCA-CATCTTAAAAATTATT
1 GAATCA-CTTACAAATTACT
62235968 GAATCACTTACAAAATTACT
1 GAATCACTTAC-AAATTACT
62235988 GAAT
1 GAAT
62235992 TTCTTTCAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
17 1 0.03
18 2 0.06
19 17 0.52
20 13 0.39
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.33
Consensus pattern (19 bp):
GAATCACTTACAAATTACT
Found at i:62235984 original size:20 final size:20
Alignment explanation
Indices: 62235931--62236007 Score: 72
Period size: 20 Copynumber: 4.0 Consensus size: 20
62235921 TATATTATTG
62235931 GAATC-CTTAC-AAATTACT
1 GAATCACTTACAAAATTACT
* *
62235949 GCA-CATCTTA-AAAATTATT
1 GAATCA-CTTACAAAATTACT
62235968 GAATCACTTACAAAATTACT
1 GAATCACTTACAAAATTACT
** *
62235988 GAATTTCTTTCAAAATTACT
1 GAATCACTTACAAAATTACT
62236008 AATGTTTACC
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
17 1 0.02
18 2 0.04
19 17 0.36
20 27 0.57
ACGTcount: A:0.40, C:0.18, G:0.05, T:0.36
Consensus pattern (20 bp):
GAATCACTTACAAAATTACT
Found at i:62236054 original size:76 final size:77
Alignment explanation
Indices: 62235960--62236139 Score: 229
Period size: 76 Copynumber: 2.4 Consensus size: 77
62235950 CACATCTTAA
* ** *
62235960 AAATTATTGAATCACTTACAAAATTACTGAATTTCTT-TCAAAATTACTAATGTTTACCTAGTTT
1 AAATTATTGAATCTCTTACAAAATTACTGAATTTCTTAT-AAAATTACTAATACTTACCTAATTT
*
62236024 GTTATAACATTGT
65 CTTATAACATTGT
** *
62236037 AAATT-TTGAATCTCTTACAAAATTTTTGAATTTCTTATAAAATTACTAATACTTACTTAATTTC
1 AAATTATTGAATCTCTTACAAAATTACTGAATTTCTTATAAAATTACTAATACTTACCTAATTTC
* **
62236101 TTGTAATTTTGT
66 TTATAACATTGT
*
62236113 AAATTATTGAATCTCTTACCAAATTAC
1 AAATTATTGAATCTCTTACAAAATTAC
62236140 CGAAAAATTT
Statistics
Matches: 87, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
76 63 0.72
77 24 0.28
ACGTcount: A:0.36, C:0.13, G:0.06, T:0.45
Consensus pattern (77 bp):
AAATTATTGAATCTCTTACAAAATTACTGAATTTCTTATAAAATTACTAATACTTACCTAATTTC
TTATAACATTGT
Found at i:62236063 original size:20 final size:20
Alignment explanation
Indices: 62236040--62236080 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
62236030 ACATTGTAAA
62236040 TTTTGAATCTCTTACAAAAT
1 TTTTGAATCTCTTACAAAAT
* *
62236060 TTTTGAATTTCTTATAAAAT
1 TTTTGAATCTCTTACAAAAT
62236080 T
1 T
62236081 ACTAATACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.34, C:0.10, G:0.05, T:0.51
Consensus pattern (20 bp):
TTTTGAATCTCTTACAAAAT
Found at i:62236225 original size:20 final size:20
Alignment explanation
Indices: 62236202--62236273 Score: 56
Period size: 20 Copynumber: 3.6 Consensus size: 20
62236192 TAATTGAATT
62236202 TCTTACAAAATTATTAAATC
1 TCTTACAAAATTATTAAATC
* * * *
62236222 TCTTATAAAACTACTAAACC
1 TCTTACAAAATTATTAAATC
* * * * *
62236242 TATCATAAAATTATTGAATA
1 TCTTACAAAATTATTAAATC
62236262 T-TTACAAAATTA
1 TCTTACAAAATTA
62236274 CTAATGTTTA
Statistics
Matches: 39, Mismatches: 13, Indels: 1
0.74 0.25 0.02
Matches are distributed among these distances:
19 9 0.23
20 30 0.77
ACGTcount: A:0.47, C:0.14, G:0.01, T:0.38
Consensus pattern (20 bp):
TCTTACAAAATTATTAAATC
Found at i:62237102 original size:30 final size:30
Alignment explanation
Indices: 62237066--62237137 Score: 99
Period size: 30 Copynumber: 2.4 Consensus size: 30
62237056 GTCACCACTA
*
62237066 ACCATTTTCCATTACAGACGTAACAGAGTT
1 ACCATTTTCCATTACAGACGTAACAGAGCT
* *
62237096 ACCATTTTCCATTACAGACTTAACGGAGCT
1 ACCATTTTCCATTACAGACGTAACAGAGCT
**
62237126 GTCATTTTCCAT
1 ACCATTTTCCAT
62237138 CCTTCTATCA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.33
Consensus pattern (30 bp):
ACCATTTTCCATTACAGACGTAACAGAGCT
Found at i:62237346 original size:17 final size:17
Alignment explanation
Indices: 62237324--62237356 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
62237314 TTTGAATTAG
62237324 TGAATTTTGTAATTTAT
1 TGAATTTTGTAATTTAT
*
62237341 TGAATTTTGTGATTTA
1 TGAATTTTGTAATTTA
62237357 AAAAGAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (17 bp):
TGAATTTTGTAATTTAT
Found at i:62238649 original size:46 final size:45
Alignment explanation
Indices: 62238582--62238719 Score: 197
Period size: 46 Copynumber: 3.0 Consensus size: 45
62238572 CATGGCAAAG
* *
62238582 TGTGAAAATTAAGTATGGTATTTCGATAAGGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCGATAA-GAAAACCATACTGAGT
62238628 TGTGAAAAGTAGGTATGGTATTTCGATAAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCGAT-AAGAAAACCATACTGAGT
* **
62238674 TGTGAAAAGTAGGTATGATATCCCG-TGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCGAT-AAGAAAACCATACTGAGT
62238719 T
1 T
62238720 ATAGCAATGT
Statistics
Matches: 85, Mismatches: 6, Indels: 3
0.90 0.06 0.03
Matches are distributed among these distances:
45 20 0.24
46 63 0.74
47 2 0.02
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.28
Consensus pattern (45 bp):
TGTGAAAAGTAGGTATGGTATTTCGATAAGAAAACCATACTGAGT
Found at i:62243510 original size:46 final size:46
Alignment explanation
Indices: 62243457--62243641 Score: 277
Period size: 46 Copynumber: 4.0 Consensus size: 46
62243447 ACATTGCTAT
*
62243457 AACTCAGTATGGTTTTCTTCA-CGGGAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCATC-GAAATACCATACCTACTTTTCAC
** *
62243503 AACTCAGTATGACTTTCTTCA-CTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCATC-GAAATACCATACCTACTTTTCAC
*
62243549 AACTCAGTATGGTTTTCTTTATCGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCATCGAAATACCATACCTACTTTTCAC
62243595 AACTCAGTATGGTTTTTCTT-ATCGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGG-TTTTCTTCATCGAAATACCATACCTACTTTTCAC
62243641 A
1 A
62243642 CTTTGCCATG
Statistics
Matches: 128, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
46 120 0.94
47 8 0.06
ACGTcount: A:0.29, C:0.26, G:0.09, T:0.36
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCATCGAAATACCATACCTACTTTTCAC
Found at i:62245003 original size:18 final size:19
Alignment explanation
Indices: 62244967--62245004 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
62244957 CCAATAAACA
* *
62244967 AATTCTCATGGCATTAAAT
1 AATTATCATGGCATCAAAT
62244986 AATTATCAT-GCATCAAAT
1 AATTATCATGGCATCAAAT
62245004 A
1 A
62245005 CAAATGTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.42, C:0.16, G:0.08, T:0.34
Consensus pattern (19 bp):
AATTATCATGGCATCAAAT
Found at i:62245257 original size:19 final size:20
Alignment explanation
Indices: 62245229--62245267 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
62245219 ATATCTAAAT
62245229 TACCACACACACATA-TATA
1 TACCACACACACATACTATA
*
62245248 TACCATACACACATACTATA
1 TACCACACACACATACTATA
62245268 AAACTTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (20 bp):
TACCACACACACATACTATA
Found at i:62247623 original size:17 final size:17
Alignment explanation
Indices: 62247601--62247665 Score: 105
Period size: 17 Copynumber: 3.9 Consensus size: 17
62247591 AAATTCTTTT
62247601 TAAATCACAAAATTCAA
1 TAAATCACAAAATTCAA
62247618 TAAATCACAAAATTCAA
1 TAAATCACAAAATTCAA
*
62247635 TAAATCACAAAATTCAC
1 TAAATCACAAAATTCAA
*
62247652 TAATTCA-AAAATTC
1 TAAATCACAAAATTC
62247666 TTCTAAATTC
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
16 7 0.15
17 39 0.85
ACGTcount: A:0.55, C:0.18, G:0.00, T:0.26
Consensus pattern (17 bp):
TAAATCACAAAATTCAA
Found at i:62247673 original size:34 final size:35
Alignment explanation
Indices: 62247591--62247678 Score: 99
Period size: 34 Copynumber: 2.5 Consensus size: 35
62247581 TTTACCTATT
*
62247591 AAATTCTTTTTAAATCACAAAATTCAATAAATCACA
1 AAATTC-TTATAAATCACAAAATTCAATAAATCACA
* * *
62247627 AAATTC-AATAAATCACAAAATTCACTAATTCA-A
1 AAATTCTTATAAATCACAAAATTCAATAAATCACA
*
62247660 AAATTCTTCTAAATTCACA
1 AAATTCTTATAAA-TCACA
62247679 CTTGACTCAT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
33 7 0.16
34 26 0.59
35 5 0.11
36 6 0.14
ACGTcount: A:0.50, C:0.18, G:0.00, T:0.32
Consensus pattern (35 bp):
AAATTCTTATAAATCACAAAATTCAATAAATCACA
Found at i:62248730 original size:30 final size:30
Alignment explanation
Indices: 62248661--62248730 Score: 122
Period size: 30 Copynumber: 2.3 Consensus size: 30
62248651 GGAGAAGGAT
*
62248661 GGAAAATGGCAGCTCCGTTAAGTTTGTAAC
1 GGAAAATGGTAGCTCCGTTAAGTTTGTAAC
*
62248691 GGAAAATGGTAGCTCTGTTAAGTTTGTAAC
1 GGAAAATGGTAGCTCCGTTAAGTTTGTAAC
62248721 GGAAAATGGT
1 GGAAAATGGT
62248731 TAGTAGTGAC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.31, C:0.11, G:0.29, T:0.29
Consensus pattern (30 bp):
GGAAAATGGTAGCTCCGTTAAGTTTGTAAC
Found at i:62256523 original size:22 final size:23
Alignment explanation
Indices: 62256498--62256542 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
62256488 GTTTATTTTC
62256498 TTAATTTAT-TAAATAATATATT
1 TTAATTTATATAAATAATATATT
* *
62256520 TTAATTTATATAATTGATATATT
1 TTAATTTATATAAATAATATATT
62256543 ATTCGGATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
TTAATTTATATAAATAATATATT
Found at i:62256613 original size:17 final size:17
Alignment explanation
Indices: 62256593--62256637 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
62256583 CAATTTAAAT
*
62256593 TATAAAATATAATTTAA
1 TATAAAATATAATATAA
62256610 TAT-AAATATAAATATAA
1 TATAAAATAT-AATATAA
*
62256627 TAAAAAATATA
1 TATAAAATATA
62256638 TTATTTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 6 0.25
17 12 0.50
18 6 0.25
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
TATAAAATATAATATAA
Found at i:62268378 original size:21 final size:22
Alignment explanation
Indices: 62268343--62268391 Score: 66
Period size: 20 Copynumber: 2.3 Consensus size: 22
62268333 CCTATTTTAC
62268343 TTTTATATCAACCATTTTCTCCA
1 TTTTATATCAACCA-TTTCTCCA
*
62268366 TTTT-TAT-AACCATTTCTCTA
1 TTTTATATCAACCATTTCTCCA
62268386 TTTTAT
1 TTTTAT
62268392 TTCATATTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 11 0.46
21 6 0.25
22 3 0.12
23 4 0.17
ACGTcount: A:0.24, C:0.20, G:0.00, T:0.55
Consensus pattern (22 bp):
TTTTATATCAACCATTTCTCCA
Found at i:62271360 original size:29 final size:29
Alignment explanation
Indices: 62271326--62271383 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
62271316 TATTTAGATA
62271326 ATTTTATTTTCCAAATCAACCATATCTCT
1 ATTTTATTTTCCAAATCAACCATATCTCT
* *
62271355 ATTTTATTTTTCAAATCAACCATTTCTCT
1 ATTTTATTTTCCAAATCAACCATATCTCT
62271384 TCTTTCTCCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.29, C:0.22, G:0.00, T:0.48
Consensus pattern (29 bp):
ATTTTATTTTCCAAATCAACCATATCTCT
Found at i:62271404 original size:25 final size:24
Alignment explanation
Indices: 62271376--62271436 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
62271366 CAAATCAACC
* *
62271376 ATTTCTCTTCTTTCTCCCCTATTTT
1 ATTTCTCATATTT-TCCCCTATTTT
* *
62271401 ATTTTTCATATTTTTCCCTATTTT
1 ATTTCTCATATTTTCCCCTATTTT
*
62271425 ATTTTTCATATT
1 ATTTCTCATATT
62271437 GTTTTTTTCC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
24 22 0.69
25 10 0.31
ACGTcount: A:0.15, C:0.21, G:0.00, T:0.64
Consensus pattern (24 bp):
ATTTCTCATATTTTCCCCTATTTT
Found at i:62273907 original size:182 final size:176
Alignment explanation
Indices: 62273609--62273934 Score: 440
Period size: 182 Copynumber: 1.8 Consensus size: 176
62273599 AATCCAAAGA
* * *
62273609 CAAATTAAGGATACAAGTAGGCACTAGTAAGCAAATACAATCAATGACTAATCAGCAATACCAAG
1 CAAATCAAGGATACAAGTAGACACTAGTAAGCAAATACAATAAATGACTAATCAGCAATACCAAG
*
62273674 GATTATTCTATAATGAATAATCATATAGTCAAGTCACTACTTGAATTGAATGACATCTACCAACA
66 GATCATTCTATAATGAATAATCATATAGTCAAGTCACTACTTGAATTGAATGA-ATCTACCAACA
*
62273739 TTAAGGATCAGCATACCAAAAAAAAAGGAGAAAAAAAAATCCAATAT
130 TTAAGGATCAACATACCAAAAAAAAAGGAGAAAAAAAAATCCAATAT
* ** *
62273786 CAAATCAAGGATACAAGTAGACACTAGTAAGTAAACTTGATATAAATGACGACTAATCAGCAATG
1 CAAATCAAGGATACAAGTAGACACTAGTAAGCAAA-TACA-ATAAAT---GACTAATCAGCAATA
* * * * *
62273851 TCAAGGATCGTTCTA-AGATGAATAATCATATTA-TCAAGTCACTTCTTGATTTGAATGAATCTC
61 CCAAGGATCATTCTATA-ATGAATAATCATA-TAGTCAAGTCACTACTTGAATTGAATGAATCTA
62273914 CCAACATTAAGGATCAACATA
124 CCAACATTAAGGATCAACATA
62273935 AAAAAGAAAA
Statistics
Matches: 128, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
177 32 0.25
178 2 0.02
179 5 0.04
181 25 0.20
182 62 0.48
183 2 0.02
ACGTcount: A:0.45, C:0.17, G:0.14, T:0.25
Consensus pattern (176 bp):
CAAATCAAGGATACAAGTAGACACTAGTAAGCAAATACAATAAATGACTAATCAGCAATACCAAG
GATCATTCTATAATGAATAATCATATAGTCAAGTCACTACTTGAATTGAATGAATCTACCAACAT
TAAGGATCAACATACCAAAAAAAAAGGAGAAAAAAAAATCCAATAT
Found at i:62275496 original size:20 final size:21
Alignment explanation
Indices: 62275460--62275502 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
62275450 ATTTGATGAA
62275460 AATTAATTGATAATATT-ATT
1 AATTAATTGATAATATTCATT
*
62275480 AATTAATT-ATTACTATTCATT
1 AATTAATTGA-TAATATTCATT
62275501 AA
1 AA
62275503 ATCAATTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 14 0.70
21 5 0.25
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (21 bp):
AATTAATTGATAATATTCATT
Found at i:62275714 original size:9 final size:9
Alignment explanation
Indices: 62275677--62275716 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
62275667 TCAAAATTTG
62275677 TTTATAATT
1 TTTATAATT
62275686 TTTATTAATT
1 TTTA-TAATT
*
62275696 TATATAATT
1 TTTATAATT
*
62275705 TTTATCATT
1 TTTATAATT
62275714 TTT
1 TTT
62275717 TATCATGTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
9 19 0.70
10 8 0.30
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (9 bp):
TTTATAATT
Found at i:62279617 original size:33 final size:32
Alignment explanation
Indices: 62279551--62279613 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
62279541 CACTATCGCA
* *
62279551 ATCCCCGTGTATTTTATGCATTTAAAAAAAAG
1 ATCCCCGTGCATTTTATACATTTAAAAAAAAG
62279583 ATCCCCGTGCATTTTATACATTTAAAAAAAA
1 ATCCCCGTGCATTTTATACATTTAAAAAAAA
62279614 AGATATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (32 bp):
ATCCCCGTGCATTTTATACATTTAAAAAAAAG
Found at i:62280786 original size:86 final size:87
Alignment explanation
Indices: 62280597--62280801 Score: 278
Period size: 86 Copynumber: 2.4 Consensus size: 87
62280587 CAAAAAATCT
*
62280597 TCAAACTTTTTCAAAAAAAGCAATTAAG--CCTTTTTTTTTGCACTCATTTAGGTACTTAAACTT
1 TCAAAC-TTTTCAAAAAAAGCAATTAAGCCCCTTTTTTTTTGCACTCAATTAGGTACTTAAACTT
62280660 TCAAAATACATCAAAAAAGACCC
65 TCAAAATACATCAAAAAAGACCC
* * *
62280683 TCAAGCCTTTTCAAAAAAAGCAATTAAGCCCCTATTTTTTTTGCACTCAATTGGGTACTTGAACT
1 TCAA-ACTTTTCAAAAAAAGCAATTAAGCCCCT-TTTTTTTTGCACTCAATTAGGTACTTAAACT
*
62280748 TTCAAAATGA-AT-TAAAAAG-CCC
64 TTCAAAAT-ACATCAAAAAAGACCC
62280770 TCAAACTATTTC-AAAAAAGCAATTAAGCCCCT
1 TCAAACT-TTTCAAAAAAAGCAATTAAGCCCCT
62280802 GCTTTTATTA
Statistics
Matches: 107, Mismatches: 6, Indels: 12
0.86 0.05 0.10
Matches are distributed among these distances:
86 47 0.44
87 12 0.11
88 9 0.08
89 38 0.36
90 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.32
Consensus pattern (87 bp):
TCAAACTTTTCAAAAAAAGCAATTAAGCCCCTTTTTTTTTGCACTCAATTAGGTACTTAAACTTT
CAAAATACATCAAAAAAGACCC
Found at i:62280891 original size:20 final size:20
Alignment explanation
Indices: 62280868--62280919 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 20
62280858 AAATATTATT
62280868 AAATTTTAATAAAA-ATATAA
1 AAATTTTAA-AAAATATATAA
*
62280888 AAATCTTAAAAAATATATAA
1 AAATTTTAAAAAATATATAA
62280908 AATATTTTAAAA
1 AA-ATTTTAAAA
62280920 TTTTATAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 4 0.14
20 16 0.57
21 8 0.29
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (20 bp):
AAATTTTAAAAAATATATAA
Found at i:62280909 original size:19 final size:19
Alignment explanation
Indices: 62280878--62280946 Score: 61
Period size: 20 Copynumber: 3.6 Consensus size: 19
62280868 AAATTTTAAT
62280878 AAAAATATA-AAAATCTTA
1 AAAAATATATAAAATCTTA
* *
62280896 AAAAATATATAAAATATTTT
1 AAAAATATATAAAAT-CTTA
* * *
62280916 AAAATTTTATAAATATCGTA
1 AAAAATATATAAA-ATCTTA
62280936 AAAAAT-TATAA
1 AAAAATATATAA
62280947 TATATATAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
18 9 0.22
19 10 0.25
20 19 0.47
21 2 0.05
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (19 bp):
AAAAATATATAAAATCTTA
Found at i:62282724 original size:111 final size:111
Alignment explanation
Indices: 62282524--62282725 Score: 246
Period size: 111 Copynumber: 1.8 Consensus size: 111
62282514 TCTAATTGAA
* * * * *
62282524 ATTAGATAATGATGAAATTAAATTGGTTAGTTATAAAACTTAACTGTTTGTTTCACATTAGAACT
1 ATTAGATAATCATGAAATTAAATTGGTTAGCTATAAAACTCAACTGTTTGTCTCACATTAGAACA
* * *
62282589 CTCCATCTAGGGTGGAAGAGTACAACTAGGGTGTAACCATGAAAGC
66 CTCCATCCACGGTGGAAGACTACAACTAGGGTGTAACCATGAAAGC
* **
62282635 ATTAGATAATCATGAAATTAAATTGGTTAGCTATAAAAGTCAACTGTTTG-CTCTATGTTAGAAC
1 ATTAGATAATCATGAAATTAAATTGGTTAGCTATAAAACTCAACTGTTTGTCTC-ACATTAGAAC
** *
62282699 ACTCTGTCCACGTTGGAACG-CTACAAC
65 ACTCCATCCACGGTGGAA-GACTACAAC
62282726 CAGAGTGGAA
Statistics
Matches: 75, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
110 2 0.03
111 72 0.96
112 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (111 bp):
ATTAGATAATCATGAAATTAAATTGGTTAGCTATAAAACTCAACTGTTTGTCTCACATTAGAACA
CTCCATCCACGGTGGAAGACTACAACTAGGGTGTAACCATGAAAGC
Found at i:62285575 original size:38 final size:38
Alignment explanation
Indices: 62285516--62285621 Score: 105
Period size: 37 Copynumber: 2.8 Consensus size: 38
62285506 CATTTTTAAG
*
62285516 AATAT-AAAGAATATATATAAGTATGTATATG-ATGTA-A
1 AATATGAAA-AATATATATAAGTATGTATAAGAAT-TAGA
* *
62285553 AATATGCATAAATATATGTAAGTA--TATAAGAATTATGA
1 AATATG-AAAAATATATATAAGTATGTATAAGAATTA-GA
*
62285591 AATATGAAAAATATATTTAAGTATGTATAAG
1 AATATGAAAAATATATATAAGTATGTATAAG
62285622 TACGTATATA
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
36 7 0.12
37 22 0.39
38 20 0.35
39 8 0.14
ACGTcount: A:0.51, C:0.01, G:0.13, T:0.35
Consensus pattern (38 bp):
AATATGAAAAATATATATAAGTATGTATAAGAATTAGA
Found at i:62286321 original size:3 final size:3
Alignment explanation
Indices: 62286306--62286341 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
62286296 AAGCATAAAC
* *
62286306 TAA TAA AAA TAA TAA TAA TAA TAA TAA TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
62286342 CATTGGAATA
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:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:62286467 original size:23 final size:22
Alignment explanation
Indices: 62286441--62286494 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 22
62286431 TGTATACACG
62286441 TACATAATAAAAATATATACTAA
1 TACATAATAAAAATA-ATACTAA
* *
62286464 TACATAATAATAATAATAGTAA
1 TACATAATAAAAATAATACTAA
62286486 TAC-TAATAA
1 TACATAATAA
62286495 TACTAATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 6 0.21
22 9 0.31
23 14 0.48
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.31
Consensus pattern (22 bp):
TACATAATAAAAATAATACTAA
Found at i:62286475 original size:3 final size:3
Alignment explanation
Indices: 62286444--62286514 Score: 63
Period size: 3 Copynumber: 23.3 Consensus size: 3
62286434 ATACACGTAC
* * * *
62286444 ATA ATA AAA ATA TATA CTA ATA CATA ATA ATA ATA ATA GTA ATA CTA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* *
62286491 ATA ATA CTA ATA AT- ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
62286515 CAAGGATATT
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
2 2 0.04
3 45 0.85
4 6 0.11
ACGTcount: A:0.62, C:0.06, G:0.01, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:62286998 original size:11 final size:12
Alignment explanation
Indices: 62286982--62287017 Score: 58
Period size: 11 Copynumber: 3.2 Consensus size: 12
62286972 GAAAAAAAAA
62286982 GAAGAGAG-AGG
1 GAAGAGAGAAGG
62286993 GAAGAGAGAAGG
1 GAAGAGAGAAGG
62287005 G-AGAGAGAAGG
1 GAAGAGAGAAGG
62287016 GA
1 GA
62287018 GGGGGGAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 19 0.83
12 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:62289243 original size:21 final size:22
Alignment explanation
Indices: 62289219--62289259 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
62289209 TAAAATAATT
62289219 AAAAAATTAAAA-AAAATTAAC
1 AAAAAATTAAAATAAAATTAAC
**
62289240 AAAATGTTAAAATAAAATTA
1 AAAAAATTAAAATAAAATTA
62289260 CTTCTTAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (22 bp):
AAAAAATTAAAATAAAATTAAC
Found at i:62304717 original size:14 final size:14
Alignment explanation
Indices: 62304700--62304729 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
62304690 GTTATCATTC
62304700 TACTATTATGTTGT
1 TACTATTATGTTGT
*
62304714 TACTATTTTGTTGT
1 TACTATTATGTTGT
62304728 TA
1 TA
62304730 ATGTTTGGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.07, G:0.13, T:0.60
Consensus pattern (14 bp):
TACTATTATGTTGT
Found at i:62313023 original size:8 final size:8
Alignment explanation
Indices: 62313007--62313037 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
62312997 CAAGAAGTAT
*
62313007 TTTACATA
1 TTTATATA
62313015 TTTATATA
1 TTTATATA
62313023 TTTATATA
1 TTTATATA
62313031 TTTATAT
1 TTTATAT
62313038 TCATGGTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.61
Consensus pattern (8 bp):
TTTATATA
Found at i:62315668 original size:20 final size:20
Alignment explanation
Indices: 62315640--62315678 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
62315630 CTCTTCTAGC
62315640 TTTCATCTTCT-TTTTCATCT
1 TTTCATCTT-TGTTTTCATCT
*
62315660 TTTCTTCTTTGTTTTCATC
1 TTTCATCTTTGTTTTCATC
62315679 CCCTATAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.08, C:0.23, G:0.03, T:0.67
Consensus pattern (20 bp):
TTTCATCTTTGTTTTCATCT
Found at i:62331884 original size:21 final size:21
Alignment explanation
Indices: 62331836--62331880 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
62331826 AGACAAAAAA
* *
62331836 TTTTGAAACCACAGGAATTTT
1 TTTTGAAACAACACGAATTTT
62331857 TTTTGAAA-AACACGAATTTT
1 TTTTGAAACAACACGAATTTT
62331877 TTTT
1 TTTT
62331881 TGAATTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.44
Consensus pattern (21 bp):
TTTTGAAACAACACGAATTTT
Found at i:62332235 original size:18 final size:18
Alignment explanation
Indices: 62332206--62332252 Score: 62
Period size: 16 Copynumber: 2.6 Consensus size: 18
62332196 ATTTGAACCC
62332206 TTTCTCTTTTTCTCTTTTT
1 TTTCTCTTTTTCT-TTTTT
62332225 TTTCT-TTTTTC-TTTTT
1 TTTCTCTTTTTCTTTTTT
62332241 TTTCTCTGTTTT
1 TTTCTCT-TTTT
62332253 TTCCGTCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 10 0.38
17 1 0.04
18 10 0.38
19 5 0.19
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (18 bp):
TTTCTCTTTTTCTTTTTT
Found at i:62332237 original size:16 final size:17
Alignment explanation
Indices: 62332210--62332245 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
62332200 GAACCCTTTC
62332210 TCTTTTTCTCTTTTTTT
1 TCTTTTTCTCTTTTTTT
62332227 TCTTTTT-TCTTTTTTT
1 TCTTTTTCTCTTTTTTT
62332243 TCT
1 TCT
62332246 CTGTTTTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (17 bp):
TCTTTTTCTCTTTTTTT
Found at i:62332252 original size:11 final size:10
Alignment explanation
Indices: 62332212--62332275 Score: 64
Period size: 9 Copynumber: 6.7 Consensus size: 10
62332202 ACCCTTTCTC
62332212 TTTTTCTCTT
1 TTTTTCTCTT
62332222 TTTTT-TC-T
1 TTTTTCTCTT
62332230 TTTTTCT-TT
1 TTTTTCTCTT
62332239 TTTTTCTCTGT
1 TTTTTCTCT-T
*
62332250 TTTTTC-CGT
1 TTTTTCTCTT
*
62332259 CTTTTCTCTT
1 TTTTTCTCTT
*
62332269 CTTTTCT
1 TTTTTCT
62332276 TTTGGCCTGT
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
8 6 0.13
9 17 0.37
10 16 0.35
11 7 0.15
ACGTcount: A:0.00, C:0.20, G:0.03, T:0.77
Consensus pattern (10 bp):
TTTTTCTCTT
Found at i:62332528 original size:6 final size:6
Alignment explanation
Indices: 62332517--62332616 Score: 66
Period size: 6 Copynumber: 16.8 Consensus size: 6
62332507 TAAAAAATAA
* * * * *
62332517 TTTCTT TTTC-T TTTCTT CTTCTT CTTCTT CTTCCCCT TTTCTC TTTCTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT -TT-TCTT TTTCTT TTTCTT
* *
62332566 CTTTCTT TAT-TT TTTCTT TCTTCTT TTTC-T TTT-TT TTTCTT TCT-TT
1 -TTTCTT TTTCTT TTTCTT T-TTCTT TTTCTT TTTCTT TTTCTT TTTCTT
62332612 TTTCT
1 TTTCT
62332617 CTCTGCCTTC
Statistics
Matches: 73, Mismatches: 12, Indels: 18
0.71 0.12 0.17
Matches are distributed among these distances:
5 21 0.29
6 35 0.48
7 15 0.21
8 2 0.03
ACGTcount: A:0.01, C:0.24, G:0.00, T:0.75
Consensus pattern (6 bp):
TTTCTT
Found at i:62332545 original size:23 final size:22
Alignment explanation
Indices: 62332518--62332606 Score: 72
Period size: 26 Copynumber: 3.7 Consensus size: 22
62332508 AAAAAATAAT
62332518 TTCTTTTTCTTTTCTTCTTCTTC
1 TTCTTTTT-TTTTCTTCTTCTTC
*
62332541 TTCTTCTTCCCCTTTTC-TCTTTCTTC
1 TTCTT-TT---TTTTTCTTC-TTCTTC
*
62332567 TTTCTTTATTTTTTCTTTCTTCTTT
1 -TTCTTT-TTTTTTC-TTCTTCTTC
62332592 TTCTTTTTTTTTCTT
1 TTCTTTTTTTTTCTT
62332607 TCTTTTTTCT
Statistics
Matches: 54, Mismatches: 3, Indels: 19
0.71 0.04 0.25
Matches are distributed among these distances:
22 2 0.04
23 12 0.22
24 13 0.24
25 7 0.13
26 14 0.26
27 6 0.11
ACGTcount: A:0.01, C:0.25, G:0.00, T:0.74
Consensus pattern (22 bp):
TTCTTTTTTTTTCTTCTTCTTC
Found at i:62332571 original size:4 final size:4
Alignment explanation
Indices: 62332558--62332616 Score: 56
Period size: 4 Copynumber: 15.8 Consensus size: 4
62332548 TCCCCTTTTC
* *
62332558 TCTT TC-T TCTT TCTT TATT T-TT TCTT TCTT CTTTT TCTT T-TT T-TT
1 TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT -TCTT TCTT TCTT TCTT
62332603 TCTT TCTT T-TT TCT
1 TCTT TCTT TCTT TCT
62332617 CTCTGCCTTC
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
3 15 0.32
4 29 0.62
5 3 0.06
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.80
Consensus pattern (4 bp):
TCTT
Found at i:62332607 original size:23 final size:23
Alignment explanation
Indices: 62332518--62332614 Score: 94
Period size: 23 Copynumber: 4.3 Consensus size: 23
62332508 AAAAAATAAT
*
62332518 TTCTTTTTCTTTTCTTCTTC-TTC
1 TTCTTTTTCTTTT-TTTTTCTTTC
* *** *
62332541 TTCTTCTTCCCCTTTTCTCTTTC
1 TTCTTTTTCTTTTTTTTTCTTTC
62332564 TTC--TTTCTTTATTTTTTCTTTC
1 TTCTTTTTCTTT-TTTTTTCTTTC
62332586 TTCTTTTTCTTTTTTTTTCTTTC
1 TTCTTTTTCTTTTTTTTTCTTTC
62332609 TT-TTTT
1 TTCTTTT
62332615 CTCTCTGCCT
Statistics
Matches: 59, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
21 3 0.05
22 21 0.36
23 28 0.47
24 7 0.12
ACGTcount: A:0.01, C:0.24, G:0.00, T:0.75
Consensus pattern (23 bp):
TTCTTTTTCTTTTTTTTTCTTTC
Found at i:62332614 original size:11 final size:11
Alignment explanation
Indices: 62332552--62332616 Score: 78
Period size: 11 Copynumber: 5.8 Consensus size: 11
62332542 TCTTCTTCCC
*
62332552 CTTTTCTCTTT
1 CTTTTTTCTTT
*
62332563 CTTCTTTCTTT
1 CTTTTTTCTTT
*
62332574 ATTTTTTCTTT
1 CTTTTTTCTTT
62332585 CTTCTTTTTCTTT
1 C-T-TTTTTCTTT
62332598 -TTTTTTCTTT
1 CTTTTTTCTTT
62332608 CTTTTTTCT
1 CTTTTTTCT
62332617 CTCTGCCTTC
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
10 9 0.20
11 27 0.59
12 1 0.02
13 9 0.20
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (11 bp):
CTTTTTTCTTT
Found at i:62333014 original size:30 final size:29
Alignment explanation
Indices: 62332980--62333059 Score: 81
Period size: 30 Copynumber: 2.7 Consensus size: 29
62332970 AATTGTAAAT
*
62332980 TTTAAGAAAATTTAGGGGTCAAAATTATAA
1 TTTAAGAAAATTTAGGGGTCAAAA-CATAA
* ** * *
62333010 TTTAAAAAAACCTAGTGGTTAAAACATAA
1 TTTAAGAAAATTTAGGGGTCAAAACATAA
62333039 -TTAAGAAAATTTAAGGGGTCA
1 TTTAAGAAAATTT-AGGGGTCA
62333060 GAAAAAATGC
Statistics
Matches: 38, Mismatches: 11, Indels: 3
0.73 0.21 0.06
Matches are distributed among these distances:
28 9 0.24
29 10 0.26
30 19 0.50
ACGTcount: A:0.47, C:0.06, G:0.16, T:0.30
Consensus pattern (29 bp):
TTTAAGAAAATTTAGGGGTCAAAACATAA
Found at i:62333635 original size:79 final size:78
Alignment explanation
Indices: 62333328--62333923 Score: 474
Period size: 79 Copynumber: 7.5 Consensus size: 78
62333318 CGTGTGACTT
* *
62333328 GAGGCTGAACTCACCTCTAGCAATATGAG-TGATTTTTTTTGAAAAGAACAGAAATTTTAAAGAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTG-AAA-AACAGAAA--TTAAA-AA
* * * *
62333392 CAATACCTCGGTATGAGCCT
60 -AATACCTCAGCATGTGCCC
* * * * * *
62333412 GATGCTCAACTCACCTTTC-CAATATGAGTTGGA-TTGTTTG-AAAGCATAAAATT-GAAAAATA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTT-GATTTTTTTGAAAAACA-GAAATTAAAAAAATA
* *
62333473 -CTCAGC-GGTGACC
64 CCTCAGCATGTGCCC
* **
62333486 GAGGC-CAACTCACCTCTCGCAATATGAGTTGATTTTTTTGGAAAAAACAAAAATTGGAAAAATA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT-G-AAAAACAGAAATTAAAAAAATA
62333550 CCTCAGCATGTGCCC
64 CCTCAGCATGTGCCC
* ** *
62333565 GAGGCTCAACTGCACATCTCTTAATATGAGTTGATTTTTTTGAAAAGCAGAAATT-AAAAAATAC
1 GAGGCTCAACT-CACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAAAATAC
*
62333629 CTTCAGCTTGTGCGCC
65 C-TCAGCATGTGC-CC
* * *
62333645 AAGGCTC-ACTCACCT-TCGCAATATGGAGTTGAATTTTTTT---AAATAGAATGTTAAAATGAA
1 GAGGCTCAACTCACCTCTCGCAATAT-GAGTTG-ATTTTTTTGAAAAACAGAA-ATTAAAA--AA
* * *
62333705 ATACTTCGGCATGTGACC
61 ATACCTCAGCATGTGCCC
*
62333723 GAGGCTCAACTCACCTCTCGC-ATATGAGTTGAATTTTTTTTTGAAAAACAGAAATT-GAAAAAT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTG-A--TTTTTTTGAAAAACAGAAATTAAAAAAAT
62333786 ACCTCAGGC--GTGACCC
63 ACCTCA-GCATGTG-CCC
* *
62333802 GAGGCTCAACTCACGTTCTCGCAATATGAGTT-ATTTTTTTGGAAAAATAGAAATTTAAAAGAAA
1 GAGGCTCAACTCAC-CTCTCGCAATATGAGTTGATTTTTTT-GAAAAACAGAAA-TTAAAA-AAA
* *
62333866 TACCTCCGACATGTGTCC
62 TACCTCAG-CATGTGCCC
* * *
62333884 GAGGCTTAACTCACCTCTCGTAATATGAGTTAATTTTTTT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
62333924 TGGAAAAAAT
Statistics
Matches: 419, Mismatches: 53, Indels: 82
0.76 0.10 0.15
Matches are distributed among these distances:
73 14 0.03
74 23 0.05
75 5 0.01
76 16 0.04
77 31 0.07
78 59 0.14
79 91 0.22
80 45 0.11
81 67 0.16
82 25 0.06
83 25 0.06
84 16 0.04
85 2 0.00
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (78 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAAAATACC
TCAGCATGTGCCC
Found at i:62343989 original size:19 final size:19
Alignment explanation
Indices: 62343957--62344016 Score: 70
Period size: 19 Copynumber: 3.2 Consensus size: 19
62343947 CAGCTAGCAT
62343957 CGAAAAT-TTGTTGAAAACA
1 CGAAAATCTT-TTGAAAACA
*
62343976 CGAGAAT-TGTTTGAAAACA
1 CGAAAATCT-TTTGAAAACA
*
62343995 CGAAAATCTTTTGAAAATA
1 CGAAAATCTTTTGAAAACA
62344014 CGA
1 CGA
62344017 TGAAACAGTC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
19 34 0.94
20 2 0.06
ACGTcount: A:0.45, C:0.12, G:0.17, T:0.27
Consensus pattern (19 bp):
CGAAAATCTTTTGAAAACA
Found at i:62345284 original size:15 final size:15
Alignment explanation
Indices: 62345238--62345303 Score: 57
Period size: 15 Copynumber: 4.5 Consensus size: 15
62345228 CTTCGCTACT
62345238 TTTCTTCTTTTTTTC
1 TTTCTTCTTTTTTTC
** *
62345253 -TTCTT-TAACTTTCC
1 TTTCTTCT-TTTTTTC
62345267 TTTCTTCTTTTTTTC
1 TTTCTTCTTTTTTTC
*
62345282 TTTCTT-TCTTTTTC
1 TTTCTTCTTTTTTTC
62345296 TTCTCTTC
1 TT-TCTTC
62345304 GTTCAACCCG
Statistics
Matches: 39, Mismatches: 7, Indels: 9
0.71 0.13 0.16
Matches are distributed among these distances:
13 1 0.03
14 18 0.46
15 19 0.49
16 1 0.03
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTCTTCTTTTTTTC
Found at i:62345302 original size:19 final size:20
Alignment explanation
Indices: 62345261--62345302 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
62345251 TCTTCTTTAA
*
62345261 CTTTCCTTTCTTCTTTTTTT
1 CTTTCCTTTCTTCTTTTTCT
62345281 CTTT-CTTTCTT-TTTCTTCT
1 CTTTCCTTTCTTCTTT-TTCT
62345300 CTT
1 CTT
62345303 CGTTCAACCC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 3 0.15
19 13 0.65
20 4 0.20
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (20 bp):
CTTTCCTTTCTTCTTTTTCT
Found at i:62347468 original size:30 final size:30
Alignment explanation
Indices: 62347403--62347469 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
62347393 GTTAACGGAG
* * * *
62347403 AAGTGATCAAAATAGAAATAATCTTAGTGT
1 AAGTGACCAAAATAGAAATAATATAAATGT
*
62347433 GAGTGACCAAAATAGAAATAATATAAATGT
1 AAGTGACCAAAATAGAAATAATATAAATGT
62347463 AAGTGAC
1 AAGTGAC
62347470 TAAATTAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.49, C:0.07, G:0.18, T:0.25
Consensus pattern (30 bp):
AAGTGACCAAAATAGAAATAATATAAATGT
Found at i:62355083 original size:18 final size:18
Alignment explanation
Indices: 62355035--62355340 Score: 224
Period size: 18 Copynumber: 17.3 Consensus size: 18
62355025 ATTTTAAAAA
*
62355035 AAAACACGAAAGTTTTTG
1 AAAACACGAAAATTTTTG
*
62355053 -AATCAC-AAGAATTTTTG
1 AAAACACGAA-AATTTTTG
*
62355070 AAAACCCGAAAATTTTT-
1 AAAACACGAAAATTTTTG
* *
62355087 AGAAACATGAAGATTTTTG
1 A-AAACACGAAAATTTTTG
*
62355106 -AAACACGACAATTTTTG
1 AAAACACGAAAATTTTTG
* ** *
62355123 AAACACAAGAATTTTTTTT
1 AAA-ACACGAAAATTTTTG
* * * *
62355142 AAAGCGC-AAACTTTTTT
1 AAAACACGAAAATTTTTG
*
62355159 AAAACACTG-AAATTTGTG
1 AAAACAC-GAAAATTTTTG
* *
62355177 -AAACACGAGAATTGTTG
1 AAAACACGAAAATTTTTG
62355194 AAAACACGAAAATTTTTG
1 AAAACACGAAAATTTTTG
* *
62355212 AAAATATGAAAATTTTTG
1 AAAACACGAAAATTTTTG
*
62355230 AAAACACAAAAATTTTTG
1 AAAACACGAAAATTTTTG
*
62355248 -AAACACAAAAATTTTTAG
1 AAAACACGAAAATTTTT-G
62355266 AAAACA-GAAAACTTTTTG
1 AAAACACGAAAA-TTTTTG
* * *
62355284 -AATCACTAGAA-TTTTG
1 AAAACACGAAAATTTTTG
*
62355300 AAAACACGTAAATTTTTG
1 AAAACACGAAAATTTTTG
*
62355318 -AAACATCG-GAATTTTTG
1 AAAACA-CGAAAATTTTTG
62355335 AAAACA
1 AAAACA
62355341 TGTGGATTTT
Statistics
Matches: 225, Mismatches: 44, Indels: 38
0.73 0.14 0.12
Matches are distributed among these distances:
16 8 0.04
17 92 0.41
18 100 0.44
19 25 0.11
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.31
Consensus pattern (18 bp):
AAAACACGAAAATTTTTG
Found at i:62355140 original size:36 final size:35
Alignment explanation
Indices: 62355036--62355337 Score: 187
Period size: 35 Copynumber: 8.6 Consensus size: 35
62355026 TTTTAAAAAA
* *
62355036 AAACACGAAAGTTTTTGAATCACAAG-AATTTTTG
1 AAACACGAAAATTTTTGAAACACAAGAAATTTTTG
* *
62355070 AAAACCCGAAAATTTTT-AGAA-ACATGAAGATTTTTG
1 -AAACACGAAAATTTTTGA-AACACAAGAA-ATTTTTG
* * *
62355106 AAACACGACAATTTTTGAAACACAAGAATTTTTTTT
1 AAACACGAAAATTTTTGAAACACAAGAA-ATTTTTG
* * * * *
62355142 AAA-GCGCAAACTTTTTTAAA-ACACTGAAATTTGTG
1 AAACACG-AAAATTTTTGAAACACA-AGAAATTTTTG
* * *
62355177 AAACACGAGAATTGTTGAAA-ACACGAAAATTTTTG
1 AAACACGAAAATTTTTGAAACACAAG-AAATTTTTG
* *
62355212 AAAATATGAAAATTTTTGAAAACACAA-AAATTTTTG
1 -AAACACGAAAATTTTTG-AAACACAAGAAATTTTTG
*
62355248 AAACACAAAAATTTTTAGAAA-AC-AGAAAACTTTTTG
1 AAACACGAAAATTTTT-GAAACACAAG-AAA-TTTTTG
* * * *
62355284 AATCACTAGAA-TTTTGAAA-ACACGTAAATTTTTG
1 AAACACGAAAATTTTTGAAACACAAG-AAATTTTTG
*
62355318 AAACATCG-GAATTTTTGAAA
1 AAACA-CGAAAATTTTTGAAA
62355338 ACATGTGGAT
Statistics
Matches: 208, Mismatches: 40, Indels: 38
0.73 0.14 0.13
Matches are distributed among these distances:
33 1 0.00
34 27 0.13
35 100 0.48
36 74 0.36
37 3 0.01
38 3 0.01
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.31
Consensus pattern (35 bp):
AAACACGAAAATTTTTGAAACACAAGAAATTTTTG
Found at i:62355349 original size:18 final size:18
Alignment explanation
Indices: 62355295--62355351 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
62355285 ATCACTAGAA
* *
62355295 TTTTGAAAACACGTAAAT
1 TTTTGAAAACATGTGAAT
62355313 TTTTG-AAACATCG-GAAT
1 TTTTGAAAACAT-GTGAAT
*
62355330 TTTTGAAAACATGTGGAT
1 TTTTGAAAACATGTGAAT
62355348 TTTT
1 TTTT
62355352 TTTTACACAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
17 14 0.42
18 19 0.58
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.40
Consensus pattern (18 bp):
TTTTGAAAACATGTGAAT
Found at i:62355570 original size:20 final size:21
Alignment explanation
Indices: 62355534--62355577 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
62355524 GACAAAAAAA
*
62355534 TTTTGAAACACAGGAATTTTT
1 TTTTGAAACACACGAATTTTT
62355555 TTTTGAAA-ACACGAATTTTT
1 TTTTGAAACACACGAATTTTT
62355575 TTT
1 TTT
62355578 GAATTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.32, C:0.09, G:0.11, T:0.48
Consensus pattern (21 bp):
TTTTGAAACACACGAATTTTT
Found at i:62355915 original size:10 final size:10
Alignment explanation
Indices: 62355895--62355964 Score: 53
Period size: 9 Copynumber: 7.3 Consensus size: 10
62355885 AATTGAACCC
62355895 TTTTC-TCTT
1 TTTTCTTCTT
62355904 TTTTCTTC-T
1 TTTTCTTCTT
62355913 TTTT-TTCTT
1 TTTTCTTCTT
62355922 TTTTCTT-TT
1 TTTTCTTCTT
62355931 TTTCTCTGT-TT
1 TTT-TCT-TCTT
*
62355942 TTTTCCGTC-T
1 TTTT-CTTCTT
*
62355952 TTCTCTTCTT
1 TTTTCTTCTT
62355962 TTT
1 TTT
62355965 CTTTTTTGGC
Statistics
Matches: 49, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
8 3 0.06
9 23 0.47
10 16 0.33
11 7 0.14
ACGTcount: A:0.00, C:0.20, G:0.03, T:0.77
Consensus pattern (10 bp):
TTTTCTTCTT
Found at i:62355921 original size:18 final size:17
Alignment explanation
Indices: 62355895--62355943 Score: 71
Period size: 18 Copynumber: 2.8 Consensus size: 17
62355885 AATTGAACCC
62355895 TTTTCTCTTTTTTCTTCT
1 TTTTCTCTTTTTTCTT-T
*
62355913 TTTTTTCTTTTTTCTTT
1 TTTTCTCTTTTTTCTTT
62355930 TTTTCTCTGTTTTT
1 TTTTCTCT-TTTTT
62355944 TTCCGTCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.29
18 20 0.71
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (17 bp):
TTTTCTCTTTTTTCTTT
Found at i:62355929 original size:15 final size:16
Alignment explanation
Indices: 62355904--62355935 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
62355894 CTTTTCTCTT
62355904 TTTTCTTCTTTTTTTC
1 TTTTCTTCTTTTTTTC
62355920 TTTT-TTCTTTTTTTC
1 TTTTCTTCTTTTTTTC
62355935 T
1 T
62355936 CTGTTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTTCTTCTTTTTTTC
Found at i:62355945 original size:20 final size:19
Alignment explanation
Indices: 62355895--62355971 Score: 72
Period size: 20 Copynumber: 4.2 Consensus size: 19
62355885 AATTGAACCC
62355895 TTTTCTCTTTTTTCTTC-TT
1 TTTTCTCTTTTTT-TTCTTT
62355914 TTTT-TC--TTTTTTCTTT
1 TTTTCTCTTTTTTTTCTTT
**
62355930 TTTTCTCTGTTTTTTTCCGT
1 TTTTCTCT-TTTTTTTCTTT
* *
62355950 CTTTCTCTTCTTTTTCTTT
1 TTTTCTCTTTTTTTTCTTT
62355969 TTT
1 TTT
62355972 GGCCTGTTGG
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
15 3 0.07
16 10 0.22
17 2 0.04
18 2 0.04
19 14 0.30
20 15 0.33
ACGTcount: A:0.00, C:0.19, G:0.03, T:0.78
Consensus pattern (19 bp):
TTTTCTCTTTTTTTTCTTT
Found at i:62355971 original size:8 final size:8
Alignment explanation
Indices: 62355903--62355935 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
62355893 CCTTTTCTCT
62355903 TTTTTCTTC
1 TTTTT-TTC
62355912 TTTTTTTC
1 TTTTTTTC
62355920 -TTTTTTC
1 TTTTTTTC
62355927 TTTTTTTC
1 TTTTTTTC
62355935 T
1 T
62355936 CTGTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
7 7 0.30
8 11 0.48
9 5 0.22
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (8 bp):
TTTTTTTC
Found at i:62356259 original size:4 final size:4
Alignment explanation
Indices: 62356246--62356301 Score: 57
Period size: 4 Copynumber: 14.8 Consensus size: 4
62356236 TTCTTCCCCT
* *
62356246 TTTC -TTC TTTC TTTC -TTC TTTA TTT- TTTC TTTC TTTC -TTC ATTTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC -TTTC
62356291 TTTC TTTC TTT
1 TTTC TTTC TTT
62356302 TTCTCTTCTC
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
3 12 0.27
4 30 0.68
5 2 0.05
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTC
Found at i:62356260 original size:11 final size:11
Alignment explanation
Indices: 62356209--62356310 Score: 90
Period size: 11 Copynumber: 9.5 Consensus size: 11
62356199 AAAAAATAAT
62356209 TTTCTTT-TTC
1 TTTCTTTCTTC
62356219 TTT-TTTCTTC
1 TTTCTTTCTTC
62356229 -TTCTTTCTTC
1 TTTCTTTCTTC
*
62356239 TTCCCCTTTTCTTC
1 TT--TC-TTTCTTC
62356253 TTTCTTTCTTC
1 TTTCTTTCTTC
* *
62356264 TTTATTTTTTC
1 TTTCTTTCTTC
62356275 TTTCTTTCTTC
1 TTTCTTTCTTC
*
62356286 ATT-TTT-TTC
1 TTTCTTTCTTC
62356295 TTTCTTT-TTC
1 TTTCTTTCTTC
62356305 TCTTCT
1 T-TTCT
62356311 CCTTCATTCA
Statistics
Matches: 76, Mismatches: 8, Indels: 15
0.77 0.08 0.15
Matches are distributed among these distances:
9 10 0.13
10 23 0.30
11 32 0.42
12 1 0.01
13 1 0.01
14 9 0.12
ACGTcount: A:0.02, C:0.25, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTCTTTCTTC
Found at i:62356754 original size:29 final size:30
Alignment explanation
Indices: 62356647--62356772 Score: 123
Period size: 29 Copynumber: 4.3 Consensus size: 30
62356637 GGGGCCAATG
*
62356647 TGTAATTTTAAGAAAATTTAGGGGTCAAAA
1 TGTAATTTCAAGAAAATTTAGGGGTCAAAA
* * ** *
62356677 TATAATTT-AAAAAAACCTAGTGGAT-AAAA
1 TGTAATTTCAAGAAAATTTAG-GGGTCAAAA
**
62356706 CATAATTTCAAGAAAATTTAGGGGTCAAAA
1 TGTAATTTCAAGAAAATTTAGGGGTCAAAA
* * *
62356736 TGCAATTTCAA-AAAATTTAGGGGACGAAA
1 TGTAATTTCAAGAAAATTTAGGGGTCAAAA
62356765 TGTAATTT
1 TGTAATTT
62356773 TTTTTAAAAA
Statistics
Matches: 77, Mismatches: 16, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
29 46 0.60
30 31 0.40
ACGTcount: A:0.46, C:0.07, G:0.17, T:0.30
Consensus pattern (30 bp):
TGTAATTTCAAGAAAATTTAGGGGTCAAAA
Found at i:62356771 original size:59 final size:59
Alignment explanation
Indices: 62356647--62356772 Score: 153
Period size: 59 Copynumber: 2.1 Consensus size: 59
62356637 GGGGCCAATG
* * * *
62356647 TGTAATTTTAAGAAAATTTAGGGGTCAAAATATAATTTAAAAAAACCTAGTGGATAAAA
1 TGTAATTTCAAGAAAATTTAGGGGTCAAAATACAATTTAAAAAAACCTAGGGGACAAAA
** * * ** *
62356706 CATAATTTCAAGAAAATTTAGGGGTCAAAATGCAATTTCAAAAAATTTAGGGGACGAAA
1 TGTAATTTCAAGAAAATTTAGGGGTCAAAATACAATTTAAAAAAACCTAGGGGACAAAA
62356765 TGTAATTT
1 TGTAATTT
62356773 TTTTTAAAAA
Statistics
Matches: 54, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
59 54 1.00
ACGTcount: A:0.46, C:0.07, G:0.17, T:0.30
Consensus pattern (59 bp):
TGTAATTTCAAGAAAATTTAGGGGTCAAAATACAATTTAAAAAAACCTAGGGGACAAAA
Found at i:62357336 original size:78 final size:78
Alignment explanation
Indices: 62356998--62357746 Score: 796
Period size: 82 Copynumber: 9.5 Consensus size: 78
62356988 CGTGTGACTT
* *
62356998 GAGGCTGAACTCACCTCTAGCAATATGAGTTGATTTTTTTTGAAAGAACAGAAATTTTAAAAAAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAA-AACAGAAA--TT-AAAAAA
* *
62357063 TACCTC-G-ATATGAGCCT
61 TACCTCAGCATGTGA-CCC
* * * * * * *
62357080 GATGCTCAACTCACCTTTCACAATATGAGTTGA-TTGTTTGAAAAGCATAAATT-GAAAATACCT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAAATACCT
62357143 CAGC--GTGACCC
66 CAGCATGTGACCC
* *
62357154 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGGAGAAAACAAAAATTGAAAAATAC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT-GA-AAAACAGAAATTAAAAAATAC
62357219 CTCAGCATGTG-CCC
64 CTCAGCATGTGACCC
** *
62357233 GAGGCTCAACTCACCTCTCTTAATATGAGTTGATTTTTTTGAAAAGCAGAAATTAAAAAATACCT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAAATACCT
62357298 CAGCATGTGACCC
66 CAGCATGTGACCC
* *
62357311 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT-AAAAATAGAAATTTAAATGAAATA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAA-TTAAA--AAATA
*
62357375 CCTCGGCATGTGACCC
63 CCTCAGCATGTGACCC
* *
62357391 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTAAAAACAGAAATTGAAAAATAC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTGAAAAACAGAAATTAAAAAATAC
62357456 CTCAGC--GTGACCC
64 CTCAGCATGTGACCC
* *
62357469 GAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTTGGAAAAAATAGAAATTTAAAAGAAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT-G-AAAAACAGAAA-TT-AAA-AAA
*
62357534 TACCTC-GACATGTG-TCC
61 TACCTCAG-CATGTGACCC
* * * *
62357551 GAGGCTCAACTCACCTCTCGTAATATGAGTTAATTTTTTTGGAAAAAATAGAATTTTAAAAGAAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT-G-AAAAACAGAA-ATT-AAA-AAA
* *
62357616 TATCTC-GACATGTG-TCC
61 TACCTCAG-CATGTGACCC
* * *
62357633 GAGGCTCAACTCACCTCTTGTAATATGAGTTGA--CTTTTGAAAAAACAGAAATTTAAAAGAAAT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAAAACAGAAA-TT-AAA-AAAT
*
62357696 ACCTCGGCA--TGACCC
62 ACCTCAGCATGTGACCC
*
62357711 GAGGCTCAACTCACCTCTCGCATTATGAGTTGATTT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
62357747 AAAAAAAAAC
Statistics
Matches: 586, Mismatches: 52, Indels: 60
0.84 0.07 0.09
Matches are distributed among these distances:
74 32 0.05
75 18 0.03
76 10 0.02
77 52 0.09
78 141 0.24
79 77 0.13
80 83 0.14
81 10 0.02
82 150 0.26
83 13 0.02
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (78 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAAATACCT
CAGCATGTGACCC
Found at i:62357562 original size:160 final size:160
Alignment explanation
Indices: 62356998--62357746 Score: 865
Period size: 160 Copynumber: 4.7 Consensus size: 160
62356988 CGTGTGACTT
* * *
62356998 GAGGCTGAACTCACCTCTAGCAATATGAGTTGATTTTTTTTGAAAGAACAGAAATTTTAAAA-AA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAAAACAGAAA-TTTAAAAGAA
* * * * * * *
62357062 ATACCTCGATATGAGCCTGATGCTCAACTCACCTTTCACAATATGAGTTGA---TTGTTTGAAAA
64 ATACCTCGACATGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAA
* * *
62357124 GCATAAATT-GAAAATACCTCAGC-GTGACCC
129 ACAGAAATTAAAAAATACCTCAGCAGTGACCC
* * *
62357154 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGGAGAAAACA-AAAATT-GAA-AAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT-GAAAAAACAGAAATTTAAAAGAAA
**
62357216 TACCTC-AGCATGTGCCCGAGGCTCAACTCACCTCTCTTAATATGAGTTGA--TTTTTTTGAAAA
65 TACCTCGA-CATGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAA
*
62357278 GCAGAAATTAAAAAATACCTCAGCATGTGACCC
129 ACAGAAATTAAAAAATACCTCAGCA-GTGACCC
* * *
62357311 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT--AAAAATAGAAATTTAAATGAAAT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAACAGAAATTTAAAAGAAAT
* *
62357374 ACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTAAAAA
66 ACCTCGACATGTG-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAAA
*
62357439 CAGAAATTGAAAAATACCTCAGC-GTGACCC
130 CAGAAATTAAAAAATACCTCAGCAGTGACCC
* *
62357469 GAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTTGGAAAAAATAGAAATTTAAAAGAAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT-GAAAAAACAGAAATTTAAAAGAAA
* * * *
62357534 TACCTCGACATGTGTCCGAGGCTCAACTCACCTCTCGTAATATGAGTT-AATTTTTTTGGAAAAA
65 TACCTCGACATGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTG-AAAA
* * * *
62357598 ATAGAATTTTAAAAGAAATATCTC-GACATGTG-TCC
129 ACAGAA-ATT-AAA-AAATACCTCAG-CA-GTGACCC
* * *
62357633 GAGGCTCAACTCACCTCTTGTAATATGAGTTGA--CTTTTGAAAAAACAGAAATTTAAAAGAAAT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAACAGAAATTTAAAAGAAAT
* * *
62357696 ACCTCGGCATG-ACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTT
66 ACCTCGACATGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
62357747 AAAAAAAAAC
Statistics
Matches: 516, Mismatches: 53, Indels: 43
0.84 0.09 0.07
Matches are distributed among these distances:
152 1 0.00
153 46 0.09
154 25 0.05
155 28 0.05
156 39 0.08
157 61 0.12
158 79 0.15
159 8 0.02
160 105 0.20
161 73 0.14
162 7 0.01
163 9 0.02
164 32 0.06
165 3 0.01
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (160 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAACAGAAATTTAAAAGAAAT
ACCTCGACATGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAAAC
AGAAATTAAAAAATACCTCAGCAGTGACCC
Found at i:62357756 original size:78 final size:79
Alignment explanation
Indices: 62356998--62357768 Score: 740
Period size: 78 Copynumber: 9.7 Consensus size: 79
62356988 CGTGTGACTT
* * *
62356998 GAGGCTGAACTCACCTCTAGCAATATGAGTTGATTTTTTTTGAAAGAACAGAAATTTTAAAA-AA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTGAAAAAACAGAAA-TTTAAAAGAA
* *
62357062 ATACCTC-GATATGAGCCT
63 ATACCTCAG-CATGA-CCC
* * * * * * *
62357080 GATGCTCAACTCACCTTTCACAATATGAGTTGATTGTTTG-AAAAGCATAAA-TT--GA-AAATA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAACAGAAATTTAAAAGAAATA
*
62357140 CCTCAGCGTGACCC
66 CCTCAGCATGACCC
* * *
62357154 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGGAGAAAACA-AAAATT-GAA-AAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTT-GAAAAAACAGAAATTTAAAAGAAA
*
62357216 TACCTCAGCATGTGCCC
64 TACCTCAGCATG-ACCC
** *
62357233 GAGGCTCAACTCACCTCTCTTAATATGAGTTGATTTTTTTG-AAAAGCAGAAA-TT-AAA-AAAT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAAACAGAAATTTAAAAGAAAT
62357294 ACCTCAGCATGTGACCC
65 ACCTCAGCA--TGACCC
* * * *
62357311 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT-TAAAAATAGAAATTTAAATGAAATA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAACAGAAATTTAAAAGAAATA
*
62357375 CCTCGGCATGTGACCC
66 CCTCAGCA--TGACCC
** *
62357391 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTAAAAACAGAAA-TT-GAA-AAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTGAAAAAACAGAAATTTAAAAGAAA
*
62357453 TACCTCAGCGTGACCC
64 TACCTCAGCATGACCC
* *
62357469 GAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTTGGAAAAAATAGAAATTTAAAAGAAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTT-GAAAAAACAGAAATTTAAAAGAAA
**
62357534 TACCTC-GACATGTGTCC
64 TACCTCAG-CATG-ACCC
* * * *
62357551 GAGGCTCAACTCACCTCTCGTAATATGAGTTAATTTTTTTGGAAAAAATAGAATTTTAAAAGAAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTT-GAAAAAACAGAAATTTAAAAGAAA
* **
62357616 TATCTC-GACATGTGTCC
64 TACCTCAG-CATG-ACCC
* * *
62357633 GAGGCTCAACTCACCTCTTGTAATATGAGTTGA-CTTTTGAAAAAACAGAAATTTAAAAGAAATA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAACAGAAATTTAAAAGAAATA
*
62357697 CCTCGGCATGACCC
66 CCTCAGCATGACCC
* *** *
62357711 GAGGCTCAACTCACCTCTCGCATTATGAGTTGA-TTTAAAAAAAAACAGAAATTGAAAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAACAGAAATTTAAAA
62357769 ATATTTCTTG
Statistics
Matches: 597, Mismatches: 68, Indels: 52
0.83 0.09 0.07
Matches are distributed among these distances:
74 32 0.05
75 18 0.03
76 5 0.01
77 53 0.09
78 154 0.26
79 86 0.14
80 77 0.13
81 13 0.02
82 148 0.25
83 11 0.02
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (79 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAACAGAAATTTAAAAGAAATA
CCTCAGCATGACCC
Found at i:62366215 original size:35 final size:35
Alignment explanation
Indices: 62366176--62366268 Score: 118
Period size: 35 Copynumber: 2.7 Consensus size: 35
62366166 TTTTTTTAAA
*
62366176 AAAACACGAAAATTTTTGAATCAAG-AGAATTTTTG
1 AAAACACGAAAATTTTTGAAACAAGAAG-ATTTTTG
* *
62366211 AAAACCCGAAAATTTTTGGAAACACGAAGATTTTTG
1 AAAACACGAAAATTTTT-GAAACAAGAAGATTTTTG
*
62366247 -AAACACGACAATTTTTGAAACA
1 AAAACACGAAAATTTTTGAAACA
62366269 CAAGAAATTT
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
34 6 0.12
35 30 0.59
36 13 0.25
37 2 0.04
ACGTcount: A:0.45, C:0.13, G:0.14, T:0.28
Consensus pattern (35 bp):
AAAACACGAAAATTTTTGAAACAAGAAGATTTTTG
Found at i:62366224 original size:18 final size:18
Alignment explanation
Indices: 62366176--62366483 Score: 240
Period size: 18 Copynumber: 17.3 Consensus size: 18
62366166 TTTTTTTAAA
62366176 AAAACACGAAAATTTTTG
1 AAAACACGAAAATTTTTG
* * *
62366194 -AATCAAGAGAATTTTTG
1 AAAACACGAAAATTTTTG
*
62366211 AAAACCCGAAAATTTTTG
1 AAAACACGAAAATTTTTG
* *
62366229 GAAACACGAAGATTTTTG
1 AAAACACGAAAATTTTTG
*
62366247 -AAACACGACAATTTTTG
1 AAAACACGAAAATTTTTG
* * *
62366264 AAACACAAGAAATTTTTTT
1 AAA-ACACGAAAATTTTTG
* ** *
62366283 TAAA-GTGCAAAATTTTTT
1 AAAACACG-AAAATTTTTG
*
62366301 AAAACACTG-AAATTTGTG
1 AAAACAC-GAAAATTTTTG
* *
62366319 -AAACACGAGAATTGTTG
1 AAAACACGAAAATTTTTG
62366336 AAAACACGAAAATTTTTG
1 AAAACACGAAAATTTTTG
* * *
62366354 AAAATATGAAAATATTTG
1 AAAACACGAAAATTTTTG
*
62366372 AAAACGCGAAAATTTTT-
1 AAAACACGAAAATTTTTG
* *
62366389 TAAACACAAAAATTTTTAG
1 AAAACACGAAAATTTTT-G
62366408 AAAACACGAAAACTTTTTG
1 AAAACACGAAAA-TTTTTG
* * *
62366427 -AATCACTAGAA-TTTTG
1 AAAACACGAAAATTTTTG
*
62366443 AAAACACGTAAATTTTTG
1 AAAACACGAAAATTTTTG
*
62366461 -AAACACCG-GAATTTTTG
1 AAAACA-CGAAAATTTTTG
62366478 AAAACA
1 AAAACA
62366484 TGTTGAGTTT
Statistics
Matches: 225, Mismatches: 50, Indels: 30
0.74 0.16 0.10
Matches are distributed among these distances:
16 6 0.03
17 76 0.34
18 113 0.50
19 24 0.11
20 6 0.03
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.31
Consensus pattern (18 bp):
AAAACACGAAAATTTTTG
Found at i:62366234 original size:53 final size:52
Alignment explanation
Indices: 62366177--62366483 Score: 210
Period size: 53 Copynumber: 5.8 Consensus size: 52
62366167 TTTTTTAAAA
* * * *
62366177 AAACACGAAAATTTTTGAATCAAGAGAATTTTTGAAAACCCGAAAATTTTTGG
1 AAACACGAAAATTTTTGAAACATGA-AATTTTTGAAAACACGAAAATTTTTGT
* * * * *
62366230 AAACACGAAGATTTTTGAAACACGACAATTTTTGAAACACAAGAAATTTTTTTT
1 AAACACGAAAATTTTTGAAACATGA-AATTTTTGAAA-ACACGAAAATTTTTGT
** * * * * *
62366284 AAA-GTGCAAAATTTTTTAAAACACTGAAATTTGTG-AAACACGAGAATTGTTGA
1 AAACACG-AAAA-TTTTTGAAACA-TGAAATTTTTGAAAACACGAAAATTTTTGT
* * *
62366337 AAACACGAAAATTTTTGAAAATATGAAAATATTTGAAAACGCGAAAATTTTT-T
1 AAACACGAAAATTTTTG-AAACATG-AAATTTTTGAAAACACGAAAATTTTTGT
* * * * * *
62366390 AAACACAAAAATTTTTAGAAAACACGAAAACTTTTTG-AATCACTAGAA-TTTTGA
1 AAACACGAAAATTTTT-G-AAACATG-AAA-TTTTTGAAAACACGAAAATTTTTGT
* * *
62366444 AAACACGTAAATTTTTGAAACACCGGAATTTTTGAAAACA
1 AAACACGAAAATTTTTGAAACA-TGAAATTTTTGAAAACA
62366484 TGTTGAGTTT
Statistics
Matches: 197, Mismatches: 44, Indels: 27
0.74 0.16 0.10
Matches are distributed among these distances:
51 6 0.03
52 18 0.09
53 84 0.43
54 65 0.33
55 22 0.11
56 2 0.01
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.31
Consensus pattern (52 bp):
AAACACGAAAATTTTTGAAACATGAAATTTTTGAAAACACGAAAATTTTTGT
Found at i:62366299 original size:72 final size:70
Alignment explanation
Indices: 62366177--62366483 Score: 259
Period size: 71 Copynumber: 4.3 Consensus size: 70
62366167 TTTTTTAAAA
* * * *** *
62366177 AAACACGAAAATTTTTG-AATCAAGAGAATTTTTGAAAACCCGAAAATTTTTGGAAACACGAAGA
1 AAACACGAAAATTTTTGAAAACACGAAAATTTTTGAAAATATGAAAATTTTTGAAAACACGAA-A
62366241 TTTTTG
65 TTTTTG
* * * ** * *
62366247 AAACACGACAATTTTTGAAACACAAGAAATTTTTTTTAAA-GTGCAAAATTTTTTAAAACACTGA
1 AAACACGAAAATTTTTGAAA-ACACGAAAATTTTTGAAAATATG-AAAATTTTTGAAAACAC-GA
*
62366311 AATTTGTG
63 AATTTTTG
* * * *
62366319 AAACACGAGAATTGTTGAAAACACGAAAATTTTTGAAAATATGAAAATATTTGAAAACGCGAAAA
1 AAACACGAAAATTTTTGAAAACACGAAAATTTTTGAAAATATGAAAATTTTTGAAAACACG-AAA
*
62366384 TTTTTT
65 TTTTTG
* *
62366390 AAACACAAAAATTTTTAGAAAACACGAAAACTTTTTG--AATCACT-AGAA-TTTTGAAAACACG
1 AAACACGAAAATTTTT-GAAAACACGAAAA-TTTTTGAAAAT-A-TGAAAATTTTTGAAAACACG
62366451 TAAATTTTTG
62 -AAATTTTTG
*
62366461 AAACACCG-GAATTTTTGAAAACA
1 AAACA-CGAAAATTTTTGAAAACA
62366484 TGTTGAGTTT
Statistics
Matches: 193, Mismatches: 33, Indels: 22
0.78 0.13 0.09
Matches are distributed among these distances:
70 24 0.12
71 86 0.45
72 73 0.38
73 10 0.05
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.31
Consensus pattern (70 bp):
AAACACGAAAATTTTTGAAAACACGAAAATTTTTGAAAATATGAAAATTTTTGAAAACACGAAAT
TTTTG
Found at i:62366425 original size:125 final size:124
Alignment explanation
Indices: 62366177--62366463 Score: 80
Period size: 125 Copynumber: 2.3 Consensus size: 124
62366167 TTTTTTAAAA
* * * * * * *
62366177 AAACACGAAAATTTTTG-AATCAAGAGAATTTTTGAAAACCCGAAAATTTTTGGAAACACGAAGA
1 AAACACGAGAATTTTTGAAAACACGAAAATTTTTGAAAACACGAAAATATTT-GAAACACGAAAA
* * * ** *
62366241 TTTTTGAAACAC--GACAATTTTT-GAAACAC-AAGAAATTTTTTTTAA-AGTGCAAAATTTTTT
65 TTTTTGAAACACAAGA-AATTTTTAGAAAAACGCA-AAACTTTTTAAAACACTG--AAA--TTTT
*
62366301 A
124 G
* * * * * *
62366302 AAACACTGA-AATTTGTG-AAACACGAGAATTGTTGAAAACACGAAAATTTTTGAAAATATGAAA
1 AAACAC-GAGAATTTTTGAAAACACGAAAATTTTTGAAAACACGAAAATATTTG-AAACACGAAA
* ** * * *
62366365 ATATTTGAAA-ACGCGAAAATTTTT---TAAACACAAAAATTTTTAGAAAACAC-GAAAACTTTT
64 ATTTTTGAAACACAAG-AAATTTTTAGAAAAACGCAAAACTTTTT--AAAACACTG-AAA--TTT
62366425 TG
123 TG
* * *
62366427 AATCACTAGAA-TTTTGAAAACACGTAAATTTTTGAAA
1 AAACACGAGAATTTTTGAAAACACGAAAATTTTTGAAA
62366464 CACCGGAATT
Statistics
Matches: 127, Mismatches: 24, Indels: 22
0.73 0.14 0.13
Matches are distributed among these distances:
124 19 0.15
125 93 0.73
126 13 0.10
127 2 0.02
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.31
Consensus pattern (124 bp):
AAACACGAGAATTTTTGAAAACACGAAAATTTTTGAAAACACGAAAATATTTGAAACACGAAAAT
TTTTGAAACACAAGAAATTTTTAGAAAAACGCAAAACTTTTTAAAACACTGAAATTTTG
Found at i:62366481 original size:35 final size:35
Alignment explanation
Indices: 62366186--62366483 Score: 169
Period size: 35 Copynumber: 8.4 Consensus size: 35
62366176 AAAACACGAA
* * * *
62366186 AATTTTTG-AATCAAGAGAATTTTTGAAA-ACCCGAA
1 AATTTTTGAAAACACGAAAATTTTTGAAACA-CCG-G
* * *
62366221 AATTTTTGGAAACACGAAGATTTTTGAAACA-CGAC
1 AATTTTTGAAAACACGAAAATTTTTGAAACACCG-G
* * * *** **
62366256 AATTTTTGAAACACAAGAAATTTTTTTTAAAGTGCAA
1 AATTTTTGAAA-ACACGAAA-ATTTTTGAAACACCGG
* *
62366293 AATTTTTTAAAACACTG-AAATTTGTGAAACA-CGAG
1 AATTTTTGAAAACAC-GAAAATTTTTGAAACACCG-G
* ** *
62366328 AATTGTTGAAAACACGAAAATTTTTGAAA-ATATGAA
1 AATTTTTGAAAACACGAAAATTTTTGAAACA-CCG-G
* * * ***
62366364 AATATTTGAAAACGCGAAAATTTTTTAAACACAAA
1 AATTTTTGAAAACACGAAAATTTTTGAAACACCGG
* **
62366399 AATTTTTAGAAAACACGAAAACTTTTTGAATCACTAG
1 AATTTTT-GAAAACACGAAAA-TTTTTGAAACACCGG
*
62366436 AA-TTTTGAAAACACGTAAATTTTTGAAACACCGG
1 AATTTTTGAAAACACGAAAATTTTTGAAACACCGG
62366470 AATTTTTGAAAACA
1 AATTTTTGAAAACA
62366484 TGTTGAGTTT
Statistics
Matches: 204, Mismatches: 45, Indels: 28
0.74 0.16 0.10
Matches are distributed among these distances:
34 17 0.08
35 82 0.40
36 70 0.34
37 34 0.17
38 1 0.00
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.32
Consensus pattern (35 bp):
AATTTTTGAAAACACGAAAATTTTTGAAACACCGG
Found at i:62366697 original size:16 final size:17
Alignment explanation
Indices: 62366658--62366699 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
62366648 ACACGAGAAA
*
62366658 AAAAATTTTGAAGACAT
1 AAAAATTTTGAAGACAC
62366675 AAAAATTTTGAA-ACAC
1 AAAAATTTTGAAGACAC
*
62366691 AAGAATTTT
1 AAAAATTTT
62366700 TTTTGAAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 11 0.48
17 12 0.52
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.31
Consensus pattern (17 bp):
AAAAATTTTGAAGACAC
Found at i:62366705 original size:20 final size:20
Alignment explanation
Indices: 62366680--62366721 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
62366670 GACATAAAAA
62366680 TTTTGAAACACAAG-AATTTT
1 TTTTGAAA-ACAAGAAATTTT
*
62366700 TTTTGAAAACACGAAATTTT
1 TTTTGAAAACAAGAAATTTT
62366720 TT
1 TT
62366722 GAATATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.43
Consensus pattern (20 bp):
TTTTGAAAACAAGAAATTTT
Found at i:62366719 original size:19 final size:20
Alignment explanation
Indices: 62366680--62366721 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
62366670 GACATAAAAA
*
62366680 TTTTGAAACACAAGAATTTT
1 TTTTGAAACACAAGAAATTT
*
62366700 TTTTGAAA-ACACGAAATTT
1 TTTTGAAACACAAGAAATTT
62366719 TTT
1 TTT
62366722 GAATATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.43
Consensus pattern (20 bp):
TTTTGAAACACAAGAAATTT
Found at i:62366910 original size:16 final size:16
Alignment explanation
Indices: 62366881--62366935 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 16
62366871 AAATTAAATT
62366881 AAAAATAT--AAATAC
1 AAAAATATAAAAATAC
62366895 AAAAATATAAAAATAC
1 AAAAATATAAAAATAC
* * *
62366911 ATAAAGTACTAATAATAT
1 A-AAAATA-TAAAAATAC
62366929 AAAAATA
1 AAAAATA
62366936 CGAGTATTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
14 8 0.24
16 7 0.21
17 10 0.30
18 8 0.24
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.24
Consensus pattern (16 bp):
AAAAATATAAAAATAC
Found at i:62367049 original size:15 final size:15
Alignment explanation
Indices: 62367026--62367079 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
62367016 TTGAAACCTT
*
62367026 TTCTCTTTTTTCTTC
1 TTCTTTTTTTTCTTC
62367041 TTCTTTTTTTT-TTC
1 TTCTTTTTTTTCTTC
* * *
62367055 TTTCTTTCTCTTCTTT
1 -TTCTTTTTTTTCTTC
62367071 TTCTTTTTT
1 TTCTTTTTT
62367080 GGCCTGTTGG
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
14 3 0.10
15 26 0.84
16 2 0.06
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (15 bp):
TTCTTTTTTTTCTTC
Done.