Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2503
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: 160412
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Found at i:1540 original size:2 final size:2
Alignment explanation
Indices: 1533--1565 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
1523 TTTTAAACAG
*
1533 TC TC TC TC TC TC TC TC TC TC TC TC TT TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1566 GTTTTATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (2 bp):
TC
Found at i:1639 original size:2 final size:2
Alignment explanation
Indices: 1632--1656 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1622 AGTACAGCAT
1632 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 T
1657 CTAAACTGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2158 original size:5 final size:5
Alignment explanation
Indices: 2148--2173 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
2138 AACATTACCT
2148 ATATA ATATA ATATA ATATA ATATA A
1 ATATA ATATA ATATA ATATA ATATA A
2174 AAAAACCACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
ATATA
Found at i:3347 original size:2 final size:2
Alignment explanation
Indices: 3335--3381 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
3325 AGTAAAACTT
*
3335 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3377 TA TA T
1 TA TA T
3382 GGCTAACCTA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:3692 original size:34 final size:34
Alignment explanation
Indices: 3614--3692 Score: 92
Period size: 34 Copynumber: 2.4 Consensus size: 34
3604 TTTAAATTTG
* *
3614 ATAA-AAAATTTAAAAAAATATTTTTTTATTTTT
1 ATAATAAAATTTAAAAAAATATATTTTTATTATT
*
3647 ATAATTAAATTTAAATAAAA-ATATTTTTATTATT
1 ATAATAAAATTTAAA-AAAATATATTTTTATTATT
3681 A-AATAATAATTT
1 ATAATAA-AATTT
3693 GAGTTAATGC
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
33 8 0.21
34 27 0.69
35 4 0.10
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (34 bp):
ATAATAAAATTTAAAAAAATATATTTTTATTATT
Found at i:3937 original size:10 final size:10
Alignment explanation
Indices: 3911--3944 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
3901 GAAAATATAA
3911 AATTATTTTTT
1 AATT-TTTTTT
3922 AA-TTTTTTT
1 AATTTTTTTT
3931 AATTTTTTTT
1 AATTTTTTTT
3941 AATT
1 AATT
3945 ATAGAATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 8 0.36
10 12 0.55
11 2 0.09
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (10 bp):
AATTTTTTTT
Found at i:4446 original size:25 final size:22
Alignment explanation
Indices: 4410--4460 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
4400 ATTATTAAAC
*
4410 ATAAATATT-TATATTTTAATA
1 ATAAATATTATTTATTTTAATA
4431 ATATAATATTATTTATTTTAATA
1 ATA-AATATTATTTATTTTAATA
4454 ATAAATA
1 ATAAATA
4461 ATAAATTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 3 0.11
22 10 0.37
23 14 0.52
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
ATAAATATTATTTATTTTAATA
Found at i:4469 original size:23 final size:23
Alignment explanation
Indices: 4421--4470 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
4411 TAAATATTTA
* *
4421 TATTTTAATAATATAATATTATT
1 TATTTTAATAATATAATATAAAT
4444 TATTTTAATAATA-AATAATAAAT
1 TATTTTAATAATATAAT-ATAAAT
4467 TATT
1 TATT
4471 AATATAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 3 0.12
23 21 0.88
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
TATTTTAATAATATAATATAAAT
Found at i:9498 original size:16 final size:16
Alignment explanation
Indices: 9456--9500 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
9446 ATTTTTTTCT
* *
9456 AATTTTATTTTTTAAA
1 AATTTAATTTTTAAAA
* *
9472 AATATATTTTTTAAAA
1 AATTTAATTTTTAAAA
9488 AATTTAATTTTTA
1 AATTTAATTTTTA
9501 GTAATTTAAT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
AATTTAATTTTTAAAA
Found at i:9916 original size:13 final size:13
Alignment explanation
Indices: 9879--9919 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
9869 ATCATTTTTA
9879 AATATAATATATT
1 AATATAATATATT
9892 AA-ATGCAA-ATATT
1 AATAT--AATATATT
9905 AATATAATATATT
1 AATATAATATATT
9918 AA
1 AA
9920 ACATTTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
12 4 0.17
13 16 0.67
14 4 0.17
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.39
Consensus pattern (13 bp):
AATATAATATATT
Found at i:9938 original size:26 final size:26
Alignment explanation
Indices: 9875--9971 Score: 92
Period size: 26 Copynumber: 3.7 Consensus size: 26
9865 ATATATCATT
**
9875 TTTAAATATAATATATTAAATGCAAATA
1 TTTAAATATAATATATTAAA--CATTTA
9903 -TT-AATATAATATATTAAACATTTA
1 TTTAAATATAATATATTAAACATTTA
* *
9927 TTTAAATTTAATATTTTAAAC-TTTA
1 TTTAAATATAATATATTAAACATTTA
9952 TTATAAAAATATAATATATT
1 TT-T--AAATATAATATATT
9972 TAAATATATT
Statistics
Matches: 58, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
24 4 0.07
25 8 0.14
26 32 0.55
27 2 0.03
28 12 0.21
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.46
Consensus pattern (26 bp):
TTTAAATATAATATATTAAACATTTA
Found at i:9978 original size:15 final size:15
Alignment explanation
Indices: 9855--9979 Score: 67
Period size: 14 Copynumber: 8.9 Consensus size: 15
9845 TTAAATAATT
9855 TATATATTAAATAT-A
1 TATAT-TTAAATATAA
*
9870 TCATTTTTAAATATAA
1 T-ATATTTAAATATAA
**
9886 TATA-TTAAATGCAA
1 TATATTTAAATATAA
9900 -ATA-TT-AATATAA
1 TATATTTAAATATAA
*
9912 TATA-TTAAACAT--
1 TATATTTAAATATAA
*
9924 T-TATTTAAATTTAA
1 TATATTTAAATATAA
*
9938 TAT-TTTAAACT-TTA
1 TATATTTAAA-TATAA
**
9952 T-TATAAAAATATAA
1 TATATTTAAATATAA
9966 TATATTTAAATATA
1 TATATTTAAATATA
9980 TTAATATTAT
Statistics
Matches: 83, Mismatches: 15, Indels: 24
0.68 0.12 0.20
Matches are distributed among these distances:
11 2 0.02
12 12 0.14
13 12 0.14
14 29 0.35
15 23 0.28
16 5 0.06
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (15 bp):
TATATTTAAATATAA
Found at i:9981 original size:28 final size:28
Alignment explanation
Indices: 9905--9982 Score: 81
Period size: 28 Copynumber: 2.9 Consensus size: 28
9895 TGCAAATATT
* **
9905 AATATAATATA-TTAAACAT-TTATTTA
1 AATATAATATATTTAAATATATTATAAA
* *
9931 AATTTAATAT-TTTAAACTTTATTATAAA
1 AATATAATATATTTAAA-TATATTATAAA
9959 AATATAATATATTTAAATATATTA
1 AATATAATATATTTAAATATATTA
9983 ATATTATATA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
26 14 0.34
27 1 0.02
28 20 0.49
29 6 0.15
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (28 bp):
AATATAATATATTTAAATATATTATAAA
Found at i:9984 original size:18 final size:18
Alignment explanation
Indices: 9950--9997 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
9940 TTTTAAACTT
9950 TATTATAAAAATATAATA
1 TATTATAAAAATATAATA
* *
9968 TATT-TAAATATATTA-A
1 TATTATAAAAATATAATA
9984 TATTATATAAAATA
1 TATTATA-AAAATA
9998 ATAAATAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
16 5 0.20
17 11 0.44
18 9 0.36
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TATTATAAAAATATAATA
Found at i:11506 original size:42 final size:42
Alignment explanation
Indices: 11445--11552 Score: 155
Period size: 42 Copynumber: 2.6 Consensus size: 42
11435 TGTCTACCAA
11445 GAACAGATTTAAGTCGACCAGGAATAGGCTGTTGTTGACTAG
1 GAACAGATTTAAGTCGACCAGGAATAGGCTGTTGTTGACTAG
* *
11487 GAACAGATTTATGTTGACCAGGAATAGGCTGTTGTTGACTAG
1 GAACAGATTTAAGTCGACCAGGAATAGGCTGTTGTTGACTAG
* * *
11529 CAACATATTTACA-TCAACCAGGAA
1 GAACAGATTTA-AGTCGACCAGGAA
11553 AATAGAAGAC
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (42 bp):
GAACAGATTTAAGTCGACCAGGAATAGGCTGTTGTTGACTAG
Found at i:11522 original size:21 final size:21
Alignment explanation
Indices: 11460--11525 Score: 80
Period size: 21 Copynumber: 3.1 Consensus size: 21
11450 GATTTAAGTC
11460 GACCAGGAATAGGCTGTTGTT
1 GACCAGGAATAGGCTGTTGTT
* * * *
11481 GACTAGGAACA-GATTTATGTT
1 GACCAGGAATAGGCTGT-TGTT
11502 GACCAGGAATAGGCTGTTGTT
1 GACCAGGAATAGGCTGTTGTT
11523 GAC
1 GAC
11526 TAGCAACATA
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
20 3 0.09
21 29 0.83
22 3 0.09
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.29
Consensus pattern (21 bp):
GACCAGGAATAGGCTGTTGTT
Found at i:14587 original size:43 final size:43
Alignment explanation
Indices: 14540--14640 Score: 175
Period size: 43 Copynumber: 2.3 Consensus size: 43
14530 AACTATATAG
* * *
14540 CTTGCTTGTATGTTTGCAGCATTTATGCGTGGTAACTTAGTTA
1 CTTGCTTGTATGCTTGCAGCATTTATGCGTGATAACTTAATTA
14583 CTTGCTTGTATGCTTGCAGCATTTATGCGTGATAACTTAATTA
1 CTTGCTTGTATGCTTGCAGCATTTATGCGTGATAACTTAATTA
14626 CTTGCTTGTATGCTT
1 CTTGCTTGTATGCTT
14641 TAAAAAAGTT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.19, C:0.16, G:0.21, T:0.45
Consensus pattern (43 bp):
CTTGCTTGTATGCTTGCAGCATTTATGCGTGATAACTTAATTA
Found at i:24470 original size:14 final size:12
Alignment explanation
Indices: 24445--24478 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 12
24435 CTATGGGAAT
24445 TGTTTTTGTTGA
1 TGTTTTTGTTGA
24457 GTGTTTTGTGTTGA
1 -TGTTTT-TGTTGA
24471 TGTTTTTG
1 TGTTTTTG
24479 GCTAAGTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 2 0.10
13 12 0.60
14 6 0.30
ACGTcount: A:0.06, C:0.00, G:0.29, T:0.65
Consensus pattern (12 bp):
TGTTTTTGTTGA
Found at i:26225 original size:18 final size:18
Alignment explanation
Indices: 26202--26239 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
26192 TTGAGTGATA
26202 AAATTTAATTAAAAATTT
1 AAATTTAATTAAAAATTT
*
26220 AAATTTAATTAAAATTTT
1 AAATTTAATTAAAAATTT
26238 AA
1 AA
26240 TTAAATAAAA
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:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
AAATTTAATTAAAAATTT
Found at i:26248 original size:16 final size:17
Alignment explanation
Indices: 26202--26256 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 17
26192 TTGAGTGATA
*
26202 AAATTTAATTAAAAATTT
1 AAATTTAAAT-AAAATTT
*
26220 AAATTTAATTAAAATTT
1 AAATTTAAATAAAATTT
* *
26237 TAA-TTAAATAAAATTA
1 AAATTTAAATAAAATTT
26253 AAAT
1 AAAT
26257 GATAAAATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
16 13 0.41
17 9 0.28
18 10 0.31
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AAATTTAAATAAAATTT
Found at i:26874 original size:14 final size:14
Alignment explanation
Indices: 26851--26882 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
26841 TATTTTAAAT
26851 TATT-TTATTTTTA
1 TATTATTATTTTTA
26864 TATTATTATTTTTA
1 TATTATTATTTTTA
26878 T-TTAT
1 TATTAT
26883 AAATAATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (14 bp):
TATTATTATTTTTA
Found at i:26897 original size:8 final size:8
Alignment explanation
Indices: 26884--26910 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
26874 TTTATTTATA
26884 AATAATAT
1 AATAATAT
26892 AATAATAT
1 AATAATAT
26900 AATAATAT
1 AATAATAT
26908 AAT
1 AAT
26911 CTTTATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (8 bp):
AATAATAT
Found at i:28407 original size:2 final size:2
Alignment explanation
Indices: 28400--28432 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
28390 ATTTTGGTTT
28400 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 T
28433 GTACATACAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:30643 original size:34 final size:34
Alignment explanation
Indices: 30576--30791 Score: 292
Period size: 34 Copynumber: 6.4 Consensus size: 34
30566 TTGTTATGTA
* * *
30576 TGTTGATTAAAT-GGTGATTTAGTAGTTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* * * *
30609 TGTTGATTAAATGGGTGATTTGGTGGTTTGCCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
*
30643 TGTTGACTAAAT-GGAGATTTGGTAGCTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
*
30676 TGTTGATTAAATGGGAAATTTGGTAGCTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* *
30710 TGTTGATTAAATGGGTGATTTGGTGGCTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* * *
30744 TGTTGACTAAATGGGAGATTTGGTAGGTTGCCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
30778 TGTTGATTAAATGG
1 TGTTGATTAAATGG
30792 TGGTTTTTAC
Statistics
Matches: 162, Mismatches: 19, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
33 40 0.25
34 122 0.75
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.40
Consensus pattern (34 bp):
TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
Found at i:30757 original size:68 final size:67
Alignment explanation
Indices: 30576--30793 Score: 319
Period size: 67 Copynumber: 3.2 Consensus size: 67
30566 TTGTTATGTA
* * * * *
30576 TGTTGATTAAATGGTGATTTAGTAGTTTACCATTGTTGATTAAATGGGTGATTTGGTGGTTTGCC
1 TGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTAGCTTGCC
30641 AT
66 AT
* * * *
30643 TGTTGACTAAATGGAGATTTGGTAGCTTACCATTGTTGATTAAATGGGAAATTTGGTAGCTTACC
1 TGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTAGCTTGCC
30708 AT
66 AT
* * *
30710 TGTTGATTAAATGGGTGATTTGGTGGCTTACCATTGTTGACTAAATGGGAGATTTGGTAGGTTGC
1 TGTTGATTAAAT-GGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTAGCTTGC
30775 CAT
65 CAT
30778 TGTTGATTAAATGGTG
1 TGTTGATTAAATGGTG
30794 GTTTTTACCA
Statistics
Matches: 134, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
67 73 0.54
68 61 0.46
ACGTcount: A:0.24, C:0.08, G:0.28, T:0.40
Consensus pattern (67 bp):
TGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTAGCTTGCC
AT
Found at i:35276 original size:34 final size:34
Alignment explanation
Indices: 35207--35424 Score: 296
Period size: 34 Copynumber: 6.5 Consensus size: 34
35197 AAGTGGGAGA
* * *
35207 ATTGTTGATTAAAT-GGTGATTTAGTAGTTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * * *
35240 ATTGTTGATTAAATGGGTGATTTGGTGGTTTGCC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
*
35274 ATTGTTGACTAAAT-GGAGATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
*
35307 ATTGTTGATTAAATGGGAAATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* *
35341 ATTGTTGATTAAATGGGTGATTTGGTGGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * *
35375 ATTGTTGACTAAATGGGAGATTTGGTAGGTTGCC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
35409 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
35425 TGGTTTTTAC
Statistics
Matches: 164, Mismatches: 19, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
33 42 0.26
34 122 0.74
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.40
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
Found at i:35390 original size:68 final size:67
Alignment explanation
Indices: 35207--35426 Score: 323
Period size: 67 Copynumber: 3.3 Consensus size: 67
35197 AAGTGGGAGA
* * * * *
35207 ATTGTTGATTAAATGGTGATTTAGTAGTTTACCATTGTTGATTAAATGGGTGATTTGGTGGTTTG
1 ATTGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTAGCTTG
35272 CC
66 CC
* * * *
35274 ATTGTTGACTAAATGGAGATTTGGTAGCTTACCATTGTTGATTAAATGGGAAATTTGGTAGCTTA
1 ATTGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTAGCTTG
35339 CC
66 CC
* * *
35341 ATTGTTGATTAAATGGGTGATTTGGTGGCTTACCATTGTTGACTAAATGGGAGATTTGGTAGGTT
1 ATTGTTGATTAAAT-GGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTAGCTT
35406 GCC
65 GCC
35409 ATTGTTGATTAAATGGTG
1 ATTGTTGATTAAATGGTG
35427 GTTTTTACCA
Statistics
Matches: 136, Mismatches: 16, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
67 75 0.55
68 61 0.45
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.40
Consensus pattern (67 bp):
ATTGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTAGCTTG
CC
Found at i:37511 original size:9 final size:9
Alignment explanation
Indices: 37497--37548 Score: 50
Period size: 10 Copynumber: 5.3 Consensus size: 9
37487 TAACAAAATT
37497 AATATTTAA
1 AATATTTAA
37506 AATATTTAAA
1 AATATTT-AA
37516 ATATATTTAA
1 A-ATATTTAA
* *
37526 TAAAATATAA
1 -AATATTTAA
37536 ATATATTTAA
1 A-ATATTTAA
37546 AAT
1 AAT
37549 TGAAAAAATC
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
9 10 0.29
10 18 0.51
11 7 0.20
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
AATATTTAA
Found at i:37523 original size:20 final size:19
Alignment explanation
Indices: 37498--37548 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
37488 AACAAAATTA
*
37498 ATATTTAAAATATTTAAAAT
1 ATATTTAAAATATAT-AAAT
*
37518 ATATTTAATAAAATATAAAT
1 ATATTTAA-AATATATAAAT
37538 ATATTTAAAAT
1 ATATTTAAAAT
37549 TGAAAAAATC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 2 0.07
20 20 0.74
21 5 0.19
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
ATATTTAAAATATATAAAT
Found at i:38049 original size:59 final size:59
Alignment explanation
Indices: 37985--38102 Score: 200
Period size: 59 Copynumber: 2.0 Consensus size: 59
37975 AATTTTTTCT
* * *
37985 TTAGAATGAATTTCACTAGTGCATCATAAACACATAATAATAACTTGCTTTACTTTTTG
1 TTAGAATGAATTTCACTAGTGCATCACAAACACATAACAATAACTTGCTTTACCTTTTG
*
38044 TTAGAATGGATTTCACTAGTGCATCACAAACACATAACAATAACTTGCTTTACCTTTTG
1 TTAGAATGAATTTCACTAGTGCATCACAAACACATAACAATAACTTGCTTTACCTTTTG
38103 AACTTTATAA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 55 1.00
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.36
Consensus pattern (59 bp):
TTAGAATGAATTTCACTAGTGCATCACAAACACATAACAATAACTTGCTTTACCTTTTG
Found at i:43476 original size:17 final size:15
Alignment explanation
Indices: 43456--43504 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 15
43446 TTAGGTAAAA
43456 AAGAAAGAAAGAAGATG
1 AAGAAAGAAAGAA-A-G
43473 AAG-AAGAAAGAAAG
1 AAGAAAGAAAGAAAG
43487 AA-AAAGAAA-AAA-
1 AAGAAAGAAAGAAAG
43499 AAGAAA
1 AAGAAA
43505 AAAAATGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
12 2 0.07
13 6 0.20
14 9 0.30
15 1 0.03
16 9 0.30
17 3 0.10
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (15 bp):
AAGAAAGAAAGAAAG
Found at i:43501 original size:9 final size:9
Alignment explanation
Indices: 43479--43514 Score: 54
Period size: 9 Copynumber: 3.8 Consensus size: 9
43469 GATGAAGAAG
43479 AAAGAAAGAA
1 AAAGAAA-AA
43489 AAAGAAAAA
1 AAAGAAAAA
43498 AAAGAAAAA
1 AAAGAAAAA
43507 AAATGAAA
1 AAA-GAAA
43515 TGGAGTGGCC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 14 0.56
10 11 0.44
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (9 bp):
AAAGAAAAA
Found at i:47626 original size:2 final size:2
Alignment explanation
Indices: 47619--47645 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
47609 GATGGGACAT
47619 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 T
47646 TTTTAATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:50326 original size:2 final size:2
Alignment explanation
Indices: 50319--50364 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
50309 TGATTACCCA
*
50319 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50361 AT AT
1 AT AT
50365 TGAAACAGCT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:51144 original size:15 final size:15
Alignment explanation
Indices: 51124--51153 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
51114 TAAAACAAAC
51124 ATAATAATATGATAA
1 ATAATAATATGATAA
51139 ATAATAATATGATAA
1 ATAATAATATGATAA
51154 TAGGATCTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (15 bp):
ATAATAATATGATAA
Found at i:52230 original size:19 final size:20
Alignment explanation
Indices: 52198--52235 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
52188 TTCTACATAC
52198 ATTATATATGAAAAATTAAG
1 ATTATATATGAAAAATTAAG
* *
52218 ATTA-ATATTAAAATTTAA
1 ATTATATATGAAAAATTAA
52236 TTATTCATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.39
Consensus pattern (20 bp):
ATTATATATGAAAAATTAAG
Found at i:55500 original size:21 final size:22
Alignment explanation
Indices: 55475--55561 Score: 76
Period size: 21 Copynumber: 4.2 Consensus size: 22
55465 CTTTAATAAA
55475 AATAAATAAAAAT-TAATTATT
1 AATAAATAAAAATATAATTATT
* *
55496 AATAATTAAAAATATATTTATT
1 AATAAATAAAAATATAATTATT
** *
55518 TTTAATTAAAAA-ATAA-T-TT
1 AATAAATAAAAATATAATTATT
* *
55537 AA-AAATAATAATATAAATATT
1 AATAAATAAAAATATAATTATT
55558 AATA
1 AATA
55562 TGCATTTTAC
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
18 7 0.13
19 6 0.12
20 2 0.04
21 19 0.37
22 18 0.35
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
AATAAATAAAAATATAATTATT
Found at i:55516 original size:22 final size:22
Alignment explanation
Indices: 55475--55537 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
55465 CTTTAATAAA
* *
55475 AATAAATAAAAAT-TAATTATT
1 AATAATTAAAAATATATTTATT
55496 AATAATTAAAAATATATTTATT
1 AATAATTAAAAATATATTTATT
**
55518 TTTAATTAAAAA-ATAATTTA
1 AATAATTAAAAATAT-ATTTA
55538 AAAATAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
21 14 0.39
22 22 0.61
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
AATAATTAAAAATATATTTATT
Found at i:55545 original size:22 final size:22
Alignment explanation
Indices: 55471--55545 Score: 55
Period size: 22 Copynumber: 3.5 Consensus size: 22
55461 TGTACTTTAA
* *
55471 TAAAAATAAATAAAAATTAA-T
1 TAAAAATAATTAAAAAATAATT
**
55492 TATTAATAATT-AAAAATATATT
1 TAAAAATAATTAAAAAATA-ATT
****
55514 TATTTTTAATTAAAAAATAATT
1 TAAAAATAATTAAAAAATAATT
55536 TAAAAATAAT
1 TAAAAATAAT
55546 AATATAAATA
Statistics
Matches: 41, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
20 6 0.15
21 9 0.22
22 19 0.46
23 7 0.17
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
TAAAAATAATTAAAAAATAATT
Found at i:59051 original size:11 final size:11
Alignment explanation
Indices: 59035--59060 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
59025 AGTTTGGCCA
59035 TTGTATTTAAT
1 TTGTATTTAAT
59046 TTGTATTTAAT
1 TTGTATTTAAT
59057 TTGT
1 TTGT
59061 GTTTCTGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.12, T:0.65
Consensus pattern (11 bp):
TTGTATTTAAT
Found at i:60012 original size:23 final size:23
Alignment explanation
Indices: 59985--60049 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
59975 GAGAAGAAAT
*
59985 AATAATTTATAAAATAATTAATA
1 AATAATTTATAAAATAAATAATA
* * *
60008 AATAA-TTAAAAAACAAAATAATT
1 AATAATTTATAAAA-TAAATAATA
60031 AATAATTTATATAAATAAA
1 AATAATTTATA-AAATAAA
60050 AGTAACTACA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
22 7 0.21
23 16 0.48
24 7 0.21
25 3 0.09
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.34
Consensus pattern (23 bp):
AATAATTTATAAAATAAATAATA
Found at i:61741 original size:23 final size:24
Alignment explanation
Indices: 61708--61752 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
61698 TTATAATATA
* *
61708 ATATAAATATATATTTTAAAATTT
1 ATATAAATATAAATTATAAAATTT
61732 ATAT-AATATAAATTATAAAAT
1 ATATAAATATAAATTATAAAAT
61753 ATTAAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
ATATAAATATAAATTATAAAATTT
Found at i:61747 original size:14 final size:14
Alignment explanation
Indices: 61703--61803 Score: 66
Period size: 16 Copynumber: 6.9 Consensus size: 14
61693 AATAATTATA
61703 ATATAATATAAA-T
1 ATATAATATAAATT
* *
61716 ATATATTTTAAAATTT
1 ATATAATAT-AAA-TT
61732 ATATAATATAAATT
1 ATATAATATAAATT
*
61746 ATAAAATATTAAAATT
1 ATATAATA-T-AAATT
*
61762 TTA-AATAT-AATT
1 ATATAATATAAATT
61774 ATA-ATATAATACAATAT
1 ATATA-AT-ATA-AAT-T
61791 ATATAATATAAAT
1 ATATAATATAAAT
61804 ATAGAAATTA
Statistics
Matches: 70, Mismatches: 7, Indels: 20
0.72 0.07 0.21
Matches are distributed among these distances:
12 7 0.10
13 9 0.13
14 15 0.21
15 11 0.16
16 21 0.30
17 6 0.09
18 1 0.01
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (14 bp):
ATATAATATAAATT
Found at i:67094 original size:19 final size:19
Alignment explanation
Indices: 67070--67106 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
67060 TTATGACATG
67070 ACACGATTACA-ACACGAAA
1 ACACGATTA-AGACACGAAA
67089 ACACGATTAAGACACGAA
1 ACACGATTAAGACACGAA
67107 TTATATGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 1 0.06
19 16 0.94
ACGTcount: A:0.51, C:0.24, G:0.14, T:0.11
Consensus pattern (19 bp):
ACACGATTAAGACACGAAA
Found at i:67451 original size:19 final size:22
Alignment explanation
Indices: 67427--67468 Score: 63
Period size: 19 Copynumber: 2.0 Consensus size: 22
67417 CGAAGCCACC
67427 TATTTAT-AAAAT-AAA-AAAA
1 TATTTATCAAAATCAAATAAAA
67446 TATTTATCAAAATCAAATAAAA
1 TATTTATCAAAATCAAATAAAA
67468 T
1 T
67469 TTAATAGTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 5 0.25
21 3 0.15
22 5 0.25
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (22 bp):
TATTTATCAAAATCAAATAAAA
Found at i:71498 original size:17 final size:14
Alignment explanation
Indices: 71465--71501 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
71455 TGAAATTTAT
71465 ATAATAAAATCTAA
1 ATAATAAAATCTAA
71479 ATAATAAAATCTAA
1 ATAATAAAATCTAA
71493 ATAATAAAA
1 ATAATAAAA
71502 AAATTACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (14 bp):
ATAATAAAATCTAA
Found at i:72192 original size:13 final size:13
Alignment explanation
Indices: 72174--72198 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
72164 ATTAATTTTT
72174 CTATTATATAATG
1 CTATTATATAATG
72187 CTATTATATAAT
1 CTATTATATAAT
72199 ATTGAAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.04, T:0.48
Consensus pattern (13 bp):
CTATTATATAATG
Found at i:76829 original size:30 final size:30
Alignment explanation
Indices: 76781--76847 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
76771 TTATAATTAC
** *
76781 AAATATATTAAAATTTATAATTATTTTAATTT
1 AAATA-ATTAAAATTTATAAAAAATTTAA-TT
*
76813 AAATAATTAATA-TTATAAAAAATTTAATT
1 AAATAATTAAAATTTATAAAAAATTTAATT
76842 AAATAA
1 AAATAA
76848 AATTTTATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
29 8 0.26
30 12 0.39
31 6 0.19
32 5 0.16
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (30 bp):
AAATAATTAAAATTTATAAAAAATTTAATT
Found at i:76862 original size:17 final size:16
Alignment explanation
Indices: 76842--76884 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
76832 AAATTTAATT
**
76842 AAATAAAATTTTATTTA
1 AAATAAAATAATA-TTA
*
76859 AAATATAATAATATTA
1 AAATAAAATAATATTA
76875 AAATAAAATA
1 AAATAAAATA
76885 TTAAAATATT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
AAATAAAATAATATTA
Found at i:76886 original size:13 final size:14
Alignment explanation
Indices: 76863--76892 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
76853 TATTTAAAAT
76863 ATAATAATATTAAA
1 ATAATAATATTAAA
76877 ATAA-AATATTAAA
1 ATAATAATATTAAA
76890 ATA
1 ATA
76893 TTTGAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
ATAATAATATTAAA
Found at i:77123 original size:23 final size:23
Alignment explanation
Indices: 77060--77123 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
77050 ATTAAAAAAT
* *
77060 ATTTAAATATTATTTTTATATTA
1 ATTTAAATATAATTTTTAAATTA
*
77083 ATATT-AATATATTTTTTAAATTAA
1 AT-TTAAATATAATTTTTAAATT-A
77107 ATTTAAATA-AATTTTTA
1 ATTTAAATATAATTTTTA
77124 TTATTTAAGC
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
23 25 0.74
24 9 0.26
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
ATTTAAATATAATTTTTAAATTA
Found at i:78450 original size:22 final size:22
Alignment explanation
Indices: 78425--78466 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
78415 ACTCAAGACA
78425 TAGTTTGGATTATTTTGTACCC
1 TAGTTTGGATTATTTTGTACCC
78447 TAGTTTGGATTATTTTGTAC
1 TAGTTTGGATTATTTTGTAC
78467 TCTTTATTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.19, C:0.10, G:0.19, T:0.52
Consensus pattern (22 bp):
TAGTTTGGATTATTTTGTACCC
Found at i:87569 original size:79 final size:78
Alignment explanation
Indices: 87425--87656 Score: 225
Period size: 79 Copynumber: 2.9 Consensus size: 78
87415 AAAATATTGA
* * ** * * **
87425 TTTCTCACAATCAGAGATATTCCAACCCCCGTTATTTTCGCGGGGATACTTCAACCCCGGCTTTA
1 TTTCT-ACAATCAGGGATACTCCAA-CCCCGTTATTTTCGAAGGGATACTCCAACCTCGATTTTA
*
87490 TTTCTAAA-GCATCAAT
64 TTTCAAAATGC-T-AAT
* * * *
87506 TTT-TCACGATCGGGGATACTCCGACCCCGTTATTTTTGAAGGGATACTCCAACCTCGATTTTAT
1 TTTCT-ACAATCAGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCTCGATTTTA-
*
87570 TTTCAAAATGCTGAT
64 TTTCAAAATGCTAAT
* * * *
87585 TTTCTATAATCAGGGATACTCCAACCCTGTCATTTCCGAAGGGATACTCCAACCTCGATTTTATT
1 TTTCTACAATCAGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCTCGATTTTATT
87650 TCCAAAA
66 T-CAAAA
87657 CACCGATTTT
Statistics
Matches: 125, Mismatches: 22, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
78 3 0.02
79 92 0.74
80 25 0.20
81 5 0.04
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (78 bp):
TTTCTACAATCAGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCTCGATTTTATT
TCAAAATGCTAAT
Found at i:87665 original size:79 final size:79
Alignment explanation
Indices: 87518--87691 Score: 240
Period size: 79 Copynumber: 2.2 Consensus size: 79
87508 TTCACGATCG
* * ** * ** *
87518 GGGATACTCCGACCCCGTTATTTTTGAAGGGATACTCCAACCTCGATTTTATTTTCAAAATGCTG
1 GGGATACTCCAACCCCGTCATTTCCGAAGGGATACTCCAACCTCGATTTTATTTCCAAAACACCG
*
87583 ATTTTCTATAATCA
66 ATTTTCCATAATCA
*
87597 GGGATACTCCAACCCTGTCATTTCCGAAGGGATACTCCAACCTCGATTTTATTTCCAAAACACCG
1 GGGATACTCCAACCCCGTCATTTCCGAAGGGATACTCCAACCTCGATTTTATTTCCAAAACACCG
87662 ATTTTCCATAATCA
66 ATTTTCCATAATCA
* *
87676 AGGATACTCCAGCCCC
1 GGGATACTCCAACCCC
87692 ATTGTTATCC
Statistics
Matches: 82, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
79 82 1.00
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (79 bp):
GGGATACTCCAACCCCGTCATTTCCGAAGGGATACTCCAACCTCGATTTTATTTCCAAAACACCG
ATTTTCCATAATCA
Found at i:88898 original size:20 final size:20
Alignment explanation
Indices: 88870--88964 Score: 154
Period size: 20 Copynumber: 4.8 Consensus size: 20
88860 TTTTACCCAG
88870 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
88890 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
88910 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
88930 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
88950 ATGTATCGATACATT
1 ATGTATCGATACATT
88965 CTATCTTTTT
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 67 1.00
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:105353 original size:9 final size:9
Alignment explanation
Indices: 105338--105395 Score: 62
Period size: 9 Copynumber: 5.9 Consensus size: 9
105328 GGCGTCCTTT
105338 AAAAAAAACC
1 AAAAAAAA-C
*
105348 AAAAAAAAAA
1 -AAAAAAAAC
105358 AACAAAAAAC
1 AA-AAAAAAC
105368 AAAAAAAAC
1 AAAAAAAAC
105377 AAAAAAAACC
1 AAAAAAAA-C
105387 AAGAAAAAA
1 AA-AAAAAA
105396 ATAGCAAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
9 17 0.40
10 11 0.26
11 14 0.33
ACGTcount: A:0.86, C:0.12, G:0.02, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:106705 original size:29 final size:29
Alignment explanation
Indices: 106628--107829 Score: 1457
Period size: 28 Copynumber: 41.9 Consensus size: 29
106618 CGTTCATCTC
* *
106628 TTCAAAGTCCACAAGTCAGCGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
106657 TT-AAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* * * *
106685 TTCAAAGCTCATAAGTTAGTGGCA-TCCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
106713 TTCAAAGCCCACAAGTCAGTAGCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
106741 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
** *
106770 TTCAAAGCCCACAAGTTGGTGGCA-TCCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
106798 TTCAAAGCCCACAAGTTAGTGGCACCCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
*
106827 TT-AAAGCCCACAAGTTAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
106855 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
106884 TTCAAAGCCCACAAATCAGTGGCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
106912 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* * *
106941 TTCAAAGCCCATAAGTTAGTGGCA-TCCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* * * * *
106969 CTCATAGCCCACAAGTTAGGGGCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* * *
106997 TTCAAAACCCACGTAAGTCAATGGCAC-CCT
1 TTCAAAGCCCAC--AAGTCAGTGGCACTCTT
107027 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
107056 TTCAAAGCCCACAAATCAATGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* * *
107085 TTCAAAGTCCACAAGTCAGTGGAAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
107113 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
107142 TTCAAAGCCCACAAGTTAGTGGCA-TCCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
*
107170 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* **
107198 TTCAAAGCCCACGCAAGTCAATGGCAC-CCA
1 TTCAAAGCCCA--CAAGTCAGTGGCACTCTT
*
107228 TTCAAAGCCCACAAGTCAGTGGCACTATT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
107257 TTCAAAGCCCATAAGTTAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
107286 TTCAAAGCCCACAAGTCAGTGGCACTC-T
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
107314 TTCAAAGCCCACAAGTCAGTGGCA-TCCTT
1 TTCAAAGCCCACAAGTCAGTGGCACT-CTT
*
107343 TT-AAAGCCCACAAGTCAATGGCAC-C-T
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* * *
107369 TTCAAAGCCCATAAATTAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
107398 TTCAAAGCCCACAAGTCAGTGGTAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
107426 TTCAAAGCCCATAAGTTAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
107455 TTCAAAGCCCATAAGTTAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
107484 TTCAAAGCCCACAAGTTAGTGGCA-TCCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* * *
107512 TTCAAAGCCCATAAGTCAGTAGCACCCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
107541 TT-AAAGCCCACACAAGTCAGTGGTAC-CCT
1 TTCAAAG-CC-CACAAGTCAGTGGCACTCTT
* * *
107570 TTCAAAGCCCTCGCAAGTTAGTGGCAC-CCT
1 TTCAAAG-CC-CACAAGTCAGTGGCACTCTT
*
107600 TTCAAAGCCCACAAGTTAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
*
107629 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* * *
107657 TTAAAAGCCTACAAGTTAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
107686 TTCAAAGCCCACAAGTTAGTGGCA-TCCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
*
107714 TTCAAAGCCCACAAGTCAGTGGCAC-CAT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
107742 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
*
107771 TTCAAAGCCCACATGAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACA--AGTCAGTGGC-ACTCTT
*
107803 TTCAAAGCCCACATAAGTTAGTGGCAC
1 TTCAAAGCCCAC--AAGTCAGTGGCAC
107830 CATTTTTTTT
Statistics
Matches: 1028, Mismatches: 110, Indels: 68
0.85 0.09 0.06
Matches are distributed among these distances:
26 3 0.00
27 20 0.02
28 471 0.46
29 403 0.39
30 93 0.09
31 11 0.01
32 26 0.03
34 1 0.00
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (29 bp):
TTCAAAGCCCACAAGTCAGTGGCACTCTT
Found at i:106721 original size:57 final size:57
Alignment explanation
Indices: 106628--107829 Score: 1365
Period size: 57 Copynumber: 20.9 Consensus size: 57
106618 CGTTCATCTC
* * * * *
106628 TTCAAAGTCCACAAGTCAGCGGCA-CTCTTTTAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTTAGTGGCATC-CTTTCAAAGCCCACAAGTCAGTGGCACTCCT
* * *
106685 TTCAAAGCTCATAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTAGCAC-CCT
1 TTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCCT
* * **
106741 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTGGTGGCA-TCCT
1 TTCAAAGCCCACAAGTTAGTGGCA-TCCTTTCAAAGCCCACAAGTCAGTGGCACTCCT
* * * *
106798 TTCAAAGCCCACAAGTTAGTGGCACCCTTTTAAAGCCCACAAGTTAGTGGCACTCTT
1 TTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCCT
* * *
106855 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAATCAGTGGCAC-CCT
1 TTCAAAGCCCACAAGTTAGTGGCA-TCCTTTCAAAGCCCACAAGTCAGTGGCACTCCT
* * * *
106912 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCATAAGTTAGTGGCA-TCCT
1 TTCAAAGCCCACAAGTTAGTGGCA-TCCTTTCAAAGCCCACAAGTCAGTGGCACTCCT
* * * * * *
106969 CTCATAGCCCACAAGTTAGGGGCACCCTTTCAAAACCCACGTAAGTCAATGGCAC-CCT
1 TTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCAC--AAGTCAGTGGCACTCCT
* * * * *
107027 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAATCAATGGCACTCTT
1 TTCAAAGCCCACAAGTTAGTGGCA-TCCTTTCAAAGCCCACAAGTCAGTGGCACTCCT
* * * * *
107085 TTCAAAGTCCACAAGTCAGTGGAACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCCT
107142 TTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCT
1 TTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCCT
* * * * **
107198 TTCAAAGCCCACGCAAGTCAATGGCACCCATTCAAAGCCCACAAGTCAGTGGCACTATT
1 TTCAAAGCCCA--CAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCCT
* *
107257 TTCAAAGCCCATAAGTTAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACT-CT
1 TTCAAAGCCCACAAGTTAGTGGCA-TCCTTTCAAAGCCCACAAGTCAGTGGCACTCCT
* * *
107314 TTCAAAGCCCACAAGTCAGTGGCATCCTTTTAAAGCCCACAAGTCAATGGCA--CCT
1 TTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCCT
* * * *
107369 TTCAAAGCCCATAAATTAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGTAC-CCT
1 TTCAAAGCCCACAAGTTAGTGGCA-TCCTTTCAAAGCCCACAAGTCAGTGGCACTCCT
* * * * *
107426 TTCAAAGCCCATAAGTTAGTGGCACTCTTTTCAAAGCCCATAAGTTAGTGGCACTCTT
1 TTCAAAGCCCACAAGTTAGTGGCA-TCCTTTCAAAGCCCACAAGTCAGTGGCACTCCT
* *
107484 TTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCATAAGTCAGTAGCAC-CCT
1 TTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCCT
* * * * * *
107540 TTTAAAGCCCACACAAGTCAGTGGTACCCTTTCAAAGCCCTCGCAAGTTAGTGGCAC-CCT
1 TTCAAAG-CC-CACAAGTTAGTGGCATCCTTTCAAAG-CC-CACAAGTCAGTGGCACTCCT
*
107600 TTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCT
1 TTCAAAGCCCACAAGTTAGTGGCA-TCCTTTCAAAGCCCACAAGTCAGTGGCACTCCT
* * * *
107657 TTAAAAGCCTACAAGTTAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCA-TCCT
1 TTCAAAGCCCACAAGTTAGTGGCA-TCCTTTCAAAGCCCACAAGTCAGTGGCACTCCT
* *
107714 TTCAAAGCCCACAAGTCAGTGGCA-CCATTTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTTAGTGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCACTCCT
** * *
107771 TTCAAAGCCCACATGAGTCGGTGGCAACTCTTTTCAAAGCCCACATAAGTTAGTGGCAC
1 TTCAAAGCCCACA--AGTTAGTGGC-A-TCCTTTCAAAGCCCAC--AAGTCAGTGGCAC
107830 CATTTTTTTT
Statistics
Matches: 988, Mismatches: 123, Indels: 62
0.84 0.10 0.05
Matches are distributed among these distances:
55 24 0.02
56 153 0.15
57 506 0.51
58 210 0.21
59 47 0.05
60 22 0.02
61 13 0.01
62 1 0.00
63 12 0.01
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (57 bp):
TTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCCT
Found at i:108467 original size:20 final size:20
Alignment explanation
Indices: 108392--108468 Score: 84
Period size: 20 Copynumber: 3.9 Consensus size: 20
108382 TTTCACCCAG
* *
108392 ATGTATCGATATATTTTTCA
1 ATGTATCGATACATTCTTCA
* * * *
108412 ATATATCAATACATGT-ATGA
1 ATGTATCGATACAT-TCTTCA
108432 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
108452 ATGTATCGATACATTCT
1 ATGTATCGATACATTCT
108469 ATCTTTTTAC
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
19 1 0.02
20 44 0.96
21 1 0.02
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTCTTCA
Found at i:108512 original size:20 final size:20
Alignment explanation
Indices: 108487--108537 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
108477 ACCTAGATGT
108487 ATCGATACATTGAATAATGG
1 ATCGATACATTGAATAATGG
*
108507 ATCGATACATTGAATAATTG
1 ATCGATACATTGAATAATGG
108527 ATCGATACATT
1 ATCGATACATT
108538 TAGTTAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (20 bp):
ATCGATACATTGAATAATGG
Found at i:110765 original size:25 final size:26
Alignment explanation
Indices: 110737--110789 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 26
110727 ATTATCATTG
110737 TCGA-GGATACTCCAACCCCATTTTT
1 TCGACGGATACTCCAACCCCATTTTT
110762 TCGAGCGGATACTCCAACCCCATTTTT
1 TCGA-CGGATACTCCAACCCCATTTTT
110789 T
1 T
110790 AATAAAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 4 0.15
27 22 0.85
ACGTcount: A:0.23, C:0.32, G:0.13, T:0.32
Consensus pattern (26 bp):
TCGACGGATACTCCAACCCCATTTTT
Found at i:118544 original size:20 final size:20
Alignment explanation
Indices: 118519--118643 Score: 108
Period size: 20 Copynumber: 5.7 Consensus size: 20
118509 TTTTTCCCAG
118519 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* *
118539 ATGTATCGATAC-TTATATGA
1 ATGTATCGATACATT-TTTCA
118559 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
*
118579 AAGTATCGATACATTCTATCTTTTTACCTA
1 ATGTATCGAT--A--C-A--TTTTT--C-A
118609 GATGTATCGATACATTTTTCA
1 -ATGTATCGATACATTTTTCA
118630 ATGTATCGATACAT
1 ATGTATCGATACAT
118644 CTAGTTAAAA
Statistics
Matches: 86, Mismatches: 6, Indels: 26
0.73 0.05 0.22
Matches are distributed among these distances:
19 2 0.02
20 53 0.62
21 3 0.03
22 2 0.02
24 6 0.07
25 1 0.01
26 1 0.01
27 6 0.07
29 2 0.02
30 1 0.01
31 9 0.10
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:119512 original size:20 final size:22
Alignment explanation
Indices: 119472--119512 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
119462 TAGCCTTTGA
*
119472 CCATGCATTTATTTACTATGTT
1 CCATGCATTTATTAACTATGTT
119494 CCATGCATTT-TTAAC-ATGT
1 CCATGCATTTATTAACTATGT
119513 CTAGCATCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 4 0.22
22 10 0.56
ACGTcount: A:0.24, C:0.20, G:0.10, T:0.46
Consensus pattern (22 bp):
CCATGCATTTATTAACTATGTT
Found at i:123263 original size:20 final size:20
Alignment explanation
Indices: 123238--123314 Score: 109
Period size: 20 Copynumber: 3.9 Consensus size: 20
123228 TTTTATCTAG
123238 ATGTATCGATACATTTTTTA
1 ATGTATCGATACATTTTTTA
* * *
123258 ATGTATCGATACATGTATAA
1 ATGTATCGATACATTTTTTA
* *
123278 ATGTATTGATACATTCTTTA
1 ATGTATCGATACATTTTTTA
123298 ATGTATCGATACATTTT
1 ATGTATCGATACATTTT
123315 GTTTTTTTAC
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.45
Consensus pattern (20 bp):
ATGTATCGATACATTTTTTA
Found at i:123659 original size:21 final size:21
Alignment explanation
Indices: 123633--123672 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
123623 TGTTTCATAG
123633 TCCCAAACTACTCCAGGACAA
1 TCCCAAACTACTCCAGGACAA
123654 TCCCAAACTACTCCAGGAC
1 TCCCAAACTACTCCAGGAC
123673 TATGTAAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.40, G:0.10, T:0.15
Consensus pattern (21 bp):
TCCCAAACTACTCCAGGACAA
Found at i:124595 original size:27 final size:27
Alignment explanation
Indices: 124565--124631 Score: 125
Period size: 27 Copynumber: 2.5 Consensus size: 27
124555 ATTTATCGGA
*
124565 GATACTCCAACCCTATTCCTCCGAGTG
1 GATACTCCAACCCTATTCCTCCGAGGG
124592 GATACTCCAACCCTATTCCTCCGAGGG
1 GATACTCCAACCCTATTCCTCCGAGGG
124619 GATACTCCAACCC
1 GATACTCCAACCC
124632 CGCTTTTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.24, C:0.39, G:0.15, T:0.22
Consensus pattern (27 bp):
GATACTCCAACCCTATTCCTCCGAGGG
Found at i:129565 original size:22 final size:22
Alignment explanation
Indices: 129526--129587 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
129516 CAAAATTATG
129526 AAAAAGT-CAAAAGTAAAAGCACA
1 AAAAAGTGCAAAAGTAAAA-CA-A
*
129549 AAAAA-TG-AAAAGAAAAACAA
1 AAAAAGTGCAAAAGTAAAACAA
129569 AAAAAGTGCAAAAGTAAAA
1 AAAAAGTGCAAAAGTAAAA
129588 TAAGGAAAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
20 6 0.18
21 4 0.12
22 19 0.56
23 5 0.15
ACGTcount: A:0.71, C:0.08, G:0.13, T:0.08
Consensus pattern (22 bp):
AAAAAGTGCAAAAGTAAAACAA
Found at i:134781 original size:49 final size:49
Alignment explanation
Indices: 134620--135170 Score: 422
Period size: 48 Copynumber: 11.6 Consensus size: 49
134610 CGAAGAATGA
* * * * * * * *
134620 CAATGTGCTGATTCATGACTAGCGACATTAGACTTGAAGAAGAA--TGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGC
** * * *
134667 CAATATGCTGAGACAAGGCCAGCGACATTGGGT-TTAGGAATGTTAAAGATGC
1 CAATATGCTGATTCAAGGCCAGCGACATT-GGTCTTA--AA-GATGAAGGTGC
* * * * *
134719 CAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAATGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGC
*
134768 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGGTTAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAT-G--AAGGTGC
*
134820 CAATATGCTGATTCATGGCCAGCGACATTGGTC-T-----T----GTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGC
* * *
134859 CAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAAAGA-CAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGC
*
134907 CAATATGCTGATTCAAGGCCAGCGACATT-GACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGC
* * * *
134955 CAATGTACTGATTCAAGGCCAAGCAACATTGGTCTTAAAGA-CAAGGTGC
1 CAATATGCTGATTCAAGGCC-AGCGACATTGGTCTTAAAGATGAAGGTGC
* * * *
135004 CAATATGCTAATTTAAGGCCAGCGATATTGGGC-T-----T--A--TGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGC
* * * *
135043 CAATATGCTGATTCAAGGCCAGCAACATTGGT-TTAAAAGA-CAAAGTGT
1 CAATATGCTGATTCAAGGCCAGCGACATTGGTCTT-AAAGATGAAGGTGC
* * * * *
135091 CAGTATCCTGATTCAAGGCCAGCGATATTGGGTTTTAAAGATAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATT-GGTCTTAAAGATGAAGGTGC
*
135141 CAATATGCT-AGTTCAAGGCCAGCGATATTG
1 CAATATGCTGA-TTCAAGGCCAGCGACATTG
135171 AACTTAGAAG
Statistics
Matches: 401, Mismatches: 64, Indels: 76
0.74 0.12 0.14
Matches are distributed among these distances:
39 65 0.16
40 1 0.00
41 1 0.00
46 2 0.00
47 35 0.09
48 94 0.23
49 86 0.21
50 47 0.12
51 3 0.01
52 67 0.17
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.26
Consensus pattern (49 bp):
CAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGC
Found at i:134793 original size:101 final size:99
Alignment explanation
Indices: 134620--135163 Score: 418
Period size: 87 Copynumber: 5.7 Consensus size: 99
134610 CGAAGAATGA
* * * * * * * * **
134620 CAATGTGCTGATTCATGACTAGCGACATTAGACTTGAAGAAGAA--TGCCAATATGCTGAGACAA
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAATGTGCCAATGTGCTGATTCAA
* *
134683 GGCCAGCGACATTGGGT-TTAGGAATGTTAAAGATGC
66 GGCCAGCAACATT-GGTCTTA--AATGTTAAAGGTGC
* * *
134719 CAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAATGTGCCAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAATGTGCCAATGTGCTGATTCAA
*
134784 GGCCAGCGACATTGGTCTTAAAGATGGTT-AAGGTGC
66 GGCCAGCAACATTGGTCTT-AA-AT-GTTAAAGGTGC
* *
134820 CAATATGCTGATTCATGGCCAGCGACATTGG---T----CT---TGTGCCAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAATGTGCCAATGTGCTGATTCAA
134875 GGCCAGCAACATTGGTCTTAAA-G--ACAAGGTGC
66 GGCCAGCAACATTGGTCTTAAATGTTA-AAGGTGC
* *
134907 CAATATGCTGATTCAAGGCCAGCGACATT-GACTTAAAGATGAAGGTGCCAATGTACTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAATGTGCCAATGTGCTGATTCAA
134971 GGCCAAGCAACATTGGTCTTAAA-G--ACAAGGTGC
66 GGCC-AGCAACATTGGTCTTAAATGTTA-AAGGTGC
* * * * *
135004 CAATATGCTAATTTAAGGCCAGCGATATTGGGC-T-----T--A--TGCCAATATGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAATGTGCCAATGTGCTGATTCAA
* ** *
135059 GGCCAGCAACATTGGT-TTAAAAGACAAA-GTGT
66 GGCCAGCAACATTGGTCTTAAATGTTAAAGGTGC
* * * ** * * *
135091 CAGTATCCTGATTCAAGGCCAGCGATATTGGGTTTTAAAGATAAAGGTGCCAATATGCT-AGTTC
1 CAATATGCTGATTCAAGGCCAGCGACATT-GGACTTAAAGATGAATGTGCCAATGTGCTGA-TTC
135155 AAGGCCAGC
64 AAGGCCAGC
135164 GATATTGAAC
Statistics
Matches: 373, Mismatches: 37, Indels: 71
0.78 0.08 0.15
Matches are distributed among these distances:
86 6 0.02
87 77 0.21
88 25 0.07
89 4 0.01
90 3 0.01
91 39 0.10
92 1 0.00
93 1 0.00
94 2 0.01
96 24 0.06
97 56 0.15
98 27 0.07
99 34 0.09
100 4 0.01
101 66 0.18
102 4 0.01
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (99 bp):
CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAATGTGCCAATGTGCTGATTCAA
GGCCAGCAACATTGGTCTTAAATGTTAAAGGTGC
Found at i:135022 original size:97 final size:96
Alignment explanation
Indices: 134855--135163 Score: 318
Period size: 97 Copynumber: 3.3 Consensus size: 96
134845 CATTGGTCTT
* *
134855 GTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
1 GTGCCAATGTACTGATTCAAGGCCAGCAACATTGGTCTTAAAGACAAGGTGCCAATATGCTAATT
134920 CAAGGCCAGCGACATTGACTTAAAGATGAAG
66 CAAGGCCAGCGACATTGACTTAAAGATGAAG
134951 GTGCCAATGTACTGATTCAAGGCCAAGCAACATTGGTCTTAAAGACAAGGTGCCAATATGCTAAT
1 GTGCCAATGTACTGATTCAAGGCC-AGCAACATTGGTCTTAAAGACAAGGTGCCAATATGCTAAT
* * *
135016 TTAAGGCCAGCGATATTGGGC-T-----T--A-
65 TCAAGGCCAGCGACATT-GACTTAAAGATGAAG
* * * * * * *
135040 -TGCCAATATGCTGATTCAAGGCCAGCAACATTGGT-TTAAAAGACAAAGTGTCAGTATCCTGAT
1 GTGCCAATGTACTGATTCAAGGCCAGCAACATTGGTCTT-AAAGACAAGGTGCCAATATGCTAAT
* ** *
135103 TCAAGGCCAGCGATATTGGGTTTTAAAGATAAAG
65 TCAAGGCCAGCGACATT--GACTTAAAGATGAAG
* *
135137 GTGCCAATATGCT-AGTTCAAGGCCAGC
1 GTGCCAATGTACTGA-TTCAAGGCCAGC
135164 GATATTGAAC
Statistics
Matches: 183, Mismatches: 15, Indels: 28
0.81 0.07 0.12
Matches are distributed among these distances:
86 2 0.01
87 48 0.26
88 23 0.13
89 1 0.01
90 1 0.01
92 1 0.01
94 1 0.01
96 24 0.13
97 56 0.31
98 26 0.14
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (96 bp):
GTGCCAATGTACTGATTCAAGGCCAGCAACATTGGTCTTAAAGACAAGGTGCCAATATGCTAATT
CAAGGCCAGCGACATTGACTTAAAGATGAAG
Found at i:135053 original size:136 final size:137
Alignment explanation
Indices: 134904--135170 Score: 360
Period size: 136 Copynumber: 2.0 Consensus size: 137
134894 AAAGACAAGG
* * * *
134904 TGCCAATATGCTGATTCAAGGCCAGCGACATTGACTT-AAAGATGAAGGTGCCAATGTACTGATT
1 TGCCAATATGCTGATTCAAGGCCAGCAACATTGACTTAAAAGA-CAAAGTGCCAATATACTGATT
* *
134968 CAAGGCCAAGCAACATT-GGTCTTAAAGA-CAAGGTGCCAATATGCTAATTTAAGGCCAGCGATA
65 CAAGGCC-AGCAACATTGGGTCTTAAAGATAAAGGTGCCAATATGCTAATTCAAGGCCAGCGATA
135031 TTGGGCTTA
129 TTGGGCTTA
** * * *
135040 TGCCAATATGCTGATTCAAGGCCAGCAACATTGGTTTAAAAGACAAAGTGTCAGTATCCTGATTC
1 TGCCAATATGCTGATTCAAGGCCAGCAACATTGACTTAAAAGACAAAGTGCCAATATACTGATTC
* * * *
135105 AAGGCCAGCGATATTGGGTTTTAAAGATAAAGGTGCCAATATGCTAGTTCAAGGCCAGCGATATT
66 AAGGCCAGCAACATTGGGTCTTAAAGATAAAGGTGCCAATATGCTAATTCAAGGCCAGCGATATT
135170 G
131 G
135171 AACTTAGAAG
Statistics
Matches: 113, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
135 7 0.06
136 66 0.58
137 40 0.35
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (137 bp):
TGCCAATATGCTGATTCAAGGCCAGCAACATTGACTTAAAAGACAAAGTGCCAATATACTGATTC
AAGGCCAGCAACATTGGGTCTTAAAGATAAAGGTGCCAATATGCTAATTCAAGGCCAGCGATATT
GGGCTTA
Found at i:135055 original size:184 final size:185
Alignment explanation
Indices: 134663--135161 Score: 612
Period size: 184 Copynumber: 2.7 Consensus size: 185
134653 TTGAAGAAGA
** * *
134663 ATGCCAATATGCTGAGACAAGGCCAGCGACATTGGGTTTAGGAATGTTA-AAGATGCCAATATGC
1 ATGCCAATATGCTGATTCAAGGCCAGCAACATT-GGTTTA--AA-G--ACAAGGTGCCAATATGC
* * *
134727 TGATTCAAGGCCAACAATATTGGACTTAAAGATGAATGTGCCAATGTGCTGATTCAAGGCC-AGC
60 TGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAAGC
* * * * *
134791 GACATTGGTCTTAAAGATGGTTAAGGTGCCAATATGCTGATTCATGGCCAGCGACATTGGTCTT
125 AACATTGGTCTTAAAGA--G-CAAGGTGCCAATATGCTAATTCAAGGCCAGCGACATTGGGCTT
* *
134855 GTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
1 ATGCCAATATGCTGATTCAAGGCCAGCAACATTGGT-TTAAAGACAAGGTGCCAATATGCTGATT
* *
134920 CAAGGCCAGCGACATT-GACTTAAAGATGAAGGTGCCAATGTACTGATTCAAGGCCAAGCAACAT
65 CAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAAGCAACAT
* *
134984 TGGTCTTAAAGA-CAAGGTGCCAATATGCTAATTTAAGGCCAGCGATATTGGGCTT
130 TGGTCTTAAAGAGCAAGGTGCCAATATGCTAATTCAAGGCCAGCGACATTGGGCTT
* * * *
135039 ATGCCAATATGCTGATTCAAGGCCAGCAACATTGGTTTAAAAGACAAAGTGTCAGTATCCTGATT
1 ATGCCAATATGCTGATTCAAGGCCAGCAACATTGGTTT-AAAGACAAGGTGCCAATATGCTGATT
** * *
135104 CAAGGCCAGCGATATTGGGTTTTAAAGATAAAGGTGCCAATATGCT-AGTTCAAGGCCA
65 CAAGGCCAGCGATATT-GGACTTAAAGATGAAGGTGCCAATGTGCTGA-TTCAAGGCCA
135162 GCGATATTGA
Statistics
Matches: 270, Mismatches: 30, Indels: 20
0.84 0.09 0.06
Matches are distributed among these distances:
183 2 0.01
184 108 0.40
185 1 0.00
186 33 0.12
187 38 0.14
188 51 0.19
189 1 0.00
190 2 0.01
191 3 0.01
192 31 0.11
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.26
Consensus pattern (185 bp):
ATGCCAATATGCTGATTCAAGGCCAGCAACATTGGTTTAAAGACAAGGTGCCAATATGCTGATTC
AAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAAGCAACATT
GGTCTTAAAGAGCAAGGTGCCAATATGCTAATTCAAGGCCAGCGACATTGGGCTT
Found at i:135160 original size:50 final size:49
Alignment explanation
Indices: 135040--135170 Score: 167
Period size: 50 Copynumber: 2.7 Consensus size: 49
135030 ATTGGGCTTA
* *
135040 TGCCAATATGCTGATTCAAGGCCAGCAACATT-GGTTTAAAAGACAAAG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGTTTAAAAGACAAAG
* * * * *
135088 TGTCAGTATCCTGATTCAAGGCCAGCGATATTGGGTTTTAAAGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGTTTAAAAGACAAA-G
135138 TGCCAATATGCT-AGTTCAAGGCCAGCGATATTG
1 TGCCAATATGCTGA-TTCAAGGCCAGCGATATTG
135171 AACTTAGAAG
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
48 27 0.39
49 14 0.20
50 29 0.41
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.27
Consensus pattern (49 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGTTTAAAAGACAAAG
Found at i:135368 original size:57 final size:56
Alignment explanation
Indices: 135244--135583 Score: 420
Period size: 57 Copynumber: 6.0 Consensus size: 56
135234 TTTTGAAGGT
* * *
135244 TGCCACTGACTTGTGGGCTTT-GAAAGGATACCACTGACTTGTGGGC-TTGAAAGGGG
1 TGCCACTGACTTGTGGGCTTTGGAAA-GATGCCACTGACTTGTGGGCTTTGAAA-AGA
* * *
135300 TGCCACTGACTTGTGCGTTTTTG-AAGATTGCCACTGACTTGTGGGCTTTGGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGGAAAGA-TGCCACTGACTTGTGGGCTTT-GAAAAGA
* * * *
135357 TGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGTTTTGGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGGAAAGATGCCACTGACTTGTGGGCTTT-GAAAAGA
* * *
135414 TGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGTCTTGTGGGCTTTTG-AAGGT
1 TGCCACTGACTTGTGGGCTTTGG-AAAGATGCCACTGACTTGTGGGC-TTTGAAAAGA
* *
135471 TGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTTG-AAGGT
1 TGCCACTGACTTGTGGGCTTTGG-AAAGATGCCACTGACTTGTGGGC-TTTGAAAAGA
135528 TGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAG
1 TGCCACTGACTTGTGGGCTTTGG-AAAGATGCCACTGACTTGTGGGCTTTGAAAAG
135584 GTGAGAAATG
Statistics
Matches: 257, Mismatches: 19, Indels: 15
0.88 0.07 0.05
Matches are distributed among these distances:
55 2 0.01
56 42 0.16
57 184 0.72
58 26 0.10
59 3 0.01
ACGTcount: A:0.20, C:0.17, G:0.31, T:0.31
Consensus pattern (56 bp):
TGCCACTGACTTGTGGGCTTTGGAAAGATGCCACTGACTTGTGGGCTTTGAAAAGA
Found at i:135456 original size:86 final size:87
Alignment explanation
Indices: 135199--135583 Score: 477
Period size: 86 Copynumber: 4.5 Consensus size: 87
135189 ACCAACTTGA
* * * * * * *
135199 GTGGGCTTTTGAAAGGATTG-TATTAACTTGTGTGCTTTTG-AAGGTTGCCACTGACTTGTGGGC
1 GTGGGCTTTTGAAAGG-TTGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGC
* *
135262 TTT-GAAAGGATACCACTGACTT
65 TTTGGAAAAGATGCCACTGACTT
* * * *
135284 GTGGGC--TTGAAAGGGGTGCCACTGACTTGTGCGTTTTTG--AAGATTGCCACTGACTTGTGGG
1 GTGGGCTTTTGAAA-GGTTGCCACTGACTTGTGGGCTTTGGAAAAGA-TGCCACTGACTTGTGGG
135345 CTTTGGAAAAGATGCCACTGACTT
64 CTTTGGAAAAGATGCCACTGACTT
*
135369 GTGGGCTTTTG-AAGGTTGCCACTGACTTGTGGGTTTTGGAAAAGATGCCACTGACTTGTGGGCT
1 GTGGGCTTTTGAAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCT
*
135433 TTGGAAAAGATGCCACTGTCTT
66 TTGGAAAAGATGCCACTGACTT
135455 GTGGGCTTTTG-AAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCT
1 GTGGGCTTTTGAAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCT
* * *
135519 TTTG-AAGGTTGCCACTGACTT
66 TTGGAAAAGATGCCACTGACTT
* * *
135540 GTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTT-GAAAAG
1 GTGGGCTTTTGAAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAG
135584 GTGAGAAATG
Statistics
Matches: 269, Mismatches: 22, Indels: 18
0.87 0.07 0.06
Matches are distributed among these distances:
83 10 0.04
84 38 0.14
85 82 0.30
86 132 0.49
87 7 0.03
ACGTcount: A:0.20, C:0.16, G:0.31, T:0.32
Consensus pattern (87 bp):
GTGGGCTTTTGAAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCT
TTGGAAAAGATGCCACTGACTT
Found at i:135596 original size:143 final size:142
Alignment explanation
Indices: 135224--135586 Score: 604
Period size: 143 Copynumber: 2.6 Consensus size: 142
135214 GATTGTATTA
* * *
135224 ACTTGTGTGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTT-GAAAGGATACCACTGACTTGTGG
1 ACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGG
* * *
135288 GC-TTGAAAGGGGTGCCACTGACTTGTGCGTTTTTGAAGATTGCCACTGACTTGTGGGCTTTGGA
66 GCTTTGAAA-AGGTGCCACTGTCTTGTGCGCTTTTGAAGATTGCCACTGACTTGTGGGCTTTGGA
135352 AAAGATGCCACTG
130 AAAGATGCCACTG
*
135365 ACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGTTTTGGAAAAGATGCCACTGACTTGTGG
1 ACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGG
* * *
135430 GCTTTGGAAAAGATGCCACTGTCTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGA
66 GCTTT-GAAAAGGTGCCACTGTCTTGTGCGCTTTTGAAGATTGCCACTGACTTGTGGGCTTTGGA
135495 AAAGATGCCACTG
130 AAAGATGCCACTG
135508 ACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGG
1 ACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGG
135573 GCTTTGAAAAGGTG
66 GCTTTGAAAAGGTG
135587 AGAAATGTCT
Statistics
Matches: 207, Mismatches: 12, Indels: 5
0.92 0.05 0.02
Matches are distributed among these distances:
141 39 0.19
142 31 0.15
143 133 0.64
144 4 0.02
ACGTcount: A:0.20, C:0.17, G:0.31, T:0.32
Consensus pattern (142 bp):
ACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGG
GCTTTGAAAAGGTGCCACTGTCTTGTGCGCTTTTGAAGATTGCCACTGACTTGTGGGCTTTGGAA
AAGATGCCACTG
Found at i:137036 original size:10 final size:9
Alignment explanation
Indices: 137012--137103 Score: 57
Period size: 9 Copynumber: 9.8 Consensus size: 9
137002 CATCCGGACC
*
137012 CTTTTTGTT
1 CTTTTTTTT
*
137021 GTTTTTTTT
1 CTTTTTTTT
137030 CTGTTTTGTTT
1 CT-TTTT-TTT
*
137041 GTTTGTGTTTT
1 CTTT-T-TTTT
137052 -TTTTGTTTAT
1 CTTTT-TTT-T
137062 -TTTTTTCTT
1 CTTTTTT-TT
137071 C-TTTTTTT
1 CTTTTTTTT
137079 CTTCTTTTTT
1 CTT-TTTTTT
137089 CTTTTTTTT
1 CTTTTTTTT
137098 -TTTTTT
1 CTTTTTT
137104 GCGGAGGATG
Statistics
Matches: 70, Mismatches: 4, Indels: 19
0.75 0.04 0.20
Matches are distributed among these distances:
8 9 0.13
9 28 0.40
10 24 0.34
11 8 0.11
12 1 0.01
ACGTcount: A:0.01, C:0.08, G:0.09, T:0.83
Consensus pattern (9 bp):
CTTTTTTTT
Found at i:137046 original size:24 final size:23
Alignment explanation
Indices: 137015--137059 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
137005 CCGGACCCTT
137015 TTTGTTGT-TTTTTTTCTGTTTTG
1 TTTGTTGTGTTTTTTT-TGTTTTG
137038 TTTGTTTGTGTTTTTTTTGTTT
1 TTTG-TTGTGTTTTTTTTGTTT
137060 ATTTTTTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 4 0.20
24 9 0.45
25 7 0.35
ACGTcount: A:0.00, C:0.02, G:0.18, T:0.80
Consensus pattern (23 bp):
TTTGTTGTGTTTTTTTTGTTTTG
Found at i:137099 original size:11 final size:11
Alignment explanation
Indices: 137048--137103 Score: 62
Period size: 11 Copynumber: 5.2 Consensus size: 11
137038 TTTGTTTGTG
*
137048 TTTTTTTTGTT
1 TTTTTTTTCTT
137059 TATTTTTTTCTT
1 T-TTTTTTTCTT
*
137071 CTTTTTTTC-T
1 TTTTTTTTCTT
*
137081 TCTTTTTTCTT
1 TTTTTTTTCTT
137092 TTTTTTTT-TT
1 TTTTTTTTCTT
137102 TT
1 TT
137104 GCGGAGGATG
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
10 12 0.32
11 17 0.45
12 9 0.24
ACGTcount: A:0.02, C:0.09, G:0.02, T:0.88
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:137101 original size:15 final size:15
Alignment explanation
Indices: 137022--137103 Score: 58
Period size: 15 Copynumber: 5.5 Consensus size: 15
137012 CTTTTTGTTG
*
137022 TTTTTTTTCTGTTTT
1 TTTTTTTTCTTTTTT
* * * *
137037 GTTTGTTTGTGTTTT
1 TTTTTTTTCTTTTTT
* *
137052 TTTTGTTTATTTTTT
1 TTTTTTTTCTTTTTT
* * *
137067 TCTTCTTT-TTTTCT
1 TTTTTTTTCTTTTTT
*
137081 TCTTTTTTCTTTTTT
1 TTTTTTTTCTTTTTT
137096 TTTTTTTT
1 TTTTTTTT
137104 GCGGAGGATG
Statistics
Matches: 54, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
14 12 0.22
15 42 0.78
ACGTcount: A:0.01, C:0.07, G:0.07, T:0.84
Consensus pattern (15 bp):
TTTTTTTTCTTTTTT
Found at i:148109 original size:28 final size:28
Alignment explanation
Indices: 148039--148791 Score: 714
Period size: 27 Copynumber: 27.1 Consensus size: 28
148029 TGACCTCTTC
* * **
148039 AAAGTCCACAATTCAGTGGCATTTCTTTT
1 AAAGTCCACAACTCCGTGGCA-ACCTTTT
* * *
148068 CAAAGTCCACAACTCCATGGTATCCTTTT
1 -AAAGTCCACAACTCCGTGGCAACCTTTT
* * *
148097 AAAGTCCACAACTCTGTAGCACCCTTTT
1 AAAGTCCACAACTCCGTGGCAACCTTTT
* * *
148125 AAAATCCACAACTTCGTGGCAGCCTTTTT
1 AAAGTCCACAACTCCGTGGCAACC-TTTT
* * *
148154 TAAGTCCACAACTCAGTGGCACCCTTTT
1 AAAGTCCACAACTCCGTGGCAACCTTTT
* *
148182 -AAGTCCACAACTCCATGGTAA-CTATTT
1 AAAGTCCACAACTCCGTGGCAACCT-TTT
* * *
148209 -AAGGCCACAACTCCATGGCAACCTTCT
1 AAAGTCCACAACTCCGTGGCAACCTTTT
* **
148236 -AAGTCCATAACTCCGTGATAACCTTTT
1 AAAGTCCACAACTCCGTGGCAACCTTTT
*
148263 -ATGTCCACAACTCCGTGGCAACCTTTT
1 AAAGTCCACAACTCCGTGGCAACCTTTT
*
148290 AAAGTCCACAACTCCGTGGCAGCCCTTTT
1 AAAGTCCACAACTCCGTGGCA-ACCTTTT
* ** *
148319 TAAGTCCACAACTGTGTGGC-ACCCTTT
1 AAAGTCCACAACTCCGTGGCAACCTTTT
* *
148346 AAA-CCCACAACTCCGTGGTAACCTTTT
1 AAAGTCCACAACTCCGTGGCAACCTTTT
* * *
148373 -AAGTCCATAACTCCGTGGCAACATCTT
1 AAAGTCCACAACTCCGTGGCAACCTTTT
* * *
148400 AAAGTCCACAACTCTGTGGCACCCTCTT
1 AAAGTCCACAACTCCGTGGCAACCTTTT
* * *
148428 -AAGTCCATAACTCCGTGGTAACCTCTT
1 AAAGTCCACAACTCCGTGGCAACCTTTT
* *
148455 AAAGTTCACAACTCCATGGC-ACCTTTT
1 AAAGTCCACAACTCCGTGGCAACCTTTT
* *
148482 TAAGTCCACAACTCCGTGACAACCTTTT
1 AAAGTCCACAACTCCGTGGCAACCTTTT
* * *
148510 AAAGTCCACAACTCTGTGAC-ATCTTTT
1 AAAGTCCACAACTCCGTGGCAACCTTTT
** *
148537 CAAAGTATACAACTCCGTGGCATCCTTTT
1 -AAAGTCCACAACTCCGTGGCAACCTTTT
* *
148566 AGAGTCCACAACTCCGTGGCACCCTTTT
1 AAAGTCCACAACTCCGTGGCAACCTTTT
148594 AAAGTCCACAACTCCGTGGC-ACCTTTT
1 AAAGTCCACAACTCCGTGGCAACCTTTT
* *
148621 TAAGTCCACAACTCCGCGGC-ACCTTTTT
1 AAAGTCCACAACTCCGTGGCAACC-TTTT
**
148649 AAA-TCCACAACTTTGTGGC-ACTCTTTT
1 AAAGTCCACAACTCCGTGGCAAC-CTTTT
* *
148676 AAAGTCCACCACTCCGTGGCACCCTTTT
1 AAAGTCCACAACTCCGTGGCAACCTTTT
* *
148704 -AAGTCCACAACTCTGTGGCATCCTTTT
1 AAAGTCCACAACTCCGTGGCAACCTTTT
*
148731 -AAGTCCACAACTCCGTGGCATCCTTTT
1 AAAGTCCACAACTCCGTGGCAACCTTTT
*
148758 -AAGTCCACAACTTCGTGGCAGCACCCTTTT
1 AAAGTCCACAACTCCGTGGCA--A-CCTTTT
148788 AAAG
1 AAAG
148792 CCTACAAGTT
Statistics
Matches: 600, Mismatches: 103, Indels: 39
0.81 0.14 0.05
Matches are distributed among these distances:
26 16 0.03
27 286 0.48
28 214 0.36
29 58 0.10
30 23 0.04
31 3 0.00
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.29
Consensus pattern (28 bp):
AAAGTCCACAACTCCGTGGCAACCTTTT
Found at i:148357 original size:55 final size:54
Alignment explanation
Indices: 148040--148777 Score: 639
Period size: 55 Copynumber: 13.4 Consensus size: 54
148030 GACCTCTTCA
* * * * * * *
148040 AAGTCCACAATTCAGTGGCATTTCTTTTCAAAGTCCACAACTCCATGGTATCCTTTTA
1 AAGTCCACAACTCCGTGGCA--CCTTTT-AAA-TCCACAACTCCGTGGCACCCTTTTT
* * * *
148098 AAGTCCACAACTCTGTAGCACCCTTTTAAAATCCACAACTTCGTGGCAGCCTTTTTT
1 AAGTCCACAACTCCGTGGCA-CCTTTT-AAATCCACAACTCCGTGGCA-CCCTTTTT
* * * * * *
148155 AAGTCCACAACTCAGTGGCACCCTTTTAAGTCCACAACTCCATGGTA-ACTATTT
1 AAGTCCACAACTCCGTGGCA-CCTTTTAAATCCACAACTCCGTGGCACCCTTTTT
* * * * * ** *
148209 AAGGCCACAACTCCATGGCAACCTTCTAAGTCCATAACTCCGTGATAACC-TTTT
1 AAGTCCACAACTCCGTGGC-ACCTTTTAAATCCACAACTCCGTGGCACCCTTTTT
*
148263 ATGTCCACAACTCCGTGGCAACCTTTTAAAGTCCACAACTCCGTGGCAGCCCTTTTT
1 AAGTCCACAACTCCGTGGC-ACCTTTTAAA-TCCACAACTCCGTGGCA-CCCTTTTT
** * * * *
148320 AAGTCCACAACTGTGTGGCACCCTTTAAACCCACAACTCCGTGGTAACC-TTTT
1 AAGTCCACAACTCCGTGGCACCTTTTAAATCCACAACTCCGTGGCACCCTTTTT
* * * * *
148373 AAGTCCATAACTCCGTGGCAACATCTTAAAGTCCACAACTCTGTGGCACCC-TCTT
1 AAGTCCACAACTCCGTGGC-ACCTTTTAAA-TCCACAACTCCGTGGCACCCTTTTT
* * * * *
148428 AAGTCCATAACTCCGTGGTAACCTCTTAAAGTTCACAACTCCATGGCA-CCTTTTT
1 AAGTCCACAACTCCGTGG-CACCTTTTAAA-TCCACAACTCCGTGGCACCCTTTTT
* * * * *
148483 AAGTCCACAACTCCGTGACAACCTTTTAAAGTCCACAACTCTGTGACA-TCTTTTCA
1 AAGTCCACAACTCCGTGGC-ACCTTTTAAA-TCCACAACTCCGTGGCACCCTTTT-T
** * *
148539 AAGTATACAACTCCGTGGCATCCTTTTAGAGTCCACAACTCCGTGGCACCCTTTTA
1 AAGTCCACAACTCCGTGGCA-CCTTTTA-AATCCACAACTCCGTGGCACCCTTTTT
* *
148595 AAGTCCACAACTCCGTGGCACCTTTTTAAGTCCACAACTCCGCGGCA-CCTTTTT
1 AAGTCCACAACTCCGTGGCACC-TTTTAAATCCACAACTCCGTGGCACCCTTTTT
* ** *
148649 AAATCCACAACTTTGTGGCACTCTTTTAAAGTCCACCACTCCGTGGCACCC-TTTT
1 AAGTCCACAACTCCGTGGCAC-CTTTTAAA-TCCACAACTCCGTGGCACCCTTTTT
* * *
148704 AAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCC-TTTT
1 AAGTCCACAACTCCGTGGCA-CCTTTTAAATCCACAACTCCGTGGCACCCTTTTT
*
148758 AAGTCCACAACTTCGTGGCA
1 AAGTCCACAACTCCGTGGCA
148778 GCACCCTTTT
Statistics
Matches: 563, Mismatches: 97, Indels: 44
0.80 0.14 0.06
Matches are distributed among these distances:
53 20 0.04
54 151 0.27
55 205 0.36
56 106 0.19
57 64 0.11
58 17 0.03
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.29
Consensus pattern (54 bp):
AAGTCCACAACTCCGTGGCACCTTTTAAATCCACAACTCCGTGGCACCCTTTTT
Found at i:148840 original size:86 final size:86
Alignment explanation
Indices: 148746--149426 Score: 371
Period size: 86 Copynumber: 7.7 Consensus size: 86
148736 CACAACTCCG
* * * * * * *
148746 TGGCATCCTTT-TAAGTCCACAACTTCGTGGCAGCACCCTTTTAAAGCCTACAAGTTAGTGGC-A
1 TGGCATCCTTTCAAAGCCCACAACTTAGT-G-A-CACCATTTCAAAGCCCACAAGTCAGTGGCAA
148809 -TCATTTCAAAGCCCACAAGTCAA
63 CTCATTTCAAAGCCCACAAGTCAA
* *
148832 TGGCATCCTTTCAAAGCCCACAAGTTAGTGACATCATTTCAAAGCCCACAAGTCAGTGGCAACTC
1 TGGCATCCTTTCAAAGCCCACAACTTAGTGACACCATTTCAAAGCCCACAAGTCAGTGGCAACTC
* **
148897 ATTTCAAAGCCTACACAATTCGG
66 ATTTCAAAGCC--CACAAGTCAA
* ** * *
148920 TGGCAACTCATTTCAAAGCCCACACAAGTCGATGACAACCTATTTCAAAGCCCACAATTCAGTGG
1 TGGC-A-TCCTTTCAAAGCCCACA-ACTTAG-TGAC-ACC-ATTTCAAAGCCCACAAGTCAGTGG
* * * *
148985 C-A-TCCTTTTAAAGCCCACAAGTTAG
60 CAACTCATTTCAAAGCCCACAAGTCAA
* * * ** * * *
149010 TGGCATCATTTTAAAGCCCACAAATCGGTGGTA-ACTCATTTCAAAGCCCACACAAGTCAATAGA
1 TGGCATCCTTTCAAAGCCCACAACTTAGT-G-ACAC-CATTTCAAAG-CC-CACAAGTCAGTGGC
* **
149074 AACTCATTTGAAAGCCCACACAAG-CTGG
61 AACTCATTTCAAAG-CC-CACAAGTC-AA
* * * * * *
149102 TGGCAACCCATTTCAAAGCCCACGCAAGTTGGTGGCAACCCATTTTAAAGCCCACACAAGTCGGT
1 TGGC-ATCC-TTTCAAAGCCCA--CAACTTAGTGAC-A-CCATTTCAAAG-CC-CACAAGTCAGT
*
149167 GGCAAC-CAATTTCAAAGCTCACAAGT-AA
58 GGCAACTC-ATTTCAAAGCCCACAAGTCAA
* ** * * * *
149195 GTGGCATCCTTTCAAAGCCCACAAGTCCGTGGCACCCTTTTAAAGCCCACAAGTTAGTGGC-AC-
1 -TGGCATCCTTTCAAAGCCCACAACTTAGTGACACCATTTCAAAGCCCACAAGTCAGTGGCAACT
* * *
149258 CCTTTTAAAGCCCACAAGTCAG
65 CATTTCAAAGCCCACAAGTCAA
* * * * * * *
149280 TGGCACCCTTCCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCATAAGTTAGTGGCATAC-
1 TGGCATCCTTTCAAAGCCCACAACTTAGTGACACCATTTCAAAGCCCACAAGTCAGTGGCA-ACT
* * *
149344 CCTTTCAAAGCCCATAAGTCAG
65 CATTTCAAAGCCCACAAGTCAA
* * * *** * * * *
149366 TGACA-CATTTTCAAAGCTCACAAGACAGTGGCATCTTTTCAAAGCCCACAAGTCGGTGGCA
1 TGGCATC-CTTTCAAAGCCCACAACTTAGTGACACCATTTCAAAGCCCACAAGTCAGTGGCA
149427 TCTTTTCAAA
Statistics
Matches: 481, Mismatches: 79, Indels: 70
0.76 0.13 0.11
Matches are distributed among these distances:
84 93 0.19
85 7 0.01
86 119 0.25
87 22 0.05
88 48 0.10
89 4 0.01
90 46 0.10
91 5 0.01
92 38 0.08
93 8 0.02
94 45 0.09
95 3 0.01
96 42 0.09
97 1 0.00
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (86 bp):
TGGCATCCTTTCAAAGCCCACAACTTAGTGACACCATTTCAAAGCCCACAAGTCAGTGGCAACTC
ATTTCAAAGCCCACAAGTCAA
Found at i:148923 original size:32 final size:32
Alignment explanation
Indices: 148809--149245 Score: 306
Period size: 32 Copynumber: 14.5 Consensus size: 32
148799 GTTAGTGGCA
**
148809 TCATTTCAAAG-CC-CACAAGTCAATGGC-A-
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* ** *
148837 TCCTTTCAAAG-CC-CACAAGTTAGTGAC-A-
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
*
148865 TCATTTCAAAG-CC-CACAAGTCAGTGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* *
148895 TCATTTCAAAGCCTACACAATTCGGTGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* *
148927 TCATTTCAAAGCCCACACAAGTCGATGACAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* *
148959 -CTATTTCAAAG-CC-CACAATTCAGTGGC-A-
1 TC-ATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * **
148987 TCCTTTTAAAG-CC-CACAAGTTAGTGGC-A-
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* *
149015 TCATTTTAAAGCCCACA-AA-TCGGTGGTAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
** * *
149045 TCATTTCAAAGCCCACACAAGTCAATAGAAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
*
149077 TCATTTGAAAGCCCACACAAG-CTGGTGGCAAC
1 TCATTTCAAAGCCCACACAAGTC-GGTGGCAAC
* * *
149109 CCATTTCAAAGCCCACGCAAGTTGGTGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* *
149141 CCATTTTAAAGCCCACACAAGTCGGTGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* **
149173 -CAATTTCAAAG--CTCACAAGTAAGTGGC-A-
1 TC-ATTTCAAAGCCCACACAAGTCGGTGGCAAC
* *
149201 TCCTTTCAAAG-CC-CACAAGTCCGTGGC-AC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* *
149230 -CCTTTTAAAGCCCACA
1 TCATTTCAAAGCCCACA
149246 AGTTAGTGGC
Statistics
Matches: 338, Mismatches: 51, Indels: 38
0.79 0.12 0.09
Matches are distributed among these distances:
28 115 0.34
29 13 0.04
30 54 0.16
31 8 0.02
32 148 0.44
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.22
Consensus pattern (32 bp):
TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
Found at i:148998 original size:150 final size:149
Alignment explanation
Indices: 148811--149535 Score: 559
Period size: 150 Copynumber: 4.9 Consensus size: 149
148801 TAGTGGCATC
* * * *
148811 ATTTCAAAGCCCACAAGTCAATGGCATCCTTTCAAAGCCCACAAGTTAGTGACATCATTTCAAAG
1 ATTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACCATTTCAAAG
* *
148876 CCCACAAGTCAGTGGCAACTCATTTCAAAGCCTACACAATTCGGTGGCAACTCATTTCAAAGCCC
66 CCCACAAGTCAGTGGCAACTCATTTCAAAGCC-ACACAAGTCAGTGGCAACTCATTTCAAAGCCC
*
148941 ACACAAGTCGATGACAACCT
130 ACACAAGTCGATGGCAACCT
* * * * *
148961 ATTTCAAAGCCCACAATTCAGTGGCATCCTTTTAAAGCCCACAAGTTAGTGGCATCATTTTAAAG
1 ATTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACCATTTCAAAG
* * * * * * *
149026 CCCACAAATCGGTGGTAACTCATTTCAAAGCCCACACAAGTCAATAGAAACTCATTTGAAAGCCC
66 CCCACAAGTCAGTGGCAACTCATTTCAAAG-CCACACAAGTCAGTGGCAACTCATTTCAAAGCCC
* *
149091 ACACAAG-CTGGTGGCAACCC
130 ACACAAGTC-GATGGCAACCT
** * **
149111 ATTTCAAAGCCCACGCAAGTTGGTGGCAACCCATTTTAAAGCCCACACAAGTCGGTGGCAACCAA
1 ATTTCAAAGCCCA--CAAGTCAGTGGC-ACCC-TTTCAAAG-CC-CACAAGTTAGTGGC-ACC-A
* * * * * *
149176 TTTCAAAGCTCACAAGTAAGTGGC-A-TCCTTTCAAAGCC-CACAAGTCCGTGGC-AC-CCTTTT
58 TTTCAAAGCCCACAAGTCAGTGGCAACTCATTTCAAAGCCACACAAGTCAGTGGCAACTCATTTC
* *
149236 AAAG-CC-CACAAGT-TAGTGGCACCCT
123 AAAGCCCACACAAGTCGA-TGGCAACCT
* *
149261 -TTT-AAAGCCCACAAGTCAGTGGCACCCTTCCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAG
1 ATTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACCATTTCAAAG
* * * * *
149324 CCCATAAGTTAGTGGCATAC-CCTTTCAAAGCC-CATAAGTCAGT-G--ACACATTTTCAAAG--
66 CCCACAAGTCAGTGGCA-ACTCATTTCAAAGCCACACAAGTCAGTGGCAACTCA-TTTCAAAGCC
* * *
149382 CTCACAAGAC-AGTGGC-ATCT
129 CACACAAGTCGA-TGGCAACCT
* * * * * *
149402 -TTTCAAAGCCCACAAGTCGGTGGCATCTTTTCAAAAACTCACAAGTCAGTGGCA-CATTTTCAA
1 ATTTCAAAGCCCACAAGTCAGTGGCACCCTTTC-AAAGCCCACAAGTTAGTGGCACCA-TTTCAA
* * * ** * * * *
149465 AGTCTACAAGTCATTATCAAAC-CTTTTCAAAGCC-TACAAGTC-GATGAC-AC-CCTTTCAAAG
64 AGCCCACAAGTCAGTGGC-AACTCATTTCAAAGCCACACAAGTCAG-TGGCAACTCATTTCAAAG
149525 CCCACACAAGT
127 CCCACACAAGT
149536 TAGTGGCACC
Statistics
Matches: 467, Mismatches: 80, Indels: 61
0.77 0.13 0.10
Matches are distributed among these distances:
140 23 0.05
141 11 0.02
142 79 0.17
143 65 0.14
144 8 0.02
145 13 0.03
146 10 0.02
148 8 0.02
149 4 0.01
150 154 0.33
151 4 0.01
152 17 0.04
153 5 0.01
154 18 0.04
155 4 0.01
156 22 0.05
157 3 0.01
158 19 0.04
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.23
Consensus pattern (149 bp):
ATTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACCATTTCAAAG
CCCACAAGTCAGTGGCAACTCATTTCAAAGCCACACAAGTCAGTGGCAACTCATTTCAAAGCCCA
CACAAGTCGATGGCAACCT
Found at i:149389 original size:114 final size:112
Alignment explanation
Indices: 148779--149547 Score: 512
Period size: 114 Copynumber: 6.6 Consensus size: 112
148769 TTCGTGGCAG
* * * *
148779 CACCCTTTTAAAGCCTACAAGTTAGTGGCATCATTTCAAAGCCCACAAGTCAA-TGGCATCCTTT
1 CACCATTTTAAAGCCCACAAGTCAGTGGCACCATTTCAAAGCCCACAAGT-AAGTGGCATCCTTT
* * * * *
148843 CAAAGCCCACAAGTTAGTGACATCATTTCAAAGCCCACAAGTCAGTGG
65 CAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGA
* * * * *
148891 CAACTCATTTCAAAGCCTACACAATTCGGTGGCAACTCATTTCAAAGCCCACACAAGT-CGATGA
1 C-AC-CATTTTAAAGCC--CACAAGTCAGTGGC-AC-CATTTCAAAG-CC-CACAAGTAAG-TGG
* * * * * *
148955 CAACCTATTTCAAAGCCCACAATTCAGTGGCATCCTTTTAAAGCCCACAAGTTAGTGG
57 CATCC--TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGA
* * * * **
149013 CATCATTTTAAAGCCCACAAATCGGTGGTAACTCATTTCAAAGCCCACACAAGTCAA-TAGAAAC
1 CACCATTTTAAAGCCCACAAGTCAGTGG-CAC-CATTTCAAAG-CC-CACAAGT-AAGT-GGCA-
* * * ** *
149077 TCATTTGAAAGCCCACACAAG-CTGGTGGCAACCCATTTCAAAGCCCACGCAAGTTGGTGG
59 TCCTTTCAAAG-CC-CACAAGTC-AGTGGC-ACCC-TTTCAAAGCCCA--CAAGTCAGTGA
* *
149137 CAACCCATTTTAAAGCCCACACAAGTCGGTGGCAACCAATTTCAAAGCTCACAAGTAAGTGGCAT
1 C-A-CCATTTTAAAG-CC-CACAAGTCAGTGGC-ACC-ATTTCAAAGCCCACAAGTAAGTGGCAT
* * * *
149202 CCTTTCAAAGCCCACAAGTCCGTGGCACCCTTTTAAAGCCCACAAGTTAGTGG
60 CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGA
* * * * *
149255 CACCCTTTTAAAGCCCACAAGTCAGTGGCACCCTTCCAAAGCCCACAAGTTAGTGGCACCCTTTC
1 CACCATTTTAAAGCCCACAAGTCAGTGGCACCATTTCAAAGCCCACAAGTAAGTGGCATCCTTTC
* * *
149320 AAAGCCCATAAGTTAGTGGCATACCCTTTCAAAGCCCATAAGTCAGTGA
66 AAAGCCCACAAGTCAGTGGC--ACCCTTTCAAAGCCCACAAGTCAGTGA
* * * * ** *
149369 CA-CATTTTCAAAGCTCACAAGACAGTGGCATCTTTTCAAAGCCCACAAGTCGGTGGCATCTTTT
1 CACCATTTT-AAAGCCCACAAGTCAGTGGCACCATTTCAAAGCCCACAAGTAAGTGGCATCCTTT
* * ** * * *
149433 CAAAAACTCACAAGTCAGTGGCACATTTTCAAAGTCTACAAGTCA-TTA
65 C-AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGA
* * * *
149481 TCAAACC-TTTTCAAAGCCTACAAGTC-GATGACACCCTTTCAAAGCCCACACAAGTTAGTGGCA
1 -C--ACCATTTT-AAAGCCCACAAGTCAG-TGGCACCATTTCAAAG-CC-CACAAGTAAGTGGCA
149544 -CCTT
59 TCCTT
149548 CTTTTTCTAA
Statistics
Matches: 530, Mismatches: 84, Indels: 82
0.76 0.12 0.12
Matches are distributed among these distances:
112 48 0.09
113 29 0.05
114 96 0.18
115 48 0.09
116 26 0.05
117 15 0.03
118 65 0.12
119 8 0.02
120 46 0.09
121 8 0.02
122 68 0.13
123 3 0.01
124 20 0.04
125 5 0.01
126 18 0.03
127 4 0.01
128 23 0.04
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (112 bp):
CACCATTTTAAAGCCCACAAGTCAGTGGCACCATTTCAAAGCCCACAAGTAAGTGGCATCCTTTC
AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGA
Found at i:149526 original size:28 final size:28
Alignment explanation
Indices: 148553--149545 Score: 510
Period size: 28 Copynumber: 34.3 Consensus size: 28
148543 ATACAACTCC
* * * * * *
148553 GTGGCATCCTTTTAGAGTCCACAACTCC
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * * *
148581 GTGGCACCCTTTTAAAGTCCACAACTCC
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
** * * *
148609 GTGGCA-CCTTTTTAAGTCCACAACTCC
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * * * * **
148636 GCGGCACCTTTTTAAA-TCCACAACTTT
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * * * * *
148663 GTGGCACTCTTTTAAAGTCCACCACTCC
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * * *
148691 GTGGCACCCTTT-TAAGTCCACAACTCT
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * * * *
148718 GTGGCATCCTTT-TAAGTCCACAACTCC
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * * *
148745 GTGGCATCCTTT-TAAGTCCACAACTTC-
1 GTGGCACCCTTTCAAAGCCCACAA-GTCA
* * *
148772 GTGGCAGCACCCTTTTAAAGCCTACAAGTTA
1 GT-G--GCACCCTTTCAAAGCCCACAAGTCA
* *
148803 GTGGCATCATTTCAAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * *
148831 ATGGCATCCTTTCAAAGCCCACAAGTTA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * *
148859 GTGACATCATTTCAAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * *
148887 GTGGCAACTCATTTCAAAGCCTACACAATTCG
1 GTGGC-AC-CCTTTCAAAGCC--CACAAGTCA
*
148919 GTGGCAACTCATTTCAAAGCCCACACAAGTC-
1 GTGGC-AC-CCTTTCAAAG-CC-CACAAGTCA
* * *
148950 GATGACAACCTATTTCAAAGCCCACAATTCA
1 G-TGGC-ACC-CTTTCAAAGCCCACAAGTCA
* * *
148981 GTGGCATCCTTTTAAAGCCCACAAGTTA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * * * *
149009 GTGGCATCATTTTAAAGCCCACAAATCG
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* *
149037 GTGGTAACTCATTTCAAAGCCCACACAAGTCA
1 GTGG-CAC-CCTTTCAAAG-CC-CACAAGTCA
* ** * * *
149069 ATAGAAACTCATTTGAAAGCCCACACAAG-CTG
1 GT-GGCAC-CCTTTCAAAG-CC-CACAAGTC-A
**
149101 GTGGCAACCCATTTCAAAGCCCACGCAAGTTG
1 GTGGC-ACCC-TTTCAAAGCCCA--CAAGTCA
* *
149133 GTGGCAACCCATTTTAAAGCCCACACAAGTCG
1 GTGGC-ACCC-TTTCAAAG-CC-CACAAGTCA
* * *
149165 GTGGCAACCAATTTCAAAGCTCACAAGTAA
1 GTGGC-ACC-CTTTCAAAGCCCACAAGTCA
* *
149195 GTGGCATCCTTTCAAAGCCCACAAGTCC
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* *
149223 GTGGCACCCTTTTAAAGCCCACAAGTTA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
*
149251 GTGGCACCCTTTTAAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* *
149279 GTGGCACCCTTCCAAAGCCCACAAGTTA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* *
149307 GTGGCACCCTTTCAAAGCCCATAAGTTA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
*
149335 GTGGCATACCCTTTCAAAGCCCATAAGTCA
1 GTGGC--ACCCTTTCAAAGCCCACAAGTCA
* ** * *
149365 GTGACACATTTTCAAAGCTCACAAGACA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * *
149393 GTGGCATCTTTTCAAAGCCCACAAGTCG
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * * *
149421 GTGGCATCTTTTCAAAAACTCACAAGTCA
1 GTGGCACCCTTTC-AAAGCCCACAAGTCA
** * *
149450 GTGGCACATTTTCAAAGTCTACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* ** * *
149478 TTATCAAACCTTTTCAAAGCCTACAAGTC-
1 GTGGC--ACCCTTTCAAAGCCCACAAGTCA
* *
149507 GATGACACCCTTTCAAAGCCCACACAAGTTA
1 G-TGGCACCCTTTCAAAG-CC-CACAAGTCA
149538 GTGGCACC
1 GTGGCACC
149546 TTCTTTTTCT
Statistics
Matches: 799, Mismatches: 127, Indels: 76
0.80 0.13 0.08
Matches are distributed among these distances:
27 109 0.14
28 378 0.47
29 31 0.04
30 115 0.14
31 24 0.03
32 135 0.17
33 5 0.01
34 2 0.00
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (28 bp):
GTGGCACCCTTTCAAAGCCCACAAGTCA
Found at i:151825 original size:97 final size:97
Alignment explanation
Indices: 151700--151939 Score: 327
Period size: 97 Copynumber: 2.5 Consensus size: 97
151690 AATTTTATTT
* * * *
151700 ATCAGGGATACTCCAACCCTATTGCTCCGAGGGGATACTCCAACCTCGCTTTTAAACATATTAAA
1 ATCAGGGACACTCCAACCCTATTCCTCCGAGGGGATACTCCAACCTCGCTTTTAAACACATCAAA
151765 GTTTAAATCTTATTCTCACTTAAATTATCACC
66 GTTTAAATCTTATTCTCACTTAAATTATCACC
* * * *
151797 ATCGGGGACACTTCAACCCTATTCCTCCGAGGGGATACTCCAACCCCGCTTTTAAACGCATCAAA
1 ATCAGGGACACTCCAACCCTATTCCTCCGAGGGGATACTCCAACCTCGCTTTTAAACACATCAAA
* * *
151862 GTTTAAATTTTATTCTCACTTAAATTGTCATC
66 GTTTAAATCTTATTCTCACTTAAATTATCACC
* * * * * *
151894 ATTAGGGACACTCCAACCCCATTCTTCTGAAGGGATACTCTAACCT
1 ATCAGGGACACTCCAACCCTATTCCTCCGAGGGGATACTCCAACCT
151940 TGTTTTTTCA
Statistics
Matches: 123, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
97 123 1.00
ACGTcount: A:0.29, C:0.28, G:0.13, T:0.30
Consensus pattern (97 bp):
ATCAGGGACACTCCAACCCTATTCCTCCGAGGGGATACTCCAACCTCGCTTTTAAACACATCAAA
GTTTAAATCTTATTCTCACTTAAATTATCACC
Found at i:156283 original size:16 final size:15
Alignment explanation
Indices: 156238--156283 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 15
156228 GGTCAAATTC
156238 TTATTATTTTTTTAT
1 TTATTATTTTTTTAT
*
156253 TT-TT-TATTTTT-T
1 TTATTATTTTTTTAT
156265 TTATTATTTTTTTACT
1 TTATTATTTTTTTA-T
156281 TTA
1 TTA
156284 AATTTAACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
12 3 0.12
13 8 0.32
14 8 0.32
15 2 0.08
16 4 0.16
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.80
Consensus pattern (15 bp):
TTATTATTTTTTTAT
Done.