Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold493
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: 575764
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 1 of 3
Found at i:2512 original size:18 final size:18
Alignment explanation
Indices: 2491--2525 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2481 ATATATCCTC
2491 TACCACAAATGTATCATT
1 TACCACAAATGTATCATT
**
2509 TACCTTAAATGTATCAT
1 TACCACAAATGTATCAT
2526 CTTCAAATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.20, G:0.06, T:0.37
Consensus pattern (18 bp):
TACCACAAATGTATCATT
Found at i:3189 original size:21 final size:21
Alignment explanation
Indices: 3144--3189 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
3134 TACATGTTTA
**
3144 AATGTATCGATACATTTCTTG
1 AATGTATCGATACAGGTCTTG
3165 AATGTATCGATACAAGGTCTT-
1 AATGTATCGATAC-AGGTCTTG
3186 AATG
1 AATG
3190 GTCAAAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACAGGTCTTG
Found at i:3261 original size:20 final size:20
Alignment explanation
Indices: 3218--3269 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
3208 CTACGATTTT
* *
3218 TATCGATACATTTAGTGAAAG
1 TATCGATACA-TAAATGAAAG
*
3239 TATCGATACATAAATGAATG
1 TATCGATACATAAATGAAAG
3259 TATCGATACAT
1 TATCGATACAT
3270 GTCTCAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 18 0.64
21 10 0.36
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (20 bp):
TATCGATACATAAATGAAAG
Found at i:3349 original size:20 final size:20
Alignment explanation
Indices: 3324--3369 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
3314 AAATTATATT
*
3324 GATACATAAGTAAATGTATC
1 GATACATAACTAAATGTATC
**
3344 GATACATTTCTAAATGTATC
1 GATACATAACTAAATGTATC
3364 GATACA
1 GATACA
3370 ATTTGCTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (20 bp):
GATACATAACTAAATGTATC
Found at i:8450 original size:13 final size:13
Alignment explanation
Indices: 8432--8459 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
8422 CATTATTTAA
8432 TGTATCGATACAT
1 TGTATCGATACAT
8445 TGTATCGATACAT
1 TGTATCGATACAT
8458 TG
1 TG
8460 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:8469 original size:33 final size:32
Alignment explanation
Indices: 8412--8477 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 32
8402 GCCAAGGAAA
*
8412 TGTATCGATACATTATTTAATGTATCGATACAT
1 TGTATCGATACATTATTT-ATGTATCAATACAT
8445 TGTATCGATACATTGATCTT-TGTATCAATACAT
1 TGTATCGATACATT-AT-TTATGTATCAATACAT
8478 GTGGGAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 26 0.87
34 2 0.07
35 2 0.07
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (32 bp):
TGTATCGATACATTATTTATGTATCAATACAT
Found at i:11439 original size:39 final size:39
Alignment explanation
Indices: 11376--11575 Score: 150
Period size: 39 Copynumber: 4.9 Consensus size: 39
11366 CGACTCGAGG
* * *
11376 TGCCAATAAGCTGATTCAAGGCCAGCGATATTGGGCTTA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTAGGCTTA
* *
11415 TGTCAATGTGCTGATTCAAGGCCAGCGACATT-GGTCTTAAAGATAAA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTAGG-C-T-----T--A
* * *
11462 GGTGCCAATATGCTGATTCAAGGCTAGCGATATTAGGCTTG
1 --TGCCAATATGCTGATTCAAGGCCAGCGACATTAGGCTTA
* * * *
11503 TGCCAATATGCTAATTCGAGGCCAGTGACATTAGTCTTA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTAGGCTTA
* * * *
11542 TGCCAATGTGCTGATTTAAGGCTAGTGACATTAG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTAG
11576 ACATAAAGAT
Statistics
Matches: 128, Mismatches: 21, Indels: 24
0.74 0.12 0.14
Matches are distributed among these distances:
38 2 0.02
39 90 0.70
40 1 0.01
43 1 0.01
45 1 0.01
47 1 0.01
48 1 0.01
49 29 0.23
50 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (39 bp):
TGCCAATATGCTGATTCAAGGCCAGCGACATTAGGCTTA
Found at i:11525 original size:88 final size:88
Alignment explanation
Indices: 11373--11541 Score: 248
Period size: 88 Copynumber: 1.9 Consensus size: 88
11363 GTTCGACTCG
* * * *
11373 AGGTGCCAATAAGCTGATTCAAGGCCAGCGATATTGGGCTTATGTCAATGTGCTGATTCAAGGCC
1 AGGTGCCAATAAGCTGATTCAAGGCCAGCGATATTAGGCTTATGCCAATATGCTAATTCAAGGCC
*
11438 AGCGACATTGGTCTTAAAGATAA
66 AGCGACATTAGTCTTAAAGATAA
* * * *
11461 AGGTGCCAATATGCTGATTCAAGGCTAGCGATATTAGGCTTGTGCCAATATGCTAATTCGAGGCC
1 AGGTGCCAATAAGCTGATTCAAGGCCAGCGATATTAGGCTTATGCCAATATGCTAATTCAAGGCC
*
11526 AGTGACATTAGTCTTA
66 AGCGACATTAGTCTTA
11542 TGCCAATGTG
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
88 71 1.00
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.28
Consensus pattern (88 bp):
AGGTGCCAATAAGCTGATTCAAGGCCAGCGATATTAGGCTTATGCCAATATGCTAATTCAAGGCC
AGCGACATTAGTCTTAAAGATAA
Found at i:11788 original size:18 final size:18
Alignment explanation
Indices: 11757--11791 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11747 AGGGAAAAGA
*
11757 TGCCATGGAGTTGTGGAG
1 TGCCACGGAGTTGTGGAG
*
11775 TGCCACGGATTTGTGGA
1 TGCCACGGAGTTGTGGA
11792 CTTAAAAGGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.14, G:0.40, T:0.29
Consensus pattern (18 bp):
TGCCACGGAGTTGTGGAG
Found at i:11976 original size:60 final size:60
Alignment explanation
Indices: 11785--11981 Score: 276
Period size: 61 Copynumber: 3.3 Consensus size: 60
11775 TGCCACGGAT
*
11785 TTGTGGACTTAAAAGGGTGCCACGGAG-T-TGAGGC-TTAAAAGGGAAAATGTGCCA-CGAA
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTATG-GGCTTTAAAA-GGAAAATGTGCCATAGAA
* * * *
11843 GTTGTGGACTTAAAAGGATGCCACGGAGTTATGGGCTTTAAAAAGAAAAATGTGCCATGGAG
1 -TTGTGGACTTAAAAGGGTGCCACGGAGTTATGGGCTTT-AAAAGGAAAATGTGCCATAGAA
*
11905 TTGTGGACTTAAAAGGGTGCCATGGAGTTATGGGCTTTAAAAGGAAAATGTGCCATAGAA
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTATGGGCTTTAAAAGGAAAATGTGCCATAGAA
11965 TTGTGGACTTAAAAGGG
1 TTGTGGACTTAAAAGGG
11982 AAAGATGCAA
Statistics
Matches: 124, Mismatches: 9, Indels: 9
0.87 0.06 0.06
Matches are distributed among these distances:
59 26 0.21
60 40 0.32
61 52 0.42
62 6 0.05
ACGTcount: A:0.33, C:0.11, G:0.31, T:0.24
Consensus pattern (60 bp):
TTGTGGACTTAAAAGGGTGCCACGGAGTTATGGGCTTTAAAAGGAAAATGTGCCATAGAA
Found at i:11979 original size:32 final size:31
Alignment explanation
Indices: 11773--12698 Score: 542
Period size: 32 Copynumber: 30.1 Consensus size: 31
11763 GGAGTTGTGG
*
11773 AGTGCCACGGATTTGTGGACTTAAAAGG---
1 AGTGCCACGGAGTTGTGGACTTAAAAGGAAA
*
11801 -GTGCCACGGAGTTGAGG-CTTAAAAGGGAAA
1 AGTGCCACGGAGTTGTGGACTTAAAA-GGAAA
*
11831 ATGTGCCACGAAGTTGTGGACTTAAAAGG---
1 A-GTGCCACGGAGTTGTGGACTTAAAAGGAAA
* * *
11860 A-TGCCACGGAGTTATGGGCTTTAAAAAGAAAA
1 AGTGCCACGGAGTTGTGGAC-TT-AAAAGGAAA
*
11892 ATGTGCCATGGAGTTGTGGACTTAAAAGG---
1 A-GTGCCACGGAGTTGTGGACTTAAAAGGAAA
* * *
11921 -GTGCCATGGAGTTATGGGCTTTAAAAGGAAA
1 AGTGCCACGGAGTTGTGGAC-TTAAAAGGAAA
** * *
11952 ATGTGCCATAGAATTGTGGACTTAAAAGGGAA
1 A-GTGCCACGGAGTTGTGGACTTAAAAGGAAA
* **
11984 AGATGCAACGGAGTCATGGACTTAAAAGGAAA
1 AG-TGCCACGGAGTTGTGGACTTAAAAGGAAA
*
12016 AGATGCCACGGAGTTATGGACTTAAAAGGAAA
1 AG-TGCCACGGAGTTGTGGACTTAAAAGGAAA
*
12048 AGATGCCACGGAGTTATGGACTTAAAAGG---
1 AG-TGCCACGGAGTTGTGGACTTAAAAGGAAA
* *
12077 -GTGCCACGGAGTTGTGGGCTTTAAAAAGAAA
1 AGTGCCACGGAGTTGTGGAC-TTAAAAGGAAA
* *
12108 AGGTCCCATGGAGTTGTGGACTTAAAAGG---
1 A-GTGCCACGGAGTTGTGGACTTAAAAGGAAA
* **
12137 -GTGCCACGGAGTTATGGTTTTTAAAAGGAAA
1 AGTGCCACGGAGTTGTGG-ACTTAAAAGGAAA
* * *
12168 AGTTGCCACAGAGTTGTGCACTGAAAAGG---
1 AG-TGCCACGGAGTTGTGGACTTAAAAGGAAA
* * *
12197 -GTGCCACAGAGTTATGGGCTTTAAAAGGAAA
1 AGTGCCACGGAGTTGTGGAC-TTAAAAGGAAA
*
12228 AGGTGCCACGGAGTTGTGGACTTGAAAGGAAA
1 A-GTGCCACGGAGTTGTGGACTTAAAAGGAAA
* *
12260 AGGTGCCACAGA-TCGTGGACTTAAAAGGGAAA
1 A-GTGCCACGGAGTTGTGGACTTAAAA-GGAAA
* * ** * *
12292 GGAGCCATAGAGTTTTGGATTTAAAAGG---
1 AGTGCCACGGAGTTGTGGACTTAAAAGGAAA
* * * *
12320 -GTGTCACGCAGTTATGGACTTGAAAGGAAA
1 AGTGCCACGGAGTTGTGGACTTAAAAGGAAA
12350 AGGTGCCACGGAGTTGTGGACTTAAAAGGGAAA
1 A-GTGCCACGGAGTTGTGGACTTAAAA-GGAAA
*
12383 GGTGCCACGGAGTTGTGGACTT--AA--AAA
1 AGTGCCACGGAGTTGTGGACTTAAAAGGAAA
* * * *
12410 GGTACCACGAAGTTGTGGACTTGAAAAGAAAA
1 AGTGCCACGGAGTTGTGGACTT-AAAAGGAAA
* * *
12442 AGTGCCAAGAAGTTGTGGAATTAAAAGGGAAA
1 AGTGCCACGGAGTTGTGGACTTAAAA-GGAAA
*
12474 GGTGCCACGGAGTTGTGGACTTAAAAGG---
1 AGTGCCACGGAGTTGTGGACTTAAAAGGAAA
* *** *
12502 -GTGTCACGGAGTTGTGGACTCGGAAGAAAA
1 AGTGCCACGGAGTTGTGGACTTAAAAGGAAA
* ** * *
12532 ATGATGTCACTAAGTCGTGGACTTAGAAGGAAAA
1 A-G-TGCCACGGAGTTGTGGACTTAAAAGG-AAA
** * ** *
12566 AGATGCCATTGAGTCGTGGACTTGGAAGAAAA
1 AG-TGCCACGGAGTTGTGGACTTAAAAGGAAA
** * *
12598 AGGATGCCACTAAGTCGTGGACTTAAGAGGGAAA
1 A-G-TGCCACGGAGTTGTGGACTTAA-AAGGAAA
* * * * *
12632 GGATGCCACTGAGTCGTGGACTTAGAAGAAAAA
1 AG-TGCCACGGAGTTGTGGACTTAAAAG-GAAA
** ** *
12665 AGATGCCATTGAGTCATGGACTTAGAAGGAAA
1 AG-TGCCACGGAGTTGTGGACTTAAAAGGAAA
12697 AG
1 AG
12699 GATGCCACTA
Statistics
Matches: 717, Mismatches: 118, Indels: 122
0.75 0.12 0.13
Matches are distributed among these distances:
26 7 0.01
27 158 0.22
28 34 0.05
29 6 0.01
30 4 0.01
31 29 0.04
32 268 0.37
33 187 0.26
34 24 0.03
ACGTcount: A:0.34, C:0.13, G:0.32, T:0.21
Consensus pattern (31 bp):
AGTGCCACGGAGTTGTGGACTTAAAAGGAAA
Found at i:12128 original size:60 final size:59
Alignment explanation
Indices: 11965--12521 Score: 478
Period size: 60 Copynumber: 9.2 Consensus size: 59
11955 TGCCATAGAA
* * * **
11965 TTGTGGACTTAAAAGGGAAAGATGCAACGGAGTCATGGACTTAAAAGGAAAAGATGCCACGGAG
1 TTGTGGACTTAAAAGGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG----G-TGCCACGGAG
* * *
12029 TTATGGACTTAAAAGGAAAAGATGCCACGGAGTTATGGACTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
* * * *
12088 TTGTGGGCTTTAAAAAGAAAAGGTCCCATGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
1 TTGTGGAC-TTAAAAGGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
* ** * * * * *
12148 TTATGGTTTTTAAAAGGAAAAGTTGCCACAGAGTTGTGCACTGAAAAGGGTGCCACAGAG
1 TTGTGG-ACTTAAAAGGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
* * * *
12208 TTATGGGCTTTAAAAGGAAAAGGTGCCACGGAGTTGTGGACTTGAAAGGAAAAGGTGCCACAGA-
1 TTGTGGAC-TTAAAAGGAAAAGGTGCCACGGAGTTGTGGACTT---A--AAAGGGTGCCACGGAG
* * * ** * * * *
12272 TCGTGGACTTAAAAGGGAAAGGAGCCATAGAGTTTTGGATTTAAAAGGGTGTCACGCAG
1 TTGTGGACTTAAAAGGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
* *
12331 TTATGGACTTGAAAGGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAGGTGCCACGGAG
1 TTGTGGACTTAAAAGGAAAAGGTGCCACGGAGTTGTGGACTTAAAA--G---GGTGCCACGGAG
* * * * *
12395 TTGTGGACTT---A--AAAAGGTACCACGAAGTTGTGGACTTGAAAAGAAAAAGTGCCAAGAAG
1 TTGTGGACTTAAAAGGAAAAGGTGCCACGGAGTTGTGGACTT-AAAAG----GGTGCCACGGAG
* * *
12454 TTGTGGAATTAAAAGGGAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGTCACGGAG
1 TTGTGGACTTAAAAGGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
12513 TTGTGGACT
1 TTGTGGACT
12522 CGGAAGAAAA
Statistics
Matches: 404, Mismatches: 68, Indels: 47
0.78 0.13 0.09
Matches are distributed among these distances:
58 12 0.03
59 114 0.28
60 136 0.34
61 2 0.00
62 1 0.00
63 34 0.08
64 91 0.23
65 14 0.03
ACGTcount: A:0.34, C:0.12, G:0.32, T:0.22
Consensus pattern (59 bp):
TTGTGGACTTAAAAGGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
Found at i:12182 original size:120 final size:119
Alignment explanation
Indices: 11973--12521 Score: 443
Period size: 123 Copynumber: 4.5 Consensus size: 119
11963 AATTGTGGAC
* * * **
11973 TTAAAAGGGAAAGATGCAACGGAGTCATGGACTTAAAAGGAAAAGATGCCACGGAGTTATGGACT
1 TTAAAAGGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG----G-TGCCACGGAGTTATGGACT
* *
12038 TAAAAGGAAAAGATGCCACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGGCT
61 TAAAAGGAAAAGATGCCACAGAGTTATGGACTTAAAAGGGTGCCACGGAGTTATGGGCT
* * * **
12097 TTAAAAAGAAAAGGTCCCATGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTATGGTTTTTAAA
1 TTAAAAGGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTATGG-ACTTAAA
* * * * *
12162 AGGAAAAGTTGCCACAGAGTTGTGCACTGAAAAGGGTGCCACAGAGTTATGGGCT
65 AGGAAAAGATGCCACAGAGTTATGGACTTAAAAGGGTGCCACGGAGTTATGGGCT
* * **
12217 TTAAAAGGAAAAGGTGCCACGGAGTTGTGGACTTGAAAGGAAAAGGTGCCACAGA-TCGTGGACT
1 TTAAAAGGAAAAGGTGCCACGGAGTTGTGGACTT---A--AAAGGGTGCCACGGAGTTATGGACT
* * * * * * *
12281 TAAAAGGGAAAGGA-GCCATAGAGTTTTGGATTTAAAAGGGTGTCACGCAGTTATGGAC-
61 TAAAA-GGAAAAGATGCCACAGAGTTATGGACTTAAAAGGGTGCCACGGAGTTATGGGCT
* *
12339 TTGAAAGGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAGGTGCCACGGAGTTGTGGACT
1 TTAAAAGGAAAAGGTGCCACGGAGTTGTGGACTTAAAA--G---GGTGCCACGGAGTTATGGACT
* * * * * * * **
12404 T---A--AAAAGGTACCAC-GAAGTTGTGGACTTGAAAAGAAAAAGTGCCAAGAAGTTGT-GGAA
61 TAAAAGGAAAAGATGCCACAG-AGTTATGGACTT-AAAAG----GGTGCCACGGAGTTATGGGCT
* * *
12462 TTAAAAGGGAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGTCACGGAGTTGTGGACT
1 TTAAAAGGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTATGGACT
12522 CGGAAGAAAA
Statistics
Matches: 347, Mismatches: 57, Indels: 48
0.77 0.13 0.11
Matches are distributed among these distances:
117 8 0.02
118 33 0.10
119 22 0.06
120 86 0.25
121 1 0.00
122 44 0.13
123 98 0.28
124 42 0.12
125 13 0.04
ACGTcount: A:0.34, C:0.12, G:0.32, T:0.21
Consensus pattern (119 bp):
TTAAAAGGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTATGGACTTAAAA
GGAAAAGATGCCACAGAGTTATGGACTTAAAAGGGTGCCACGGAGTTATGGGCT
Found at i:12197 original size:276 final size:268
Alignment explanation
Indices: 11774--12458 Score: 782
Period size: 276 Copynumber: 2.5 Consensus size: 268
11764 GAGTTGTGGA
* * * *
11774 GTGCCACGGATTTGTGGACTTAAAAGGGTGCCACGGAGTTG-AGGCTTAAAAGGGAAAATGTGCC
1 GTGCCACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGGCTTAAAA-GGAAAAGGTGCC
* * * * * *
11838 ACGAAGTTGTGGACTTAAAAGGATGCCACGGAGTTATGGGCTTTAAAAAGAAAAATGTGCCATGG
65 ACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTATGGACTTTAAAAGGAAAAGT-TGCCA-AG
* * ** * *
11903 AGTTGTGGACTTAAAAGGGTGCCATGGAGTTATGGGCTTTAAAAGGAAAATGTGCCATAGAATTG
128 AGTTGTGCACTGAAAAGGGTGCCACAGAGTTATGGGCTTTAAAAGGAAAAGGTGCCACAGAATTG
* * *
11968 TGGACTTAAAAGGGAAAGATGCAACGGAGTCATGGACTTAAAA-GGAAAAGATGCCACGGAGTTA
193 TGGACTTAAAAGGAAAAGATGCAACAGA-TCATGGACTTAAAAGGGAAAAGA-GCCACAGAGTTA
12032 TGGACTTAAAAGG
256 TGGACTTAAAAGG
*
12045 AAAAGATGCCACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAG
1 ----G-TGCCACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGGC-TTAAAAGGAAAAG
* * **
12110 GTCCCATGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTATGGTTTTTAAAAGGAAAAGTTGCC
60 GTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTATGGACTTTAAAAGGAAAAGTTGCC
*
12175 ACAGAGTTGTGCACTGAAAAGGGTGCCACAGAGTTATGGGCTTTAAAAGGAAAAGGTGCCACGGA
125 A-AGAGTTGTGCACTGAAAAGGGTGCCACAGAGTTATGGGCTTTAAAAGGAAAAGGTGCCACAGA
* * * * * * *
12240 GTTGTGGACTTGAAAGGAAAAGGTGCCACAGATCGTGGACTTAAAAGGGAAAGGAGCCATAGAGT
189 ATTGTGGACTTAAAAGGAAAAGATGCAACAGATCATGGACTTAAAAGGGAAAAGAGCCACAGAGT
* *
12305 TTTGGATTTAAAAGG
254 TATGGACTTAAAAGG
* * * * *
12320 GTGTCACGCAGTTATGGACTTGAAAGGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAGG
1 GTGCCACGGAGTTATGGACTT---A--AAAGGGTGCCACGGAGTTGTGGGCTTAAAAGGAAAAGG
* * * * * *
12385 TGCCACGGAGTTGTGGACTTAAAAAGGTACCACGAAGTTGTGGACTTGAAAAGAAAAAG-TGCCA
61 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTATGGACTTTAAAAGGAAAAGTTGCCA
12449 AGAAGTTGTG
126 AG-AGTTGTG
12459 GAATTAAAAG
Statistics
Matches: 350, Mismatches: 50, Indels: 22
0.83 0.12 0.05
Matches are distributed among these distances:
270 18 0.05
271 1 0.00
272 2 0.01
273 13 0.04
274 61 0.17
275 57 0.16
276 131 0.37
277 61 0.17
278 6 0.02
ACGTcount: A:0.34, C:0.13, G:0.32, T:0.22
Consensus pattern (268 bp):
GTGCCACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGGCTTAAAAGGAAAAGGTGCCA
CGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTATGGACTTTAAAAGGAAAAGTTGCCAAGAGT
TGTGCACTGAAAAGGGTGCCACAGAGTTATGGGCTTTAAAAGGAAAAGGTGCCACAGAATTGTGG
ACTTAAAAGGAAAAGATGCAACAGATCATGGACTTAAAAGGGAAAAGAGCCACAGAGTTATGGAC
TTAAAAGG
Found at i:12396 original size:91 final size:91
Alignment explanation
Indices: 11795--12521 Score: 581
Period size: 91 Copynumber: 7.9 Consensus size: 91
11785 TTGTGGACTT
* * *
11795 AAAAGGGTGCCACGGAGTTGAGG-CTTAAAAGGGAAAATGTGCCACGAAGTTGTGGACTTAAAAG
1 AAAA-GGTGCCACGGAGTTGTGGACTTAAAAGGG-AAAGGTGCCACGGAGTTGTGGACTTAAAAG
* * *
11859 GATGCCACGGAGTTATGGGCTTTAAAAAGA
64 GGTGCCACGGAGTTATGGAC-TT-AAAAGG
* * * * *
11889 AAAATGTGCCATGGAGTTGTGGACTTAAAA--G---GGTGCCATGGAGTTATGGGCTTTAAAAGG
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAGGTGCCACGGAGTTGTGGAC-TTAAAAGG
** * *
11949 AAAATGTGCCATAGAATTGTGGACTTAAAAGG
65 -----GTGCCACGGAGTTATGGACTTAAAAGG
* * * ** * * *
11981 GAAAGATGCAACGGAGTCATGGACTTAAAAGGAAAAGATGCCACGGAGTTATGGACTTAAAAGGA
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAGGTGCCACGGAGTTGTGGACTTAAAAGG-
12046 AAAGATGCCACGGAGTTATGGACTTAAAA-G
65 ---G-TGCCACGGAGTTATGGACTTAAAAGG
* * * * *
12076 ----GGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAGGTCCCATGGAGTTGTGGACTTAAAAGG
1 AAAAGGTGCCACGGAGTTGTGGAC-TTAAAAGGGAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
**
12137 GTGCCACGGAGTTATGGTTTTTAAAAGG
65 GTGCCACGGAGTTATGG-ACTTAAAAGG
* * * * * * *
12165 AAAAGTTGCCACAGAGTTGTGCACTGAAAA--G---GGTGCCACAGAGTTATGGGCTTTAAAAGG
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAGGTGCCACGGAGTTGTGGAC-TTAAAA-G
* *
12225 AAAAGGTGCCACGGAGTTGTGGACTTGAAAGG
64 ----GGTGCCACGGAGTTATGGACTTAAAAGG
* * * ** * *
12257 AAAAGGTGCCACAGA-TCGTGGACTTAAAAGGGAAAGGAGCCATAGAGTTTTGGATTTAAAAGGG
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAGGTGCCACGGAGTTGTGGACTTAAAAGGG
* * *
12321 TGTCACGCAGTTATGGACTTGAAAGG
66 TGCCACGGAGTTATGGACTTAAAAGG
*
12347 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAGGTGCCACGGAGTTGTGGACTTAAAAAGG
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAGGTGCCACGGAGTTGTGGACTTAAAAGGG
* * *
12412 TACCACGAAGTTGTGGACTTGAAAA-G
66 TGCCACGGAGTTATGGACTT-AAAAGG
* * * *
12438 AAAAAGTGCCAAGAAGTTGTGGAATTAAAAGGGAAAGGTGCCACGGAGTTGTGGACTTAAAAGGG
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAGGTGCCACGGAGTTGTGGACTTAAAAGGG
* *
12503 TGTCACGGAGTTGTGGACT
66 TGCCACGGAGTTATGGACT
12522 CGGAAGAAAA
Statistics
Matches: 509, Mismatches: 91, Indels: 69
0.76 0.14 0.10
Matches are distributed among these distances:
87 31 0.06
88 28 0.06
89 10 0.02
90 39 0.08
91 161 0.32
92 93 0.18
93 51 0.10
94 25 0.05
95 11 0.02
96 43 0.08
97 17 0.03
ACGTcount: A:0.34, C:0.12, G:0.32, T:0.22
Consensus pattern (91 bp):
AAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAGGTGCCACGGAGTTGTGGACTTAAAAGGG
TGCCACGGAGTTATGGACTTAAAAGG
Found at i:12410 original size:59 final size:60
Alignment explanation
Indices: 11774--12502 Score: 344
Period size: 60 Copynumber: 11.9 Consensus size: 60
11764 GAGTTGTGGA
* * * *
11774 GTGCCACGGATTTGTGGACTT-AAAAGGGTGCCACGGAGTTGAGG-CTTAAAAGGGAAAAT
1 GTGCCACGGAGTTGTGGACTTAAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGG-AAAG
* * * ** *
11833 GTGCCACGAAGTTGTGGACTT--AAAAGGATGCCACGGAGTTATGGGCTTTAAAAAGAAAAAT
1 GTGCCACGGAGTTGTGGACTTAAAAAAGG-TGCCACGGAGTTGTGGAC-TT-AAAAGGGAAAG
* * * * * * *
11894 GTGCCATGGAGTTGTGGACTT-AAAAGGGTGCCATGGAGTTATGGGCTTTAAAAGGAAAAT
1 GTGCCACGGAGTTGTGGACTTAAAAAAGGTGCCACGGAGTTGTGGAC-TTAAAAGGGAAAG
** * * * ** *
11954 GTGCCATAGAATTGTGGACTTAAAAGGGAAAGATGCAACGGAGTCATGGACTTAAAAGGAAAAG
1 GTGCCACGGAGTTGTGGACTT-AAA---AAAGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAG
* * * *
12018 ATGCCACGGAGTTATGGACTTAAAAGGAAAAGATGCCACGGAGTTATGGACTTAAAA--G---G
1 GTGCCACGGAGTTGTGGACTT--AA--AAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAG
* * *
12077 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAGGTCCCATGGAGTTGTGGACTTAAAA--G---G
1 GTGCCACGGAGTTGTGGAC-TT---AA-AAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAG
* ** * * * *
12137 GTGCCACGGAGTTATGGTTTTTAAAAGGAAAAGTTGCCACAGAGTTGTGCACTGAAAA--G---G
1 GTGCCACGGAGTTGTGG-ACTT--AA--AAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAG
* * * * *
12197 GTGCCACAGAGTTATGGGCTTTAAAAGGAAAAGGTGCCACGGAGTTGTGGACTTGAAAGGAAAAG
1 GTGCCACGGAGTTGTGGAC-TT--AA--AAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAG
* * * ** * *
12262 GTGCCACAGA-TCGTGGACTTAAAAGGGAAAGGAGCCATAGAGTTTTGGATTTAAAA--G---G
1 GTGCCACGGAGTTGTGGACTT-AAA---AAAGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAG
* * *
12320 GTGTCACGCAGTTATGGACTTGAAAGGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAG
1 GTGCCACGGAGTTGTGGACTT--AA--AAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAG
* * * *
12384 GTGCCACGGAGTTGTGGACTT-AAAAAGGTACCACGAAGTTGTGGACTTGAAAA-GAAAAA
1 GTGCCACGGAGTTGTGGACTTAAAAAAGGTGCCACGGAGTTGTGGACTT-AAAAGGGAAAG
* * *
12443 GTGCCAAGAAGTTGTGGAATTAAAAGGGAAAGGTGCCACGGAGTTGTGGACTTAAAAGGG
1 GTGCCACGGAGTTGTGGACTT-AAA---AAAGGTGCCACGGAGTTGTGGACTTAAAAGGG
12503 TGTCACGGAG
Statistics
Matches: 541, Mismatches: 87, Indels: 79
0.77 0.12 0.11
Matches are distributed among these distances:
58 13 0.02
59 132 0.24
60 163 0.30
61 53 0.10
62 16 0.03
63 29 0.05
64 103 0.19
65 31 0.06
67 1 0.00
ACGTcount: A:0.34, C:0.12, G:0.32, T:0.22
Consensus pattern (60 bp):
GTGCCACGGAGTTGTGGACTTAAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAG
Found at i:12552 original size:33 final size:33
Alignment explanation
Indices: 12496--13102 Score: 427
Period size: 33 Copynumber: 19.0 Consensus size: 33
12486 TTGTGGACTT
* * * * *
12496 AAAAGGGTGTCACGGAGTTGTGGACTCGGAAGA
1 AAAAGGATGCCACTGAGTCGTGGACTTGGAAGA
* * * *
12529 AAAATGATGTCACTAAGTCGTGGACTTAGAAGGA
1 AAAAGGATGCCACTGAGTCGTGGACTTGGAA-GA
*
12563 AAAA-GATGCCATTGAGTCGTGGACTTGGAAGA
1 AAAAGGATGCCACTGAGTCGTGGACTTGGAAGA
*
12595 AAAAGGATGCCACTAAGTCGTGGACTT--AAGA
1 AAAAGGATGCCACTGAGTCGTGGACTTGGAAGA
* *
12626 GGGAAAGGATGCCACTGAGTCGTGGACTTAGAAGA
1 --AAAAGGATGCCACTGAGTCGTGGACTTGGAAGA
* * * * *
12661 AAAAAGATGCCATTGAGTCATGGACTTAGAAGG
1 AAAAGGATGCCACTGAGTCGTGGACTTGGAAGA
* * *
12694 AAAAGGATGCCACTAAGTCATGGACTTAGG-AGG
1 AAAAGGATGCCACTGAGTCGTGGACTT-GGAAGA
** *
12727 AAAAGGATGGTACTGAGTCGTCGACTTGGAAGAA
1 AAAAGGATGCCACTGAGTCGTGGACTTGGAAG-A
*
12761 AAAAGGATGCCATTGAGTCGTGGACTTAGG--G-
1 AAAAGGATGCCACTGAGTCGTGGACTT-GGAAGA
* * *
12792 --AAGGGTGCCACTCAGTCGCGGACTT-G-A-A
1 AAAAGGATGCCACTGAGTCGTGGACTTGGAAGA
*
12820 AAAA-GATGCCACTGAGTTGTGGACTTTGGAAG-
1 AAAAGGATGCCACTGAGTCGTGGAC-TTGGAAGA
* * *
12852 ----GG-TGCCA-TAGAGTTGTGGGCTTTTG--G-
1 AAAAGGATGCCACT-GAGTCGTGGAC-TTGGAAGA
* * **
12878 AAAAGATATGCCACTAAGTCGTGGACTTAAAAGA
1 AAAAG-GATGCCACTGAGTCGTGGACTTGGAAGA
* *
12912 AAAAGGATGTCACTGAGTCGTGGACTTTGAA-A
1 AAAAGGATGCCACTGAGTCGTGGACTTGGAAGA
* * *
12944 GACAAGGATGCCACTGAGTTGTGGACTTAGGAGGA
1 -AAAAGGATGCCACTGAGTCGTGGACTT-GGAAGA
12979 AAAA-GATGCCACTGAGTCGTGGACTTGGAAGA
1 AAAAGGATGCCACTGAGTCGTGGACTTGGAAGA
* * *
13011 AAAAGGATGCCATTGAGTCTTGGACATAGG--G-
1 AAAAGGATGCCACTGAGTCGTGGAC-TTGGAAGA
*
13042 -AACGG-TGCCACTGAGTCGTGGACTT---AG-
1 AAAAGGATGCCACTGAGTCGTGGACTTGGAAGA
*
13069 AAAAGAGATGCCACTGAGTCGTGAACTTTGGAAG
1 AAAAG-GATGCCACTGAGTCGTGGAC-TTGGAAG
13103 GGTGCCATAG
Statistics
Matches: 459, Mismatches: 72, Indels: 85
0.75 0.12 0.14
Matches are distributed among these distances:
26 1 0.00
27 3 0.01
28 23 0.05
29 55 0.12
30 26 0.06
31 9 0.02
32 33 0.07
33 257 0.56
34 45 0.10
35 7 0.02
ACGTcount: A:0.33, C:0.14, G:0.32, T:0.21
Consensus pattern (33 bp):
AAAAGGATGCCACTGAGTCGTGGACTTGGAAGA
Found at i:12800 original size:29 final size:28
Alignment explanation
Indices: 12763--13213 Score: 143
Period size: 29 Copynumber: 14.8 Consensus size: 28
12753 TGGAAGAAAA
*
12763 AAGGATGCCATTGAGTCGTGGACTTAGGG
1 AAGGATGCCACTGAGTCGTGGACTT-GGG
* * * **
12792 AAGGGTGCCACTCAGTCGCGGACTTGAAA
1 AAGGATGCCACTGAGTCGTGGACTTG-GG
* * *
12821 AAAGATGCCACTGAGTTGTGGACTTTGG
1 AAGGATGCCACTGAGTCGTGGACTTGGG
* * * *
12849 AAGGGTGCCA-TAGAGTTGTGGGCTTTTGGAA
1 AAGGATGCCACT-GAGTCGTGGAC--TTGG-G
* * **
12880 AAGATATGCCACTAAGTCGTGGACTTAAAAGAAA
1 AAG-GATGCCACTGAGTCGTGGACTT----G-GG
* *
12914 AAGGATGTCACTGAGTCGTGGACTTTGAAAGAC
1 AAGGATGCCACTGAGTCGTGGAC-TTG---G-G
*
12947 AAGGATGCCACTGAGTTGTGGACTTAGGAGG
1 AAGGATGCCACTGAGTCGTGGACTT--G-GG
*
12978 AAAAAGATGCCACTGAGTCGTGGACTTGGAAG
1 --AAGGATGCCACTGAGTCGTGGACTTGG--G
* * *
13010 AAAAAGGATGCCATTGAGTCTTGGACATAGGG
1 ---AAGGATGCCACTGAGTCGTGGAC-TTGGG
**
13042 AACGG-TGCCACTGAGTCGTGGACTTAGAA
1 AA-GGATGCCACTGAGTCGTGGACTT-GGG
* *
13071 AAGAGATGCCACTGAGTCGTGAACTTTGG
1 AAG-GATGCCACTGAGTCGTGGACTTGGG
* * ** *
13100 AAGGGTGCCA-TAGAGTCATGGGTTTTTGGAA
1 AAGGATGCCACT-GAGTCGT-GG-ACTTGG-G
* * * *
13131 AACAGATGCCACAGAGTCGTGGGCTTTTGGAA
1 AA-GGATGCCACTGAGTCGTGGAC--TTGG-G
**
13163 AAGAGATGCCACTGAGTCGTGGACTTTAG
1 AAG-GATGCCACTGAGTCGTGGACTTGGG
* *
13192 AAAGAGTGCCACAGAGTCGTGG
1 AAGGA-TGCCACTGAGTCGTGG
13214 GCTTTTGGGA
Statistics
Matches: 315, Mismatches: 69, Indels: 76
0.68 0.15 0.17
Matches are distributed among these distances:
27 2 0.01
28 35 0.11
29 84 0.27
30 33 0.10
31 8 0.03
32 58 0.18
33 84 0.27
34 11 0.03
ACGTcount: A:0.29, C:0.16, G:0.32, T:0.23
Consensus pattern (28 bp):
AAGGATGCCACTGAGTCGTGGACTTGGG
Found at i:13080 original size:251 final size:250
Alignment explanation
Indices: 12633--13196 Score: 765
Period size: 251 Copynumber: 2.2 Consensus size: 250
12623 AGAGGGAAAG
* * * * * *
12633 GATGCCACTGAGTCGTGGACTTAGAAGAAAAAAGATGCCATTGAGTCATGGACTTAGAAGGAAAA
1 GATGCCACTAAGTCGTGGACTTA-AAGAAAAAGGATGCCACTGAGTCGTGGACTTTGAAAGAAAA
* **
12698 GGATGCCACTAAGTCATGGACTTAGGAGGAAAAGGATGGTACTGAGTCGTCGACTTGGAAGAAAA
65 GGATGCCACTAAGTCATGGACTTAGGAGGAAAAAGATGCCACTGAGTCGTCGACTTGGAAGAAAA
* *
12763 AAGGATGCCATTGAGTCGTGGACTTAGGGAAGGGTGCCACTCAGTCGCGGACTTGAAAAAAGATG
130 AAGGATGCCATTGAGTCGTGGACATAGGGAACGGTGCCACTCAGTCGCGGACTTGAAAAAAGATG
* * ** *
12828 CCACTGAGTTGTGGACTTTGGAAGGGTGCCATAGAGTTGTGGGCTTTTGGAAAAGA
195 CCACTGAGTCGTGAACTTTGGAAGGGTGCCATAGAGTCATGGGCTTTTGGAAAACA
* * *
12884 TATGCCACTAAGTCGTGGACTTAAAAGAAAAAGGATGTCACTGAGTCGTGGACTTTGAAAGACAA
1 GATGCCACTAAGTCGTGGACTT-AAAGAAAAAGGATGCCACTGAGTCGTGGACTTTGAAAGAAAA
* ** *
12949 GGATGCCACTGAGTTGTGGACTTAGGAGGAAAAAGATGCCACTGAGTCGTGGACTTGGAAG-AAA
65 GGATGCCACTAAGTCATGGACTTAGGAGGAAAAAGATGCCACTGAGTCGTCGACTTGGAAGAAAA
* * * *
13013 AAGGATGCCATTGAGTCTTGGACATAGGGAACGGTGCCACTGAGTCGTGGACTTAGAAAAGAGAT
130 AAGGATGCCATTGAGTCGTGGACATAGGGAACGGTGCCACTCAGTCGCGGACTT-GAAAAAAGAT
*
13078 GCCACTGAGTCGTGAACTTTGGAAGGGTGCCATAGAGTCATGGGTTTTTGGAAAACA
194 GCCACTGAGTCGTGAACTTTGGAAGGGTGCCATAGAGTCATGGGCTTTTGGAAAACA
* ** *
13135 GATGCCAC-AGAGTCGTGGGCTT-TTGGAAAAGAGATGCCACTGAGTCGTGGACTTTAGAAAGA
1 GATGCCACTA-AGTCGTGGACTTAAAGAAAAAG-GATGCCACTGAGTCGTGGACTTT-GAAAGA
13197 GTGCCACAGA
Statistics
Matches: 274, Mismatches: 34, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
249 6 0.02
250 75 0.27
251 192 0.70
252 1 0.00
ACGTcount: A:0.31, C:0.15, G:0.32, T:0.22
Consensus pattern (250 bp):
GATGCCACTAAGTCGTGGACTTAAAGAAAAAGGATGCCACTGAGTCGTGGACTTTGAAAGAAAAG
GATGCCACTAAGTCATGGACTTAGGAGGAAAAAGATGCCACTGAGTCGTCGACTTGGAAGAAAAA
AGGATGCCATTGAGTCGTGGACATAGGGAACGGTGCCACTCAGTCGCGGACTTGAAAAAAGATGC
CACTGAGTCGTGAACTTTGGAAGGGTGCCATAGAGTCATGGGCTTTTGGAAAACA
Found at i:13141 original size:32 final size:32
Alignment explanation
Indices: 13105--13226 Score: 124
Period size: 32 Copynumber: 3.9 Consensus size: 32
13095 TTTGGAAGGG
* *
13105 TGCCATAGAGTCATGGGTTTTTGGAAAACAGA
1 TGCCACAGAGTCATGGGCTTTTGGAAAACAGA
* *
13137 TGCCACAGAGTCGTGGGCTTTTGGAAAAGAGA
1 TGCCACAGAGTCATGGGCTTTTGGAAAACAGA
* * * * *
13169 TGCCACTGAGTCGTGGAC-TTTAG-AAAGAG-
1 TGCCACAGAGTCATGGGCTTTTGGAAAACAGA
*
13198 TGCCACAGAGTCGTGGGCTTTTGGGAAAA
1 TGCCACAGAGTCATGGGCTTTT-GGAAAA
13227 GATTTGAAAG
Statistics
Matches: 77, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
29 16 0.21
30 9 0.12
31 5 0.06
32 47 0.61
ACGTcount: A:0.28, C:0.16, G:0.32, T:0.25
Consensus pattern (32 bp):
TGCCACAGAGTCATGGGCTTTTGGAAAACAGA
Found at i:13164 original size:92 final size:92
Alignment explanation
Indices: 13047--13226 Score: 247
Period size: 92 Copynumber: 2.0 Consensus size: 92
13037 TAGGGAACGG
* * * *
13047 TGCCACTGAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTCGTGAACTTT-GGAAGGGTGCCAT
1 TGCCACAGAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTCGTGAACTTTAGAAAGAGTGCCAC
*
13111 AGAGTCATGGG-TTTTTGGAAAACAGA
66 AGAGTCATGGGCTTTTGGGAAAACAGA
* * *
13137 TGCCACAGAGTCGTGGGCTTTTGGAAAAGAGATGCCACTGAGTCGTGGACTTTAGAAAGAGTGCC
1 TGCCACAGAGTCGTGGAC--TTAGAAAAGAGATGCCACTGAGTCGTGAACTTTAGAAAGAGTGCC
*
13202 ACAGAGTCGTGGGCTTTTGGGAAAA
64 ACAGAGTCATGGGCTTTTGGGAAAA
13227 GATTTGAAAG
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
90 16 0.21
92 31 0.40
93 20 0.26
94 10 0.13
ACGTcount: A:0.28, C:0.16, G:0.32, T:0.24
Consensus pattern (92 bp):
TGCCACAGAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTCGTGAACTTTAGAAAGAGTGCCAC
AGAGTCATGGGCTTTTGGGAAAACAGA
Found at i:21619 original size:20 final size:20
Alignment explanation
Indices: 21594--21647 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
21584 ATTTGCCTGC
* *
21594 ATGTATCGATACATTGACTA
1 ATGTATCGATACAATGAATA
*
21614 ATGTATCGTTACAATGAATA
1 ATGTATCGATACAATGAATA
*
21634 ATGTCTCGATACAA
1 ATGTATCGATACAA
21648 ACTGTAAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACAATGAATA
Found at i:24453 original size:24 final size:24
Alignment explanation
Indices: 24423--24477 Score: 101
Period size: 24 Copynumber: 2.2 Consensus size: 24
24413 TTTTTAGTAT
24423 TTTTCCTTAAAGCATGTCAAAATA
1 TTTTCCTTAAAGCATGTCAAAATA
24447 TTTTCCTTAAAGCATGTCAAAATA
1 TTTTCCTTAAAGCATGTCAAAATA
24471 TCTTTCC
1 T-TTTCC
24478 AACGGTGTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 25 0.83
25 5 0.17
ACGTcount: A:0.33, C:0.20, G:0.07, T:0.40
Consensus pattern (24 bp):
TTTTCCTTAAAGCATGTCAAAATA
Found at i:32678 original size:13 final size:13
Alignment explanation
Indices: 32660--32685 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
32650 AATTTTTTGG
32660 TGTATCGATACAT
1 TGTATCGATACAT
32673 TGTATCGATACAT
1 TGTATCGATACAT
32686 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:34783 original size:21 final size:20
Alignment explanation
Indices: 34754--34796 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
34744 GGCTAGTGTG
* *
34754 GGGACTGCCCGGTTGCGATCT
1 GGGACTG-CCGGTCGCGACCT
*
34775 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
34795 GG
1 GG
34797 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.09, C:0.28, G:0.44, T:0.19
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:35255 original size:13 final size:13
Alignment explanation
Indices: 35237--35275 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
35227 ATAATCCCCC
*
35237 TGTATCGATACAG
1 TGTATCGATACAA
35250 TGTATCGATACAA
1 TGTATCGATACAA
35263 TGTATCGATACAA
1 TGTATCGATACAA
35276 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:41472 original size:13 final size:13
Alignment explanation
Indices: 41454--41479 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
41444 AATTTTTTGG
41454 TGTATCGATACAT
1 TGTATCGATACAT
41467 TGTATCGATACAT
1 TGTATCGATACAT
41480 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:43122 original size:752 final size:752
Alignment explanation
Indices: 41673--43166 Score: 2979
Period size: 752 Copynumber: 2.0 Consensus size: 752
41663 GTATCGATAC
41673 TTTGATATATTTTAACTTAAAAATCAATCATTTTAAGCCTTGAAAACATTTATACTTAACTAGAA
1 TTTGATATATTTTAACTTAAAAATCAATCATTTTAAGCCTTGAAAACATTTATACTTAACTAGAA
41738 AACATTTGGTGAATCAAAAATCGTTTGGTACAAAATTTATAAAGTACTTAATTGAATAAAACATA
66 AACATTTGGTGAATCAAAAATCGTTTGGTACAAAATTTATAAAGTACTTAATTGAATAAAACATA
41803 TTTTTGGTATTTTCAAAATAATTTCCGGTTTTATTCAATCCTTTGTTATATCAAAACCAAGATCC
131 TTTTTGGTATTTTCAAAATAATTTCCGGTTTTATTCAATCCTTTGTTATATCAAAACCAAGATCC
41868 TAACAATTTTTCTTTAGCAACTGGCATTCATTCTTATAATGTCCAAGCTTACCATAATGGTAGCG
196 TAACAATTTTTCTTTAGCAACTGGCATTCATTCTTATAATGTCCAAGCTTACCATAATGGTAGCG
41933 TGAACCTTTTTGTTTCTTGAATTTAGAAGCATTGTTGAACTTCCTTTTGGTAGGTTTAAGAACTT
261 TGAACCTTTTTGTTTCTTGAATTTAGAAGCATTGTTGAACTTCCTTTTGGTAGGTTTAAGAACTT
41998 TAGTGGTCTGTCCTTCCTCTATAATATGAACTTTGGTAATTCTAAAATCATTATTCTGGTCTTGC
326 TAGTGGTCTGTCCTTCCTCTATAATATGAACTTTGGTAATTCTAAAATCATTATTCTGGTCTTGC
42063 TTTCTATATTCTTCTTCTATACGAAGATGATTTGCCAAAGCTTCAAGAGTTATATCCTCTTTCTT
391 TTTCTATATTCTTCTTCTATACGAAGATGATTTGCCAAAGCTTCAAGAGTTATATCCTCTTTCTT
42128 GTGTTTCAGACTTCTTTTAAAGTCTTTCCAGGATGGAAAAAGTTTATCTAGAATGGATGATACAA
456 GTGTTTCAGACTTCTTTTAAAGTCTTTCCAGGATGGAAAAAGTTTATCTAGAATGGATGATACAA
42193 CAATTGTTTCATCCATTTTCATGTCATATTGCTTAAATTGATTAAGCATTTTTTCAATATCACGT
521 CAATTGTTTCATCCATTTTCATGTCATATTGCTTAAATTGATTAAGCATTTTTTCAATATCACGT
42258 AGTTGTTCTATGACAAACTGACCATCAACCATGTGATAATTATTAAAATAACTAACTAGGAATTT
586 AGTTGTTCTATGACAAACTGACCATCAACCATGTGATAATTATTAAAATAACTAACTAGGAATTT
42323 CTTACTTGTTGCATCTTCGGTCATGTACCTTGCCTCCAATTTGTCCCATAACTCTTTGGCAATAG
651 CTTACTTGTTGCATCTTCGGTCATGTACCTTGCCTCCAATTTGTCCCATAACTCTTTGGCAATAG
42388 TCTCGTTTTGATATACATCAAATAAGCATGTCACATT
716 TCTCGTTTTGATATACATCAAATAAGCATGTCACATT
*
42425 TTTGTTATATTTTAACTTAAAAATCAATCATTTTAAGCCTTGAAAACATTTATACTTAACTAGAA
1 TTTGATATATTTTAACTTAAAAATCAATCATTTTAAGCCTTGAAAACATTTATACTTAACTAGAA
42490 AACATTTGGTGAATCAAAAATCGTTTGGTACAAAATTTATAAAGTACTTAATTGAATAAAACATA
66 AACATTTGGTGAATCAAAAATCGTTTGGTACAAAATTTATAAAGTACTTAATTGAATAAAACATA
42555 TTTTTGGTATTTTCAAAATAATTTCCGGTTTTATTCAATCCTTTGTTATATCAAAACCAAGATCC
131 TTTTTGGTATTTTCAAAATAATTTCCGGTTTTATTCAATCCTTTGTTATATCAAAACCAAGATCC
42620 TAACAATTTTTCTTTAGCAACTGGCATTCATTCTTATAATGTCCAAGCTTACCATAATGGTAGCG
196 TAACAATTTTTCTTTAGCAACTGGCATTCATTCTTATAATGTCCAAGCTTACCATAATGGTAGCG
42685 TGAACCTTTTTGTTTCTTGAATTTAGAAGCATTGTTGAACTTCCTTTTGGTAGGTTTAAGAACTT
261 TGAACCTTTTTGTTTCTTGAATTTAGAAGCATTGTTGAACTTCCTTTTGGTAGGTTTAAGAACTT
42750 TAGTGGTCTGTCCTTCCTCTATAATATGAACTTTGGTAATTCTAAAATCATTATTCTGGTCTTGC
326 TAGTGGTCTGTCCTTCCTCTATAATATGAACTTTGGTAATTCTAAAATCATTATTCTGGTCTTGC
42815 TTTCTATATTCTTCTTCTATACGAAGATGATTTGCCAAAGCTTCAAGAGTTATATCCTCTTTCTT
391 TTTCTATATTCTTCTTCTATACGAAGATGATTTGCCAAAGCTTCAAGAGTTATATCCTCTTTCTT
42880 GTGTTTCAGACTTCTTTTAAAGTCTTTCCAGGATGGAAAAAGTTTATCTAGAATGGATGATACAA
456 GTGTTTCAGACTTCTTTTAAAGTCTTTCCAGGATGGAAAAAGTTTATCTAGAATGGATGATACAA
42945 CAATTGTTTCATCCATTTTCATGTCATATTGCTTAAATTGATTAAGCATTTTTTCAATATCACGT
521 CAATTGTTTCATCCATTTTCATGTCATATTGCTTAAATTGATTAAGCATTTTTTCAATATCACGT
43010 AGTTGTTCTATGACAAACTGACCATCAACCATGTGATAATTATTAAAATAACTAACTAGGAATTT
586 AGTTGTTCTATGACAAACTGACCATCAACCATGTGATAATTATTAAAATAACTAACTAGGAATTT
43075 CTTACTTGTTGCATCTTCGGTCATGTACCTTGCCTCCAATTTGTCCCATAACTCTTTGGCAATAG
651 CTTACTTGTTGCATCTTCGGTCATGTACCTTGCCTCCAATTTGTCCCATAACTCTTTGGCAATAG
43140 TCTCGTTTTGATATACATCAAATAAGC
716 TCTCGTTTTGATATACATCAAATAAGC
43167 TATCTGACAG
Statistics
Matches: 741, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
752 741 1.00
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.40
Consensus pattern (752 bp):
TTTGATATATTTTAACTTAAAAATCAATCATTTTAAGCCTTGAAAACATTTATACTTAACTAGAA
AACATTTGGTGAATCAAAAATCGTTTGGTACAAAATTTATAAAGTACTTAATTGAATAAAACATA
TTTTTGGTATTTTCAAAATAATTTCCGGTTTTATTCAATCCTTTGTTATATCAAAACCAAGATCC
TAACAATTTTTCTTTAGCAACTGGCATTCATTCTTATAATGTCCAAGCTTACCATAATGGTAGCG
TGAACCTTTTTGTTTCTTGAATTTAGAAGCATTGTTGAACTTCCTTTTGGTAGGTTTAAGAACTT
TAGTGGTCTGTCCTTCCTCTATAATATGAACTTTGGTAATTCTAAAATCATTATTCTGGTCTTGC
TTTCTATATTCTTCTTCTATACGAAGATGATTTGCCAAAGCTTCAAGAGTTATATCCTCTTTCTT
GTGTTTCAGACTTCTTTTAAAGTCTTTCCAGGATGGAAAAAGTTTATCTAGAATGGATGATACAA
CAATTGTTTCATCCATTTTCATGTCATATTGCTTAAATTGATTAAGCATTTTTTCAATATCACGT
AGTTGTTCTATGACAAACTGACCATCAACCATGTGATAATTATTAAAATAACTAACTAGGAATTT
CTTACTTGTTGCATCTTCGGTCATGTACCTTGCCTCCAATTTGTCCCATAACTCTTTGGCAATAG
TCTCGTTTTGATATACATCAAATAAGCATGTCACATT
Found at i:44834 original size:27 final size:27
Alignment explanation
Indices: 44796--44847 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
44786 ACTAACTCTG
*
44796 AGAATGGATTTTAGAACCATTTCAATA
1 AGAATGAATTTTAGAACCATTTCAATA
*
44823 AGAATGAATTTTAGAACTATTTCAA
1 AGAATGAATTTTAGAACCATTTCAA
44848 ATCTTCATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (27 bp):
AGAATGAATTTTAGAACCATTTCAATA
Found at i:45157 original size:173 final size:174
Alignment explanation
Indices: 44861--45175 Score: 553
Period size: 173 Copynumber: 1.8 Consensus size: 174
44851 TTCATTCTTC
44861 TTCGATTGAAGATTTCAAGAGTTAATACTTCCAAAAATAATGAGATATTTTCTTGATCAATCAGG
1 TTCGATTGAAGATTTCAAGAGTTAATACTTCCAAAAATAATGAGATATTTTCTTGATCAATCAGG
44926 ATAATGAAACCTATATCTTGATTACTTATATATCTCCTTATATCTCATGTTATAGATATA-CCCA
66 ATAATGAAACCTATATCTTGATTACTTATATATCTCCTTATATCTCATGTTATAGATATATCCC-
44990 ATAATTCACAACTCGAGCATCTTTAGTTAAGAGCATAAGTAAGTT
130 ATAATTCACAACTCGAGCATCTTTAGTTAAGAGCATAAGTAAGTT
*
45035 TTCGATTGAAGATTTCAAGAGTTAATAC-TCTAAAAATAATGAGATATTTTCTTGATCAATCAGG
1 TTCGATTGAAGATTTCAAGAGTTAATACTTCCAAAAATAATGAGATATTTTCTTGATCAATCAGG
** * * *
45099 ATGGTGAATCCTATATCTTGATTACTTATGTATCTCCTTATATCTCATGTTTTAGATATATCCCA
66 ATAATGAAACCTATATCTTGATTACTTATATATCTCCTTATATCTCATGTTATAGATATATCCCA
45164 TAATTCACAACT
131 TAATTCACAACT
45176 TGGGTTCAAT
Statistics
Matches: 134, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
173 103 0.77
174 31 0.23
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.38
Consensus pattern (174 bp):
TTCGATTGAAGATTTCAAGAGTTAATACTTCCAAAAATAATGAGATATTTTCTTGATCAATCAGG
ATAATGAAACCTATATCTTGATTACTTATATATCTCCTTATATCTCATGTTATAGATATATCCCA
TAATTCACAACTCGAGCATCTTTAGTTAAGAGCATAAGTAAGTT
Found at i:48882 original size:20 final size:20
Alignment explanation
Indices: 48854--48930 Score: 84
Period size: 20 Copynumber: 3.9 Consensus size: 20
48844 GTAAAAAGAT
*
48854 AGAACGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
*
48874 AGAATGTATCGATACATTCA
1 AGAATGTATCGATACATTGA
* *
48894 TA-CATGTATCAATACATTGA
1 -AGAATGTATCGATACATTGA
* *
48914 AAAATATATCGATACAT
1 AGAATGTATCGATACAT
48931 CTGGGTAAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
19 1 0.02
20 45 0.96
21 1 0.02
ACGTcount: A:0.43, C:0.14, G:0.13, T:0.30
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:48961 original size:91 final size:91
Alignment explanation
Indices: 48806--48985 Score: 254
Period size: 91 Copynumber: 2.0 Consensus size: 91
48796 TTTTAACTAG
* * * * * *
48806 ATGTATCGATACATTGAATAATGTATCGATATATCTGGGTAAAAAGATAGAACGTATCGATACAT
1 ATGTATCAATACATTGAAAAATATATCGATACATCTGGGTAAAAAGACAAAACGTATCGATACAT
*
48871 TGA-AGAATGTATCGATACATTCATAC
66 TCATA-AATGTATCGATACATTCATAC
* *
48897 ATGTATCAATACATTGAAAAATATATCGATACATCTGGGTAAAATGACAAAATGTATCGATACAT
1 ATGTATCAATACATTGAAAAATATATCGATACATCTGGGTAAAAAGACAAAACGTATCGATACAT
*
48962 TCATACATGTATCGATACATTCAT
66 TCATAAATGTATCGATACATTCAT
48986 CTGGGTAAAA
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
91 77 0.99
92 1 0.01
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (91 bp):
ATGTATCAATACATTGAAAAATATATCGATACATCTGGGTAAAAAGACAAAACGTATCGATACAT
TCATAAATGTATCGATACATTCATAC
Found at i:48973 original size:20 final size:20
Alignment explanation
Indices: 48948--48985 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
48938 AAATGACAAA
48948 ATGTATCGATACATTCATAC
1 ATGTATCGATACATTCATAC
48968 ATGTATCGATACATTCAT
1 ATGTATCGATACATTCAT
48986 CTGGGTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTCATAC
Found at i:49822 original size:45 final size:46
Alignment explanation
Indices: 49702--49825 Score: 142
Period size: 49 Copynumber: 2.7 Consensus size: 46
49692 ATATGAGAGG
* ** *
49702 AGTGCCAATTTGCCAATTCAAGGCCAGCGACATTGGGCTAAGGGAAA
1 AGTGCCAATATGCTGATTCAAGGCCAGTGACATTGGGCTAA-GGAAA
* *
49749 AGTGGACCAATGTGCTGATTCAAGGCCAGTGACATTGGGCTAA-TAAA
1 AGT-G-CCAATATGCTGATTCAAGGCCAGTGACATTGGGCTAAGGAAA
* *
49796 GGTGCCAATATGCTGATTCAATGCCAGTGA
1 AGTGCCAATATGCTGATTCAAGGCCAGTGA
49826 TATCAGACTT
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
45 24 0.36
46 1 0.01
47 8 0.12
48 1 0.01
49 33 0.49
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (46 bp):
AGTGCCAATATGCTGATTCAAGGCCAGTGACATTGGGCTAAGGAAA
Found at i:50392 original size:28 final size:28
Alignment explanation
Indices: 49919--50386 Score: 561
Period size: 28 Copynumber: 16.5 Consensus size: 28
49909 CACTAACTTG
* *
49919 TGTGGGCTTTGAAAAGAGTTG-CACCGACTT
1 TGTGGGCTTTG-AAAG-GATGCCACTGAC-T
* *
49949 GTGTGGGCTTTGAAAAGG-TGTCACCGACT
1 -TGTGGGCTTTG-AAAGGATGCCACTGACT
*
49978 TGTGCGCTTTGAAAGGTATGCCACTGACT
1 TGTGGGCTTTGAAAGG-ATGCCACTGACT
* * * *
50007 TGTGTGCTTTGAAAGGGTGTCACCGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
50035 TATGGGCTTTGAAGGGGTATGCCACTAACT
1 TGTGGGCTTTGAA-AGG-ATGCCACTGACT
*
50065 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
50093 TGTGGTCTTTTGGAAA-GATGCCACTGACT
1 TGTGGGC-TTT-GAAAGGATGCCACTGACT
*
50122 T-TGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
50149 TGTGGGTTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
50177 TGTGGTCTTTTG-AAGAGATGCCACTGACT
1 TGTGGGC-TTTGAAAG-GATGCCACTGACT
* *
50206 TGTGGGCTTTGAATGAATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
50234 TGTGGGCTTTGAAAGGGTGTCC-CTGACT
1 TGTGGGCTTTGAAAGGATG-CCACTGACT
* *
50262 TGTGGGCTTTGAAAGGATGACACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
50290 TGTGAGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
50318 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
50346 TGTGGGCTTTGAAAGGATGCCACTGACC
1 TGTGGGCTTTGAAAGGATGCCACTGACT
50374 TGTGGGCTTTGAA
1 TGTGGGCTTTGAA
50387 GAGATGAATG
Statistics
Matches: 383, Mismatches: 40, Indels: 31
0.84 0.09 0.07
Matches are distributed among these distances:
26 4 0.01
27 22 0.06
28 235 0.61
29 74 0.19
30 32 0.08
31 16 0.04
ACGTcount: A:0.21, C:0.17, G:0.31, T:0.31
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:51675 original size:24 final size:26
Alignment explanation
Indices: 51633--51689 Score: 82
Period size: 24 Copynumber: 2.3 Consensus size: 26
51623 TCTGGACCCC
*
51633 TTTTTTGTCTGATTGTTTTTTGTTTT
1 TTTTTTGTCTGATTGTTTTTGGTTTT
*
51659 TTTTTTGT-TTATT-TTTTTGGTTTT
1 TTTTTTGTCTGATTGTTTTTGGTTTT
51683 TTTTTTG
1 TTTTTTG
51690 GTACAAAGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 17 0.59
25 4 0.14
26 8 0.28
ACGTcount: A:0.04, C:0.02, G:0.14, T:0.81
Consensus pattern (26 bp):
TTTTTTGTCTGATTGTTTTTGGTTTT
Found at i:51691 original size:12 final size:11
Alignment explanation
Indices: 51648--51689 Score: 66
Period size: 12 Copynumber: 3.6 Consensus size: 11
51638 TGTCTGATTG
51648 TTTTTTGTTTT
1 TTTTTTGTTTT
51659 TTTTTTGTTTAT
1 TTTTTTGTTT-T
51671 TTTTTTGGTTTT
1 TTTTTT-GTTTT
51683 TTTTTTG
1 TTTTTTG
51690 GTACAAAGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
11 11 0.38
12 14 0.48
13 4 0.14
ACGTcount: A:0.02, C:0.00, G:0.12, T:0.86
Consensus pattern (11 bp):
TTTTTTGTTTT
Found at i:65568 original size:21 final size:21
Alignment explanation
Indices: 65544--65584 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
65534 CGATTTAAAG
65544 ATCTATATTTCTATATTATTA
1 ATCTATATTTCTATATTATTA
65565 ATCTATATTTCTATATTATT
1 ATCTATATTTCTATATTATT
65585 TATATTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.59
Consensus pattern (21 bp):
ATCTATATTTCTATATTATTA
Found at i:65609 original size:20 final size:19
Alignment explanation
Indices: 65585--65668 Score: 65
Period size: 18 Copynumber: 4.5 Consensus size: 19
65575 CTATATTATT
65585 TATATTATTTATTAATATA
1 TATATTATTTATTAATATA
*
65604 TA-A-TATATTATTATTATA
1 TATATTAT-TTATTAATATA
65622 T-TATTTATATTATTTAA-ATA
1 TATA-TTAT-TTA-TTAATATA
65642 T-TATTATTTATTTAA-ATA
1 TATATTATTTA-TTAATATA
65660 T-TATTATTT
1 TATATTATTT
65669 TATATTTAAA
Statistics
Matches: 58, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
17 3 0.05
18 33 0.57
19 6 0.10
20 13 0.22
21 3 0.05
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TATATTATTTATTAATATA
Found at i:65614 original size:31 final size:30
Alignment explanation
Indices: 65576--65660 Score: 97
Period size: 31 Copynumber: 2.9 Consensus size: 30
65566 TCTATATTTC
65576 TATATTATTTATATTATTTATTAATATATAA
1 TATATTATTTATATTATTTA-TAATATATAA
* *
65607 TATATTATTATTATATTATTTATATTATTTAA
1 TATATTA-T-TTATATTATTTATAATATATAA
65639 -ATATTA-TTAT-TTATTTA-AATAT
1 TATATTATTTATATTATTTATAATAT
65661 TATTATTTTA
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
26 4 0.08
27 7 0.14
28 4 0.08
31 13 0.27
32 9 0.18
33 12 0.24
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (30 bp):
TATATTATTTATATTATTTATAATATATAA
Found at i:65671 original size:42 final size:41
Alignment explanation
Indices: 65576--65674 Score: 114
Period size: 42 Copynumber: 2.4 Consensus size: 41
65566 TCTATATTTC
*
65576 TATATTATTTATATTATTTATTAATATATAATATATTATTAT
1 TATATTATTTATATTATTTA-TAATATATAATATATTATTAA
*
65618 TATATTATTTATATTATTTA-AATAT-TATTAT-TTATTTAAA
1 TATATTATTTATATTATTTATAATATATAATATATTA-TT-AA
65658 TATTATTATTTTATATT
1 TA-TATTA-TTTATATT
65675 TAAATTAATT
Statistics
Matches: 51, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
38 3 0.06
39 7 0.14
40 8 0.16
41 5 0.10
42 28 0.55
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (41 bp):
TATATTATTTATATTATTTATAATATATAATATATTATTAA
Found at i:65686 original size:41 final size:40
Alignment explanation
Indices: 65616--65713 Score: 114
Period size: 41 Copynumber: 2.4 Consensus size: 40
65606 ATATATTATT
65616 ATTA-TATTATTTATATTATTTAAATATTATTATT-TATTTAA
1 ATTATTATTATTT-TA-TATTTAAATATTATT-TTATATTTAA
65657 A-TATTATTATTTTATATTTAAATTAATTATTTTATATTTAA
1 ATTATTATTATTTTATATTTAAA-T-ATTATTTTATATTTAA
65698 ATTATT-TTATATTTAT
1 ATTATTATTAT-TTTAT
65714 CAGATTTTTC
Statistics
Matches: 51, Mismatches: 0, Indels: 11
0.82 0.00 0.18
Matches are distributed among these distances:
39 8 0.16
40 7 0.14
41 27 0.53
42 9 0.18
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (40 bp):
ATTATTATTATTTTATATTTAAATATTATTTTATATTTAA
Found at i:65687 original size:20 final size:20
Alignment explanation
Indices: 65616--65701 Score: 97
Period size: 20 Copynumber: 4.2 Consensus size: 20
65606 ATATATTATT
65616 ATTATATTATTTATATTATTTAA
1 ATTA-ATTATTT-TA-TATTTAA
65639 A-T-ATTATTATT-TATTTAA
1 ATTAATTATT-TTATATTTAA
*
65657 ATATTATTATTTTATATTTAA
1 AT-TAATTATTTTATATTTAA
65678 ATTAATTATTTTATATTTAA
1 ATTAATTATTTTATATTTAA
65698 ATTA
1 ATTA
65702 TTTTATATTT
Statistics
Matches: 57, Mismatches: 1, Indels: 13
0.80 0.01 0.18
Matches are distributed among these distances:
18 8 0.14
20 31 0.54
21 16 0.28
22 1 0.02
23 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
ATTAATTATTTTATATTTAA
Found at i:65700 original size:16 final size:17
Alignment explanation
Indices: 65662--65713 Score: 70
Period size: 16 Copynumber: 2.9 Consensus size: 17
65652 TTTAAATATT
65662 ATTATTTTATATTTAAATTA
1 ATTATTTTATATTT--A-TA
65682 ATTATTTTATATTTA-A
1 ATTATTTTATATTTATA
65698 ATTATTTTATATTTAT
1 ATTATTTTATATTTAT
65714 CAGATTTTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
16 16 0.52
18 1 0.03
20 14 0.45
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
ATTATTTTATATTTATA
Found at i:67917 original size:21 final size:20
Alignment explanation
Indices: 67863--67917 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
67853 TATTAATATA
*
67863 ATTTTATAATTATATTTTTTGT
1 ATTTT-TAATTA-ATTTTATGT
* *
67885 ATTATTACTTAATTTTATGTT
1 ATTTTTAATTAATTTTATG-T
67906 ATTTTTAATTAA
1 ATTTTTAATTAA
67918 ATTAATATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
20 7 0.26
21 16 0.59
22 4 0.15
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.64
Consensus pattern (20 bp):
ATTTTTAATTAATTTTATGT
Found at i:68015 original size:16 final size:17
Alignment explanation
Indices: 67983--68017 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
67973 TGAAAGAGAG
67983 TTCAGAAGGTAAAATTA
1 TTCAGAAGGTAAAATTA
68000 TTCAGAAGGT-AAATTA
1 TTCAGAAGGTAAAATTA
68016 TT
1 TT
68018 TATCTATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.43, C:0.06, G:0.17, T:0.34
Consensus pattern (17 bp):
TTCAGAAGGTAAAATTA
Found at i:69530 original size:21 final size:21
Alignment explanation
Indices: 69488--69532 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
69478 TAAGCACTAA
** *
69488 AAAATTAAAAAATATTATTTT
1 AAAATTAAAAAATACAAATTT
*
69509 AAAATTAAAAATTACAAATTT
1 AAAATTAAAAAATACAAATTT
69530 AAA
1 AAA
69533 CTCGATCAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
AAAATTAAAAAATACAAATTT
Found at i:69859 original size:29 final size:27
Alignment explanation
Indices: 69826--69884 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 27
69816 CTTAACATTA
*
69826 TTATTTATATTTGTTAATAAACATATT-TT
1 TTATTAATATTTG-T-ATAAA-ATATTATT
69855 TTATTAATATTTGTATAAAATATTATT
1 TTATTAATATTTGTATAAAATATTATT
69882 TTA
1 TTA
69885 ATTTTAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 5 0.18
27 10 0.36
28 1 0.04
29 12 0.43
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (27 bp):
TTATTAATATTTGTATAAAATATTATT
Found at i:70144 original size:30 final size:30
Alignment explanation
Indices: 70087--70145 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
70077 ACCGATTTCT
* * *
70087 AATTTTCCATTCGATTTTTTAATTCTTACC
1 AATTTTCCATTCGATTTCTAAACTCTTACC
* *
70117 AATTTTCCATTTGGTTTCTAAACTCTTAC
1 AATTTTCCATTCGATTTCTAAACTCTTAC
70146 TCTAATTTGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.24, C:0.20, G:0.05, T:0.51
Consensus pattern (30 bp):
AATTTTCCATTCGATTTCTAAACTCTTACC
Found at i:70322 original size:2 final size:2
Alignment explanation
Indices: 70315--70345 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
70305 CGATTGTGAT
70315 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 T
70346 TTTATCTGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:75738 original size:16 final size:17
Alignment explanation
Indices: 75712--75744 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
75702 TATTAAAAAC
75712 AAAATTAATAATATTAT
1 AAAATTAATAATATTAT
*
75729 AAAA-TAATAATTTTAT
1 AAAATTAATAATATTAT
75745 TAACATAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AAAATTAATAATATTAT
Found at i:80315 original size:2 final size:2
Alignment explanation
Indices: 80308--80345 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
80298 TCAAGATAAA
*
80308 AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
80346 CAATTTACAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:82014 original size:20 final size:20
Alignment explanation
Indices: 81989--82042 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
81979 GAAATGAAAA
*
81989 TGTATCGATATATTTTTCAT
1 TGTATCGATACATTTTTCAT
*
82009 TGTATCAATACATTTTTCAT
1 TGTATCGATACATTTTTCAT
82029 TGTATCGATACATT
1 TGTATCGATACATT
82043 CTGGGTTTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.28, C:0.13, G:0.09, T:0.50
Consensus pattern (20 bp):
TGTATCGATACATTTTTCAT
Found at i:82090 original size:51 final size:52
Alignment explanation
Indices: 82009--82128 Score: 170
Period size: 51 Copynumber: 2.3 Consensus size: 52
81999 TATTTTTCAT
* *
82009 TGTATCAATACATTTTTCATTGTATCGATACATTCT-GGGTTTTGACCCAAA
1 TGTATCAATACATTCTTCATTGTATCGATACATTCTAGGGTTTTGACCAAAA
* * * * *
82060 TGTATCGATACATTCTTCTTTGTATTGATACATTCTAGGTTTTTGACGAAAA
1 TGTATCAATACATTCTTCATTGTATCGATACATTCTAGGGTTTTGACCAAAA
82112 TGTATCAATACATTCTT
1 TGTATCAATACATTCTT
82129 TAATGTATTA
Statistics
Matches: 60, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
51 32 0.53
52 28 0.47
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.43
Consensus pattern (52 bp):
TGTATCAATACATTCTTCATTGTATCGATACATTCTAGGGTTTTGACCAAAA
Found at i:82136 original size:52 final size:51
Alignment explanation
Indices: 82009--82143 Score: 166
Period size: 52 Copynumber: 2.6 Consensus size: 51
81999 TATTTTTCAT
* *
82009 TGTATCAATACATT-TTTCATTGTATCGATACATTCTGGGTTTTGACCCAAA
1 TGTATCAATACATTCTTT-ATTGTATTGATACATTCTGGGTTTTGACCAAAA
* * *
82060 TGTATCGATACATTCTTCT-TTGTATTGATACATTCTAGGTTTTTGACGAAAA
1 TGTATCAATACATTCTT-TATTGTATTGATACATTCT-GGGTTTTGACCAAAA
* *
82112 TGTATCAATACATTCTTTAATGTATTAATACA
1 TGTATCAATACATTCTTTATTGTATTGATACA
82144 CAAGGCAATT
Statistics
Matches: 72, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
51 30 0.42
52 41 0.57
53 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.43
Consensus pattern (51 bp):
TGTATCAATACATTCTTTATTGTATTGATACATTCTGGGTTTTGACCAAAA
Found at i:83886 original size:20 final size:21
Alignment explanation
Indices: 83846--83894 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
83836 ATAATTTGTG
*
83846 TCGATACAAATAGTAAATGTA
1 TCGATACATATAGTAAATGTA
*
83867 TCGATACATA-AGTGAATGTA
1 TCGATACATATAGTAAATGTA
83887 TCGA-ACAT
1 TCGATACAT
83895 GCCTAAAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 4 0.15
20 13 0.50
21 9 0.35
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.29
Consensus pattern (21 bp):
TCGATACATATAGTAAATGTA
Found at i:86702 original size:50 final size:51
Alignment explanation
Indices: 86605--86703 Score: 155
Period size: 50 Copynumber: 2.0 Consensus size: 51
86595 GTTATTTCCG
86605 AAGGGATACTCCAACCCCGTTTTTATTTCCAAAATACCAATTATTCACCAT
1 AAGGGATACTCCAACCCCGTTTTTATTTCCAAAATACCAATTATTCACCAT
* * * *
86656 AAGGGATTCTCCAACCCCG-TTTTATTTTCAAAATATCAATTTTTCACC
1 AAGGGATACTCCAACCCCGTTTTTATTTCCAAAATACCAATTATTCACC
86704 TTTGAGATAC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
50 26 0.59
51 18 0.41
ACGTcount: A:0.31, C:0.26, G:0.08, T:0.34
Consensus pattern (51 bp):
AAGGGATACTCCAACCCCGTTTTTATTTCCAAAATACCAATTATTCACCAT
Found at i:91220 original size:72 final size:72
Alignment explanation
Indices: 91101--91244 Score: 209
Period size: 72 Copynumber: 2.0 Consensus size: 72
91091 TGTAAGTAAT
* * * * *
91101 TATAATATACATAATCAGTAGATTTTGCATTCTTTATCTACAAGATTAAATTATTTTTAGGTATT
1 TATAATATACAGAATCAATAGATTTTGCATACTTTATCTACAAGATTAAAATATTATTAGGTATT
91166 TT-TTAA
66 TTATTAA
* *
91172 TATAATATACAGAATCAATGGATTTTTGTATACTTTATCTACAAGATTAAAATATTATTAGGTAT
1 TATAATATACAGAATCAATAGA-TTTTGCATACTTTATCTACAAGATTAAAATATTATTAGGTAT
91237 TTTATTAA
65 TTTATTAA
91245 AATATATTTA
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
71 19 0.30
72 41 0.64
73 4 0.06
ACGTcount: A:0.38, C:0.08, G:0.09, T:0.46
Consensus pattern (72 bp):
TATAATATACAGAATCAATAGATTTTGCATACTTTATCTACAAGATTAAAATATTATTAGGTATT
TTATTAA
Found at i:96804 original size:20 final size:19
Alignment explanation
Indices: 96775--96813 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
96765 AGGTCAAAAC
96775 CCTTAAATGTATCGATACA
1 CCTTAAATGTATCGATACA
96794 CCTTCAAATGTATCGATACA
1 CCTT-AAATGTATCGATACA
96814 TAATGCACAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.36, C:0.23, G:0.10, T:0.31
Consensus pattern (19 bp):
CCTTAAATGTATCGATACA
Found at i:96841 original size:13 final size:13
Alignment explanation
Indices: 96823--96847 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
96813 ATAATGCACA
96823 GTATCGATACATT
1 GTATCGATACATT
96836 GTATCGATACAT
1 GTATCGATACAT
96848 GACCAAATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:96966 original size:13 final size:13
Alignment explanation
Indices: 96948--96972 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
96938 ACACACAAGT
96948 TGTATCGATACAA
1 TGTATCGATACAA
96961 TGTATCGATACA
1 TGTATCGATACA
96973 TCCCAAATTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:96989 original size:33 final size:32
Alignment explanation
Indices: 96929--96992 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
96919 CTTAACTGTT
*
96929 TGTATCGATACACACAAGTTGTATCGATACAA
1 TGTATCGATACACACAAATTGTATCGATACAA
*
96961 TGTATCGATACATCCCAAATTGTATCGATACA
1 TGTATCGATACA-CACAAATTGTATCGATACA
96993 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.30
Consensus pattern (32 bp):
TGTATCGATACACACAAATTGTATCGATACAA
Found at i:105016 original size:24 final size:22
Alignment explanation
Indices: 104967--105012 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
104957 AAAGAAACAT
104967 GAAATTGTTTTATTAAGGGGGA
1 GAAATTGTTTTATTAAGGGGGA
*
104989 GAAATT-TTTTGATTAAGAGGGA
1 GAAATTGTTTT-ATTAAGGGGGA
105011 GA
1 GA
105013 GAAAAGGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.35, C:0.00, G:0.30, T:0.35
Consensus pattern (22 bp):
GAAATTGTTTTATTAAGGGGGA
Found at i:105549 original size:20 final size:19
Alignment explanation
Indices: 105520--105558 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
105510 AGGTCAAAAC
105520 CCTTAAATGTATCGATACA
1 CCTTAAATGTATCGATACA
105539 CCTTCAAATGTATCGATACA
1 CCTT-AAATGTATCGATACA
105559 TAATGCACAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.36, C:0.23, G:0.10, T:0.31
Consensus pattern (19 bp):
CCTTAAATGTATCGATACA
Found at i:105715 original size:32 final size:33
Alignment explanation
Indices: 105674--105735 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
105664 CTTAACTGTT
*
105674 TGTATCGATACA-CACAAGTTGTATCGATATAA
1 TGTATCGATACATCACAAATTGTATCGATATAA
*
105706 TGTATCGATACATCCCAAATTGTATCGATA
1 TGTATCGATACATCACAAATTGTATCGATA
105736 CATTGGCTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 12 0.44
33 15 0.56
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (33 bp):
TGTATCGATACATCACAAATTGTATCGATATAA
Found at i:107711 original size:21 final size:21
Alignment explanation
Indices: 107696--107752 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
107686 TAAAAGTTGT
107696 ATTTTTTCATTCAAAAAATGC
1 ATTTTTTCATTCAAAAAATGC
* *
107717 ATTTTTTCATCCAACAAATGC
1 ATTTTTTCATTCAAAAAATGC
*
107738 ATCATTTT-ATTCAAA
1 AT-TTTTTCATTCAAA
107753 GATACCTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 26 0.87
22 4 0.13
ACGTcount: A:0.37, C:0.18, G:0.04, T:0.42
Consensus pattern (21 bp):
ATTTTTTCATTCAAAAAATGC
Found at i:110009 original size:21 final size:21
Alignment explanation
Indices: 109975--110022 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 21
109965 CTTTTTTTTG
109975 TTTCTTCGCCAAGTTCTCTCTA
1 TTTC-TCGCCAAGTTCTCTCTA
*
109997 TTTCTCGTCAAGTTCTCTCTA
1 TTTCTCGCCAAGTTCTCTCTA
110018 TTTCT
1 TTTCT
110023 TTCTTTTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.12, C:0.29, G:0.08, T:0.50
Consensus pattern (21 bp):
TTTCTCGCCAAGTTCTCTCTA
Found at i:111411 original size:14 final size:14
Alignment explanation
Indices: 111392--111421 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
111382 ATATATTTTA
111392 ACATAAAGGTTCTT
1 ACATAAAGGTTCTT
111406 ACATAAAGGTTCTT
1 ACATAAAGGTTCTT
111420 AC
1 AC
111422 CTAAGTGCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (14 bp):
ACATAAAGGTTCTT
Found at i:116261 original size:20 final size:21
Alignment explanation
Indices: 116219--116264 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
116209 CAAGAGGGGC
*
116219 CATTCTTTTTTTATTGATGTT
1 CATTCTTTTTTTATTGATATT
* *
116240 CATT-TTTTTTTCTTGCTATT
1 CATTCTTTTTTTATTGATATT
116260 CATTC
1 CATTC
116265 CCATTATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.13, C:0.15, G:0.07, T:0.65
Consensus pattern (21 bp):
CATTCTTTTTTTATTGATATT
Found at i:121208 original size:48 final size:48
Alignment explanation
Indices: 121137--121259 Score: 158
Period size: 49 Copynumber: 2.5 Consensus size: 48
121127 TGTTCACTTT
* * *
121137 TCACTATTCATACCTATTCACGTATCA-CTATTTATGTATCCATAAAAA
1 TCACTGTTCATAACTATTCACGTATCACCTATTCATGTATCCAT-AAAA
* *
121185 TCACTGTTCATAACTGTTCACGTATCACTCTATTCATGTATCGATAAAA
1 TCACTGTTCATAACTATTCACGTATCAC-CTATTCATGTATCCATAAAA
* *
121234 TCACTGTTCATCACTATTCATGTATC
1 TCACTGTTCATAACTATTCACGTATC
121260 GATACAGTGT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
48 24 0.37
49 27 0.42
50 14 0.22
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (48 bp):
TCACTGTTCATAACTATTCACGTATCACCTATTCATGTATCCATAAAA
Found at i:121272 original size:13 final size:13
Alignment explanation
Indices: 121254--121278 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
121244 TCACTATTCA
121254 TGTATCGATACAG
1 TGTATCGATACAG
121267 TGTATCGATACA
1 TGTATCGATACA
121279 TTGTGAATAG
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:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:123402 original size:13 final size:13
Alignment explanation
Indices: 123384--123409 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
123374 CAATTTTTTG
123384 TGTATCGATACAT
1 TGTATCGATACAT
123397 TGTATCGATACAT
1 TGTATCGATACAT
123410 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:123421 original size:32 final size:33
Alignment explanation
Indices: 123364--123427 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
123354 TATAAGCCAA
**
123364 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
123397 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
123428 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:125994 original size:13 final size:13
Alignment explanation
Indices: 125976--126013 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
125966 ATAATCCCCC
125976 TGTATCGATACAG
1 TGTATCGATACAG
*
125989 TGTATCGATACAT
1 TGTATCGATACAG
126002 TGTATCGATACA
1 TGTATCGATACA
126014 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:128115 original size:15 final size:15
Alignment explanation
Indices: 128095--128125 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
128085 ATTTCGTTTG
*
128095 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
128110 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
128125 G
1 G
128126 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:132200 original size:13 final size:13
Alignment explanation
Indices: 132182--132207 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
132172 CAATTTTTTG
132182 TGTATCGATACAT
1 TGTATCGATACAT
132195 TGTATCGATACAT
1 TGTATCGATACAT
132208 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:132219 original size:32 final size:33
Alignment explanation
Indices: 132162--132225 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
132152 TACAAGCCAA
**
132162 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
132195 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
132226 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:136186 original size:28 final size:28
Alignment explanation
Indices: 136146--137155 Score: 1466
Period size: 28 Copynumber: 35.5 Consensus size: 28
136136 TGTTCATCTC
136146 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
136174 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
136202 TTCAAAACCCACAAGTCGGTGGTACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
136230 TTCATAGCCCACAAGTCAGTGGCATCAT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
136258 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
136286 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
136314 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
136342 TTCAAAGCCCACAAGTCACTGGCACCCA
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
136370 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
136398 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
136426 TTCAAAGCCTACAAGTCAGTGGCACCCA
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
136454 TTCAATGCCCACGCAAGTCAGTGGCATCCT
1 TTCAAAGCCCA--CAAGTCAGTGGCACCCT
* *
136484 TTCAAATCCCACAAGTCAGTGGCACCCA
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
136512 TTCAATGCCCACGCAAGTCAGTGGCACCCT
1 TTCAAAGCCCA--CAAGTCAGTGGCACCCT
*
136542 TTCAAAGCCCACAAGTCAGTGGCACCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
136570 TTCAAAGCTCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
136598 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
136626 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
136654 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
136682 TTCAAAGCCCACAAGTCAGTGGCACCCA
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
136710 TTCAAAGCCCACGCAAGTCATTGGCACCCT
1 TTCAAAGCCCA--CAAGTCAGTGGCACCCT
*
136740 TTCAAAGCCCACAAGTCAATGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
136768 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
**
136796 TTCAAAGCCCACAAGTCAGTGGCACTTTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
*
136825 TTCAAAGCCCATAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
136853 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
136881 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
136909 TTCAAAGCCCACAAGTCAGTGGCACCCA
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
136937 TTCAAAGCCCATGCAAGTCAGTGGCACCCT
1 TTCAAAGCCCA--CAAGTCAGTGGCACCCT
* *
136967 TTCAAAGCCCACAAGTCAGTGGCATTCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-CCCT
* *
136996 TTCAAAGCCCACAAGTCAGTGGCATCAT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
137024 TTCAGAA-CCCACAAGTCAGTGGCACCCT
1 TTCA-AAGCCCACAAGTCAGTGGCACCCT
* *
137052 TTCAAAGCCCACAAGTCAGTGGCATTCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-CCCT
* * *
137081 TTCAAAGCCCACAA-ACTAGTGGTAACTCTT
1 TTCAAAGCCCACAAGTC-AGTGG-CAC-CCT
* *
137111 TTCAAAGCCCACACGAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACA--AGTCAGTGGC-AC-CCT
137143 TTCAAAGCCCACA
1 TTCAAAGCCCACA
137156 TAAGTTAGTG
Statistics
Matches: 892, Mismatches: 70, Indels: 36
0.89 0.07 0.04
Matches are distributed among these distances:
27 2 0.00
28 671 0.75
29 74 0.08
30 120 0.13
32 24 0.03
33 1 0.00
ACGTcount: A:0.29, C:0.33, G:0.18, T:0.20
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCT
Found at i:137300 original size:45 final size:46
Alignment explanation
Indices: 137236--137358 Score: 149
Period size: 49 Copynumber: 2.6 Consensus size: 46
137226 CTATCTAACA
* *
137236 TCGCTGGCATTGAATCAGCATATTGGCACCTTT-ATTAGCCCAATG
1 TCGCTGGCCTTGAATCAGCACATTGGCACCTTTCATTAGCCCAATG
* *
137281 TCGCTGGCCTTGAATCAGCACATTGGTCCACTTTTCCCTTAGCCCAATG
1 TCGCTGGCCTTGAATCAGCACATTGG--CACCTTT-CATTAGCCCAATG
* **
137330 TCGTTGGCCTTGAATTGGCACATTGGCAC
1 TCGCTGGCCTTGAATCAGCACATTGGCAC
137359 TCCTCTCATC
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
45 24 0.36
47 9 0.13
49 34 0.51
ACGTcount: A:0.20, C:0.28, G:0.21, T:0.31
Consensus pattern (46 bp):
TCGCTGGCCTTGAATCAGCACATTGGCACCTTTCATTAGCCCAATG
Found at i:141079 original size:58 final size:58
Alignment explanation
Indices: 141004--141167 Score: 226
Period size: 58 Copynumber: 2.8 Consensus size: 58
140994 TATAAAATGT
* *
141004 CTAAATAGCCTTAAAATGAT-AGAATTTTCTAAAATGACATTTGATTATGTAAAATAAC
1 CTAAATGGCCTTAAAATGATGA-AATTTTCTAAAATGACATTAGATTATGTAAAATAAC
* *
141062 CTAAATGGTCC-TAAAATGATGAAATTTTCTAAAATGACCTTAGGTTATGTAAAATAAC
1 CTAAATGG-CCTTAAAATGATGAAATTTTCTAAAATGACATTAGATTATGTAAAATAAC
**
141120 CTAAATGGCCTTAAAATGATGAAATCATCTAAAATGATCA-TAGATTAT
1 CTAAATGGCCTTAAAATGATGAAATTTTCTAAAATGA-CATTAGATTAT
141168 AGACAAAAAT
Statistics
Matches: 94, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
57 2 0.02
58 88 0.94
59 4 0.04
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (58 bp):
CTAAATGGCCTTAAAATGATGAAATTTTCTAAAATGACATTAGATTATGTAAAATAAC
Found at i:141193 original size:58 final size:58
Alignment explanation
Indices: 141031--141200 Score: 184
Period size: 58 Copynumber: 2.9 Consensus size: 58
141021 GATAGAATTT
* ** **
141031 TCTAAAATGA-CATTTGATTATGTAAAATAACCTAAATGGTCCTAAAATGATGAAATTT
1 TCTAAAATGACCA-TAGATTATGTAAAATAACCTAAATGACCCTAAAATGATGAAATCA
* * * *
141089 TCTAAAATGACCTTAGGTTATGTAAAATAACCTAAATGGCCTTAAAATGATGAAATCA
1 TCTAAAATGACCATAGATTATGTAAAATAACCTAAATGACCCTAAAATGATGAAATCA
* * *
141147 TCTAAAATGATCATAGATTATAG-ACAAA-AATCTATATGACCCTAAAATGATGAA
1 TCTAAAATGACCATAGATTAT-GTA-AAATAACCTAAATGACCCTAAAATGATGAA
141201 TTTTTTTTAA
Statistics
Matches: 95, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
58 90 0.95
59 5 0.05
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (58 bp):
TCTAAAATGACCATAGATTATGTAAAATAACCTAAATGACCCTAAAATGATGAAATCA
Found at i:141847 original size:20 final size:21
Alignment explanation
Indices: 141810--141868 Score: 84
Period size: 22 Copynumber: 2.7 Consensus size: 21
141800 GAAGAATGCC
141810 TTCTCTTTTCTCTCTTTTTTT-A
1 TTCTCTTTT-T-TCTTTTTTTCA
141832 TTCTCTTTTTTCTTTTTTTCA
1 TTCTCTTTTTTCTTTTTTTCA
141853 TCTCTCTTTTTTCTTT
1 T-TCTCTTTTTTCTTT
141869 CAAATTTGCA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.26
21 3 0.09
22 23 0.66
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.75
Consensus pattern (21 bp):
TTCTCTTTTTTCTTTTTTTCA
Found at i:142587 original size:14 final size:14
Alignment explanation
Indices: 142542--142588 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
142532 AATCGGAAAT
142542 AAAAAGTGCTAA-TA
1 AAAAAGT-CTAATTA
*
142556 AAAAATTCTATATGTA
1 AAAAAGTCTA-AT-TA
142572 AAAAAGTCTAATTA
1 AAAAAGTCTAATTA
142586 AAA
1 AAA
142589 TCATATTAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
13 3 0.11
14 12 0.43
15 2 0.07
16 11 0.39
ACGTcount: A:0.57, C:0.06, G:0.09, T:0.28
Consensus pattern (14 bp):
AAAAAGTCTAATTA
Found at i:142938 original size:25 final size:24
Alignment explanation
Indices: 142910--142993 Score: 69
Period size: 25 Copynumber: 3.2 Consensus size: 24
142900 AATTTATACC
142910 ATTTTTTACTTTCTCAATTAATTTT
1 ATTTTTTA-TTTCTCAATTAATTTT
* * * *
142935 ATTTCGATTATATTTGATCAATTTATATC
1 ATTT---TT-TATTT-CTCAATTAATTTT
142964 ATTTTTTAATTTCTCAATTAATTTT
1 ATTTTTT-ATTTCTCAATTAATTTT
142989 ATTTT
1 ATTTT
142994 AATTATATTT
Statistics
Matches: 45, Mismatches: 8, Indels: 12
0.69 0.12 0.18
Matches are distributed among these distances:
25 19 0.42
26 6 0.13
28 5 0.11
29 15 0.33
ACGTcount: A:0.27, C:0.10, G:0.02, T:0.61
Consensus pattern (24 bp):
ATTTTTTATTTCTCAATTAATTTT
Found at i:142958 original size:54 final size:54
Alignment explanation
Indices: 142899--143003 Score: 174
Period size: 54 Copynumber: 1.9 Consensus size: 54
142889 CAATTTTTAC
* *
142899 CAATTTATACCATTTTTTACTTTCTCAATTAATTTTATTTCGATTATATTTGAT
1 CAATTTATACCATTTTTTAATTTCTCAATTAATTTTATTTCAATTATATTTGAT
* *
142953 CAATTTATATCATTTTTTAATTTCTCAATTAATTTTATTTTAATTATATTT
1 CAATTTATACCATTTTTTAATTTCTCAATTAATTTTATTTCAATTATATTT
143004 TATTCGACTT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.30, C:0.10, G:0.02, T:0.58
Consensus pattern (54 bp):
CAATTTATACCATTTTTTAATTTCTCAATTAATTTTATTTCAATTATATTTGAT
Found at i:146221 original size:139 final size:139
Alignment explanation
Indices: 145971--146246 Score: 543
Period size: 139 Copynumber: 2.0 Consensus size: 139
145961 CAGTAAAATC
145971 GGTGTAAACCAATCAGTTTAATCCAACTGTGCATTTGGTCAATTCAAGTAGAGAAGCAAATAAGC
1 GGTGTAAACCAATCAGTTTAATCCAACTGTGCATTTGGTCAATTCAAGTAGAGAAGCAAATAAGC
146036 AAGAGCAAGACATATGGGTTTTGTTTAACATGCCTTTGACATCTAACTCATCTAAAATAGCAACA
66 AAGAGCAAGACATATGGGTTTTGTTTAACATGCCTTTGACATCTAACTCATCTAAAATAGCAACA
146101 AGTACTACT
131 AGTACTACT
146110 GGTGTAAACCAATCAGTTTAATCCAACTGTGCATTTGGTCAATTCAAGTAGAGAAGCAAATAAGC
1 GGTGTAAACCAATCAGTTTAATCCAACTGTGCATTTGGTCAATTCAAGTAGAGAAGCAAATAAGC
*
146175 AAGAGCAAGACATATGGGTTTTGTTTAACATGCCTTTGACATCTAACTTATCTAAAATAGCAACA
66 AAGAGCAAGACATATGGGTTTTGTTTAACATGCCTTTGACATCTAACTCATCTAAAATAGCAACA
146240 AGTACTA
131 AGTACTA
146247 TGCATCAGCT
Statistics
Matches: 136, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
139 136 1.00
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.28
Consensus pattern (139 bp):
GGTGTAAACCAATCAGTTTAATCCAACTGTGCATTTGGTCAATTCAAGTAGAGAAGCAAATAAGC
AAGAGCAAGACATATGGGTTTTGTTTAACATGCCTTTGACATCTAACTCATCTAAAATAGCAACA
AGTACTACT
Found at i:150295 original size:17 final size:17
Alignment explanation
Indices: 150270--150370 Score: 52
Period size: 17 Copynumber: 5.7 Consensus size: 17
150260 AAATATAAAT
*
150270 TATATAATTATAATATA
1 TATAAAATTATAATATA
150287 TATAAAATTA-AA-ATA
1 TATAAAATTATAATATA
150302 TGATAAGATATAATATAAATATA
1 T-ATAA-A-AT--TAT-AATATA
*
150325 TATTTAAAAATT-TTATA-A
1 TA--T-AAAATTATAATATA
150343 TAT-AAATTATTAATATA
1 TATAAAATTA-TAATATA
150360 T-TAAAATTATA
1 TATAAAATTATA
150371 TAAAATATTT
Statistics
Matches: 66, Mismatches: 3, Indels: 31
0.66 0.03 0.31
Matches are distributed among these distances:
14 5 0.08
15 4 0.06
16 14 0.21
17 18 0.27
18 5 0.08
19 3 0.05
20 3 0.05
21 1 0.02
22 3 0.05
23 6 0.09
24 2 0.03
25 2 0.03
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (17 bp):
TATAAAATTATAATATA
Found at i:150302 original size:15 final size:16
Alignment explanation
Indices: 150263--150326 Score: 51
Period size: 17 Copynumber: 3.8 Consensus size: 16
150253 TAATTTTAAA
*
150263 TATAAAT-TATATAAT
1 TATAAATATATAAAAT
150278 TATAATATATATAAAAT
1 TATAA-ATATATAAAAT
150295 TA-AAATATGATAAGATAT
1 TATAAATAT-ATAA-A-AT
150313 AATATAAATATATA
1 --TATAAATATATA
150327 TTTAAAAATT
Statistics
Matches: 40, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
15 9 0.22
16 8 0.20
17 10 0.25
18 2 0.05
20 5 0.12
21 6 0.15
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (16 bp):
TATAAATATATAAAAT
Found at i:150314 original size:38 final size:38
Alignment explanation
Indices: 150271--150368 Score: 100
Period size: 35 Copynumber: 2.7 Consensus size: 38
150261 AATATAAATT
150271 ATATAATTATAATATATATAAAATTAAAATATGATAAG
1 ATATAATTATAATATATATAAAATTAAAATATGATAAG
* * * *
150309 ATATAA-TATAA-ATATAT--ATTTAAAAATTTTATAAT
1 ATATAATTATAATATATATAAAATT-AAAATATGATAAG
150344 ATA-AATTATTAATATAT-TAAAATTA
1 ATATAATTA-TAATATATATAAAATTA
150369 TATAAAATAT
Statistics
Matches: 49, Mismatches: 5, Indels: 13
0.73 0.07 0.19
Matches are distributed among these distances:
34 5 0.10
35 15 0.31
36 10 0.20
37 10 0.20
38 9 0.18
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (38 bp):
ATATAATTATAATATATATAAAATTAAAATATGATAAG
Found at i:150376 original size:41 final size:39
Alignment explanation
Indices: 150309--150413 Score: 102
Period size: 46 Copynumber: 2.5 Consensus size: 39
150299 ATATGATAAG
*
150309 ATATAATATAAATATATATTTAAAAATTTTATAATATAAATTATTA
1 ATATAATA-AAATATATA---AAATATTTTA-AATAT-AATT-TTA
* *
150355 ATATATTAAAATTATATAAAATATTTTAAATATGATTTTA
1 ATATAATAAAA-TATATAAAATATTTTAAATATAATTTTA
*
150395 ATGTAATAAAATATATAAA
1 ATATAATAAAATATATAAA
150414 TATAATATAA
Statistics
Matches: 53, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
39 8 0.15
40 12 0.23
41 3 0.06
42 5 0.09
43 9 0.17
45 3 0.06
46 13 0.25
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (39 bp):
ATATAATAAAATATATAAAATATTTTAAATATAATTTTA
Found at i:150405 original size:40 final size:41
Alignment explanation
Indices: 150254--150413 Score: 108
Period size: 40 Copynumber: 4.0 Consensus size: 41
150244 TACACATGAT
*
150254 AATTTTA-AATATAAATTATATAAT-T-ATAATATATAT-AA
1 AATTTTATAATATAAATTAT-TAATATAATAAAATATATAAA
* * * *
150292 AA--TTAAAATATGATAA-GATATAATATAA-ATATATATTTAAA
1 AATTTTATAATAT-A-AATTAT-TAATATAATA-AAATATATAAA
*
150333 AATTTTATAATATAAATTATTAATATATTAAAATTATATAAA
1 AATTTTATAATATAAATTATTAATATAATAAAA-TATATAAA
* *
150375 ATATTTTA-AATAT-GATT-TTAATGTAATAAAATATATAAA
1 A-ATTTTATAATATAAATTATTAATATAATAAAATATATAAA
150414 TATAATATAA
Statistics
Matches: 99, Mismatches: 10, Indels: 25
0.74 0.07 0.19
Matches are distributed among these distances:
36 3 0.03
37 5 0.05
38 10 0.10
39 12 0.12
40 20 0.20
41 18 0.18
42 17 0.17
43 14 0.14
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (41 bp):
AATTTTATAATATAAATTATTAATATAATAAAATATATAAA
Found at i:150425 original size:40 final size:38
Alignment explanation
Indices: 150338--150426 Score: 94
Period size: 40 Copynumber: 2.3 Consensus size: 38
150328 TTAAAAATTT
*
150338 TATAATATAAAT-TATTAATATATTAAAATTATATAAA
1 TATAATATAAATATATTAATATAATAAAATTATATAAA
* * *
150375 -ATATTTTAAATATGATTTTAATGTAATAAAA-TATATAAA
1 TATAATATAAATAT-A--TTAATATAATAAAATTATATAAA
150414 TATAATATAAATA
1 TATAATATAAATA
150427 CATGAATCAA
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
36 9 0.22
37 1 0.02
38 1 0.02
39 8 0.20
40 22 0.54
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (38 bp):
TATAATATAAATATATTAATATAATAAAATTATATAAA
Found at i:153325 original size:16 final size:16
Alignment explanation
Indices: 153306--153337 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
153296 GTTTTTACAT
*
153306 TTTTAGATTATTTTAA
1 TTTTAAATTATTTTAA
153322 TTTTAAATTATTTTAA
1 TTTTAAATTATTTTAA
153338 ATTTGTTTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (16 bp):
TTTTAAATTATTTTAA
Found at i:153984 original size:22 final size:22
Alignment explanation
Indices: 153957--154014 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
153947 TGTGTTAGGT
153957 GGTATGTTAGGTAAACATATTA
1 GGTATGTTAGGTAAACATATTA
* * **
153979 GGTATGTTAAGTGAGTATATTA
1 GGTATGTTAGGTAAACATATTA
* *
154001 TGTGTGTTAGGTAA
1 GGTATGTTAGGTAA
154015 TGTGTTAGGT
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.28, T:0.40
Consensus pattern (22 bp):
GGTATGTTAGGTAAACATATTA
Found at i:154387 original size:3 final size:3
Alignment explanation
Indices: 154381--154448 Score: 109
Period size: 3 Copynumber: 22.7 Consensus size: 3
154371 TATTGTTTAA
* *
154381 AAT AAT AAT AAT AAT AAT AAT AAT AAG AAT AAT AAT GAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
154429 AAG AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AA
154449 AACTCAACTA
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:160259 original size:13 final size:13
Alignment explanation
Indices: 160241--160290 Score: 91
Period size: 13 Copynumber: 3.8 Consensus size: 13
160231 ATAGTAACCC
160241 ATGTATCGATACA
1 ATGTATCGATACA
160254 ATGTATCGATACA
1 ATGTATCGATACA
160267 ATGTATCGATACA
1 ATGTATCGATACA
*
160280 TTGTATCGATA
1 ATGTATCGATA
160291 TAAGGAATGT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:162515 original size:34 final size:34
Alignment explanation
Indices: 162472--162541 Score: 113
Period size: 34 Copynumber: 2.1 Consensus size: 34
162462 TTGTCAACAA
*
162472 AAGATACCTTATTTTCAGAGGAGTTAGAATCACT
1 AAGATACCTTACTTTCAGAGGAGTTAGAATCACT
* *
162506 AAGATACCTTCCTTTCGGAGGAGTTAGAATCACT
1 AAGATACCTTACTTTCAGAGGAGTTAGAATCACT
162540 AA
1 AA
162542 AAACAACATG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (34 bp):
AAGATACCTTACTTTCAGAGGAGTTAGAATCACT
Found at i:166570 original size:20 final size:20
Alignment explanation
Indices: 166545--166582 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
166535 TACTGCCAAT
166545 TTCATGTATCGATACAATTG
1 TTCATGTATCGATACAATTG
166565 TTCATGTATCGATACAAT
1 TTCATGTATCGATACAAT
166583 GAATATGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (20 bp):
TTCATGTATCGATACAATTG
Found at i:166612 original size:20 final size:19
Alignment explanation
Indices: 166568--166619 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
166558 ACAATTGTTC
*
166568 ATGTATCGATACAATGAAT
1 ATGTATCGATACAAAGAAT
* *
166587 ATGTATTGATACAAAGCAT
1 ATGTATCGATACAAAGAAT
166606 AATGTATCGATACA
1 -ATGTATCGATACA
166620 TCTGGGTGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (19 bp):
ATGTATCGATACAAAGAAT
Found at i:171106 original size:43 final size:42
Alignment explanation
Indices: 171020--171106 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 42
171010 AAGCAACAAA
171020 CAAAAGCAACCAACAACAATTGATGGTGGAAGAAGACAACAG
1 CAAAAGCAACCAACAACAATTGATGGTGGAAGAAGACAACAG
** * *
171062 CAAACAGCAACCAACAGTAGTTGATGGTGGAAGAAGACAGCAG
1 CAAA-AGCAACCAACAACAATTGATGGTGGAAGAAGACAACAG
171105 CA
1 CA
171107 TCACACAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
42 4 0.10
43 36 0.90
ACGTcount: A:0.46, C:0.20, G:0.24, T:0.10
Consensus pattern (42 bp):
CAAAAGCAACCAACAACAATTGATGGTGGAAGAAGACAACAG
Found at i:172404 original size:14 final size:14
Alignment explanation
Indices: 172385--172411 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
172375 ACCAAGATAA
172385 ATTTTAAATCTTTC
1 ATTTTAAATCTTTC
172399 ATTTTAAATCTTT
1 ATTTTAAATCTTT
172412 TATATTCTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.11, G:0.00, T:0.59
Consensus pattern (14 bp):
ATTTTAAATCTTTC
Found at i:173301 original size:156 final size:155
Alignment explanation
Indices: 172715--173395 Score: 676
Period size: 156 Copynumber: 4.4 Consensus size: 155
172705 CTAGGGTAGA
* *
172715 ATCTCCATTTCTAATCTTTTT-A-TATCTTTTAAGGTTATCGGGATACTTTTACGTCGAAGGTAT
1 ATCT-CATTTCTAATCTTTTTAAGT-TC-TTTAGGGTTACCGGGATACTTTTACGTCGAAGGTAT
* * * ** * * * * ** * * **
172778 ACTCTTAGGGATATTTTCATAATTTTTTAAAATCAAGTCTTAGGTCATCACCGGGTTCGTTTTTA
63 ACTCTAAAGG-CATTTTCATAATTTCCTAGAACCGAGTCCTAGGTTGTCACCAGGTCCACTTTTA
* * * *
172843 TGCCGAAGGTGAGTATTTAGGATAGGTTC
127 TGCCAAAGGTGGGCATTTAGGATAAGTTC
* * * ** * * * *
172872 ACCACTTTTCTAGCCTTTTTAA-TTCCTTTAGGGGTACC-GGATACTTGTACATCGAAGGTATCC
1 ATCTCATTTCTAATCTTTTTAAGTT-CTTTAGGGTTACCGGGATACTTTTACGTCGAAGGTATAC
* **
172935 TCTAAAGGCATTTTCGTAATTTCCTAGAACCGAGTCCTAGGTTGTCACCAGGTTTGA-TTTTATG
65 TCTAAAGGCATTTTCATAATTTCCTAGAACCGAGTCCTAGGTTGTCACCAGG-TCCACTTTTATG
*
172999 CCAAAGGTGGGCATTTAGGATAGGTTC
129 CCAAAGGTGGGCATTTAGGATAAGTTC
* * * * * *
173026 ATC-CTATTTCTATATCCTTTTTAAGTCCTTTAAGGTTACTGAGATACTTTCACGTCGAAGATAT
1 ATCTC-ATTTCTA-AT-CTTTTTAAGTTCTTTAGGGTTACCGGGATACTTTTACGTCGAAGGTAT
* * * ** * *
173090 ACCCATAAGGGTATTTTCATAATTTTTTAAAACCGAGTCCTAGGTTGTCATCAGGTCCACTTTTA
63 ACTC-TAAAGGCATTTTCATAATTTCCTAGAACCGAGTCCTAGGTTGTCACCAGGTCCACTTTTA
*
173155 TGCCAAAGGTGGGCATCTAGGATAAGTTC
127 TGCCAAAGGTGGGCATTTAGGATAAGTTC
*
173184 ATCTCATTTCTAATCTTTTTAAGTTCTTTAGGGTTGCCGGGATACTTTTACGTCGAAGGTATACT
1 ATCTCATTTCTAATCTTTTTAAGTTCTTTAGGGTTACCGGGATACTTTTACGTCGAAGGTATACT
* ** *
173249 CGTAAAGGCATTTTCATAATTTCCTAGAACTGAGTCCTAGGTTGTCACCAGGTCTGCTTTCATG-
66 C-TAAAGGCATTTTCATAATTTCCTAGAACCGAGTCCTAGGTTGTCACCAGGTCCACTTTTATGC
173313 CAGAAGGTGGGCATTTAGGAT-AGATTC
130 CA-AAGGTGGGCATTTAGGATAAG-TTC
* ** *
173340 ATCTCATTTCTAATCTTTTTAAGTCCTTTAGGGTTGTCGAGATACTTTTACGTCGA
1 ATCTCATTTCTAATCTTTTTAAGTTCTTTAGGGTTACCGGGATACTTTTACGTCGA
173396 GTCCTAGGTT
Statistics
Matches: 433, Mismatches: 78, Indels: 27
0.80 0.14 0.05
Matches are distributed among these distances:
153 1 0.00
154 72 0.17
155 34 0.08
156 210 0.48
157 30 0.07
158 85 0.20
159 1 0.00
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (155 bp):
ATCTCATTTCTAATCTTTTTAAGTTCTTTAGGGTTACCGGGATACTTTTACGTCGAAGGTATACT
CTAAAGGCATTTTCATAATTTCCTAGAACCGAGTCCTAGGTTGTCACCAGGTCCACTTTTATGCC
AAAGGTGGGCATTTAGGATAAGTTC
Found at i:173360 original size:312 final size:310
Alignment explanation
Indices: 172715--173395 Score: 870
Period size: 312 Copynumber: 2.2 Consensus size: 310
172705 CTAGGGTAGA
* * *
172715 ATCTCCATTTCTAATCTTTTTATA-TCTTTTAAGGTTATCGGGATACTTTTACGTCGAAGGTATA
1 ATCT-CATTTCTAATCTTTTTA-AGTCCTTTAAGGTTATCGAGATACTTTTACGTCGAAGATATA
* * * * * * **
172779 CTCTTAGGGATATTTTCATAATTTTTTAAAATCAAGTCTTAGGTCATCACCGGGTTCGTTTTTAT
64 CCCTAAGGGATATTTTCATAATTTTTTAAAACCAAGTCCTAGGTCATCACCAGGTCCACTTTTAT
* * * * * *
172844 GCCGAAGGTGAGTATTTAGGATAGGTTCACCACTTTTCTAGCCTTTTTAATTCCTTTAGGGGTAC
129 GCCAAAGGTGAGCATCTAGGATAAGTTCACCACATTTCTAACCTTTTTAATTCCTTTAGGGGTAC
* *
172909 CGGATACTTGTACATCGAAGGTATCCTCTAAAGGCATTTTCGTAATTTCCTAGAACCGAGTCCTA
194 CGGATACTTGTACATCGAAGGTATACTCTAAAGGCATTTTCATAATTTCCTAGAACCGAGTCCTA
* * *
172974 GGTTGTCACCAGGTTTGATTTTATGCCAAAGGTGGGCATTTAGGATAGGTTC
259 GGTTGTCACCAGGTCTGATTTCATGCCAAAGGTGGGCATTTAGGATAGATTC
*
173026 ATC-CTATTTCTATATCCTTTTTAAGTCCTTTAAGGTTA-CTGAGATACTTTCACGTCGAAGATA
1 ATCTC-ATTTCTA-AT-CTTTTTAAGTCCTTTAAGGTTATC-GAGATACTTTTACGTCGAAGATA
* ** *
173089 TACCCATAAGGG-TATTTTCATAATTTTTTAAAACCGAGTCCTAGGTTGTCATCAGGTCCACTTT
62 TACCC-TAAGGGATATTTTCATAATTTTTTAAAACCAAGTCCTAGGTCATCACCAGGTCCACTTT
* * * *
173153 TATGCCAAAGGTGGGCATCTAGGATAAGTTCATCTCATTTCTAATCTTTTTAAGTT-CTTTAGGG
126 TATGCCAAAGGTGAGCATCTAGGATAAGTTCACCACATTTCTAACCTTTTTAA-TTCCTTTAGGG
* * * * *
173217 TTGCCGGGATACTTTTACGTCGAAGGTATACTCGTAAAGGCATTTTCATAATTTCCTAGAACTGA
190 GTACC-GGATACTTGTACATCGAAGGTATACTC-TAAAGGCATTTTCATAATTTCCTAGAACCGA
*
173282 GTCCTAGGTTGTCACCAGGTCTGCTTTCATG-CAGAAGGTGGGCATTTAGGATAGATTC
253 GTCCTAGGTTGTCACCAGGTCTGATTTCATGCCA-AAGGTGGGCATTTAGGATAGATTC
* *
173340 ATCTCATTTCTAATCTTTTTAAGTCCTTTAGGGTTGTCGAGATACTTTTACGTCGA
1 ATCTCATTTCTAATCTTTTTAAGTCCTTTAAGGTTATCGAGATACTTTTACGTCGA
173396 GTCCTAGGTT
Statistics
Matches: 318, Mismatches: 40, Indels: 23
0.83 0.10 0.06
Matches are distributed among these distances:
309 1 0.00
310 7 0.02
311 7 0.02
312 176 0.55
313 36 0.11
314 90 0.28
315 1 0.00
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (310 bp):
ATCTCATTTCTAATCTTTTTAAGTCCTTTAAGGTTATCGAGATACTTTTACGTCGAAGATATACC
CTAAGGGATATTTTCATAATTTTTTAAAACCAAGTCCTAGGTCATCACCAGGTCCACTTTTATGC
CAAAGGTGAGCATCTAGGATAAGTTCACCACATTTCTAACCTTTTTAATTCCTTTAGGGGTACCG
GATACTTGTACATCGAAGGTATACTCTAAAGGCATTTTCATAATTTCCTAGAACCGAGTCCTAGG
TTGTCACCAGGTCTGATTTCATGCCAAAGGTGGGCATTTAGGATAGATTC
Found at i:178065 original size:21 final size:20
Alignment explanation
Indices: 178039--178092 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
178029 ATCATTGCCT
*
178039 ATGTATCGATACAATG-CCTA
1 ATGTATCGATACAATGATC-A
*
178059 GATGTATCAATACAATGATCA
1 -ATGTATCGATACAATGATCA
178080 ATGTATCGATACA
1 ATGTATCGATACA
178093 TTTGGTAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 12 0.41
21 16 0.55
22 1 0.03
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACAATGATCA
Found at i:178165 original size:20 final size:20
Alignment explanation
Indices: 178112--178167 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
178102 AAAAATCCAG
* *
178112 ATGTATCGATACAATGATAA
1 ATGTATCGATACATTTATAA
178132 ATGTATCGATACATTTATTAA
1 ATGTATCGATACATTTA-TAA
178153 A-GTATCGATACATTT
1 ATGTATCGATACATTT
178168 CCTTAGTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
20 29 0.88
21 4 0.12
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTTATAA
Found at i:179033 original size:61 final size:61
Alignment explanation
Indices: 178938--179074 Score: 177
Period size: 61 Copynumber: 2.2 Consensus size: 61
178928 AAAGATGATG
* * * * * *
178938 AAGATAAGAAGAGTGATAAAGATGCCAATATGCTGATTTAAGACCAGCGATATTGGGCTTA
1 AAGATGAGAAGAATGATAAAGATACCAACATGCTGATTCAAGACCAGCGATATTAGGCTTA
* *
178999 AAGATGAGAAGAATGATAAA-AGTACCAACATGCTGATTCAAGGCCATCGATATTAGGCTTA
1 AAGATGAGAAGAATGATAAAGA-TACCAACATGCTGATTCAAGACCAGCGATATTAGGCTTA
*
179060 AAGATGCGAAGAATG
1 AAGATGAGAAGAATG
179075 TCAACGTGCT
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
60 1 0.02
61 65 0.98
ACGTcount: A:0.41, C:0.12, G:0.24, T:0.23
Consensus pattern (61 bp):
AAGATGAGAAGAATGATAAAGATACCAACATGCTGATTCAAGACCAGCGATATTAGGCTTA
Found at i:179324 original size:52 final size:51
Alignment explanation
Indices: 179156--179551 Score: 326
Period size: 52 Copynumber: 7.8 Consensus size: 51
179146 CCAACGACAT
* * * * * * *
179156 TGCCAATATGCTGATTCAAGGCCAGTGATATCGAACTTAAAGATG--AAGG
1 TGCCAATGTGTTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAAGA
* *
179205 TGCCAATGTGTTGATTCAAGGCCAGCAACATTGGACTTAAAGAT-AAATG-
1 TGCCAATGTGTTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAAGA
* * * * * *
179254 TGCTAATGTGCTGATTCAAGGCTACCGACATTAGACTTAAGGATGAAAAGAA
1 TGCCAATGTGTTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAAG-A
* * * * *
179306 TGCCAATGTGTTGATTCAAGGCTAGCAACATTGGGCTTGAAGATGAGAAGAA
1 TGCCAATGTGTTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAAG-A
* * * * **
179358 TGCCAATGTGCTGATTTAAGGCCAACGACATTGGGCTTAGAA-ATTTTAAAGA
1 TGCCAATGTGTTGATTCAAGGCCAGCGACATTGGACTTA-AAGA-TGAAAAGA
* * * *
179410 TGCCAATATGCTT-ATTC-AGGACCAGTGATATTGGACTTAAAGATG-AATG-
1 TGCCAATGTG-TTGATTCAAGG-CCAGCGACATTGGACTTAAAGATGAAAAGA
* * * * *
179459 TGCTAATGTGCTGATTCAAGGCTAGCGGCATTGGACTTAAAGATGAGAAGAA
1 TGCCAATGTGTTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAAG-A
* *
179511 TGCCAATGTATTGATTCAA-GCCAGCGACATTAGACTTAAAG
1 TGCCAATGTGTTGATTCAAGGCCAGCGACATTGGACTTAAAG
179552 GTGCCAATAT
Statistics
Matches: 274, Mismatches: 58, Indels: 28
0.76 0.16 0.08
Matches are distributed among these distances:
48 1 0.00
49 106 0.39
50 14 0.05
51 25 0.09
52 121 0.44
53 7 0.03
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (51 bp):
TGCCAATGTGTTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAAGA
Found at i:179625 original size:39 final size:39
Alignment explanation
Indices: 179552--179629 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 39
179542 AGACTTAAAG
** *
179552 GTGCCAATATGCTGATTCAAGGCCCGCGATATTGGGCTT
1 GTGCCAATATGCTGATTCAAGGCCAACGACATTGGGCTT
* * *
179591 GTGCCAATGTGCTGATTCAAGGCTAATGACATTGGGCTT
1 GTGCCAATATGCTGATTCAAGGCCAACGACATTGGGCTT
179630 AAAAGGGTTG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (39 bp):
GTGCCAATATGCTGATTCAAGGCCAACGACATTGGGCTT
Found at i:179708 original size:29 final size:29
Alignment explanation
Indices: 179623--179803 Score: 158
Period size: 29 Copynumber: 6.3 Consensus size: 29
179613 CTAATGACAT
179623 TGGGC-TT-AAAAGGGTTGCCATCGACTTG
1 TGGGCTTTGAAAAGGG-TGCCATCGACTTG
* ** * *
179651 TGTGAG-TTTTAGCAGGGTGCCACCTACTTG
1 TG-G-GCTTTGAAAAGGGTGCCATCGACTTG
*
179681 TGGGTTTTGAAAAGGGTGCCATCGACTTG
1 TGGGCTTTGAAAAGGGTGCCATCGACTTG
179710 TGGGCTTTGAAAAGGGTGCCA-CTGACTTG
1 TGGGCTTTGAAAAGGGTGCCATC-GACTTG
* *
179739 TGGGCTTT-AGAACGGTGCCA-CTGACTTG
1 TGGGCTTTGAAAAGGGTGCCATC-GACTTG
* * * *
179767 TGGGCTTCGAAGAGGGTGCCATAGAGTTG
1 TGGGCTTTGAAAAGGGTGCCATCGACTTG
*
179796 TGGACTTT
1 TGGGCTTT
179804 TGGAAAGAAA
Statistics
Matches: 125, Mismatches: 20, Indels: 15
0.78 0.12 0.09
Matches are distributed among these distances:
28 29 0.23
29 75 0.60
30 16 0.13
31 5 0.04
ACGTcount: A:0.19, C:0.17, G:0.34, T:0.30
Consensus pattern (29 bp):
TGGGCTTTGAAAAGGGTGCCATCGACTTG
Found at i:179764 original size:28 final size:29
Alignment explanation
Indices: 179664--179787 Score: 164
Period size: 29 Copynumber: 4.3 Consensus size: 29
179654 GAGTTTTAGC
*
179664 AGGGTGCCACCT-ACTTGTGGGTTTTGAAA
1 AGGGTGCCA-CTGACTTGTGGGCTTTGAAA
179693 AGGGTGCCA-TCGACTTGTGGGCTTTGAAA
1 AGGGTGCCACT-GACTTGTGGGCTTTGAAA
*
179722 AGGGTGCCACTGACTTGTGGGCTTT-AGA
1 AGGGTGCCACTGACTTGTGGGCTTTGAAA
* * *
179750 ACGGTGCCACTGACTTGTGGGCTTCGAAG
1 AGGGTGCCACTGACTTGTGGGCTTTGAAA
179779 AGGGTGCCA
1 AGGGTGCCA
179788 TAGAGTTGTG
Statistics
Matches: 84, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
27 1 0.01
28 25 0.30
29 57 0.68
30 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.35, T:0.27
Consensus pattern (29 bp):
AGGGTGCCACTGACTTGTGGGCTTTGAAA
Found at i:179766 original size:86 final size:88
Alignment explanation
Indices: 179623--179803 Score: 212
Period size: 86 Copynumber: 2.1 Consensus size: 88
179613 CTAATGACAT
* * * *
179623 TGGGC-TTAAAAGGGTTGCCATCGACTTGTGTGAGTTTTAGCAGGGTGCCACCTACTTGTGGGTT
1 TGGGCTTTAAAAGGGTTGCCATCGACTTGTGTGAGCTTTAGAACGGTGCCACCTACTTGTGGGCT
* *
179687 TTGAAAAGGGTGCCATCGACTTG
66 TCGAAAAGGGTGCCATAGACTTG
179710 TGGGCTTTGAAAAGGG-TGCCA-CTGACTTGTG-G-GCTTTAGAACGGTGCCA-CTGACTTGTGG
1 TGGGCTTT-AAAAGGGTTGCCATC-GACTTGTGTGAGCTTTAGAACGGTGCCACCT-ACTTGTGG
* *
179770 GCTTCGAAGAGGGTGCCATAGAGTTG
63 GCTTCGAAAAGGGTGCCATAGACTTG
*
179796 TGGACTTT
1 TGGGCTTT
179804 TGGAAAGAAA
Statistics
Matches: 81, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
85 2 0.02
86 50 0.62
87 7 0.09
88 15 0.19
89 7 0.09
ACGTcount: A:0.19, C:0.17, G:0.34, T:0.30
Consensus pattern (88 bp):
TGGGCTTTAAAAGGGTTGCCATCGACTTGTGTGAGCTTTAGAACGGTGCCACCTACTTGTGGGCT
TCGAAAAGGGTGCCATAGACTTG
Found at i:179772 original size:57 final size:58
Alignment explanation
Indices: 179664--179787 Score: 164
Period size: 57 Copynumber: 2.2 Consensus size: 58
179654 GAGTTTTAGC
* * *
179664 AGGGTGCCACCTACTTGTGGGTTTTGAAAAGGGTGCCATCGACTTGTGGGCTTTGAAA
1 AGGGTGCCACCTACTTGTGGGCTTTGAAAACGGTGCCATCGACTTGTGGGCTTCGAAA
* *
179722 AGGGTGCCA-CTGACTTGTGGGCTTT-AGAACGGTGCCA-CTGACTTGTGGGCTTCGAAG
1 AGGGTGCCACCT-ACTTGTGGGCTTTGAAAACGGTGCCATC-GACTTGTGGGCTTCGAAA
179779 AGGGTGCCA
1 AGGGTGCCA
179788 TAGAGTTGTG
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
56 1 0.02
57 37 0.63
58 21 0.36
ACGTcount: A:0.19, C:0.19, G:0.35, T:0.27
Consensus pattern (58 bp):
AGGGTGCCACCTACTTGTGGGCTTTGAAAACGGTGCCATCGACTTGTGGGCTTCGAAA
Found at i:179797 original size:57 final size:57
Alignment explanation
Indices: 179664--179803 Score: 151
Period size: 57 Copynumber: 2.4 Consensus size: 57
179654 GAGTTTTAGC
** * * *
179664 AGGGTGCCACCT-ACTTGTGGGTTTTGAAAAGGGTGCCATCGACTTGTGGGCTTTGAAA
1 AGGGTGCCA-CTGACTTGTGGACTTT-AGAACGGTGCCATCGACTTGTGGGCTTCGAAA
* *
179722 AGGGTGCCACTGACTTGTGGGCTTTAGAACGGTGCCA-CTGACTTGTGGGCTTCGAAG
1 AGGGTGCCACTGACTTGTGGACTTTAGAACGGTGCCATC-GACTTGTGGGCTTCGAAA
*
179779 AGGGTGCCA-TAGAGTTGTGGACTTT
1 AGGGTGCCACT-GACTTGTGGACTTT
179804 TGGAAAGAAA
Statistics
Matches: 72, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
56 2 0.03
57 49 0.68
58 21 0.29
ACGTcount: A:0.19, C:0.18, G:0.34, T:0.29
Consensus pattern (57 bp):
AGGGTGCCACTGACTTGTGGACTTTAGAACGGTGCCATCGACTTGTGGGCTTCGAAA
Found at i:179941 original size:62 final size:62
Alignment explanation
Indices: 179779--179941 Score: 227
Period size: 62 Copynumber: 2.6 Consensus size: 62
179769 GGCTTCGAAG
** * * * *
179779 AGGGTGCCATAGAGTTGTGGACTTTTGGAAAGAAAAAGATGCCATGGAGTTGTGGACTTAAA
1 AGGGTGCCACGGAGTTGTGGGCTTTTGGAAAGAAAAAGGTGCCACGGAGATGTGGACTTAAA
* * * *
179841 AGGTTGCCACGAAGTTGTGGGCTTTTAGAAAGAAAAAGGTGTCACGGAGATGTGGACTTAAA
1 AGGGTGCCACGGAGTTGTGGGCTTTTGGAAAGAAAAAGGTGCCACGGAGATGTGGACTTAAA
*
179903 AGGGTGTCACGGAGTTGTGGGCTTTTGGAAAGAAAAAGG
1 AGGGTGCCACGGAGTTGTGGGCTTTTGGAAAGAAAAAGG
179942 AGCGTCTAAT
Statistics
Matches: 87, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
62 87 1.00
ACGTcount: A:0.31, C:0.10, G:0.34, T:0.25
Consensus pattern (62 bp):
AGGGTGCCACGGAGTTGTGGGCTTTTGGAAAGAAAAAGGTGCCACGGAGATGTGGACTTAAA
Found at i:181408 original size:9 final size:10
Alignment explanation
Indices: 181361--181407 Score: 69
Period size: 10 Copynumber: 4.6 Consensus size: 10
181351 ATCCGGACCC
181361 TTTTTGTTGT-
1 TTTTT-TTGTA
181371 TTTTTTTGGTA
1 TTTTTTT-GTA
181382 TTTTTTTGTA
1 TTTTTTTGTA
181392 TTTTTTTGTA
1 TTTTTTTGTA
181402 TTTTTT
1 TTTTTT
181408 GCAGAGAACA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
9 2 0.06
10 26 0.74
11 7 0.20
ACGTcount: A:0.06, C:0.00, G:0.13, T:0.81
Consensus pattern (10 bp):
TTTTTTTGTA
Found at i:195090 original size:51 final size:51
Alignment explanation
Indices: 195035--195165 Score: 142
Period size: 51 Copynumber: 2.6 Consensus size: 51
195025 ACCTGCATGC
* * ** *
195035 ATCGATACATTGAATAATGTATTGATACATCTGGGT-AAAATGCCCAGTTGT
1 ATCGATACAATGAATAATGTATCGATACAT-TGGGTAAAAAAACCCAGATGT
* *
195086 ATCGATA-AAT-AATCAATGTATCGATACATTTGGTAAAAAAAATCCAGATGT
1 ATCGATACAATGAAT-AATGTATCGATACATTGGGT-AAAAAAACCCAGATGT
*
195137 ATCGATACAATGATTAATGTATCGATACA
1 ATCGATACAATGAATAATGTATCGATACA
195166 ATGTATCGAT
Statistics
Matches: 67, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
49 7 0.10
50 16 0.24
51 25 0.37
52 17 0.25
53 2 0.03
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (51 bp):
ATCGATACAATGAATAATGTATCGATACATTGGGTAAAAAAACCCAGATGT
Found at i:195170 original size:13 final size:13
Alignment explanation
Indices: 195152--195178 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
195142 TACAATGATT
195152 AATGTATCGATAC
1 AATGTATCGATAC
195165 AATGTATCGATAC
1 AATGTATCGATAC
195178 A
1 A
195179 TTTATTAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:195175 original size:33 final size:33
Alignment explanation
Indices: 195133--195198 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
195123 AAAAATCCAG
195133 ATGTATCGATACAATGATTAATGTATCGATACA
1 ATGTATCGATACAATGATTAATGTATCGATACA
* *
195166 ATGTATCGATACATTTATTAATGTATCGATACA
1 ATGTATCGATACAATGATTAATGTATCGATACA
195199 TTTCCTTGGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (33 bp):
ATGTATCGATACAATGATTAATGTATCGATACA
Found at i:201433 original size:17 final size:17
Alignment explanation
Indices: 201407--201441 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
201397 TTGGTAACTA
201407 TGGGAATGGAAT-GTAT
1 TGGGAATGGAATAGTAT
201423 TGGGTAATGGAATAGTAT
1 TGGG-AATGGAATAGTAT
201441 T
1 T
201442 TTTTAAGTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 8 0.47
18 5 0.29
ACGTcount: A:0.31, C:0.00, G:0.34, T:0.34
Consensus pattern (17 bp):
TGGGAATGGAATAGTAT
Found at i:202000 original size:20 final size:20
Alignment explanation
Indices: 201975--202072 Score: 76
Period size: 20 Copynumber: 5.0 Consensus size: 20
201965 AATTGTAAGC
201975 ATGTATTGATACATTTACTT
1 ATGTATTGATACATTTACTT
*
201995 ATGTATTGATACATTTCCTT
1 ATGTATTGATACATTTACTT
* * * *
202015 -GGTAGTATG-TAGA-GTAGTT
1 ATGTA-T-TGATACATTTACTT
* *
202034 TTGTATTGATACATTGACTT
1 ATGTATTGATACATTTACTT
* *
202054 TTGTATCGATACATTTACT
1 ATGTATTGATACATTTACT
202073 GTTTGTATCA
Statistics
Matches: 60, Mismatches: 13, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
18 2 0.03
19 10 0.17
20 46 0.77
21 2 0.03
ACGTcount: A:0.27, C:0.10, G:0.16, T:0.47
Consensus pattern (20 bp):
ATGTATTGATACATTTACTT
Done.