Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 352 of 378
Found at i:105809891 original size:20 final size:20
Alignment explanation
Indices: 105809868--105809905 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
105809858 GTTATTAAGT
105809868 TAAAAATTATGTTA-ATGATA
1 TAAAAATTA-GTTATATGATA
*
105809888 TAAATATTAGTTATATGA
1 TAAAAATTAGTTATATGA
105809906 ATGTGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (20 bp):
TAAAAATTAGTTATATGATA
Found at i:105811254 original size:20 final size:20
Alignment explanation
Indices: 105811210--105811255 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
105811200 CTTTTACATA
*
105811210 TTATA-TATTTTAAACTTGT
1 TTATATTATTTTAAACTTGC
105811229 TATATATTATTTTAAA-TTGAC
1 T-TATATTATTTTAAACTTG-C
105811250 TTATAT
1 TTATAT
105811256 ATTATTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 1 0.04
20 12 0.52
21 10 0.43
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (20 bp):
TTATATTATTTTAAACTTGC
Found at i:105811256 original size:22 final size:21
Alignment explanation
Indices: 105811211--105811262 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 21
105811201 TTTTACATAT
105811211 TATA-TATTTTAAACTTGTTA
1 TATATTATTTTAAACTTGTTA
105811231 TATATTATTTTAAA-TTGACTTA
1 TATATTATTTTAAACTTG--TTA
105811253 TATATTATTT
1 TATATTATTT
105811263 ATTTTAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.24
21 9 0.31
22 13 0.45
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (21 bp):
TATATTATTTTAAACTTGTTA
Found at i:105811275 original size:22 final size:22
Alignment explanation
Indices: 105811207--105811275 Score: 52
Period size: 26 Copynumber: 3.0 Consensus size: 22
105811197 ATTCTTTTAC
* * *
105811207 ATATTATATATTTTAAACTTGT
1 ATATTATTTATTTTAAAATTAT
105811229 -TA-TATATTATTTTAAATTGACTTAT
1 ATATTAT-TTATTTTAAA---A-TTAT
105811254 ATATTATTTATTTTAAAATTAT
1 ATATTATTTATTTTAAAATTAT
105811276 TTTATATACC
Statistics
Matches: 37, Mismatches: 3, Indels: 14
0.69 0.06 0.26
Matches are distributed among these distances:
20 3 0.08
21 11 0.30
22 4 0.11
23 1 0.03
25 3 0.08
26 12 0.32
27 3 0.08
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (22 bp):
ATATTATTTATTTTAAAATTAT
Found at i:105811281 original size:25 final size:23
Alignment explanation
Indices: 105811215--105811295 Score: 67
Period size: 25 Copynumber: 3.4 Consensus size: 23
105811205 ACATATTATA
* *
105811215 TATTTTAAACT-TGTTATATA-T
1 TATTTTAAATTATTTTATATATT
*
105811236 TATTTTAAATTGACTTATATATTATT
1 TATTTTAAATT-A-TTTTATA-TATT
*
105811262 TATTTTAAAATTATTTTATATACCT
1 TATTTT-AAATTATTTTATATA-TT
105811287 TATTTTAAA
1 TATTTTAAA
105811296 CCCTATTTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
21 10 0.21
24 10 0.21
25 15 0.31
26 8 0.17
27 5 0.10
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (23 bp):
TATTTTAAATTATTTTATATATT
Found at i:105812424 original size:23 final size:23
Alignment explanation
Indices: 105812375--105812425 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
105812365 TTTTAATTTC
* *
105812375 CATTTTCAAACAAAATCGATTCC
1 CATTTTCAAACAAAATAGATTCA
*
105812398 CATTTTCAAA-AAAATAGTTTCGA
1 CATTTTCAAACAAAATAGATTC-A
105812421 CATTT
1 CATTT
105812426 ATAATCACTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 9 0.38
23 15 0.62
ACGTcount: A:0.39, C:0.20, G:0.06, T:0.35
Consensus pattern (23 bp):
CATTTTCAAACAAAATAGATTCA
Found at i:105825257 original size:36 final size:36
Alignment explanation
Indices: 105825217--105825289 Score: 114
Period size: 36 Copynumber: 2.0 Consensus size: 36
105825207 TGTGAAGTGT
105825217 CCCTTGACATT-AGTAAAGGCCATAGATGA-AGAGAAG
1 CCCTTGAC-TTCAGTAAAGGCCATAGAT-ATAGAGAAG
105825253 CCCTTGACTTCAGTAAAGGCCATAGATATAGAGAAG
1 CCCTTGACTTCAGTAAAGGCCATAGATATAGAGAAG
105825289 C
1 C
105825290 TAAGTGAATG
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
35 3 0.09
36 32 0.91
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.21
Consensus pattern (36 bp):
CCCTTGACTTCAGTAAAGGCCATAGATATAGAGAAG
Found at i:105829553 original size:16 final size:16
Alignment explanation
Indices: 105829534--105829566 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
105829524 CGACATAGTG
105829534 AATTTTCTTCTCATCT
1 AATTTTCTTCTCATCT
105829550 AATTTTCTTCTCATCT
1 AATTTTCTTCTCATCT
105829566 A
1 A
105829567 TCTGTGGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.24, G:0.00, T:0.55
Consensus pattern (16 bp):
AATTTTCTTCTCATCT
Found at i:105835458 original size:2 final size:2
Alignment explanation
Indices: 105835451--105835476 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
105835441 TATCATTTGA
105835451 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
105835477 CATTCTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:105835687 original size:6 final size:6
Alignment explanation
Indices: 105835658--105835698 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
105835648 GTGCCTAAAT
* *
105835658 AGTAATC AGTAAC GGTAGC AGTAAC AGTAAC AGTAAC AGTA
1 AGTAA-C AGTAAC AGTAAC AGTAAC AGTAAC AGTAAC AGTA
105835699 TTCAACACAC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
6 25 0.83
7 5 0.17
ACGTcount: A:0.44, C:0.15, G:0.22, T:0.20
Consensus pattern (6 bp):
AGTAAC
Found at i:105835728 original size:39 final size:39
Alignment explanation
Indices: 105835685--105835815 Score: 181
Period size: 39 Copynumber: 3.4 Consensus size: 39
105835675 GCAGTAACAG
* *
105835685 TAACAGTAACAGTATTCAACACACAAAGTGTTGAATCGA
1 TAACAGTAACAGTATTCGACACACAAAGTGTCGAATCGA
* * *
105835724 TAACAGTAATAGTATTCGAGACACAAAGTGTCGAATCGG
1 TAACAGTAACAGTATTCGACACACAAAGTGTCGAATCGA
* * * *
105835763 TAATAGGAATAGTATTCGACACACAACGTGTCGAATCGA
1 TAACAGTAACAGTATTCGACACACAAAGTGTCGAATCGA
105835802 TAACAGTAACAGTA
1 TAACAGTAACAGTA
105835816 ACAGTAATCG
Statistics
Matches: 79, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 79 1.00
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.23
Consensus pattern (39 bp):
TAACAGTAACAGTATTCGACACACAAAGTGTCGAATCGA
Found at i:105836529 original size:3 final size:3
Alignment explanation
Indices: 105836521--105836575 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
105836511 TATTTAACAT
105836521 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
105836569 TAA TAA T
1 TAA TAA T
105836576 TTTTACTTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:105838402 original size:15 final size:16
Alignment explanation
Indices: 105838376--105838406 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
105838366 AACAGATTAG
105838376 ATTATATTATAAAATT
1 ATTATATTATAAAATT
105838392 ATTAT-TTATAAAATT
1 ATTATATTATAAAATT
105838407 TTGTATATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATTATATTATAAAATT
Found at i:105841811 original size:7 final size:7
Alignment explanation
Indices: 105841801--105841841 Score: 52
Period size: 7 Copynumber: 6.3 Consensus size: 7
105841791 TTTGTAATTT
*
105841801 TTTAATA
1 TTTAAAA
105841808 TTT-AAA
1 TTTAAAA
105841814 TTTAAAA
1 TTTAAAA
105841821 TTTAAAA
1 TTTAAAA
105841828 TTT--AA
1 TTTAAAA
105841833 TTTAAAA
1 TTTAAAA
105841840 TT
1 TT
105841842 CGACTCTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
5 5 0.17
6 5 0.17
7 20 0.67
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (7 bp):
TTTAAAA
Found at i:105841823 original size:13 final size:13
Alignment explanation
Indices: 105841801--105841841 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
105841791 TTTGTAATTT
105841801 TTTAATATTT-AAA
1 TTTAA-ATTTAAAA
105841814 TTTAAAATTTAAAA
1 TTT-AAATTTAAAA
105841828 TTT-AATTTAAAA
1 TTTAAATTTAAAA
105841840 TT
1 TT
105841842 CGACTCTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 11 0.42
13 7 0.27
14 8 0.31
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
TTTAAATTTAAAA
Found at i:105841830 original size:20 final size:19
Alignment explanation
Indices: 105841801--105841841 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
105841791 TTTGTAATTT
*
105841801 TTTAATATTTAAATTTAAAA
1 TTTAAAATTT-AATTTAAAA
105841821 TTTAAAATTTAATTTAAAA
1 TTTAAAATTTAATTTAAAA
105841840 TT
1 TT
105841842 CGACTCTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TTTAAAATTTAATTTAAAA
Found at i:105849477 original size:22 final size:22
Alignment explanation
Indices: 105849452--105849507 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
105849442 AATAGGGTCA
*
105849452 CACGCCCGTGTGGACTCAAGGG
1 CACGCCCGTGTGGACACAAGGG
105849474 CACGCCCGTGTGGACACAAGGG
1 CACGCCCGTGTGGACACAAGGG
* *
105849496 CACACTCGTGTG
1 CACGCCCGTGTG
105849508 TCATCAACAC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.20, C:0.32, G:0.34, T:0.14
Consensus pattern (22 bp):
CACGCCCGTGTGGACACAAGGG
Found at i:105851958 original size:25 final size:25
Alignment explanation
Indices: 105851930--105851980 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
105851920 TCATAGCAAG
105851930 ATATATTTCATGTATAACAATAATA
1 ATATATTTCATGTATAACAATAATA
105851955 ATATATTTCATGTATAACAATAATA
1 ATATATTTCATGTATAACAATAATA
105851980 A
1 A
105851981 CATAAATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.49, C:0.08, G:0.04, T:0.39
Consensus pattern (25 bp):
ATATATTTCATGTATAACAATAATA
Found at i:105857831 original size:24 final size:24
Alignment explanation
Indices: 105857804--105857851 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
105857794 ATATTTTTTA
* *
105857804 AAATTAATTGCATTTTTTAAGAAG
1 AAATTAATGGCAGTTTTTAAGAAG
*
105857828 AAATTAATGGTAGTTTTTAAGAAG
1 AAATTAATGGCAGTTTTTAAGAAG
105857852 TAATAGTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.42, C:0.02, G:0.17, T:0.40
Consensus pattern (24 bp):
AAATTAATGGCAGTTTTTAAGAAG
Found at i:105857864 original size:20 final size:20
Alignment explanation
Indices: 105857795--105857864 Score: 52
Period size: 24 Copynumber: 3.4 Consensus size: 20
105857785 TAAATATATA
* *
105857795 TATTTTTTAA-AATTAATTG
1 TATTTTTTAAGAAGTAATAG
* *
105857814 CATTTTTTAAGAAGAAATTAATGG
1 TATTTTTTAAGAAG----TAATAG
*
105857838 TAGTTTTTAAGAAGTAATAG
1 TATTTTTTAAGAAGTAATAG
105857858 TATTTTT
1 TATTTTT
105857865 AAAGGATAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 9
0.71 0.13 0.16
Matches are distributed among these distances:
19 9 0.23
20 13 0.33
24 17 0.44
ACGTcount: A:0.37, C:0.01, G:0.13, T:0.49
Consensus pattern (20 bp):
TATTTTTTAAGAAGTAATAG
Found at i:105857953 original size:30 final size:30
Alignment explanation
Indices: 105857887--105857960 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 30
105857877 AATTTTTAGC
**
105857887 CCCTAAACTTGGCAACTAGGTCCACTTTGGT
1 CCCTAAACTTGG-AACTAAATCCACTTTGGT
* *
105857918 GCCTAAACTTGGAACTAAATCTA-TTTGGGT
1 CCCTAAACTTGGAACTAAATCCACTTT-GGT
*
105857948 CCCTAAATTTGGA
1 CCCTAAACTTGGA
105857961 TACCATTAAG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
29 3 0.08
30 22 0.61
31 11 0.31
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (30 bp):
CCCTAAACTTGGAACTAAATCCACTTTGGT
Found at i:105867354 original size:68 final size:69
Alignment explanation
Indices: 105867175--105867570 Score: 335
Period size: 68 Copynumber: 5.8 Consensus size: 69
105867165 TCTAAACACG
* * * * * * * *
105867175 TGTTTAACGTCCTGGCAAACTCTATTAGCTGT-CATAGTCGAGTTATGGTTTTACACACCTTGTA
1 TGTTTAATGTCCTGACAGACTCTATTGGTTGTCCATAGCCGAGCTATGGTCTT--ACACCTTGTA
**
105867239 ACCTTA
64 ACCCCA
* ** ** * * ** *
105867245 T-TTGAATGTTTTGGTAGACTCTATTGGCTG-CCTTAATCGAGCTATGGTCTTACACCTTATAAC
1 TGTTTAATGTCCTGACAGACTCTATTGGTTGTCCATAGCCGAGCTATGGTCTTACACCTTGTAAC
105867308 CCCA
66 CCCA
* * *
105867312 TGTTTAATGTCTTGACGGGCTCTATTGGTTGT-CATAGCCGAGCTATGGTCTTACACCTTGTAAC
1 TGTTTAATGTCCTGACAGACTCTATTGGTTGTCCATAGCCGAGCTATGGTCTTACACCTTGTAAC
**
105867376 TTCA
66 CCCA
* * * * *
105867380 TGTTTAATGTCCTGGCAGATTCTATTGGTTGT-TATAGTCGAGCTATGGTCTTACATCTTGTAA-
1 TGTTTAATGTCCTGACAGACTCTATTGGTTGTCCATAGCCGAGCTATGGTCTTACACCTTGTAAC
105867443 CCCA
66 CCCA
* * * *
105867447 TGTTTAATGTCCTGGCAGACT-TCATTAGTT-TCCATAACTGAGCTATGGTCTTACACCTTGTAA
1 TGTTTAATGTCCTGACAGACTCT-ATTGGTTGTCCATAGCCGAGCTATGGTCTTACACCTTGTAA
*
105867510 CCTCA
65 CCCCA
* * * *
105867515 TGTTTAATATCCT-AGCGGACTCTATTGG-TGTCCATCGTCGAGCTATGGTCTTACAC
1 TGTTTAATGTCCTGA-CAGACTCTATTGGTTGTCCATAGCCGAGCTATGGTCTTACAC
105867571 ATTAAACCTC
Statistics
Matches: 264, Mismatches: 53, Indels: 20
0.78 0.16 0.06
Matches are distributed among these distances:
66 2 0.01
67 69 0.26
68 153 0.58
69 39 0.15
70 1 0.00
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.38
Consensus pattern (69 bp):
TGTTTAATGTCCTGACAGACTCTATTGGTTGTCCATAGCCGAGCTATGGTCTTACACCTTGTAAC
CCCA
Found at i:105867495 original size:135 final size:136
Alignment explanation
Indices: 105867175--105867578 Score: 399
Period size: 135 Copynumber: 3.0 Consensus size: 136
105867165 TCTAAACACG
* * * * ** * *
105867175 TGTTTAACGTCCTGGCAAACTCTATTAGCTGTCATAGTCGAGTTATGGTTTTACACACCTTGTAA
1 TGTTTAATGTCCTGACAGACTCTATTAGTTGTCATAACCGAGCTATGGTCTT--ACACCTTGTAA
* * * ** * * * *
105867240 CCTTAT-TTGAATGTTTTGGTAGACTCTATTGGCTG-CCTTAATCGAGCTATGGTCTTACACCTT
64 CCTCATGTTTAATATCCTAGCAGACTCTATTGG-TGTCCATAGTCGAGCTATGGTCTTACACCTT
105867303 ATAACCCCA
128 ATAACCCCA
* * * * * *
105867312 TGTTTAATGTCTTGACGGGCTCTATTGGTTGTCATAGCCGAGCTATGGTCTTACACCTTGTAACT
1 TGTTTAATGTCCTGACAGACTCTATTAGTTGTCATAACCGAGCTATGGTCTTACACCTTGTAACC
* * * * * *
105867377 TCATGTTTAATGTCCTGGCAGATTCTATTGGTTGT-TATAGTCGAGCTATGGTCTTACATCTTGT
66 TCATGTTTAATATCCTAGCAGACTCTATTGG-TGTCCATAGTCGAGCTATGGTCTTACACCTTAT
105867441 AA-CCCA
130 AACCCCA
* *
105867447 TGTTTAATGTCCTGGCAGACT-TCATTAGTT-TCCATAACTGAGCTATGGTCTTACACCTTGTAA
1 TGTTTAATGTCCTGACAGACTCT-ATTAGTTGT-CATAACCGAGCTATGGTCTTACACCTTGTAA
* * *
105867510 CCTCATGTTTAATATCCTAGCGGACTCTATTGGTGTCCATCGTCGAGCTATGGTCTTACACATTA
64 CCTCATGTTTAATATCCTAGCAGACTCTATTGGTGTCCATAGTCGAGCTATGGTCTTACACCTTA
105867575 -AACC
129 TAACC
105867579 TCTTTTGAGG
Statistics
Matches: 220, Mismatches: 41, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
134 7 0.03
135 123 0.56
136 49 0.22
137 41 0.19
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (136 bp):
TGTTTAATGTCCTGACAGACTCTATTAGTTGTCATAACCGAGCTATGGTCTTACACCTTGTAACC
TCATGTTTAATATCCTAGCAGACTCTATTGGTGTCCATAGTCGAGCTATGGTCTTACACCTTATA
ACCCCA
Found at i:105868484 original size:16 final size:15
Alignment explanation
Indices: 105868431--105868483 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 15
105868421 ATCTAAAACC
105868431 AAATATTTAGAATTTA
1 AAATATTTA-AATTTA
**
105868447 AAATATTATAAACCTA
1 AAATATT-TAAATTTA
105868463 AAATAATTTAAATTTA
1 AAAT-ATTTAAATTTA
105868479 AAATA
1 AAATA
105868484 AAAAAATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
15 1 0.03
16 25 0.81
17 5 0.16
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.38
Consensus pattern (15 bp):
AAATATTTAAATTTA
Found at i:105870027 original size:3 final size:3
Alignment explanation
Indices: 105869992--105870048 Score: 50
Period size: 3 Copynumber: 20.3 Consensus size: 3
105869982 AATTTTCTAA
* * *
105869992 TAT TAT T-T TTT TGT TAT T-T TAC TAT TA- TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
105870037 T-T TGT TAT TAT T
1 TAT TAT TAT TAT T
105870049 GTTTGGATAT
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
2 8 0.18
3 37 0.82
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:105870036 original size:17 final size:17
Alignment explanation
Indices: 105870005--105870048 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
105869995 TATTTTTTTG
*
105870005 TTATT-TTACTATTATA
1 TTATTATTATTATTATA
*
105870021 TTATTATTATTATTATT
1 TTATTATTATTATTATA
*
105870038 TTGTTATTATT
1 TTATTATTATT
105870049 GTTTGGATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 5 0.21
17 19 0.79
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (17 bp):
TTATTATTATTATTATA
Found at i:105870048 original size:14 final size:14
Alignment explanation
Indices: 105870014--105870096 Score: 51
Period size: 14 Copynumber: 5.5 Consensus size: 14
105870004 GTTATTTTAC
*
105870014 TATTA-TATTATTAT
1 TATTATTATT-TTGT
105870028 TATTATTATTTTGT
1 TATTATTATTTTGT
* * *
105870042 TATTATTGTTTGGA
1 TATTATTATTTTGT
*
105870056 TATTATATAACTCTTATTT
1 TATTAT-T-A-T-TT-TGT
105870075 TATTATTAATTTTGT
1 TATTATT-ATTTTGT
105870090 TATTATT
1 TATTATT
105870097 TTTAAAGACA
Statistics
Matches: 54, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
14 25 0.46
15 14 0.26
16 2 0.04
17 2 0.04
18 5 0.09
19 6 0.11
ACGTcount: A:0.28, C:0.02, G:0.06, T:0.64
Consensus pattern (14 bp):
TATTATTATTTTGT
Found at i:105870051 original size:9 final size:9
Alignment explanation
Indices: 105869992--105870048 Score: 50
Period size: 8 Copynumber: 6.8 Consensus size: 9
105869982 AATTTTCTAA
105869992 TATTATT-T
1 TATTATTAT
* *
105870000 TTTTGTTAT
1 TATTATTAT
*
105870009 T-TTACTAT
1 TATTATTAT
105870017 TA-TATTAT
1 TATTATTAT
105870025 TATTATTAT
1 TATTATTAT
*
105870034 TATT-TTGT
1 TATTATTAT
105870042 TATTATT
1 TATTATT
105870049 GTTTGGATAT
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
8 25 0.64
9 14 0.36
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.70
Consensus pattern (9 bp):
TATTATTAT
Found at i:105871984 original size:14 final size:14
Alignment explanation
Indices: 105871965--105871995 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
105871955 TTATATGTGA
*
105871965 AAAATAAATAGAAT
1 AAAATAAATAAAAT
105871979 AAAATAAATAAAAT
1 AAAATAAATAAAAT
105871993 AAA
1 AAA
105871996 GAACACACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.19
Consensus pattern (14 bp):
AAAATAAATAAAAT
Found at i:105876443 original size:9 final size:9
Alignment explanation
Indices: 105876418--105876448 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
105876408 AATTTGTGAA
105876418 AAATAAAAT
1 AAATAAAAT
105876427 AGAATAAAAT
1 A-AATAAAAT
105876437 AAATAAAAT
1 AAATAAAAT
105876446 AAA
1 AAA
105876449 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:105877383 original size:20 final size:20
Alignment explanation
Indices: 105877340--105877385 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
105877330 AATTACTTAC
* *
105877340 TCAAATATAAAATTAAATAT
1 TCAAATATAAAATTAAACAA
**
105877360 TCAAATATAAAATTATCCAA
1 TCAAATATAAAATTAAACAA
105877380 TCAAAT
1 TCAAAT
105877386 GCAACTCAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.33
Consensus pattern (20 bp):
TCAAATATAAAATTAAACAA
Found at i:105879976 original size:64 final size:63
Alignment explanation
Indices: 105879907--105880033 Score: 245
Period size: 64 Copynumber: 2.0 Consensus size: 63
105879897 ACATTAGTAA
105879907 TCACTTACAAAATGATCAATCAACTATTAGTTATTTTTTAAATATTTGTTTTTTAATATTTTAT
1 TCACTTACAAAATGATCAATCAACTATTAGTTA-TTTTTAAATATTTGTTTTTTAATATTTTAT
105879971 TCACTTACAAAATGATCAATCAACTATTAGTTATTTTTAAATATTTGTTTTTTAATATTTTAT
1 TCACTTACAAAATGATCAATCAACTATTAGTTATTTTTAAATATTTGTTTTTTAATATTTTAT
105880034 CATTCTCATT
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
63 30 0.48
64 33 0.52
ACGTcount: A:0.35, C:0.09, G:0.05, T:0.51
Consensus pattern (63 bp):
TCACTTACAAAATGATCAATCAACTATTAGTTATTTTTAAATATTTGTTTTTTAATATTTTAT
Found at i:105885355 original size:21 final size:21
Alignment explanation
Indices: 105885329--105885372 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
105885319 TAATGCACTT
105885329 ACAAGTGCAATCACTTTGCTC
1 ACAAGTGCAATCACTTTGCTC
*
105885350 ACAAGTGCAATCACTTTTCTC
1 ACAAGTGCAATCACTTTGCTC
105885371 AC
1 AC
105885373 TAAGCCACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.30, G:0.11, T:0.30
Consensus pattern (21 bp):
ACAAGTGCAATCACTTTGCTC
Found at i:105887214 original size:24 final size:24
Alignment explanation
Indices: 105887170--105887223 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
105887160 ATGCAATGCT
*
105887170 ATATT-TATGTTTTAAATTGATTTA
1 ATATTATATGATTTAAATTGA-TTA
* *
105887194 ATATTATATGATTTATA-TGATTG
1 ATATTATATGATTTAAATTGATTA
105887217 ATATTAT
1 ATATTAT
105887224 GAGCAAGTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 9 0.35
24 8 0.31
25 9 0.35
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (24 bp):
ATATTATATGATTTAAATTGATTA
Found at i:105887369 original size:42 final size:42
Alignment explanation
Indices: 105887314--105887477 Score: 204
Period size: 42 Copynumber: 3.9 Consensus size: 42
105887304 TAGGGTTATG
105887314 TGTGATTTCGTGTAAGACCATATCTGGGATATGGCATCGATA
1 TGTGATTTCGTGTAAGACCATATCTGGGATATGGCATCGATA
* * *
105887356 TGTGATTTTGTGTAAGACCATGTCTGGGACATGGCATCGATA
1 TGTGATTTCGTGTAAGACCATATCTGGGATATGGCATCGATA
* ** * *
105887398 TGAGACATCGTGTAAGACCATAAT-TGGGCTATCGGAATCGATA
1 TGTGATTTCGTGTAAGACCAT-ATCTGGGATAT-GGCATCGATA
** *
105887441 TGTGATCCCATGTAAGACCATATCTGGGATATGGCAT
1 TGTGATTTCGTGTAAGACCATATCTGGGATATGGCAT
105887478 TGACATCTTA
Statistics
Matches: 101, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
42 68 0.67
43 33 0.33
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.30
Consensus pattern (42 bp):
TGTGATTTCGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:105887457 original size:85 final size:84
Alignment explanation
Indices: 105887321--105887477 Score: 217
Period size: 85 Copynumber: 1.9 Consensus size: 84
105887311 ATGTGTGATT
* **** *
105887321 TCGTGTAAGACCATATCTGGGATATGGCATCGATATGTGATTTTGTGTAAGACCATGTCTGGGAC
1 TCGTGTAAGACCATATCTGGGATATGGAATCGATATGTGATCCCATGTAAGACCATATCTGGGAC
105887386 ATGGCATCGATATGAGACA
66 ATGGCATCGATATGAGACA
*
105887405 TCGTGTAAGACCATAAT-TGGGCTATCGGAATCGATATGTGATCCCATGTAAGACCATATCTGGG
1 TCGTGTAAGACCAT-ATCTGGGATAT-GGAATCGATATGTGATCCCATGTAAGACCATATCTGGG
*
105887469 ATATGGCAT
64 ACATGGCAT
105887478 TGACATCTTA
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
84 21 0.33
85 42 0.67
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (84 bp):
TCGTGTAAGACCATATCTGGGATATGGAATCGATATGTGATCCCATGTAAGACCATATCTGGGAC
ATGGCATCGATATGAGACA
Found at i:105893569 original size:13 final size:13
Alignment explanation
Indices: 105893553--105893585 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
105893543 AATTTTTATG
105893553 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
105893566 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
105893579 ATTGGGT
1 ATTGGGT
105893586 ACTTGGGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.45, T:0.39
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:105893612 original size:28 final size:24
Alignment explanation
Indices: 105893579--105893637 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 24
105893569 GGGTTGGGTA
105893579 ATTGGGTACTTGGGTTAATAAATATTAG
1 ATTGGGTACTTGGGTT--T--ATATTAG
*
105893607 ATTGGGTATTTGGGTTTATATTAG
1 ATTGGGTACTTGGGTTTATATTAG
105893631 ATTGGGT
1 ATTGGGT
105893638 TTGAGTGAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 14 0.47
26 1 0.03
28 15 0.50
ACGTcount: A:0.25, C:0.02, G:0.29, T:0.44
Consensus pattern (24 bp):
ATTGGGTACTTGGGTTTATATTAG
Found at i:105894133 original size:15 final size:15
Alignment explanation
Indices: 105894108--105894149 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
105894098 GCCCGGGCTA
*
105894108 AAAAGCCCAACAT-CT
1 AAAA-CCCAACATCCC
105894123 AAGAACCCAACATCCC
1 AA-AACCCAACATCCC
105894139 AAAACCCAACA
1 AAAACCCAACA
105894150 ACCTCCAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 19 0.79
16 5 0.21
ACGTcount: A:0.50, C:0.38, G:0.05, T:0.07
Consensus pattern (15 bp):
AAAACCCAACATCCC
Found at i:105894254 original size:13 final size:12
Alignment explanation
Indices: 105894232--105894331 Score: 99
Period size: 13 Copynumber: 8.8 Consensus size: 12
105894222 TCTTCACTCT
105894232 AACCACCCACTA
1 AACCACCCACTA
105894244 AACCACTCCACTA
1 AACCAC-CCACTA
*
105894257 AACCACTC-C--
1 AACCACCCACTA
105894266 AACCACCCACTA
1 AACCACCCACTA
105894278 AA-C-CCCACTA
1 AACCACCCACTA
*
105894288 CACCACCCCACTA
1 AACCA-CCCACTA
105894301 AACCACCC-C--
1 AACCACCCACTA
105894310 AACCACCCACTA
1 AACCACCCACTA
105894322 AACCATCCCA
1 AACCA-CCCA
105894332 ACCACTCCAC
Statistics
Matches: 73, Mismatches: 4, Indels: 21
0.74 0.04 0.21
Matches are distributed among these distances:
9 15 0.21
10 10 0.14
11 4 0.05
12 17 0.23
13 27 0.37
ACGTcount: A:0.38, C:0.53, G:0.00, T:0.09
Consensus pattern (12 bp):
AACCACCCACTA
Found at i:105894262 original size:21 final size:20
Alignment explanation
Indices: 105894238--105894342 Score: 95
Period size: 21 Copynumber: 4.8 Consensus size: 20
105894228 CTCTAACCAC
*
105894238 CCACTAAACCACTCCACTAAA
1 CCACTCAACCAC-CCACTAAA
105894259 CCACTCCAACCACCCACTAAA
1 CCACT-CAACCACCCACTAAA
105894280 CCCCACT-ACACCACCCCACTAAA
1 --CCACTCA-ACCA-CCCACTAAA
*
105894303 CCACCCCAACCACCCACTAAA
1 CCA-CTCAACCACCCACTAAA
*
105894324 CCATCCCAACCACTCCACT
1 CCA-CTCAACCAC-CCACT
105894343 TGCCTACAAA
Statistics
Matches: 73, Mismatches: 3, Indels: 15
0.80 0.03 0.16
Matches are distributed among these distances:
21 38 0.52
22 20 0.27
23 15 0.21
ACGTcount: A:0.36, C:0.53, G:0.00, T:0.10
Consensus pattern (20 bp):
CCACTCAACCACCCACTAAA
Found at i:105894300 original size:44 final size:44
Alignment explanation
Indices: 105894237--105894325 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 44
105894227 ACTCTAACCA
* *
105894237 CCCACTAAACCACTCCACTAAACCACTCCAACCACCCACTAAAC
1 CCCACTAAACCACCCCACTAAACCACCCCAACCACCCACTAAAC
*
105894281 CCCACTACACCACCCCACTAAACCACCCCAACCACCCACTAAAC
1 CCCACTAAACCACCCCACTAAACCACCCCAACCACCCACTAAAC
105894325 C
1 C
105894326 ATCCCAACCA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.37, C:0.54, G:0.00, T:0.09
Consensus pattern (44 bp):
CCCACTAAACCACCCCACTAAACCACCCCAACCACCCACTAAAC
Found at i:105894843 original size:23 final size:23
Alignment explanation
Indices: 105894759--105894843 Score: 55
Period size: 23 Copynumber: 3.6 Consensus size: 23
105894749 CTAATACCAC
* *
105894759 TATTATCATCATTATTACTATTA-
1 TATTATTAT-ATTTTTACTATTAT
* * *
105894782 TATTATAATACATTTTCATTATTAT
1 TATTAT--TATATTTTTACTATTAT
* * * *
105894807 AACTATTGTGTTTTTACTATTAT
1 TATTATTATATTTTTACTATTAT
105894830 TATTATTATATTTT
1 TATTATTATATTTT
105894844 CCTTTTTTTG
Statistics
Matches: 43, Mismatches: 16, Indels: 6
0.66 0.25 0.09
Matches are distributed among these distances:
23 28 0.65
24 10 0.23
25 5 0.12
ACGTcount: A:0.32, C:0.08, G:0.02, T:0.58
Consensus pattern (23 bp):
TATTATTATATTTTTACTATTAT
Found at i:105899241 original size:20 final size:20
Alignment explanation
Indices: 105899203--105899241 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
105899193 CCACATATGT
*
105899203 AATCTATTTTTATGTAAAGA
1 AATCTATTTTTATGAAAAGA
105899223 AATCTATTTTCTA-GAAAAG
1 AATCTATTTT-TATGAAAAG
105899242 TTAGTCTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (20 bp):
AATCTATTTTTATGAAAAGA
Found at i:105904797 original size:206 final size:206
Alignment explanation
Indices: 105904135--105905217 Score: 1891
Period size: 206 Copynumber: 5.3 Consensus size: 206
105904125 GATCTGGCTA
*
105904135 AAGC-AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGAT
1 AAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGAT
* *
105904199 TTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAAATGATTTGGCATCTCCGTATTGTCAGAGA
66 TTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
*
105904264 ACAAGTCGAAGTCTGGCATCTCCATTTCAACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGA
131 ACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGA
105904329 TGTTTATACTG
196 TGTTTATACTG
105904340 AAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGAT
1 AAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGAT
105904405 TTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
66 TTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
105904470 ACAAGTCGAAGTCT-GCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGA
131 ACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGA
105904534 TGTTTATACTG
196 TGTTTATACTG
* *
105904545 AAGTAAGATCCAAGATGATTTGGCATCCTTGTGCTTACGAGGAGCAAATCGAAGACATAGCTGAT
1 AAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGAT
*
105904610 TTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTTAGAGA
66 TTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
*
105904675 ACAAGTTGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGA
131 ACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGA
105904740 TGTTTATACTG
196 TGTTTATACTG
* ** *
105904751 AAGTAAGATCCAAGATGATTTGGCATTTTTGTGCTTATAAGGAGCAAATCGAAGACATAGCTGAT
1 AAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGAT
* * *
105904816 TTGGCTTTTGTGTGCTTAGGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
66 TTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
*
105904881 ACAAGTCAAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGA
131 ACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGA
105904946 TGTTTATACTG
196 TGTTTATACTG
* * * * * *
105904957 AAGCAAGATCCAAGATAATTTGCCATCCTTCTACTTACAAGGAGCAAATCGAAGATATAGCTAAT
1 AAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGAT
105905022 TTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
66 TTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
* *
105905087 ACAAGTCAAAGTCTGGCATCTCCATTTCGACGGAGAGTAGATACATAGCAGATCTGGCCTTCAGA
131 ACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGA
*
105905152 TGTTTATACCG
196 TGTTTATACTG
* * * *
105905163 AAGCAAGATCCAAGATGATTTGGCATCTTTGTGCTTACAAAGAACAAATGGAAGA
1 AAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGA
105905218 AGCAAATTTG
Statistics
Matches: 835, Mismatches: 41, Indels: 3
0.95 0.05 0.00
Matches are distributed among these distances:
205 204 0.24
206 631 0.76
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (206 bp):
AAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGAT
TTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
ACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGA
TGTTTATACTG
Found at i:105905605 original size:15 final size:15
Alignment explanation
Indices: 105905578--105905623 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
105905568 TTTTGCCCGG
105905578 GCTAAAAAGCCCAACA
1 GCTAAAAA-CCCAACA
*
105905594 TCTAAAAACCCAACA
1 GCTAAAAACCCAACA
**
105905609 GCCCAAAACCCAACA
1 GCTAAAAACCCAACA
105905624 AGCTCCAAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
15 19 0.73
16 7 0.27
ACGTcount: A:0.50, C:0.37, G:0.07, T:0.07
Consensus pattern (15 bp):
GCTAAAAACCCAACA
Found at i:105905637 original size:17 final size:15
Alignment explanation
Indices: 105905598--105905638 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 15
105905588 CCAACATCTA
105905598 AAAACCCAACAGCCC
1 AAAACCCAACAGCCC
105905613 AAAACCCAACAAGCTCC
1 AAAACCCAAC-AGC-CC
*
105905630 AAAGCCCAA
1 AAAACCCAA
105905639 TCACCTAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 10 0.43
16 3 0.13
17 10 0.43
ACGTcount: A:0.49, C:0.41, G:0.07, T:0.02
Consensus pattern (15 bp):
AAAACCCAACAGCCC
Found at i:105906136 original size:19 final size:18
Alignment explanation
Indices: 105906100--105906140 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
105906090 GGGGGAGTGC
*
105906100 TATTTTTAATATTGTTAT
1 TATTTTTAATATTATTAT
*
105906118 TATTTTCTATTATTATTAT
1 TATTTT-TAATATTATTAT
105906137 TATT
1 TATT
105906141 ACTAATACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (18 bp):
TATTTTTAATATTATTAT
Found at i:105906457 original size:17 final size:19
Alignment explanation
Indices: 105906437--105906476 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
105906427 TGTTCGACTC
*
105906437 ATTTATC-TTACT-TTCGT
1 ATTTATCGTTACTATTCAT
105906454 ATTTATCGTTACTATTCAT
1 ATTTATCGTTACTATTCAT
105906473 ATTT
1 ATTT
105906477 GTGTTTATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 5 0.25
19 8 0.40
ACGTcount: A:0.23, C:0.15, G:0.05, T:0.57
Consensus pattern (19 bp):
ATTTATCGTTACTATTCAT
Found at i:105910877 original size:2 final size:2
Alignment explanation
Indices: 105910872--105910919 Score: 78
Period size: 2 Copynumber: 24.0 Consensus size: 2
105910862 GTATATATAC
* *
105910872 AG AG AG GG AG AG GG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
105910914 AG AG AG
1 AG AG AG
105910920 GGATTTGATA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (2 bp):
AG
Found at i:105911414 original size:63 final size:63
Alignment explanation
Indices: 105911140--105911401 Score: 383
Period size: 63 Copynumber: 4.3 Consensus size: 63
105911130 GGCTGCGAAA
* *
105911140 AAGGAACTTGAG--GA-GATGATGATGAGCCGACGTTTGGAGGTGGAGGCGTTCGTAACCAAG
1 AAGGAACTTGAGATGATGATGATGATGATCCGACGTTTGGAGGTGGAGGCGTCCGTAACCAAG
105911200 AAGGAACTT--GA-GATGATGATGATGATCCGACGTTTGGAGGTGGAGGCGTCCGTAACCAAG
1 AAGGAACTTGAGATGATGATGATGATGATCCGACGTTTGGAGGTGGAGGCGTCCGTAACCAAG
* * *
105911260 TAGGAACTTGAGATGATGATGATGATGATCCGACGTTTGGAGGTGGACGCGTCTGTAACCAAG
1 AAGGAACTTGAGATGATGATGATGATGATCCGACGTTTGGAGGTGGAGGCGTCCGTAACCAAG
* * ** *
105911323 AAGGAACTTTAGATGATGATGATGATGATCCGACGTTTGGAGGTGGAGGCATTTGTAACGAAG
1 AAGGAACTTGAGATGATGATGATGATGATCCGACGTTTGGAGGTGGAGGCGTCCGTAACCAAG
*
105911386 AAGAAACTTGAGATGA
1 AAGGAACTTGAGATGA
105911402 CGACGACGAT
Statistics
Matches: 184, Mismatches: 13, Indels: 7
0.90 0.06 0.03
Matches are distributed among these distances:
58 1 0.01
59 2 0.01
60 61 0.33
62 2 0.01
63 118 0.64
ACGTcount: A:0.30, C:0.13, G:0.34, T:0.23
Consensus pattern (63 bp):
AAGGAACTTGAGATGATGATGATGATGATCCGACGTTTGGAGGTGGAGGCGTCCGTAACCAAG
Found at i:105911433 original size:75 final size:75
Alignment explanation
Indices: 105911334--105911476 Score: 189
Period size: 75 Copynumber: 1.9 Consensus size: 75
105911324 AGGAACTTTA
* * * * * * *
105911334 GATGATGATGATGATGATCCGACGTTTGGAGGTGGAGGCATTTGTAACGAAGAAGAAACTTGAGA
1 GATGATGATGACGACGATCCGACGTTTCGAGGTGGAGACATTCGAAACCAAGAAGAAACTTGAGA
105911399 TGACGACGAC
66 TGACGACGAC
* *
105911409 GATGATGATGACGACGA-CGCGACGTTTCGAGGTGGCGACATTCGAAACCAAGAAGGAACTTGAG
1 GATGATGATGACGACGATC-CGACGTTTCGAGGTGGAGACATTCGAAACCAAGAAGAAACTTGAG
105911473 ATGA
65 ATGA
105911477 TGGTTTTGGA
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
74 1 0.02
75 57 0.98
ACGTcount: A:0.32, C:0.15, G:0.33, T:0.20
Consensus pattern (75 bp):
GATGATGATGACGACGATCCGACGTTTCGAGGTGGAGACATTCGAAACCAAGAAGAAACTTGAGA
TGACGACGAC
Found at i:105914372 original size:11 final size:11
Alignment explanation
Indices: 105914358--105914402 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
105914348 AGATAAATAT
105914358 TATTTTATTAA
1 TATTTTATTAA
*
105914369 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
105914382 TATTTTATTAT
1 TATTTTATTAA
105914393 TATTTTATTA
1 TATTTTATTA
105914403 GTATATAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:105916119 original size:33 final size:33
Alignment explanation
Indices: 105915986--105916127 Score: 103
Period size: 33 Copynumber: 4.3 Consensus size: 33
105915976 AATTGACGGA
* * *
105915986 TAAGACTATGGCTGGGCCATGGA-AATATATGTG
1 TAAGACCATAGCTGGGCCAT-GACAATACATGTG
* * *
105916019 TAAGACCATAGCTAGGCTATGAC-AT-CCTGATG
1 TAAGACCATAGCTGGGCCATGACAATACATG-TG
** ** *
105916051 ATAAGACCATATTTGGGATATGACACTACGA-GTG
1 -TAAGACCATAGCTGGGCCATGACAATAC-ATGTG
* *
105916085 TAAGACCATGGCTGGGCCATGGCAATACATGTG
1 TAAGACCATAGCTGGGCCATGACAATACATGTG
105916118 TAAGACCATA
1 TAAGACCATA
105916128 TTTGGACTAT
Statistics
Matches: 82, Mismatches: 20, Indels: 14
0.71 0.17 0.12
Matches are distributed among these distances:
31 2 0.02
32 7 0.09
33 68 0.83
34 3 0.04
35 2 0.02
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (33 bp):
TAAGACCATAGCTGGGCCATGACAATACATGTG
Found at i:105916140 original size:33 final size:33
Alignment explanation
Indices: 105916052--105916141 Score: 85
Period size: 33 Copynumber: 2.7 Consensus size: 33
105916042 ATCCTGATGA
* *
105916052 TAAGACCATATTTGGGA-TATGACACTACGAGTG
1 TAAGACCATATTT-GGACTATGGCAATACGAGTG
*** * *
105916085 TAAGACCATGGCTGGGCCATGGCAATAC-ATGTG
1 TAAGACCATATTTGGACTATGGCAATACGA-GTG
105916118 TAAGACCATATTTGGACTATGGCA
1 TAAGACCATATTTGGACTATGGCA
105916142 TCATACCAGA
Statistics
Matches: 43, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
32 3 0.07
33 40 0.93
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.26
Consensus pattern (33 bp):
TAAGACCATATTTGGACTATGGCAATACGAGTG
Found at i:105916204 original size:45 final size:45
Alignment explanation
Indices: 105916155--105916276 Score: 124
Period size: 45 Copynumber: 2.7 Consensus size: 45
105916145 TACCAGAAAC
*
105916155 GAGTAAGACCATATCTAAAAGATGCTATGGCATCGA-AATTCAGAT
1 GAGTAAGACCATATCTGAAAGATGCTATGGCATC-ACAATTCAGAT
* * * * * *
105916200 GAGTAAGGCCATAGCTGAAAGACGATATGGCATCACGATTTAGAT
1 GAGTAAGACCATATCTGAAAGATGCTATGGCATCACAATTCAGAT
*
105916245 -ATGTAAGACCATAGT-TGAAAGATACTATGGCA
1 GA-GTAAGACCATA-TCTGAAAGATGCTATGGCA
105916277 ATATGATGAG
Statistics
Matches: 62, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
44 2 0.03
45 60 0.97
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.24
Consensus pattern (45 bp):
GAGTAAGACCATATCTGAAAGATGCTATGGCATCACAATTCAGAT
Found at i:105916311 original size:46 final size:45
Alignment explanation
Indices: 105916248--105916452 Score: 302
Period size: 46 Copynumber: 4.5 Consensus size: 45
105916238 TTTAGATATG
* * * *
105916248 TAAGACCATAGTTGAAAGATACTATGGCAATATGATGAGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGA-CAGAAATGAA
* *
105916294 TAAAACCATGGTTGAAAGATACCATGGCAACATGACAAAAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGAC-AGAAATGAA
105916340 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAG-AAATGAA
* *
105916386 TAAGACCATGGTTGAAAGATACCATGGAAACATGACAGGAAATAAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAATGAA
105916432 TAAGACCATGGTTGAAAGATA
1 TAAGACCATGGTTGAAAGATA
105916453 GAAATGAATA
Statistics
Matches: 146, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
45 1 0.01
46 144 0.99
47 1 0.01
ACGTcount: A:0.47, C:0.13, G:0.21, T:0.20
Consensus pattern (45 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAATGAA
Found at i:105916462 original size:29 final size:29
Alignment explanation
Indices: 105916424--105916479 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
105916414 AACATGACAG
*
105916424 GAAATAAATAAGACCATGGTTGAAAGATA
1 GAAATAAATAAGACCATAGTTGAAAGATA
* *
105916453 GAAATGAATAAGACCATAGTTGGAAGA
1 GAAATAAATAAGACCATAGTTGAAAGA
105916480 CACTATGGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.50, C:0.07, G:0.23, T:0.20
Consensus pattern (29 bp):
GAAATAAATAAGACCATAGTTGAAAGATA
Found at i:105918499 original size:25 final size:25
Alignment explanation
Indices: 105918471--105918525 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
105918461 TTTTTGGAAA
* *
105918471 GCCACCACTGAATTATATATATACT
1 GCCACCACTGAATTACAGATATACT
* *
105918496 GCCACCACTGATTTGCAGATATACT
1 GCCACCACTGAATTACAGATATACT
105918521 GCCAC
1 GCCAC
105918526 TGCTTCCACC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (25 bp):
GCCACCACTGAATTACAGATATACT
Found at i:105922018 original size:46 final size:45
Alignment explanation
Indices: 105921887--105922103 Score: 161
Period size: 46 Copynumber: 4.7 Consensus size: 45
105921877 GATCAGGTGT
* * * *
105921887 CGATGCCATGTCCCAGACATGGTCTTACACT-GACACATCTCGTA-GC
1 CGATG-CATGTCCCAAACAT-GTCTTACACTAGCCTCGTCTCG-AGGC
* * * * *
105921933 CAATGCACGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGC
1 CGATGCATGTCCCAAACATGTCTTACACTAGCCT-CGTCTCGAGGC
* * * * * *
105921979 CGATGTATATCCCAGACATGTCTTACACTAACACTCGTCTCAATGC
1 CGATGCATGTCCCAAACATGTCTTACACTAGC-CTCGTCTCGAGGC
* * * *
105922025 CGATGCCATGTCCCAAACATGGTATTACACTAGCTCTCATAAT-GTGGC
1 CGATG-CATGTCCCAAACAT-GTCTTACACTAGC-CTCGT-CTCGAGGC
105922073 CGATGCATGTCCCAAACATGTCTTACACTAG
1 CGATGCATGTCCCAAACATGTCTTACACTAG
105922104 TTCACAGAAG
Statistics
Matches: 137, Mismatches: 27, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
44 10 0.07
45 15 0.11
46 63 0.46
47 26 0.19
48 22 0.16
49 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (45 bp):
CGATGCATGTCCCAAACATGTCTTACACTAGCCTCGTCTCGAGGC
Found at i:105924078 original size:3 final size:3
Alignment explanation
Indices: 105924070--105924097 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
105924060 ATATTTCTAG
105924070 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
105924098 AATAAAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:105924222 original size:19 final size:19
Alignment explanation
Indices: 105924198--105924236 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
105924188 TATTTACTTA
105924198 TTATATAAGTAAAATATAT
1 TTATATAAGTAAAATATAT
* * *
105924217 TTATATTATTATAATATAT
1 TTATATAAGTAAAATATAT
105924236 T
1 T
105924237 ATTATTAAAT
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:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (19 bp):
TTATATAAGTAAAATATAT
Found at i:105924274 original size:21 final size:22
Alignment explanation
Indices: 105924240--105924287 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
105924230 ATATATTATT
* *
105924240 ATTAAA-TGAATAAA-AAAGAA
1 ATTAAAGTAAATAAATAAACAA
105924260 ATTAAAGTAAATAAATAAACAA
1 ATTAAAGTAAATAAATAAACAA
105924282 A-TAAAG
1 ATTAAAG
105924288 AAACAAAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 6 0.25
21 12 0.50
22 6 0.25
ACGTcount: A:0.69, C:0.02, G:0.08, T:0.21
Consensus pattern (22 bp):
ATTAAAGTAAATAAATAAACAA
Found at i:105924401 original size:42 final size:42
Alignment explanation
Indices: 105924354--105924437 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
105924344 AGAAAAAGAA
105924354 AAGAGAAAAGAAAAAGGAAGAATTAGAGTTTTAAGGTTCAAG
1 AAGAGAAAAGAAAAAGGAAGAATTAGAGTTTTAAGGTTCAAG
105924396 AAGAGAAAAGAAAAAGGAAGAATTAGAGTTTTAAGGTTCAAG
1 AAGAGAAAAGAAAAAGGAAGAATTAGAGTTTTAAGGTTCAAG
105924438 CTTAATTTGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.52, C:0.02, G:0.26, T:0.19
Consensus pattern (42 bp):
AAGAGAAAAGAAAAAGGAAGAATTAGAGTTTTAAGGTTCAAG
Found at i:105927980 original size:16 final size:17
Alignment explanation
Indices: 105927949--105927981 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
105927939 TTCATAAGTA
105927949 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
105927966 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
105927982 GCACCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:105928440 original size:46 final size:46
Alignment explanation
Indices: 105928276--105928440 Score: 249
Period size: 46 Copynumber: 3.6 Consensus size: 46
105928266 TGCCATAGCG
* * * *
105928276 TCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGATA
1 TCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGGTA
* * *
105928322 TCTTTCAACCATGGTCTTATTCATTTCATGTCACGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGGTA
*
105928368 TCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGGTA
*
105928414 TCTTTCAATCATGGTCTTATTCATTTC
1 TCTTTCAACCATGGTCTTATTCATTTC
105928441 ATATCAGTGG
Statistics
Matches: 107, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 107 1.00
ACGTcount: A:0.19, C:0.24, G:0.13, T:0.44
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGGTA
Found at i:105928452 original size:23 final size:22
Alignment explanation
Indices: 105928416--105928467 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 22
105928406 CCATGGTATC
**
105928416 TTTCA-ATCATGGTCTTATTCA
1 TTTCATATCATGGTCTTACACA
105928437 TTTCATATCAGTGGTCTTACACA
1 TTTCATATCA-TGGTCTTACACA
105928460 TTTCATAT
1 TTTCATAT
105928468 TAGGTTGCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 5 0.19
22 4 0.15
23 18 0.67
ACGTcount: A:0.25, C:0.19, G:0.10, T:0.46
Consensus pattern (22 bp):
TTTCATATCATGGTCTTACACA
Found at i:105928463 original size:69 final size:69
Alignment explanation
Indices: 105928379--105928516 Score: 186
Period size: 69 Copynumber: 2.0 Consensus size: 69
105928369 CTTTCAACCA
** * * * * **
105928379 TGGTCTTATTCATTTCCCGTCATGTTGCCATGGTATCTTTCAATCATGGTCTTATTCATTTCATA
1 TGGTCTTACACATTTCACATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
105928444 TCAG
66 TCAG
* *
105928448 TGGTCTTACACATTTCATATTAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
1 TGGTCTTACACATTTCACATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
105928513 TCAG
66 TCAG
105928517 GTTGCCGTGG
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
69 59 1.00
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.42
Consensus pattern (69 bp):
TGGTCTTACACATTTCACATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
TCAG
Found at i:105928498 original size:46 final size:46
Alignment explanation
Indices: 105928448--105928562 Score: 212
Period size: 46 Copynumber: 2.5 Consensus size: 46
105928438 TTCATATCAG
*
105928448 TGGTCTTACACATTTCATATTAGGTTGCCATGGTATCTTTCAACCA
1 TGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCA
*
105928494 TGGTCTTACACATTTCATATCAGGTTGCCGTGGTATCTTTCAACCA
1 TGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCA
105928540 TGGTCTTACACATTTCATATCAG
1 TGGTCTTACACATTTCATATCAG
105928563 AGAGCACACT
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 67 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (46 bp):
TGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCA
Found at i:105928897 original size:26 final size:26
Alignment explanation
Indices: 105928845--105928898 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
105928835 TCCCCTTTTT
*
105928845 ATTCAAATTATTTTCATACAATGAAC
1 ATTCAAATTATTTTCACACAATGAAC
105928871 ATTCAAATTATTTTCACATCAAT-AAC
1 ATTCAAATTATTTTCACA-CAATGAAC
105928897 AT
1 AT
105928899 ACATTTCAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 22 0.85
27 4 0.15
ACGTcount: A:0.43, C:0.17, G:0.02, T:0.39
Consensus pattern (26 bp):
ATTCAAATTATTTTCACACAATGAAC
Found at i:105933428 original size:16 final size:17
Alignment explanation
Indices: 105933397--105933429 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
105933387 TTCATAAGTA
105933397 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
105933414 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
105933430 GCACCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:105933889 original size:46 final size:46
Alignment explanation
Indices: 105933710--105933889 Score: 261
Period size: 46 Copynumber: 3.9 Consensus size: 46
105933700 TTATCTTTGA
* * * * * *
105933710 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
*
105933756 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
* *
105933802 CATGCTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
* *
105933848 CACGTTGCCATGGTATCTTTCAATCATGGTCTTATTCATTTC
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTC
105933890 ATATCATGGT
Statistics
Matches: 121, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 121 1.00
ACGTcount: A:0.19, C:0.24, G:0.15, T:0.42
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
Found at i:105933896 original size:22 final size:22
Alignment explanation
Indices: 105933865--105933915 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
105933855 CCATGGTATC
**
105933865 TTTCA-ATCATGGTCTTATTCA
1 TTTCATATCATGGTCTTACACA
105933886 TTTCATATCATGGTCTTACACA
1 TTTCATATCATGGTCTTACACA
105933908 TTTCATAT
1 TTTCATAT
105933916 AGGTTGCCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 5 0.19
22 22 0.81
ACGTcount: A:0.25, C:0.20, G:0.08, T:0.47
Consensus pattern (22 bp):
TTTCATATCATGGTCTTACACA
Found at i:105933969 original size:46 final size:46
Alignment explanation
Indices: 105933894--105934009 Score: 225
Period size: 46 Copynumber: 2.5 Consensus size: 46
105933884 CATTTCATAT
105933894 CATGGTCTTACACATTTCATAT-AGGTTGCCATGGTATCTTTCAAC
1 CATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
105933939 CATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
1 CATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
105933985 CATGGTCTTACACATTTCATATCAG
1 CATGGTCTTACACATTTCATATCAG
105934010 AGAGCACACT
Statistics
Matches: 70, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
45 22 0.31
46 48 0.69
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (46 bp):
CATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
Found at i:105933971 original size:113 final size:114
Alignment explanation
Indices: 105933780--105934008 Score: 325
Period size: 113 Copynumber: 2.0 Consensus size: 114
105933770 ATCTTTCAAC
** * * ** *
105933780 CATGGTCTTATTCATTTCATGTCATGCTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCC
1 CATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
* * **
105933845 CGTCACGTTGCCATGGTATCTTTCAATCATGGTCTTATTCATTTCATAT
66 CATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
105933894 CATGGTCTTACACATTTCATAT-AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
1 CATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
* *
105933958 TATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
66 CATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
105934007 CA
1 CA
105934009 GAGAGCACAC
Statistics
Matches: 101, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
113 82 0.81
114 19 0.19
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (114 bp):
CATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
CATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:105934342 original size:26 final size:26
Alignment explanation
Indices: 105934290--105934343 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
105934280 TCCCCTTTTT
*
105934290 ATTCAAATTATTTTCATACAATGAAC
1 ATTCAAATTATTTTCACACAATGAAC
105934316 ATTCAAATTATTTTCACATCAAT-AAC
1 ATTCAAATTATTTTCACA-CAATGAAC
105934342 AT
1 AT
105934344 ACATTTCAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 22 0.85
27 4 0.15
ACGTcount: A:0.43, C:0.17, G:0.02, T:0.39
Consensus pattern (26 bp):
ATTCAAATTATTTTCACACAATGAAC
Found at i:105936760 original size:26 final size:26
Alignment explanation
Indices: 105936723--105936857 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
105936713 TGATACAAAT
*
105936723 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
105936749 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
105936775 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
105936801 TGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
105936826 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
105936852 TGATAA
1 TGATAA
105936858 GAATATCATG
Statistics
Matches: 103, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
25 24 0.23
26 79 0.77
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:105936838 original size:51 final size:52
Alignment explanation
Indices: 105936723--105936857 Score: 245
Period size: 51 Copynumber: 2.6 Consensus size: 52
105936713 TGATACAAAT
105936723 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
105936775 TGATAATAGGTTAGGTAAATGTTCCATGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
* *
105936826 TGATAATGGGTTAGGTAAATGTTTCATGATAA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAA
105936858 GAATATCATG
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
51 48 0.59
52 33 0.41
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.37
Consensus pattern (52 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
Found at i:105942002 original size:16 final size:17
Alignment explanation
Indices: 105941971--105942003 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
105941961 TTCATAAGTA
105941971 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
105941988 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
105942004 GCACCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:105942463 original size:46 final size:46
Alignment explanation
Indices: 105942289--105942463 Score: 251
Period size: 46 Copynumber: 3.8 Consensus size: 46
105942279 TTTGACATGA
* * * * * *
105942289 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGTCACGT
* * *
105942335 TGCCATGATATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGTCACGT
*
105942381 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGTCACGT
*
105942427 TGCCATGGTATCTTTCAATCATGGTCTTATTCATTTC
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTC
105942464 ATATCAGTGG
Statistics
Matches: 115, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 115 1.00
ACGTcount: A:0.19, C:0.25, G:0.14, T:0.42
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGTCACGT
Found at i:105942475 original size:23 final size:22
Alignment explanation
Indices: 105942439--105942490 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 22
105942429 CCATGGTATC
**
105942439 TTTCA-ATCATGGTCTTATTCA
1 TTTCATATCATGGTCTTACACA
105942460 TTTCATATCAGTGGTCTTACACA
1 TTTCATATCA-TGGTCTTACACA
105942483 TTTCATAT
1 TTTCATAT
105942491 TAGGTTGCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 5 0.19
22 4 0.15
23 18 0.67
ACGTcount: A:0.25, C:0.19, G:0.10, T:0.46
Consensus pattern (22 bp):
TTTCATATCATGGTCTTACACA
Found at i:105942486 original size:69 final size:69
Alignment explanation
Indices: 105942402--105942539 Score: 186
Period size: 69 Copynumber: 2.0 Consensus size: 69
105942392 CTTTCAACCA
** * * * **
105942402 TGGTCTTATTCATTTCCCGTCACGTTGCCATGGTATCTTTCAATCATGGTCTTATTCATTTCATA
1 TGGTCTTACACATTTCACATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
105942467 TCAG
66 TCAG
* * *
105942471 TGGTCTTACACATTTCATATTAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
1 TGGTCTTACACATTTCACATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
105942536 TCAG
66 TCAG
105942540 GTTGCCATGG
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
69 59 1.00
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.41
Consensus pattern (69 bp):
TGGTCTTACACATTTCACATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
TCAG
Found at i:105942521 original size:46 final size:46
Alignment explanation
Indices: 105942471--105942585 Score: 221
Period size: 46 Copynumber: 2.5 Consensus size: 46
105942461 TTCATATCAG
*
105942471 TGGTCTTACACATTTCATATTAGGTTGCCATGGTATCTTTCAACCA
1 TGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCA
105942517 TGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCA
1 TGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCA
105942563 TGGTCTTACACATTTCATATCAG
1 TGGTCTTACACATTTCATATCAG
105942586 AGAGCACACT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
46 68 1.00
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.38
Consensus pattern (46 bp):
TGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCA
Found at i:105942978 original size:26 final size:26
Alignment explanation
Indices: 105942926--105942979 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
105942916 TCCACTTTTT
*
105942926 ATTCAAATTATTTTCATACAATGAAC
1 ATTCAAATTATTTTCACACAATGAAC
105942952 ATTCAAATTATTTTCACATCAAT-AAC
1 ATTCAAATTATTTTCACA-CAATGAAC
105942978 AT
1 AT
105942980 ACATTTCAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 22 0.85
27 4 0.15
ACGTcount: A:0.43, C:0.17, G:0.02, T:0.39
Consensus pattern (26 bp):
ATTCAAATTATTTTCACACAATGAAC
Found at i:105944300 original size:10 final size:11
Alignment explanation
Indices: 105944274--105944306 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
105944264 TTCTACACCA
105944274 TTTCTCTTCAC
1 TTTCTCTTCAC
*
105944285 TTTCTCTT-AT
1 TTTCTCTTCAC
105944295 TTTCTCTTCAC
1 TTTCTCTTCAC
105944306 T
1 T
105944307 AACATATCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.09, C:0.30, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTCTCTTCAC
Found at i:105954424 original size:22 final size:22
Alignment explanation
Indices: 105954365--105954432 Score: 59
Period size: 26 Copynumber: 3.0 Consensus size: 22
105954355 CTCATTTTAA
*
105954365 AATT-TTAAAAATATATAT-TT
1 AATTATTAAAATTATATATATT
105954385 ATATTATTTGTAATAATTATATATATT
1 A-ATTA--T-TAA-AATTATATATATT
*
105954412 AATTATTAAAATTTTATATAT
1 AATTATTAAAATTATATATAT
105954433 ATTACTATCT
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
20 1 0.03
21 3 0.08
22 11 0.28
23 3 0.08
24 2 0.05
25 3 0.08
26 13 0.33
27 3 0.08
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (22 bp):
AATTATTAAAATTATATATATT
Found at i:105954887 original size:15 final size:16
Alignment explanation
Indices: 105954849--105954888 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
105954839 TTAATTTAGG
105954849 ATTATTTAATTATTCA
1 ATTATTTAATTATTCA
*
105954865 ACTA-TTAATTATT-A
1 ATTATTTAATTATTCA
105954879 ATTATTTAAT
1 ATTATTTAAT
105954889 GACATAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
14 4 0.19
15 14 0.67
16 3 0.14
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (16 bp):
ATTATTTAATTATTCA
Found at i:105956291 original size:42 final size:41
Alignment explanation
Indices: 105956212--105956291 Score: 92
Period size: 42 Copynumber: 1.9 Consensus size: 41
105956202 TAAAAATGAT
*
105956212 TAAAAATTAGTATAAAAATTAAATTAATTAATTTATTAATAA
1 TAAAAATTAGTATAAAAATTAAAATAATTAA-TTATTAATAA
*
105956254 TAAAAATTA-TTTAAAAATATTAAAATACATTAA-TATTA
1 TAAAAATTAGTAT-AAAA-ATTAAAATA-ATTAATTATTA
105956292 TTTTTAATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
41 2 0.06
42 18 0.55
43 8 0.24
44 5 0.15
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (41 bp):
TAAAAATTAGTATAAAAATTAAAATAATTAATTATTAATAA
Found at i:105959040 original size:60 final size:60
Alignment explanation
Indices: 105958976--105959094 Score: 152
Period size: 60 Copynumber: 2.0 Consensus size: 60
105958966 TGGCTCTAAC
* * *
105958976 TCTGGATCCGACTTCGGTTCTGT-CC-CTAACTCTGGCTCTGTCTCCGGTTTTGGTTCCGGT
1 TCTGGATCCGACTTCGGTT-T-TCCCTCTAACTCTGGCTCTGCCTCCGGTTCTGGATCCGGT
* * *
105959036 TCTGGATCTGGCTTCGGTTTTCCCTCTAACTTTGGCTCTGCCTCCGGTTCTGGATCCGG
1 TCTGGATCCGACTTCGGTTTTCCCTCTAACTCTGGCTCTGCCTCCGGTTCTGGATCCGG
105959095 CTCCGGTTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
58 1 0.02
59 3 0.06
60 47 0.92
ACGTcount: A:0.07, C:0.30, G:0.25, T:0.38
Consensus pattern (60 bp):
TCTGGATCCGACTTCGGTTTTCCCTCTAACTCTGGCTCTGCCTCCGGTTCTGGATCCGGT
Found at i:105964634 original size:43 final size:43
Alignment explanation
Indices: 105964586--105964688 Score: 161
Period size: 43 Copynumber: 2.4 Consensus size: 43
105964576 CCGGCATTAC
* *
105964586 GCCTGCTAGGCACGAAGGCCCAAATACACATCACCGGTACGAA
1 GCCTGCTAGGCACGAAGGCCCAAATACACATCACCAGCACGAA
* *
105964629 GCCTGCTAGGCACGAAGGCCCGAATACATATCACCAGCACGAA
1 GCCTGCTAGGCACGAAGGCCCAAATACACATCACCAGCACGAA
*
105964672 GCCTGCTAAGCACGAAG
1 GCCTGCTAGGCACGAAG
105964689 CCTGCTAGGC
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.32, C:0.32, G:0.24, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCAAATACACATCACCAGCACGAA
Found at i:105964685 original size:16 final size:16
Alignment explanation
Indices: 105964664--105964704 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
105964654 ACATATCACC
105964664 AGCACGAAGCCTGCTA
1 AGCACGAAGCCTGCTA
105964680 AGCACGAAGCCTGCTA
1 AGCACGAAGCCTGCTA
*
105964696 GGCACGAAG
1 AGCACGAAG
105964705 GCCCGAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.32, C:0.29, G:0.29, T:0.10
Consensus pattern (16 bp):
AGCACGAAGCCTGCTA
Found at i:105964759 original size:38 final size:38
Alignment explanation
Indices: 105964706--105964829 Score: 167
Period size: 38 Copynumber: 3.2 Consensus size: 38
105964696 GGCACGAAGG
* * * *
105964706 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
105964744 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
** *
105964782 CCCGGATATTTTACCAGCACGAAGCCTGCGGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG-ATTTAA
105964821 GCCCGGATA
1 -CCCGGATA
105964830 CACATCAAAT
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
38 64 0.83
39 5 0.06
40 8 0.10
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.22
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:105970296 original size:16 final size:16
Alignment explanation
Indices: 105970265--105970322 Score: 75
Period size: 16 Copynumber: 3.6 Consensus size: 16
105970255 TAGGAAGATA
105970265 TTATTTTACTTTTATTT
1 TTATTTTA-TTTTATTT
*
105970282 TTGTTTT-TATTTATTT
1 TTATTTTAT-TTTATTT
105970298 TTATTTTATTTTA-TT
1 TTATTTTATTTTATTT
105970313 TTATTTTATT
1 TTATTTTATT
105970323 AAAATAGTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
15 13 0.35
16 17 0.46
17 7 0.19
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (16 bp):
TTATTTTATTTTATTT
Found at i:105970304 original size:5 final size:5
Alignment explanation
Indices: 105970265--105970322 Score: 64
Period size: 5 Copynumber: 11.0 Consensus size: 5
105970255 TAGGAAGATA
*
105970265 TTATT TTACTT TTATT TT-TGT TTTTAT TTATTT TTATT TTATT TTATT
1 TTATT TTA-TT TTATT TTAT-T TTAT-T TTA-TT TTATT TTATT TTATT
105970313 TTATT TTATT
1 TTATT TTATT
105970323 AAAATAGTTA
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
4 1 0.02
5 32 0.68
6 13 0.28
7 1 0.02
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (5 bp):
TTATT
Found at i:105976616 original size:15 final size:16
Alignment explanation
Indices: 105976576--105976618 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
105976566 TTAAATTGAT
*
105976576 TAATTGTAA-TTAAAA
1 TAATTATAATTTAAAA
*
105976591 TAATTAAAATTTAAAA
1 TAATTATAATTTAAAA
105976607 TAATT-TAATTTA
1 TAATTATAATTTA
105976619 TTTAAATTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 13 0.54
16 11 0.46
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (16 bp):
TAATTATAATTTAAAA
Found at i:105976659 original size:16 final size:17
Alignment explanation
Indices: 105976638--105976674 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
105976628 TTCTATTTAT
*
105976638 AATAATTTAAA-CTCGA
1 AATAATTTAAATCTCAA
105976654 AATAATTTAAATCTCAA
1 AATAATTTAAATCTCAA
105976671 AATA
1 AATA
105976675 TTATTCGCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.54, C:0.11, G:0.03, T:0.32
Consensus pattern (17 bp):
AATAATTTAAATCTCAA
Found at i:105982440 original size:20 final size:20
Alignment explanation
Indices: 105982402--105982438 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
105982392 ATTTTTGTTT
*
105982402 TTTTATTTTTAAGAATTTAG
1 TTTTATTTTCAAGAATTTAG
105982422 TTTTATTTTCAA-AATTT
1 TTTTATTTTCAAGAATTT
105982439 TAATTTAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (20 bp):
TTTTATTTTCAAGAATTTAG
Found at i:105991978 original size:27 final size:27
Alignment explanation
Indices: 105991946--105991999 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
105991936 CCCGTGATCG
105991946 CATAACCACTGTCAACCAAAAGCCTTA
1 CATAACCACTGTCAACCAAAAGCCTTA
*
105991973 CATAACCACTGTCAACTAAAAGCCTTA
1 CATAACCACTGTCAACCAAAAGCCTTA
105992000 GTTATACTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.41, C:0.31, G:0.07, T:0.20
Consensus pattern (27 bp):
CATAACCACTGTCAACCAAAAGCCTTA
Found at i:106003361 original size:19 final size:18
Alignment explanation
Indices: 106003337--106003375 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
106003327 CATAATTTAA
106003337 ATTTCATGTACCTATACTT
1 ATTTCATGTACCTAT-CTT
* *
106003356 ATTTCATTTATCTATCTT
1 ATTTCATGTACCTATCTT
106003374 AT
1 AT
106003376 AAATTATTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.26, C:0.18, G:0.03, T:0.54
Consensus pattern (18 bp):
ATTTCATGTACCTATCTT
Found at i:106003617 original size:46 final size:46
Alignment explanation
Indices: 106003554--106003928 Score: 419
Period size: 46 Copynumber: 8.0 Consensus size: 46
106003544 TTCGACATGA
* * * * ** * *
106003554 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* * ** *** *
106003600 TGCCATGGTATCATTCAACCATAGTCTTATTCATTTTCCCGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
**
106003647 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGCCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
106003693 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACA-----CATTTC---ATATCAGGT
*
106003747 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
106003793 TGCCATGGTATCTTTCAACCATGGTTTTACACGTTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* * *
106003839 TGTCATGGTATCTTTCAATCATGGTCTTACACGTTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
106003885 TGCCATAGTATCTTTCAACCATGGTCTTACACATTTTC-TATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAG
106003929 AGAGCACACT
Statistics
Matches: 288, Mismatches: 31, Indels: 20
0.85 0.09 0.06
Matches are distributed among these distances:
46 199 0.69
47 42 0.15
49 4 0.01
51 5 0.02
54 38 0.13
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:106003823 original size:146 final size:138
Alignment explanation
Indices: 106003554--106003916 Score: 422
Period size: 146 Copynumber: 2.6 Consensus size: 138
106003544 TTCGACATGA
* * * * * ** * * *
106003554 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTGTCATGTTGCCATGGTATCATTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGTTGCCATGGTATCTTTCAAC
* * * *
106003619 CATAGTCTTATTCA-TTTTCCCGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
66 CATGGTCTTA--CACGTTTCACATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
*
106003683 CATGCCAGGT
129 CATACCAGGT
106003693 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGATATCAGGTTGCCATGGTAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACG--T--T-TC---ATATCAGGTTGCCATGGTAT
* * *
106003758 CTTTCAACCATGGTCTTACACGTTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTTTTAC
58 CTTTCAACCATGGTCTTACACGTTTCACATCACGTTGCCATGGTATCTTTCAACCATGGTCTTAC
* *
106003823 ACGTTTCATATCAGGT
123 ACATTTCATACCAGGT
* * *
106003839 TGTCATGGTATCTTTCAATCATGGTCTTACACGTTTCATATCAGGTTGCCATAGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGTTGCCATGGTATCTTTCAAC
106003904 CATGGTCTTACAC
66 CATGGTCTTACAC
106003917 ATTTTCTATC
Statistics
Matches: 192, Mismatches: 23, Indels: 19
0.82 0.10 0.08
Matches are distributed among these distances:
138 40 0.21
139 28 0.15
141 3 0.02
142 1 0.01
143 1 0.01
144 2 0.01
145 2 0.01
146 82 0.43
147 33 0.17
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.39
Consensus pattern (138 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACGTTTCACATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
TACCAGGT
Found at i:106006066 original size:11 final size:11
Alignment explanation
Indices: 106006050--106006101 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
106006040 TATACTAAAT
106006050 AAATAATAATA
1 AAATAATAATA
*
106006061 AAATAAT-ATT
1 AAATAATAATA
* *
106006071 AAATATCTCATA
1 AAATA-ATAATA
*
106006083 AAATATTAATA
1 AAATAATAATA
106006094 AAATAATA
1 AAATAATA
106006102 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:106013984 original size:15 final size:15
Alignment explanation
Indices: 106013944--106013984 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
106013934 GGCGCCCAAA
*
106013944 GCCGAGAAGAAGCCT
1 GCCGAGAAGAAGCCG
*
106013959 GCTGAGAAGAAGCCG
1 GCCGAGAAGAAGCCG
*
106013974 GCCGAGGAGAA
1 GCCGAGAAGAA
106013985 AAAGACTACC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.34, C:0.22, G:0.39, T:0.05
Consensus pattern (15 bp):
GCCGAGAAGAAGCCG
Found at i:106014930 original size:2 final size:2
Alignment explanation
Indices: 106014923--106014959 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
106014913 ATACGGACAT
106014923 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
106014960 TATCTTTATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:106015137 original size:206 final size:206
Alignment explanation
Indices: 106014776--106015147 Score: 708
Period size: 206 Copynumber: 1.8 Consensus size: 206
106014766 TTCTTGATTG
* *
106014776 TTGTGCTGTACAAGCAAAGAATGATTGGGAGGAGGTACATTACTTAAAAGCTTATTATCTTGAAA
1 TTGTGCTGTACAAGCAAAGAATGACTGGGAGGAGGCACATTACTTAAAAGCTTATTATCTTGAAA
*
106014841 ACCTTATAAAGATTTAAAATGTTCATGTGAGGTTTATTTACAGAATCATTGTATGAGCAGATATA
66 ACCTTATAAAGATTCAAAATGTTCATGTGAGGTTTATTTACAGAATCATTGTATGAGCAGATATA
106014906 TACACCTATACGGACATTATATATATATATATATATATATATATATATATATATTATCTTTATAA
131 TACACCTATACGGACATTATATATATATATATATATATATATATATATATATATTATCTTTATAA
106014971 GTTGTCATCTT
196 GTTGTCATCTT
106014982 TTGTGCTGTACAAGCAAAGAATGACTGGGAGGAGGCACATTACTTAAAAGCTTATTATCTTGAAA
1 TTGTGCTGTACAAGCAAAGAATGACTGGGAGGAGGCACATTACTTAAAAGCTTATTATCTTGAAA
106015047 ACCTTATAAAGATTCAAAATGTTCATGTGAGGTTTATTTACAGAATCATTGTATGAGCAGATATA
66 ACCTTATAAAGATTCAAAATGTTCATGTGAGGTTTATTTACAGAATCATTGTATGAGCAGATATA
*
106015112 TACACCTATACGGACATTTTATATATATATATATAT
131 TACACCTATACGGACATTATATATATATATATATAT
106015148 TATCTTTATA
Statistics
Matches: 162, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
206 162 1.00
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.36
Consensus pattern (206 bp):
TTGTGCTGTACAAGCAAAGAATGACTGGGAGGAGGCACATTACTTAAAAGCTTATTATCTTGAAA
ACCTTATAAAGATTCAAAATGTTCATGTGAGGTTTATTTACAGAATCATTGTATGAGCAGATATA
TACACCTATACGGACATTATATATATATATATATATATATATATATATATATATTATCTTTATAA
GTTGTCATCTT
Found at i:106018410 original size:11 final size:11
Alignment explanation
Indices: 106018396--106018447 Score: 63
Period size: 11 Copynumber: 4.9 Consensus size: 11
106018386 TCTTTTAATA
*
106018396 TTCTTTCAAAT
1 TTCTCTCAAAT
106018407 TTCTCTCAAA-
1 TTCTCTCAAAT
106018417 -TCTCTCAAAT
1 TTCTCTCAAAT
*
106018427 TTCTCTTAAAT
1 TTCTCTCAAAT
*
106018438 TCCTCTCAAA
1 TTCTCTCAAA
106018448 ACTCTCATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
9 9 0.26
11 26 0.74
ACGTcount: A:0.29, C:0.27, G:0.00, T:0.44
Consensus pattern (11 bp):
TTCTCTCAAAT
Found at i:106018426 original size:20 final size:22
Alignment explanation
Indices: 106018401--106018447 Score: 71
Period size: 20 Copynumber: 2.2 Consensus size: 22
106018391 TAATATTCTT
106018401 TCAAATTTCTCTCAAA-T-CTC
1 TCAAATTTCTCTCAAATTCCTC
*
106018421 TCAAATTTCTCTTAAATTCCTC
1 TCAAATTTCTCTCAAATTCCTC
106018443 TCAAA
1 TCAAA
106018448 ACTCTCATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 15 0.62
21 1 0.04
22 8 0.33
ACGTcount: A:0.32, C:0.28, G:0.00, T:0.40
Consensus pattern (22 bp):
TCAAATTTCTCTCAAATTCCTC
Found at i:106020263 original size:18 final size:18
Alignment explanation
Indices: 106020240--106020277 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
106020230 TGCCAAGTAC
*
106020240 GTATCCTAGCCCTTTTAT
1 GTATCCTAGCCCTTATAT
106020258 GTATCCTAGCCCTTATAT
1 GTATCCTAGCCCTTATAT
106020276 GT
1 GT
106020278 TTCTTTTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.18, C:0.26, G:0.13, T:0.42
Consensus pattern (18 bp):
GTATCCTAGCCCTTATAT
Found at i:106020869 original size:116 final size:115
Alignment explanation
Indices: 106020666--106021392 Score: 1273
Period size: 116 Copynumber: 6.3 Consensus size: 115
106020656 TATTTGTACA
106020666 AACATTTTGAATATTTTTATATTATTTCATGTAATTA-ATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
*
106020730 TGTAATTTACTTTTATATTTTTAATAAAATAGAAATTATTTTAAATAAGGC
66 TATAATTTACTTTTATATTTTTAATAAAAT-GAAATTATTTTAAATAAGGC
106020781 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
106020846 TATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
66 TATAATTTACTTTTATATTTTTAATAAAAT-GAAATTATTTTAAATAAGGC
106020897 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAA-GTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
*
106020961 TGTAATTTACTTTTATATTTTTAATAAAATAGAAATTATTTTAAATAAGGC
66 TATAATTTACTTTTATATTTTTAATAAAAT-GAAATTATTTTAAATAAGGC
106021012 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
106021077 TATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
66 TATAATTTACTTTTATATTTTTAATAAAAT-GAAATTATTTTAAATAAGGC
* * *
106021128 AACATTTTGAATATTTTTATATTATTTCATGTGATAATATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
106021193 TATAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAGG-
66 TATAATTTACTTTTATATTTTTAATAAAATG-AAATTATTTTAAATAAGGC
* * *
106021243 AACA-TTTGAATATTTTTATATTATTTCATGTGATAATATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
* *
106021307 TGTAATTTACTTTTATATTTTTAATAAAATGAAGATTATTTTAAATAAAGC
66 TATAATTTACTTTTATATTTTTAATAAAATGAA-ATTATTTTAAATAAGGC
*
106021358 AATATTTTGAATATTTTTATATTATTTCATGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAAT
106021393 AAAATATAAA
Statistics
Matches: 593, Mismatches: 13, Indels: 11
0.96 0.02 0.02
Matches are distributed among these distances:
113 2 0.00
114 105 0.18
115 158 0.27
116 328 0.55
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.47
Consensus pattern (115 bp):
AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
TATAATTTACTTTTATATTTTTAATAAAATGAAATTATTTTAAATAAGGC
Found at i:106021069 original size:231 final size:231
Alignment explanation
Indices: 106020666--106021392 Score: 1302
Period size: 231 Copynumber: 3.2 Consensus size: 231
106020656 TATTTGTACA
106020666 AACATTTTGAATATTTTTATATTATTTCATGTAATTAATAAAAGGTTGTTTTAAATAAAGTAATT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAATAAAAGGTTGTTTTAAATAAAGTAATT
106020731 GTAATTTACTTTTATATTTTTAATAAAATAGAAATTATTTTAAATAAGGCAACATTTTGAATATT
66 GTAATTTACTTTTATATTTTTAATAAAATAGAAATTATTTTAAATAAGGCAACATTTTGAATATT
106020796 TTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAATTATAATTTACTTTTA
131 TTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAATTATAATTTACTTTTA
106020861 TATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
196 TATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
106020897 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAA-GTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTA-ATAAAAGGTTGTTTTAAATAAAGTAAT
106020961 TGTAATTTACTTTTATATTTTTAATAAAATAGAAATTATTTTAAATAAGGCAACATTTTGAATAT
65 TGTAATTTACTTTTATATTTTTAATAAAATAGAAATTATTTTAAATAAGGCAACATTTTGAATAT
106021026 TTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAATTATAATTTACTTTT
130 TTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAATTATAATTTACTTTT
106021091 ATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
195 ATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
* *
106021128 AACATTTTGAATATTTTTATATTATTTCATGTGATAATATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTA-ATAAAAGGTTGTTTTAAATAAAGTAAT
*
106021193 TATAATTTACTTTTATATTTTTAATAAAAT-GAAAATTATTTTAAATAAGG-AACA-TTTGAATA
65 TGTAATTTACTTTTATATTTTTAATAAAATAG-AAATTATTTTAAATAAGGCAACATTTTGAATA
* * * *
106021255 TTTTTATATTATTTCATGTGATAATATAAAAGGTTGTTTTAAATAAAGTAATTGTAATTTACTTT
129 TTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAATTATAATTTACTTT
*
106021320 TATATTTTTAATAAAAT-GAAGATTATTTTAAATAAAGC
194 TATATTTTTAATAAAATGGAA-ATTATTTTAAATAAGGC
*
106021358 AATATTTTGAATATTTTTATATTATTTCATGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAAT
106021393 AAAATATAAA
Statistics
Matches: 481, Mismatches: 11, Indels: 9
0.96 0.02 0.02
Matches are distributed among these distances:
229 3 0.01
230 135 0.28
231 270 0.56
232 73 0.15
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.47
Consensus pattern (231 bp):
AACATTTTGAATATTTTTATATTATTTCATGTAATTAATAAAAGGTTGTTTTAAATAAAGTAATT
GTAATTTACTTTTATATTTTTAATAAAATAGAAATTATTTTAAATAAGGCAACATTTTGAATATT
TTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAATTATAATTTACTTTTA
TATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
Found at i:106024952 original size:126 final size:125
Alignment explanation
Indices: 106024406--106024941 Score: 802
Period size: 126 Copynumber: 4.3 Consensus size: 125
106024396 GCCTAACTTA
* *
106024406 TTTCAGAAACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
* **
106024471 TGCATCCTGCTTGAAGCGTTTTTAACACTATTTATGCAGACACGTCTTCTCAAAATTATTT
66 TACATCCTGCTTGAAGCGTTTTT-ACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* ** * *
106024532 TTTCAGAGACCACTGTAGCAAAAGAGTATCCACGTGGGAGCTTCTTCCAGTAATTTTGCTGAAAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
*
106024597 TACATCCTGCTTGAAGCGTTTTTACCACTATTTGTGCAGACACGTCTTCTCAAAATTATTT
66 TACATCCTGCTTGAAGCGTTTTTA-CACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
** * * * *
106024658 TTTCAGAGACTACTGTAGCAAAAGAGCGTCTGCGTGGAAGCTTATTTTAGTACTTTTGCTGACAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
* * *
106024723 TACATCCTGCTTGAAGCGTTTTTTATACTATTTGCACAGACACGTCTTCTCAAACTTATTT
66 TACATCCTGCTTGAAGCG-TTTTTACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* * *
106024784 TTTCAGATACTACTGTAGTAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
* *
106024849 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAATTTATTT
66 TACATCCTGCTTGAAGCGTTTTT-ACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
*
106024910 TTTCAAAGACTACTGTAGCAAAAGAGCGTCCA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCA
106024942 TGTAAAAGCT
Statistics
Matches: 371, Mismatches: 36, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
125 6 0.02
126 359 0.97
127 6 0.02
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (125 bp):
TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
TACATCCTGCTTGAAGCGTTTTTACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
Found at i:106025196 original size:96 final size:98
Alignment explanation
Indices: 106024995--106025232 Score: 297
Period size: 96 Copynumber: 2.4 Consensus size: 98
106024985 CCTAAACCCC
* * * *
106024995 AAACCCTAATTTATTTGATTTTTTTTTCTTAAATACCCTAAAACCCTAAAATCCTAATCTAATTT
1 AAACCCTAATTTATTTGA--TTTTTTCCTTAAAAACCAT-AAACACTAAAATCCTAATCTAATTT
* * *
106025060 TTTTAAAATTTATAATTAATTTACTTAAGTAAGCCT
63 TTTTAAAATTTATAATTAATTTAATTAAGCAAACCT
106025096 AAACCCTAATTTATTTGATTTTTTCCTTAAAAACCATAAACACT-AAA-CCATAATCTAA-TTTT
1 AAACCCTAATTTATTTGATTTTTTCCTTAAAAACCATAAACACTAAAATCC-TAATCTAATTTTT
106025158 TTAAAA-TTAGTAATTAATTTAATTAA-CAAACACT
65 TTAAAATTTA-TAATTAATTTAATTAAGCAAAC-CT
* * *
106025192 AAACCCTAATTTATTTAATTTTTTCCTTAAAACCCTTAAAC
1 AAACCCTAATTTATTTGATTTTTTCCTTAAAAACCATAAAC
106025233 TTAAAAACCC
Statistics
Matches: 124, Mismatches: 10, Indels: 11
0.86 0.07 0.08
Matches are distributed among these distances:
95 6 0.05
96 67 0.54
97 11 0.09
98 6 0.05
99 16 0.13
101 18 0.15
ACGTcount: A:0.39, C:0.17, G:0.02, T:0.42
Consensus pattern (98 bp):
AAACCCTAATTTATTTGATTTTTTCCTTAAAAACCATAAACACTAAAATCCTAATCTAATTTTTT
TAAAATTTATAATTAATTTAATTAAGCAAACCT
Found at i:106027425 original size:17 final size:15
Alignment explanation
Indices: 106027405--106027464 Score: 61
Period size: 17 Copynumber: 3.9 Consensus size: 15
106027395 TTGTTTTCTT
106027405 TTTCTTTTATTTTCATA
1 TTTCTTTT-TTTT-ATA
*
106027422 TTTCTTTTGTTT-T-
1 TTTCTTTTTTTTATA
106027435 TTTCTTTTATTTTTATA
1 TTTC-TTT-TTTTTATA
106027452 TTTCTTTTTTTTA
1 TTTCTTTTTTTTA
106027465 CTTTTTTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
13 4 0.11
14 4 0.11
15 10 0.27
16 7 0.19
17 12 0.32
ACGTcount: A:0.12, C:0.08, G:0.02, T:0.78
Consensus pattern (15 bp):
TTTCTTTTTTTTATA
Found at i:106027439 original size:30 final size:29
Alignment explanation
Indices: 106027398--106027476 Score: 106
Period size: 30 Copynumber: 2.7 Consensus size: 29
106027388 TACCTTTTTG
*
106027398 TTTTCTTTTTCTTTTATTTTCATATTTCT
1 TTTTTTTTTTCTTTTATTTTCATATTTCT
*
106027427 TTTGTTTTTTTCTTTTATTTTTATATTTCT
1 TTT-TTTTTTTCTTTTATTTTCATATTTCT
*
106027457 TTTTTTTACTT-TTTTATTTT
1 TTTTTTT-TTTCTTTTATTTT
106027477 GCTCCTTAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
29 16 0.36
30 29 0.64
ACGTcount: A:0.10, C:0.09, G:0.01, T:0.80
Consensus pattern (29 bp):
TTTTTTTTTTCTTTTATTTTCATATTTCT
Found at i:106027469 original size:21 final size:22
Alignment explanation
Indices: 106027434--106027475 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
106027424 TCTTTTGTTT
*
106027434 TTTTCTTTTATTTTTATATTTC
1 TTTTCTTTTACTTTTATATTTC
*
106027456 TTTT-TTTTACTTTTTTATTT
1 TTTTCTTTTACTTTTATATTT
106027476 TGCTCCTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.12, C:0.07, G:0.00, T:0.81
Consensus pattern (22 bp):
TTTTCTTTTACTTTTATATTTC
Found at i:106027510 original size:17 final size:17
Alignment explanation
Indices: 106027490--106027567 Score: 54
Period size: 17 Copynumber: 4.4 Consensus size: 17
106027480 CCTTAATAAA
106027490 TTTTATCTTTTTATTTT
1 TTTTATCTTTTTATTTT
106027507 TTTTA-CTTTTT-TGATTT
1 TTTTATCTTTTTAT--TTT
106027524 TTTT-TCTTATTTCATTTT
1 TTTTATCTT-TTT-ATTTT
* *
106027542 GTTTATTTTGTTTTATTTT
1 TTTTA-TCT-TTTTATTTT
106027561 TTATTAT
1 TT-TTAT
106027568 TAACTTTAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 18
0.70 0.04 0.26
Matches are distributed among these distances:
15 1 0.02
16 6 0.12
17 15 0.31
18 9 0.19
19 7 0.15
20 9 0.19
21 1 0.02
ACGTcount: A:0.13, C:0.05, G:0.04, T:0.78
Consensus pattern (17 bp):
TTTTATCTTTTTATTTT
Found at i:106027511 original size:9 final size:9
Alignment explanation
Indices: 106027497--106027568 Score: 65
Period size: 9 Copynumber: 7.9 Consensus size: 9
106027487 AAATTTTATC
106027497 TTTTTATTT
1 TTTTTATTT
*
106027506 TTTTTACTT
1 TTTTTATTT
*
106027515 TTTTGATTT
1 TTTTTATTT
*
106027524 TTTTT-CTT
1 TTTTTATTT
* *
106027532 ATTTCATTT
1 TTTTTATTT
*
106027541 TGTTTATTT
1 TTTTTATTT
106027550 TGTTTTATTT
1 T-TTTTATTT
106027560 TTTATTATT
1 TTT-TTATT
106027569 AACTTTAAAA
Statistics
Matches: 48, Mismatches: 12, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
8 5 0.10
9 30 0.62
10 13 0.27
ACGTcount: A:0.12, C:0.04, G:0.04, T:0.79
Consensus pattern (9 bp):
TTTTTATTT
Found at i:106027832 original size:20 final size:19
Alignment explanation
Indices: 106027794--106027840 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
106027784 TTGTAAATAC
106027794 AATTTCTTTAATTTCTTTTT
1 AATTT-TTTAATTTCTTTTT
106027814 AAATTTTTTAACTTT-TTTTT
1 -AATTTTTTAA-TTTCTTTTT
106027834 AATTTTT
1 AATTTTT
106027841 GAAAAGTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.28
20 10 0.40
21 8 0.32
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.70
Consensus pattern (19 bp):
AATTTTTTAATTTCTTTTT
Found at i:106028006 original size:36 final size:37
Alignment explanation
Indices: 106027958--106028032 Score: 102
Period size: 36 Copynumber: 2.1 Consensus size: 37
106027948 AATTTTGTCT
106027958 TTTTCTTAATTTT-TTTTCTTT-TTTAAGTTTTATATTA
1 TTTTCTTAATTTTATTTTCTTTATTTAA--TTTATATTA
*
106027995 TTTTCTT-ATTTTATTTTGTTTATTTAATTTATATTA
1 TTTTCTTAATTTTATTTTCTTTATTTAATTTATATTA
106028031 TT
1 TT
106028033 AATTTTAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
36 16 0.46
37 14 0.40
38 5 0.14
ACGTcount: A:0.20, C:0.04, G:0.03, T:0.73
Consensus pattern (37 bp):
TTTTCTTAATTTTATTTTCTTTATTTAATTTATATTA
Found at i:106028008 original size:13 final size:13
Alignment explanation
Indices: 106027958--106028011 Score: 51
Period size: 13 Copynumber: 4.3 Consensus size: 13
106027948 AATTTTGTCT
106027958 TTTTCTTAATTTT-
1 TTTTCTT-ATTTTA
106027971 TTTTCTT-TTTTA
1 TTTTCTTATTTTA
** *
106027983 AGTT-TTATATTA
1 TTTTCTTATTTTA
106027995 TTTTCTTATTTTA
1 TTTTCTTATTTTA
106028008 TTTT
1 TTTT
106028012 GTTTATTTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
11 6 0.19
12 8 0.25
13 18 0.56
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.76
Consensus pattern (13 bp):
TTTTCTTATTTTA
Done.