Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2471
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: 183824
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 1 of 2
Found at i:7475 original size:13 final size:13
Alignment explanation
Indices: 7457--7483 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7447 ATATGAAAAT
7457 TTGCCTGCATGTA
1 TTGCCTGCATGTA
7470 TTGCCTGCATGTA
1 TTGCCTGCATGTA
7483 T
1 T
7484 CGATACATTG
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:0.15, C:0.22, G:0.22, T:0.41
Consensus pattern (13 bp):
TTGCCTGCATGTA
Found at i:10946 original size:33 final size:33
Alignment explanation
Indices: 10896--10960 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
10886 ATCCAAGTAA
10896 TTTTTTTGACAACTAGGTTTTACCTTAGTCATT
1 TTTTTTTGACAACTAGGTTTTACCTTAGTCATT
* * *
10929 TTTTTTTTACTAA-TAGGTTTTGCTTTAGTCAT
1 TTTTTTTGAC-AACTAGGTTTTACCTTAGTCAT
10961 ACCTCTTAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 26 0.93
34 2 0.07
ACGTcount: A:0.20, C:0.12, G:0.12, T:0.55
Consensus pattern (33 bp):
TTTTTTTGACAACTAGGTTTTACCTTAGTCATT
Found at i:10989 original size:32 final size:34
Alignment explanation
Indices: 10953--11024 Score: 89
Period size: 32 Copynumber: 2.2 Consensus size: 34
10943 AGGTTTTGCT
10953 TTAGTCATACC-T-CTTAACTAATAAGTTTCACC
1 TTAGTCATACCTTACTTAACTAATAAGTTTCACC
* * *
10985 TTAGT--TACCTTATTTAACTAATAGGTTTCACT
1 TTAGTCATACCTTACTTAACTAATAAGTTTCACC
11017 TTAGTCAT
1 TTAGTCAT
11025 CTCTTTTGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
30 4 0.12
31 1 0.03
32 27 0.82
34 1 0.03
ACGTcount: A:0.29, C:0.19, G:0.08, T:0.43
Consensus pattern (34 bp):
TTAGTCATACCTTACTTAACTAATAAGTTTCACC
Found at i:11152 original size:32 final size:32
Alignment explanation
Indices: 11078--11155 Score: 111
Period size: 32 Copynumber: 2.4 Consensus size: 32
11068 ATGTTTCGGT
* * *
11078 CTAGTCACCTATTTTGACTAATAAGTTTTGCT
1 CTAGTCACCTCTTCTGACTAATAAGTTTTGCC
*
11110 CTAGTTACCTCTTCTGACTAATAAGTTTTGCC
1 CTAGTCACCTCTTCTGACTAATAAGTTTTGCC
*
11142 CTGGTCACCTCTTC
1 CTAGTCACCTCTTC
11156 ACTTAAGGTT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.21, C:0.26, G:0.13, T:0.41
Consensus pattern (32 bp):
CTAGTCACCTCTTCTGACTAATAAGTTTTGCC
Found at i:15495 original size:13 final size:13
Alignment explanation
Indices: 15477--15501 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15467 CATTTTATGG
15477 TGTATCGATACAA
1 TGTATCGATACAA
15490 TGTATCGATACA
1 TGTATCGATACA
15502 TACTGTGTGT
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:15517 original size:32 final size:33
Alignment explanation
Indices: 15455--15521 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 33
15445 GTTACAAGCT
**
15455 AATGTATCGATACATTTTATGGTGTATCGATAC
1 AATGTATCGATACATACTATGGTGTATCGATAC
*
15488 AATGTATCGATACATACTGT-GTGTATCGATAC
1 AATGTATCGATACATACTATGGTGTATCGATAC
15520 AA
1 AA
15522 GTTTAGCTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
32 14 0.45
33 17 0.55
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (33 bp):
AATGTATCGATACATACTATGGTGTATCGATAC
Found at i:15604 original size:20 final size:21
Alignment explanation
Indices: 15553--15605 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
15543 GCCAATGACT
**
15553 TGTATCGATACATCTTTTTCA
1 TGTATCGATACATCTTGGTCA
* *
15574 AGTATCTATACAT-TTGGTCA
1 TGTATCGATACATCTTGGTCA
15594 TGTATCGATACA
1 TGTATCGATACA
15606 ATGTATCGAT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 15 0.58
21 11 0.42
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.42
Consensus pattern (21 bp):
TGTATCGATACATCTTGGTCA
Found at i:15624 original size:12 final size:13
Alignment explanation
Indices: 15593--15629 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
15583 ACATTTGGTC
15593 ATGTATCGATACA
1 ATGTATCGATACA
15606 ATGTATCGATA-A
1 ATGTATCGATACA
*
15618 TTGTATCGATAC
1 ATGTATCGATAC
15630 TGTGCAACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:17631 original size:20 final size:21
Alignment explanation
Indices: 17592--17642 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
17582 GCTGCTAGTG
*
17592 TGGGGGCTGCCCGGTTGCGACC
1 TGGGGG-TGCCCGGTCGCGACC
17614 TGGGGGTG-CCGGTCGCGACC
1 TGGGGGTGCCCGGTCGCGACC
17634 TGGTGGGTG
1 TGG-GGGTG
17643 ATGCCTAGGG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 14 0.52
21 7 0.26
22 6 0.22
ACGTcount: A:0.04, C:0.25, G:0.51, T:0.20
Consensus pattern (21 bp):
TGGGGGTGCCCGGTCGCGACC
Found at i:18293 original size:8 final size:8
Alignment explanation
Indices: 18280--18305 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
18270 AACATCATTC
18280 ATCACAAA
1 ATCACAAA
18288 ATCACAAA
1 ATCACAAA
18296 ATCACAAA
1 ATCACAAA
18304 AT
1 AT
18306 TTAATCAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.62, C:0.23, G:0.00, T:0.15
Consensus pattern (8 bp):
ATCACAAA
Found at i:24262 original size:13 final size:13
Alignment explanation
Indices: 24244--24271 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
24234 CGTTACAAGC
24244 CAATGTATCGATA
1 CAATGTATCGATA
24257 CAATGTATCGATA
1 CAATGTATCGATA
24270 CA
1 CA
24272 TACTGTGTGT
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:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:24374 original size:20 final size:21
Alignment explanation
Indices: 24323--24375 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
24313 GCCAATGACT
**
24323 TGTATCGATACATCTTTTTCA
1 TGTATCGATACATCTTGGTCA
* *
24344 AGTATCAATACAT-TTGGTCA
1 TGTATCGATACATCTTGGTCA
24364 TGTATCGATACA
1 TGTATCGATACA
24376 ATGTATCGAT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 15 0.58
21 11 0.42
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATCTTGGTCA
Found at i:24381 original size:13 final size:13
Alignment explanation
Indices: 24363--24387 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24353 ACATTTGGTC
24363 ATGTATCGATACA
1 ATGTATCGATACA
24376 ATGTATCGATAC
1 ATGTATCGATAC
24388 TGTGCAACAT
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):
ATGTATCGATACA
Found at i:26571 original size:6 final size:6
Alignment explanation
Indices: 26562--26594 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
26552 AGCGAAAGCA
26562 AAAAGT AAAAGT AAAAGT AAAAGT AAAAGT AAA
1 AAAAGT AAAAGT AAAAGT AAAAGT AAAAGT AAA
26595 GGGGCAGTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (6 bp):
AAAAGT
Found at i:27146 original size:19 final size:19
Alignment explanation
Indices: 27107--27141 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
27097 AAATTTTTGA
27107 TATATTTAATAATTTATAT
1 TATATTTAATAATTTATAT
27126 TATATTT-AT-ATTTATA
1 TATATTTAATAATTTATA
27142 CATTAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 2 0.12
19 7 0.44
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TATATTTAATAATTTATAT
Found at i:30506 original size:20 final size:20
Alignment explanation
Indices: 30469--30531 Score: 90
Period size: 20 Copynumber: 3.1 Consensus size: 20
30459 TTCTATAATT
*
30469 TGTATCGATACAATAAGTTAA
1 TGTACCGATAC-ATAAGTTAA
30490 TGTACCGATACATAAGTTAA
1 TGTACCGATACATAAGTTAA
* *
30510 TGTACCGGTACATAAGTGAA
1 TGTACCGATACATAAGTTAA
30530 TG
1 TG
30532 CATCAATACT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
20 29 0.74
21 10 0.26
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (20 bp):
TGTACCGATACATAAGTTAA
Found at i:34576 original size:62 final size:62
Alignment explanation
Indices: 34470--34611 Score: 232
Period size: 62 Copynumber: 2.3 Consensus size: 62
34460 ATTTGTCTTT
* *
34470 GTGAGTAACCCTCCGCATAGGCATAGCAATAATTTCTGAAATGTAAATTACTTATGCCTCTC
1 GTGAGTAACCCTCTGCATAGGCATAGCAATAACTTCTGAAATGTAAATTACTTATGCCTCTC
* *
34532 GTGAGTAACCCTCTGCATAGGCATAGTAATAACTTCT-AAGATGTAAATTACTTATGCCTCTT
1 GTGAGTAACCCTCTGCATAGGCATAGCAATAACTTCTGAA-ATGTAAATTACTTATGCCTCTC
34594 GTGAGTAACCCTCTGCAT
1 GTGAGTAACCCTCTGCAT
34612 TTCCATATAG
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
61 2 0.03
62 73 0.97
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.32
Consensus pattern (62 bp):
GTGAGTAACCCTCTGCATAGGCATAGCAATAACTTCTGAAATGTAAATTACTTATGCCTCTC
Found at i:37277 original size:21 final size:21
Alignment explanation
Indices: 37234--37289 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
37224 GTTAGGCCAA
*
37234 ATGTATCGATACAA-TTCATC
1 ATGTATCGATACAATTTAATC
37254 ATGTATCGATACAATTTAATC
1 ATGTATCGATACAATTTAATC
*
37275 ATGTATTGATACAAT
1 ATGTATCGATACAAT
37290 CAAAGGGTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
20 14 0.42
21 19 0.58
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.38
Consensus pattern (21 bp):
ATGTATCGATACAATTTAATC
Found at i:38838 original size:33 final size:32
Alignment explanation
Indices: 38794--38861 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 32
38784 TGTTACAAGC
*
38794 CAATGTATCGATACATTTTAG-GATGTATCGATA
1 CAATGTATCGATACATATT-GTG-TGTATCGATA
*
38827 CAATGTGTCGATACATATTGTGTGTATCGATA
1 CAATGTATCGATACATATTGTGTGTATCGATA
38859 CAA
1 CAA
38862 ATTTGGCTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
32 14 0.44
33 18 0.56
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATATTGTGTGTATCGATA
Found at i:38952 original size:13 final size:13
Alignment explanation
Indices: 38934--38958 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38924 ACATTTGGTC
38934 ATGTATCGATACA
1 ATGTATCGATACA
38947 ATGTATCGATAC
1 ATGTATCGATAC
38959 TGTGCAATCT
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):
ATGTATCGATACA
Found at i:47526 original size:13 final size:13
Alignment explanation
Indices: 47508--47533 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47498 ACATTTTAGG
47508 ATGTATCGATACA
1 ATGTATCGATACA
47521 ATGTATCGATACA
1 ATGTATCGATACA
47534 TATTGTGTGT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:47550 original size:32 final size:33
Alignment explanation
Indices: 47486--47553 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
47476 CGTTACAAGC
* *
47486 CAATGTATTGATACATTTTAGGATGTATCGATA
1 CAATGTATCGATACATATTAGGATGTATCGATA
47519 CAATGTATCGATACATATT-GTG-TGTATCGATA
1 CAATGTATCGATACATATTAG-GATGTATCGATA
47551 CAA
1 CAA
47554 ATTTGTCTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
32 14 0.44
33 18 0.56
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.37
Consensus pattern (33 bp):
CAATGTATCGATACATATTAGGATGTATCGATA
Found at i:47633 original size:20 final size:21
Alignment explanation
Indices: 47586--47638 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
47576 GCCAATAACC
**
47586 TGTATCGATACATTTTTTTCA
1 TGTATCGATACATTTTGGTCA
*
47607 AGTATCGATACA-TTTGGTCA
1 TGTATCGATACATTTTGGTCA
47627 TGTATCGATACA
1 TGTATCGATACA
47639 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (21 bp):
TGTATCGATACATTTTGGTCA
Found at i:47644 original size:13 final size:13
Alignment explanation
Indices: 47626--47650 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47616 ACATTTGGTC
47626 ATGTATCGATACA
1 ATGTATCGATACA
47639 ATGTATCGATAC
1 ATGTATCGATAC
47651 TGTGCAATCT
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):
ATGTATCGATACA
Found at i:49806 original size:19 final size:19
Alignment explanation
Indices: 49782--49818 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
49772 ATATAGTCGA
49782 AATGTATCAATACAATTTT
1 AATGTATCAATACAATTTT
49801 AATGTATCAATACAATTT
1 AATGTATCAATACAATTT
49819 GGAAAATGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.43, C:0.11, G:0.05, T:0.41
Consensus pattern (19 bp):
AATGTATCAATACAATTTT
Found at i:49855 original size:20 final size:20
Alignment explanation
Indices: 49830--49867 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
49820 GAAAATGTAG
49830 ATGTATCGATACATTTTGCA
1 ATGTATCGATACATTTTGCA
*
49850 ATGTATTGATACATTTTG
1 ATGTATCGATACATTTTG
49868 GAAAAATCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.11, G:0.16, T:0.45
Consensus pattern (20 bp):
ATGTATCGATACATTTTGCA
Found at i:54264 original size:3 final size:3
Alignment explanation
Indices: 54256--54281 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
54246 AATCTCTTGC
54256 TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TC
54282 TTCACTTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.35, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:55883 original size:13 final size:13
Alignment explanation
Indices: 55865--55889 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55855 CAATTCATTA
55865 TGTATCAATACAT
1 TGTATCAATACAT
55878 TGTATCAATACA
1 TGTATCAATACA
55890 GTCAAAGGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (13 bp):
TGTATCAATACAT
Found at i:55960 original size:20 final size:20
Alignment explanation
Indices: 55937--55988 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
55927 TAATTCATGG
55937 TGTATCGATACAAAGCAATT
1 TGTATCGATACAAAGCAATT
**
55957 TGTATCGATACTTAGCAATT
1 TGTATCGATACAAAGCAATT
55977 TGTATCGATACA
1 TGTATCGATACA
55989 TCTAGGTGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (20 bp):
TGTATCGATACAAAGCAATT
Found at i:58182 original size:19 final size:20
Alignment explanation
Indices: 58139--58191 Score: 90
Period size: 19 Copynumber: 2.7 Consensus size: 20
58129 TTGCTAGTTT
58139 CATGTATCGATACAATTGAG
1 CATGTATCGATACAATTGAG
*
58159 TATGTATCGATACAA-TGAG
1 CATGTATCGATACAATTGAG
58178 CATGTATCGATACA
1 CATGTATCGATACA
58192 TTGTATCGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAATTGAG
Found at i:58198 original size:13 final size:13
Alignment explanation
Indices: 58180--58204 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58170 ACAATGAGCA
58180 TGTATCGATACAT
1 TGTATCGATACAT
58193 TGTATCGATACA
1 TGTATCGATACA
58205 AAGCATAATG
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):
TGTATCGATACAT
Found at i:58221 original size:33 final size:32
Alignment explanation
Indices: 58161--58223 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
58151 CAATTGAGTA
* *
58161 TGTATCGATACAATGAGCATGTATCGATACAT
1 TGTATCGATACAAAGAGAATGTATCGATACAT
*
58193 TGTATCGATACAAAGCATAATGTATCGATAC
1 TGTATCGATACAAAG-AGAATGTATCGATAC
58224 TTCTGGATGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 14 0.52
33 13 0.48
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (32 bp):
TGTATCGATACAAAGAGAATGTATCGATACAT
Found at i:65407 original size:3 final size:3
Alignment explanation
Indices: 65399--65430 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
65389 CGAGTCAACT
*
65399 TCA TCA TCA TCA TCA TCA TCA TCT TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
65431 TTTGATAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.28, C:0.34, G:0.00, T:0.38
Consensus pattern (3 bp):
TCA
Found at i:67133 original size:19 final size:20
Alignment explanation
Indices: 67090--67142 Score: 81
Period size: 19 Copynumber: 2.7 Consensus size: 20
67080 TTGCCAGTTT
*
67090 CATGTATCGATATAATTGAG
1 CATGTATCGATACAATTGAG
*
67110 TATGTATCGATACAA-TGAG
1 CATGTATCGATACAATTGAG
67129 CATGTATCGATACA
1 CATGTATCGATACA
67143 TTGTATTGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 17 0.57
20 13 0.43
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
CATGTATCGATACAATTGAG
Found at i:68107 original size:21 final size:21
Alignment explanation
Indices: 68074--68121 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 21
68064 AAGCAAAAGT
68074 AAAAAAATGAG-AAACATAAATGG
1 AAAAAAA-GAGAAAACA-AAAT-G
68097 AAAAAAA-AGAAAACAAAATG
1 AAAAAAAGAGAAAACAAAATG
68117 AAAAA
1 AAAAA
68122 GAGCAAAGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
20 6 0.25
21 6 0.25
22 5 0.21
23 7 0.29
ACGTcount: A:0.75, C:0.04, G:0.12, T:0.08
Consensus pattern (21 bp):
AAAAAAAGAGAAAACAAAATG
Found at i:68912 original size:19 final size:20
Alignment explanation
Indices: 68867--68918 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
68857 TTACAAGCCA
*
68867 ATGTATCGATACATTTTGGG
1 ATGTATCGATACATATTGGG
*
68887 ATGTATCGATACATATTGTG
1 ATGTATCGATACATATTGGG
68907 -TGTATCGATACA
1 ATGTATCGATACA
68919 AATTTGGCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.40
20 18 0.60
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATATTGGG
Found at i:68999 original size:20 final size:21
Alignment explanation
Indices: 68952--69004 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
68942 GCCAATGACC
**
68952 TGTATCGATACATTCTTTTCA
1 TGTATCGATACATTCTGGTCA
*
68973 AGTATCGATACATT-TGGTCA
1 TGTATCGATACATTCTGGTCA
68993 TGTATCGATACA
1 TGTATCGATACA
69005 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTCTGGTCA
Found at i:69010 original size:13 final size:13
Alignment explanation
Indices: 68992--69016 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
68982 ACATTTGGTC
68992 ATGTATCGATACA
1 ATGTATCGATACA
69005 ATGTATCGATAC
1 ATGTATCGATAC
69017 TATGCAATCT
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):
ATGTATCGATACA
Found at i:70813 original size:13 final size:13
Alignment explanation
Indices: 70795--70820 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
70785 TATAAACCCT
70795 TTGTATCGATACA
1 TTGTATCGATACA
70808 TTGTATCGATACA
1 TTGTATCGATACA
70821 CTTGAACATG
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):
TTGTATCGATACA
Found at i:70989 original size:8 final size:8
Alignment explanation
Indices: 70976--71009 Score: 68
Period size: 8 Copynumber: 4.2 Consensus size: 8
70966 AACATCATTC
70976 ATCACAAA
1 ATCACAAA
70984 ATCACAAA
1 ATCACAAA
70992 ATCACAAA
1 ATCACAAA
71000 ATCACAAA
1 ATCACAAA
71008 AT
1 AT
71010 TTAATCAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.62, C:0.24, G:0.00, T:0.15
Consensus pattern (8 bp):
ATCACAAA
Found at i:75317 original size:3 final size:3
Alignment explanation
Indices: 75309--75335 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
75299 CTTCATCGGA
75309 ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC
75336 TTCTTCTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
ATC
Found at i:77026 original size:20 final size:21
Alignment explanation
Indices: 76979--77031 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
76969 GCCAATGACC
**
76979 TGTATCGATACATTCTTTTCA
1 TGTATCGATACATTCTGGTCA
*
77000 AGTATCGATACATT-TGGTCA
1 TGTATCGATACATTCTGGTCA
77020 TGTATCGATACA
1 TGTATCGATACA
77032 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTCTGGTCA
Found at i:77037 original size:13 final size:13
Alignment explanation
Indices: 77019--77043 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
77009 ACATTTGGTC
77019 ATGTATCGATACA
1 ATGTATCGATACA
77032 ATGTATCGATAC
1 ATGTATCGATAC
77044 TGTGCAATCT
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):
ATGTATCGATACA
Found at i:78568 original size:19 final size:20
Alignment explanation
Indices: 78528--78577 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
78518 ACACCCAGAT
78528 GTATCGATACATATGGCATA
1 GTATCGATACATATGGCATA
* *
78548 GTATCGATACATGT-TCATA
1 GTATCGATACATATGGCATA
*
78567 GTATTGATACA
1 GTATCGATACA
78578 CCTTGAAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 14 0.52
20 13 0.48
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (20 bp):
GTATCGATACATATGGCATA
Found at i:82368 original size:25 final size:25
Alignment explanation
Indices: 82276--82356 Score: 109
Period size: 25 Copynumber: 3.4 Consensus size: 25
82266 AGGGGGATAA
82276 TTTGTTAAGGGAGAGTATTAAATAT
1 TTTGTTAAGGGAGAGTATTAAATAT
*
82301 TTTGTTAAGGGGGAG-A--AAA-A-
1 TTTGTTAAGGGAGAGTATTAAATAT
*
82321 TTTATTAAGGGAGAGTATTAAATAT
1 TTTGTTAAGGGAGAGTATTAAATAT
82346 TTTGTTAAGGG
1 TTTGTTAAGGG
82357 GGGGTACTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
20 13 0.28
21 2 0.04
22 3 0.06
23 3 0.06
24 2 0.04
25 24 0.51
ACGTcount: A:0.36, C:0.00, G:0.27, T:0.37
Consensus pattern (25 bp):
TTTGTTAAGGGAGAGTATTAAATAT
Found at i:83329 original size:17 final size:16
Alignment explanation
Indices: 83302--83335 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
83292 CCAACAGCTA
83302 AAGAACAACAAGAAAC
1 AAGAACAACAAGAAAC
83318 AAGAACCAACAAGAAAC
1 AAGAA-CAACAAGAAAC
83335 A
1 A
83336 TCAAGAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.68, C:0.21, G:0.12, T:0.00
Consensus pattern (16 bp):
AAGAACAACAAGAAAC
Found at i:84780 original size:20 final size:20
Alignment explanation
Indices: 84757--84796 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
84747 GTTAATTATT
84757 TATACATAAATGAATGTATC
1 TATACATAAATGAATGTATC
*
84777 TATACATAAGTGAATGTATC
1 TATACATAAATGAATGTATC
84797 AACACTAGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.35
Consensus pattern (20 bp):
TATACATAAATGAATGTATC
Found at i:87439 original size:97 final size:96
Alignment explanation
Indices: 87228--87451 Score: 254
Period size: 97 Copynumber: 2.3 Consensus size: 96
87218 GCCATTTTTT
** * * *
87228 CAAGGGGATACTCCAA-CCCTGTTTTAAAACTCTTCAAGATTTAAATCTTATTTTTGATTAAGTT
1 CAAGGGGATACTCCAACCCCAATTTT-AAACTCTTCAAGATTTAAATCTTATTTTTCACTAAATT
* * *
87292 GTCAACATCGAGATACTCCAACCCTATTCTTC
65 GCCAACATCGAGACACTCCAACCCTATTCCTC
* * *
87324 GAAGGGGATACTCTAACCCCAATTTTAAACTTTTCAAGATTTAAATCTTA-TTTTCACCTAAATT
1 CAAGGGGATACTCCAACCCCAATTTTAAACTCTTCAAGATTTAAATCTTATTTTTCA-CTAAATT
* * *
87388 GCCATCATCAGGGACACTCCAACCTTATTCCTC
65 GCCAACATC-GAGACACTCCAACCCTATTCCTC
* * *
87421 CAATGGGATACTCCAACCCCATTTTTCAACT
1 CAAGGGGATACTCCAACCCCAATTTTAAACT
87452 AAAAATTGAA
Statistics
Matches: 106, Mismatches: 19, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
95 5 0.05
96 49 0.46
97 52 0.49
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.33
Consensus pattern (96 bp):
CAAGGGGATACTCCAACCCCAATTTTAAACTCTTCAAGATTTAAATCTTATTTTTCACTAAATTG
CCAACATCGAGACACTCCAACCCTATTCCTC
Found at i:91108 original size:13 final size:13
Alignment explanation
Indices: 91090--91114 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
91080 ATAATGCACA
91090 GTATCGATACATT
1 GTATCGATACATT
91103 GTATCGATACAT
1 GTATCGATACAT
91115 GACCACTGTA
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:91201 original size:13 final size:13
Alignment explanation
Indices: 91183--91209 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
91173 CCTTAACTGT
91183 TTGTATCGATACA
1 TTGTATCGATACA
91196 TTGTATCGATACA
1 TTGTATCGATACA
91209 T
1 T
91210 GACCAAATGT
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:97388 original size:13 final size:13
Alignment explanation
Indices: 97370--97405 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
97360 GCATTCTCTG
*
97370 TATCGATACATTA
1 TATCGATACACTA
*
97383 TATCGATACACTG
1 TATCGATACACTA
97396 TATCGATACA
1 TATCGATACA
97406 AAGGGTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.33
Consensus pattern (13 bp):
TATCGATACACTA
Found at i:100847 original size:16 final size:16
Alignment explanation
Indices: 100822--100854 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
100812 TTGGGCTCAA
*
100822 TGTATGGATACTATTC
1 TGTATCGATACTATTC
100838 TGTATCGATACTATTC
1 TGTATCGATACTATTC
100854 T
1 T
100855 CATATATCGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.45
Consensus pattern (16 bp):
TGTATCGATACTATTC
Found at i:100874 original size:13 final size:13
Alignment explanation
Indices: 100856--100881 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
100846 TACTATTCTC
100856 ATATATCGATACA
1 ATATATCGATACA
100869 ATATATCGATACA
1 ATATATCGATACA
100882 TGAATAGTGA
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:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
ATATATCGATACA
Found at i:100978 original size:33 final size:33
Alignment explanation
Indices: 100961--101086 Score: 216
Period size: 33 Copynumber: 3.8 Consensus size: 33
100951 ACAATTCATG
100961 ATGTATCGATACAATGTATCGATACTAAGCAAT
1 ATGTATCGATACAATGTATCGATACTAAGCAAT
*
100994 ATGTATCGATACAATATATCGATACTAAGCAAT
1 ATGTATCGATACAATGTATCGATACTAAGCAAT
**
101027 CCGTATCGATACAATGTATCGATACTAAGCAAT
1 ATGTATCGATACAATGTATCGATACTAAGCAAT
*
101060 CTGTATCGATACAATGTATCGATACTA
1 ATGTATCGATACAATGTATCGATACTA
101087 TATCTGGGTG
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 88 1.00
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.30
Consensus pattern (33 bp):
ATGTATCGATACAATGTATCGATACTAAGCAAT
Found at i:100979 original size:13 final size:13
Alignment explanation
Indices: 100961--100985 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
100951 ACAATTCATG
100961 ATGTATCGATACA
1 ATGTATCGATACA
100974 ATGTATCGATAC
1 ATGTATCGATAC
100986 TAAGCAATAT
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):
ATGTATCGATACA
Found at i:100999 original size:20 final size:20
Alignment explanation
Indices: 100974--101071 Score: 71
Period size: 20 Copynumber: 5.6 Consensus size: 20
100964 TATCGATACA
100974 ATGTATCGATACTAAGCAAT
1 ATGTATCGATACTAAGCAAT
100994 ATGTATCG--A-T-A-CAAT
1 ATGTATCGATACTAAGCAAT
101009 A--TATCGATACTAAGCAAT
1 ATGTATCGATACTAAGCAAT
**
101027 CCGTATCG--A-T-A-C-A-
1 ATGTATCGATACTAAGCAAT
101040 ATGTATCGATACTAAGCAAT
1 ATGTATCGATACTAAGCAAT
*
101060 CTGTATCGATAC
1 ATGTATCGATAC
101072 AATGTATCGA
Statistics
Matches: 60, Mismatches: 4, Indels: 28
0.65 0.04 0.30
Matches are distributed among these distances:
13 11 0.18
14 1 0.02
15 8 0.13
16 4 0.07
17 4 0.07
18 7 0.12
19 1 0.02
20 24 0.40
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACTAAGCAAT
Found at i:101692 original size:158 final size:158
Alignment explanation
Indices: 101478--102933 Score: 572
Period size: 159 Copynumber: 9.2 Consensus size: 158
101468 GGACGAATTG
* * * * **
101478 TGATTCT-AGGACATTAATGGAAAGAAAAGCTTTT-TTCGTATAAG-CAAAGCATCAATATTTTG
1 TGATTCTAAGGAAAATAATGGGAAGAAAAGCTTTTCTT-GT-GAAGCCAAAGCATCAATATCATG
* * *** *
101540 TATCTTAAAGAGGCA-AACGTGTTTTGTTGCCTAATCATGAAAGCTATTG-GAATTATTATCAGA
64 TATCTTAAAGAGG-AGAACGTGTTTTATTGCCCAATCATGAAAAAAAATGAG-ATTATTATCAGA
* *
101603 ATCTATATTTGTCTCATTTGAAGGATGAACAT
127 ATCCATATTTGTCTCATTTGAAGGATAAACAT
*
101635 TGATTCTAAGGAAAATAATAGGAAGAAAAGCTTTTCTTGTGAAGCCAAAGCATCAATATCATGTA
1 TGATTCTAAGGAAAATAATGGGAAGAAAAGCTTTTCTTGTGAAGCCAAAGCATCAATATCATGTA
* * * *
101700 TCCTAAAGTGG-GTAACGTGTTTTAATTGCCCAA-CATG-AAAAAAATGGAGAATATTATAAGAA
66 TCTTAAAGAGGAG-AACGTGTTTT-ATTGCCCAATCATGAAAAAAAAT-GAGATTATTATCAGAA
* ** *
101762 TCCATATTCGTCTCATTTGTGGGATGAAA-TT
128 TCCATATTTGTCTCATTTGAAGGAT-AAACAT
* * *
101793 TGA-TCTAA-G----TAATGGGACA-AAAAGCTTTTCTTGTGAAAG-CAAAGTATTAATATCGTG
1 TGATTCTAAGGAAAATAATGGGA-AGAAAAGCTTTTCTTGTG-AAGCCAAAGCATCAATATCATG
* * ** * * *
101850 TA-CTCAATA-AGGAGAATGTGTACCTATTGCCCAATCATGAAAAAAATTGAGCTTATTA-CTAA
64 TATCTTAA-AGAGGAGAACGTGT-TTTATTGCCCAATCATGAAAAAAAATGAGATTATTATC-AG
* * *
101912 AATCCA-AGTTTGTCTCATTTGATGGACAAACTT
126 AATCCATA-TTTGTCTCATTTGAAGGATAAACAT
* ** * * * ** *
101945 TTATAATAAGGAAAATGATGGGAA-AAAAGTTTTTCTTGTGAAACCAAATTATCAATATTATGTA
1 TGATTCTAAGGAAAATAATGGGAAGAAAAGCTTTTCTTGTGAAGCCAAAGCATCAATATCATGTA
* * * * * *
102009 TCATAAAGAGGAGAATGTGCTTTGATT-CCATAATCATGAAAAAAAATGAAGGTTATTATGAGAA
66 TCTTAAAGAGGAGAACGTG-TTTTATTGCC-CAATCATGAAAAAAAATG-AGATTATTATCAGAA
* * *
102073 TCCATGTTTTTCTCATTTGATAGGATAAACTT
128 TCCATATTTGTCTCATTTGA-AGGATAAACAT
* * * * * * * *
102105 TGATTCTAAGGAAAATCATGGGATGAAAAGCTTTTCCTGTGAAACTAAAACATCAATATCTTCTA
1 TGATTCTAAGGAAAATAATGGGAAGAAAAGCTTTTCTTGTGAAGCCAAAGCATCAATATCATGTA
* ** ** * * * ** * *
102170 TCCTAGTGAAAAAAACTTGTTTTGATTGCCCAATCATGAAAAGAACGGAGATTATTTTGA-ACAT
66 TCTTAAAGAGGAGAACGTGTTTT-ATTGCCCAATCATGAAAAAAAATGAGATTATTATCAGA-AT
* ** **
102234 CCATGA-TTGCCTCATTTTTAGGATAAATTT
129 CCAT-ATTTGTCTCATTTGAAGGATAAACAT
* * * * * * *
102264 TAATTTTAAGGAAAATGATGGGAATAAAAACTTTTCTTGTGAAACCAATGCATCAATATCATGTA
1 TGATTCTAAGGAAAATAATGGGAAGAAAAGCTTTTCTTGTGAAGCCAAAGCATCAATATCATGTA
* * * * * * * * ** * *
102329 TCCTAATATGTAGCA-TATGT-TTTTATTACCTAATAATG-AGAGGAACGAAGATTATTATGAGA
66 TCTTAA-A-G-AGGAGAACGTGTTTTATTGCCCAATCATGAAAAAAAATG-AGATTATTATCAGA
* * * ** *
102391 ACCCATGTTTGTCTCATTTGATA-AACGAACTT
127 ATCCATATTTGTCTCATTTGA-AGGATAAACAT
* * * * * * *
102423 TGGTTCTAAGGATAATGATGGGTAA-AAAAGTTTTTCTTGCGAAACCAAAGCATCCATATCATGT
1 TGATTCTAAGGAAAATAATGGG-AAGAAAAGCTTTTCTTGTGAAGCCAAAGCATCAATATCATGT
* * * * ** * * * * *
102487 ATCCTAATA-AGAAAAATGTGTCTTCGTTGCCTAATCA-CAAAACAAATGGAGATTTTTGA-AAG
65 ATCTTAA-AGAGGAGAACGTGT-TTTATTGCCCAATCATGAAAAAAAAT-GAGATTATT-ATCAG
* * * * * *
102549 AATCCATGTTTTTTTTCTTTTG-AGTGATGAACGT
126 AATCCAT-ATTTGTCTCATTTGAAG-GATAAACAT
** * * * * * * * * *
102583 TGATTCTTGGGAAAATGATGGGATGAAAAGATTTTTTTCTCAAACCAAAGGATCAATATCTTGTA
1 TGATTCTAAGGAAAATAATGGGAAGAAAAGCTTTTCTTGTGAAGCCAAAGCATCAATATCATGTA
* * * ** * *** ** * *
102648 TCTGAATGAAGAGATTGTGTTCTGATTGTTTAATCATG-AAATTAATGGAGATTACTATAAGAAT
66 TCTTAAAGAGGAGAACGTGTT-TTATTGCCCAATCATGAAAAAAAAT-GAGATTATTATCAGAAT
* * * * *
102712 ACTTGTTTGTCTCATTT-AAGG-TCATACTT
129 CCATATTTGTCTCATTTGAAGGAT-AAACAT
* * * * * * * * * *
102741 TAACTT-TAATGAAAATGATGGGAATAAAAGTTTTTGTTTTAAAACCAAA-CATCAGTATCATGT
1 TGA-TTCTAAGGAAAATAATGGGAAGAAAAGCTTTTCTTGTGAAGCCAAAGCATCAATATCATGT
** ** * * * * *
102804 ATCCCACTGAGGGGAACATGTTTT-TGTAGCCTAATC---ACAAAAAATGGAGATAATTA-CAAG
65 ATCTTAAAGAGGAGAACGTGTTTTAT-T-GCCCAATCATGAAAAAAAAT-GAGATTATTATC-AG
* * * * *
102864 AGTCCATGTTTGTCTCTTTTG-AGGATGAACTT
126 AATCCATATTTGTCTCATTTGAAGGATAAACAT
* * *
102896 TGATTCTAAGTAAAATGATGGAAAGAAAAGCTTTTCTT
1 TGATTCTAAGGAAAATAATGGGAAGAAAAGCTTTTCTT
102934 CTAAATCAAT
Statistics
Matches: 981, Mismatches: 247, Indels: 144
0.72 0.18 0.10
Matches are distributed among these distances:
151 24 0.02
152 81 0.08
153 14 0.01
154 3 0.00
155 68 0.07
156 9 0.01
157 90 0.09
158 190 0.19
159 259 0.26
160 176 0.18
161 63 0.06
162 4 0.00
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (158 bp):
TGATTCTAAGGAAAATAATGGGAAGAAAAGCTTTTCTTGTGAAGCCAAAGCATCAATATCATGTA
TCTTAAAGAGGAGAACGTGTTTTATTGCCCAATCATGAAAAAAAATGAGATTATTATCAGAATCC
ATATTTGTCTCATTTGAAGGATAAACAT
Found at i:102520 original size:159 final size:160
Alignment explanation
Indices: 101433--103882 Score: 778
Period size: 158 Copynumber: 15.7 Consensus size: 160
101423 AAAACGATGG
* * ** * * * *
101433 AGATT-TTAAGAGAATCCATGTTTGTCTTATTTG-GGGGACGAA-TTGTGATTCT-AGGACATTA
1 AGATTATTATGAGAATCCATGTTTGTCTCATTTGATAGGACAAACTT-TGATTCTAAGGAAAATG
* * ** * **
101494 ATGGAAAGAAAAGCTTTT-TTCGT-ATAAGCAAAGCATCAATATTTTGTATCTTAA-AGAGGCAA
65 ATGGGAA-AAAAGCTTTTCTT-GTGA-AACCAAAGCATCAATATCATGTATCCTAATA-AGAAAA
* ** *
101556 ACGTGT-TTTG-TTGCCTAATCATG-AAAGCTATTGG
126 ATGTGTCTTTGATTGCCTAATCATGAAAAG--AACGA
* * * ** * *
101590 A-ATTATTATCAGAATCTATATTTGTCTCATTTGA-AGGATGAACATTGATTCTAAGGAAAATAA
1 AGATTATTATGAGAATCCATGTTTGTCTCATTTGATAGGACAAACTTTGATTCTAAGGAAAATGA
* * * *** *
101653 TAGGAAGAAAAGCTTTTCTTGTGAAGCCAAAGCATCAATATCATGTATCCTAA-AGTGGGTAACG
66 TGGGAA-AAAAGCTTTTCTTGTGAAACCAAAGCATCAATATCATGTATCCTAATA-AGAAAAATG
* * * * *
101717 TGT-TTTAATTGCCCAA-CATGAAAAAAATGG
129 TGTCTTTGATTGCCTAATCATGAAAAGAACGA
* * * * * * *
101747 AGAATATTATAAGAATCCATATTCGTCTCATTTG-TGGGATGAAA-TTTGA-TCTAA-G----TA
1 AGATTATTATGAGAATCCATGTTTGTCTCATTTGATAGGA-CAAACTTTGATTCTAAGGAAAATG
* * * * * *
101804 ATGGGACAAAAAGCTTTTCTTGTGAAAGCAAAGTATTAATATCGTGTA--CTCAATAAGGAGAAT
65 ATGGGA-AAAAAGCTTTTCTTGTGAAACCAAAGCATCAATATCATGTATCCT-AATAAGAAAAAT
* * * *
101867 GTGTAC-CT-ATTGCCCAATCATGAAAAAAATTG-
128 GTGT-CTTTGATTGCCTAATCATGAAAAGAA-CGA
* * * * **
101899 AGCTTATTACT-AAAATCCAAGTTTGTCTCATTTGAT-GGACAAACTTTTATAATAAGGAAAATG
1 AGATTATTA-TGAGAATCCATGTTTGTCTCATTTGATAGGACAAACTTTGATTCTAAGGAAAATG
* ** * * * *
101962 ATGGGAAAAAAGTTTTTCTTGTGAAACCAAATTATCAATATTATGTATCATAA-AGAGGAGAATG
65 ATGGGAAAAAAGCTTTTCTTGTGAAACCAAAGCATCAATATCATGTATCCTAATA-AGAAAAATG
* *
102026 TG-CTTTGATT-CCATAATCATGAAAAAAAATGA
129 TGTCTTTGATTGCC-TAATCATG-AAAAGAACGA
* * * *
102058 AGGTTATTATGAGAATCCATGTTTTTCTCATTTGATAGGATAAACTTTGATTCTAAGGAAAATCA
1 AGATTATTATGAGAATCCATGTTTGTCTCATTTGATAGGACAAACTTTGATTCTAAGGAAAATGA
* * * * * * *
102123 TGGGATGAAAAGCTTTTCCTGTGAAACTAAAACATCAATATCTTCTATCCTAGTGAA-AAAAACT
66 TGGGA-AAAAAGCTTTTCTTGTGAAACCAAAGCATCAATATCATGTATCCTAAT-AAGAAAAA-T
* *
102187 -TGT-TTTGATTGCCCAATCATGAAAAGAACGG
128 GTGTCTTTGATTGCCTAATCATGAAAAGAACGA
* * * * * * * *
102218 AGATTATTTTGA-ACATCCATGATTGCCTCATTT-TTAGGATAAATTTTAATTTTAAGGAAAATG
1 AGATTATTATGAGA-ATCCATGTTTGTCTCATTTGATAGGACAAACTTTGATTCTAAGGAAAATG
* * * * ** *
102281 ATGGGAATAAAAACTTTTCTTGTGAAACCAATGCATCAATATCATGTATCCTAATATGTAGCATA
65 ATGGGAA-AAAAGCTTTTCTTGTGAAACCAAAGCATCAATATCATGTATCCTAATAAGAAAAATG
* * * * *
102346 TGT-TTTTATTACCTAATAATGAGAGGAACGA
129 TGTCTTTGATTGCCTAATCATGAAAAGAACGA
* * * * *
102377 AGATTATTATGAGAACCCATGTTTGTCTCATTTGATA-AACGAACTTTGGTTCTAAGGATAATGA
1 AGATTATTATGAGAATCCATGTTTGTCTCATTTGATAGGACAAACTTTGATTCTAAGGAAAATGA
* * *
102441 TGGGTAAAAAAGTTTTTCTTGCGAAACCAAAGCATCCATATCATGTATCCTAATAAGAAAAATGT
66 TGGG-AAAAAAGCTTTTCTTGTGAAACCAAAGCATCAATATCATGTATCCTAATAAGAAAAATGT
* * * * *
102506 GTCTTCG-TTGCCTAATCA-CAAAACAAATGG
130 GTCTTTGATTGCCTAATCATGAAAA-GAACGA
* * * ** * **
102536 AGATT-TT-TGAAAGAATCCATGTTTTTTTTCTTTTG--AGTGATGAACGTTGATTCTTGGGAAA
1 AGATTATTATG--AGAATCCATG-TTTGTCTCATTTGATAG-GACAAACTTTGATTCTAAGGAAA
* * * * * * *
102597 ATGATGGGATGAAAAGATTTTTTTCTCAAACCAAAGGATCAATATCTTGTAT-CTGAATGAAG-A
62 ATGATGGGA-AAAAAGCTTTTCTTGTGAAACCAAAGCATCAATATCATGTATCCT-AAT-AAGAA
* * * ** ** * *
102660 GATTGTGT-TCTGATTGTTTAATCATGAAATTAATGG
124 AAATGTGTCTTTGATTGCCTAATCATGAAAAGAACGA
* * * * * * * *
102696 AGATTACTATAAGAATACTTGTTTGTCTCATTT-A-AGGTCATACTTTAACTT-TAATGAAAATG
1 AGATTATTATGAGAATCCATGTTTGTCTCATTTGATAGGACAAACTTTGA-TTCTAAGGAAAATG
* * * * * * * * * *
102758 ATGGGAATAAAAGTTTTTGTTTTAAAACCAAA-CATCAGTATCATGTATCCCACTGAGGGGAACA
65 ATGGGAA-AAAAGCTTTTCTTGTGAAACCAAAGCATCAATATCATGTATCCTAAT-A-AGAAAAA
* * * *
102822 TGT-T-TTTG-TAGCCTAATCA-CAAAA-AATGG
127 TGTGTCTTTGATTGCCTAATCATGAAAAGAACGA
* ** * * ** *
102851 AGATAATTACAAGAGTCCATGTTTGTCTCTTTTG--AGGATGAACTTTGATTCTAAGTAAAATGA
1 AGATTATTATGAGAATCCATGTTTGTCTCATTTGATAGGACAAACTTTGATTCTAAGGAAAATGA
* * * * * * *
102914 TGGAAAGAAAAGCTTTTC-T-T-----CTAA--ATCAATATCTTGTGTCCCAATAAGGAAAATAT
66 TGGGAA-AAAAGCTTTTCTTGTGAAACCAAAGCATCAATATCATGTATCCTAATAAGAAAAATGT
* *
102970 GT-TTTGATTGCC-AATCATGAAACA-AATGG
130 GTCTTTGATTGCCTAATCATGAAA-AGAACGA
* * ** ** ***
102999 AGATTACTATGAGAAT-AATTGTTTGTCTCACCT-AGGGGATGTACTTTGATTCTAAGGAAAATG
1 AGATTATTATGAGAATCCA-TGTTTGTCTCATTTGATAGGACAAACTTTGATTCTAAGGAAAATG
* * * * * * * *
103062 ATTGGAATAAAAGCCTTTCTTATGAAGCTAAAGCATC-ATAATCAAG-A--CAAAGAA-AAGAAC
65 ATGGGAA-AAAAGCTTTTCTTGTGAAACCAAAGCATCAAT-ATCATGTATCCTAATAAGAA-AA-
* * * **
103122 ATG-GT-TTTG-TTGCCCAATC-TTAAAAAAAATA
126 ATGTGTCTTTGATTGCCTAATCATGAAAAGAACGA
** * * ** ** * ** * *
103153 GAGATTATTAAAAGAATCCA--TTT-TCACCTTTTTTAAGGGATGAACCTTGATAATAACGAATA
1 -AGATTATTATGAGAATCCATGTTTGTCTCATTTGAT-A-GGACAAACTTTGATTCTAAGGAAAA
* * ** * * *
103215 TGATGGCAACAAAAG-GTTT-TTGATGAAATGAAAGCATTAATATCATGTATCCCAATAGGAAAA
63 TGATGGGAA-AAAAGCTTTTCTTG-TGAAACCAAAGCATCAATATCATGTATCCTAATAAGAAAA
* *
103278 A----CCTATT--TTG----A-C-T----AG--CTA
126 ATGTGTCT-TTGATTGCCTAATCATGAAAAGAACGA
* * * * * ** * * * ***
103296 A-ATTATTAAGAAAATCTATGTTTATCTCATTTGA-AAGATGAATTTTAATTCTAGA-TAAATGA
1 AGATTATTATGAGAATCCATGTTTGTCTCATTTGATAGGACAAACTTTGATTCTA-AGGAAAATG
* * * * * * * * * * * *
103358 AGGGAAGAAAAGCGTTTCTTTTAAAACCAGAGTACCAATATCATGTATCCGAATGAGGAGAAA-G
65 ATGGGAAAAAAGCTTTTCTTGTGAAACCAAAGCATCAATATCATGTATCCTAAT-AAGAAAAATG
* * * * *
103422 TG-CTTTTATAGCCCAATCGTGAAAAGAA-TA
129 TGTCTTTGATTGCCTAATCATGAAAAGAACGA
* * * * * ** * *
103452 GAGATTATTATGAGAATCCATATTTCTCTTATCTGAT-TGATGAACTTTTATTCTAAGGAAAATA
1 -AGATTATTATGAGAATCCATGTTTGTCTCATTTGATAGGACAAACTTTGATTCTAAGGAAAATG
* * * * ***
103516 ATGGGAAAAAAGTTTTTCTTGTGAAACCAAAGCATCAATATCATGTATCCTAATGAGGAGACCAT
65 ATGGGAAAAAAGCTTTTCTTGTGAAACCAAAGCATCAATATCATGTATCCTAATAAGAAAAATGT
* *
103581 G-CTTGGATTGCCTAATCATGAAAAGAATTG-
130 GTCTTTGATTGCCTAATCATGAAAAGAA-CGA
* * * * * *
103611 AGGTTATTATGAAAATCCATGTTTTTCTCCTTTG--AGTGACAAAC-ATGCATTTTAAGGAAAAT
1 AGATTATTATGAGAATCCATGTTTGTCTCATTTGATAG-GACAAACTTTG-ATTCTAAGGAAAAT
** * *
103673 GATGGGACAAAAAGCTTTTCTTGTGAAACCAAA-CATCAATATTGTGTGTATCCATGTTATTATG
64 GATGGGA-AAAAAGCTTTTCTTGTGAAACCAAAGCATCAATA-T-CATGTATCC----TAATAAG
* * ** *
103737 AAAAACGTG-CTTTGATTGCCCAATCATGAGTAGAATGGA
122 AAAAATGTGTCTTTGATTGCCTAATCATGAAAAGAA-CGA
** * * * *
103776 AG-TTATTACAAGAATCCATGTTT-T-TC--TTGA-AGGTCGAACATTGATTCCAAGGAAAATGA
1 AGATTATTATGAGAATCCATGTTTGTCTCATTTGATAGGACAAACTTTGATTCTAAGGAAAATGA
* * * *
103835 TGGGAAAAAAAACGTTTCTTATGAAACCAAAGTATCAATATCATGTAT
66 TGGG-AAAAAAGCTTTTCTTGTGAAACCAAAGCATCAATATCATGTAT
103883 TCTGATTATG
Statistics
Matches: 1722, Mismatches: 419, Indels: 302
0.70 0.17 0.12
Matches are distributed among these distances:
140 5 0.00
141 61 0.04
142 12 0.01
143 7 0.00
144 8 0.00
145 10 0.01
146 11 0.01
147 25 0.01
148 31 0.02
149 43 0.02
150 5 0.00
151 24 0.01
152 92 0.05
153 15 0.01
154 39 0.02
155 132 0.08
156 16 0.01
157 126 0.07
158 368 0.21
159 328 0.19
160 228 0.13
161 74 0.04
162 7 0.00
163 2 0.00
164 51 0.03
165 2 0.00
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.33
Consensus pattern (160 bp):
AGATTATTATGAGAATCCATGTTTGTCTCATTTGATAGGACAAACTTTGATTCTAAGGAAAATGA
TGGGAAAAAAGCTTTTCTTGTGAAACCAAAGCATCAATATCATGTATCCTAATAAGAAAAATGTG
TCTTTGATTGCCTAATCATGAAAAGAACGA
Found at i:109738 original size:28 final size:27
Alignment explanation
Indices: 109660--109738 Score: 72
Period size: 28 Copynumber: 2.9 Consensus size: 27
109650 ATTAATAAAT
* *
109660 AAGAAAGATC-AAGGAAGTGAAATTAAC
1 AAGAAATATCAAAGGAAGAGAAA-TAAC
* * *
109687 AAGAAATATGAAGGGAA-ACAAAATAAGC
1 AAGAAATATCAAAGGAAGA-GAAATAA-C
109715 AAGAAATATCAAAGGAAGAGAAAT
1 AAGAAATATCAAAGGAAGAGAAAT
109739 CAATGAAGAG
Statistics
Matches: 40, Mismatches: 8, Indels: 7
0.73 0.15 0.13
Matches are distributed among these distances:
27 11 0.28
28 28 0.70
29 1 0.03
ACGTcount: A:0.59, C:0.06, G:0.22, T:0.13
Consensus pattern (27 bp):
AAGAAATATCAAAGGAAGAGAAATAAC
Found at i:111124 original size:160 final size:159
Alignment explanation
Indices: 110921--111239 Score: 357
Period size: 158 Copynumber: 2.0 Consensus size: 159
110911 AAATAAAAAG
** **
110921 AATGTGTTTTGACTACCCAATCTTGAAAAGAATTGAGATTATTACACT-AGAATCCATGA-TTGT
1 AATGTGTTTTGACTACCCAATAATGAAAAGAAGGGAGATTATT--A-TGAGAATCCAT-ATTTGT
* * **
110984 CTAATTTCTA-GGATGAACTTTGATTC-TAAGAAAAATAAAGGGAAGAAAAG-ATTTTCTTG-TG
62 CTAATTT-GAGGGACGAACTTTGATTCTTAAG-AAAATAAAGGGAAGAAAAGCA-TTTCTTGCAA
*
111045 CAAT-CAAAGCATCAATATCATGTATCCCAATGAAGAA
124 AAATGC-AA-CATCAATATCATGTATCCCAATGAAGAA
* * *
111082 AATGTGTTTT-ATTACCCAATAATGAAAGGAAGGGAGATTATTATGAGAATCCATATTTGTCTCA
1 AATGTGTTTTGACTACCCAATAATGAAAAGAAGGGAGATTATTATGAGAATCCATATTTGTCTAA
* *
111146 TTTGAGGGACGAACTTTGATTCTTAAGAAAATGATGGGAAGAAAAGCATTTCTTGCAAAAATGCA
66 TTTGAGGGACGAACTTTGATTCTTAAGAAAATAAAGGGAAGAAAAGCATTTCTTGCAAAAATGCA
* *
111211 ACATCAATATCATGTATTCCAATGCAGAA
131 ACATCAATATCATGTATCCCAATGAAGAA
111240 TGCCTATTTT
Statistics
Matches: 135, Mismatches: 16, Indels: 17
0.80 0.10 0.10
Matches are distributed among these distances:
157 3 0.02
158 85 0.63
159 10 0.07
160 27 0.20
161 10 0.07
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.31
Consensus pattern (159 bp):
AATGTGTTTTGACTACCCAATAATGAAAAGAAGGGAGATTATTATGAGAATCCATATTTGTCTAA
TTTGAGGGACGAACTTTGATTCTTAAGAAAATAAAGGGAAGAAAAGCATTTCTTGCAAAAATGCA
ACATCAATATCATGTATCCCAATGAAGAA
Found at i:111667 original size:12 final size:12
Alignment explanation
Indices: 111650--111675 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
111640 TTCTAAGTAA
111650 AATAATGGGAAG
1 AATAATGGGAAG
111662 AATAATGGGAAG
1 AATAATGGGAAG
111674 AA
1 AA
111676 AAGTTTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.00, G:0.31, T:0.15
Consensus pattern (12 bp):
AATAATGGGAAG
Found at i:113109 original size:159 final size:160
Alignment explanation
Indices: 112821--113111 Score: 342
Period size: 159 Copynumber: 1.8 Consensus size: 160
112811 CCTAATAAGG
* *
112821 AGAACATGTTTGTATTGCCTAATCTTGAAAAGAATGGAGATTGTTATAAAAATCCATATTTGTCT
1 AGAACATGTTTGTATTGCCTAATCTTGAAAAGAATGGAGATTATTATAAAAATCCATATTTATCT
* * ** * ** *
112886 TATTCGAGGGATGAGTTTTTACTCTAAGGAAAATTATGAGAAGAAAAGCTTTCTTTTTGAAACCA
66 CATTCGAAGGATGAACTTTGACTCTAAGGAAAAAAATGAGAAGAAAAGCTTTCTTTATGAAACCA
112951 AATCATTAATCTCATGTATCATGACTTAAA
131 AATCATTAATCTCATGTATCATGACTTAAA
* * *
112981 AGAACATGTTT-TATTG-CTCAAT-TATGAACAGAATGGAGATTATTATGAGAAA-CCATGTTTA
1 AGAACATGTTTGTATTGCCT-AATCT-TGAAAAGAATGGAGATTATTAT-AAAAATCCATATTTA
* * * *
113042 TCTCATTTGAAGGATGAACTTTGATTCTATA-GAAAAAAATGGGAAGAAAAGCTTT-TTTCATGT
63 TCTCATTCGAAGGATGAACTTTGACTCTA-AGGAAAAAAATGAGAAGAAAAGCTTTCTTT-ATGA
113105 AACCAAA
126 AACCAAA
113112 GCATCAGTAT
Statistics
Matches: 109, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
158 6 0.06
159 87 0.80
160 16 0.15
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.34
Consensus pattern (160 bp):
AGAACATGTTTGTATTGCCTAATCTTGAAAAGAATGGAGATTATTATAAAAATCCATATTTATCT
CATTCGAAGGATGAACTTTGACTCTAAGGAAAAAAATGAGAAGAAAAGCTTTCTTTATGAAACCA
AATCATTAATCTCATGTATCATGACTTAAA
Found at i:116891 original size:20 final size:20
Alignment explanation
Indices: 116866--116918 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
116856 ATTTGCTTGC
116866 ATGTATTGATACATTATTTA
1 ATGTATTGATACATTATTTA
116886 ATGTATTGATACATTATTTA
1 ATGTATTGATACATTATTTA
*
116906 ATCTA-TGATACAT
1 ATGTATTGATACAT
116919 CTGGGTATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 8 0.25
20 24 0.75
ACGTcount: A:0.36, C:0.08, G:0.09, T:0.47
Consensus pattern (20 bp):
ATGTATTGATACATTATTTA
Found at i:116993 original size:22 final size:22
Alignment explanation
Indices: 116945--117003 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 22
116935 AAAAACCTAG
*
116945 ATGTATCAATACAA--TGATAA
1 ATGTATCAATACAATTTCATAA
116965 ATGTATCAATACAATTTCA-AA
1 ATGTATCAATACAATTTCATAA
*
116986 CATGTATCGATAC-ATTTC
1 -ATGTATCAATACAATTTC
117004 TTTGGCAGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
20 14 0.41
21 7 0.21
22 13 0.38
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.34
Consensus pattern (22 bp):
ATGTATCAATACAATTTCATAA
Found at i:117054 original size:19 final size:19
Alignment explanation
Indices: 117030--117093 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 19
117020 TATCCATACA
117030 ATGTATCAATACAAAACTT
1 ATGTATCAATACAAAACTT
117049 ATGTATCAATAC---A--T
1 ATGTATCAATACAAAACTT
117063 -TGTATCAATACAAAACTT
1 ATGTATCAATACAAAACTT
*
117081 ATGTATCGATACA
1 ATGTATCAATACA
117094 TTTACTATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
16 2 0.05
18 1 0.03
19 23 0.61
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.33
Consensus pattern (19 bp):
ATGTATCAATACAAAACTT
Found at i:117094 original size:32 final size:32
Alignment explanation
Indices: 117013--117095 Score: 139
Period size: 32 Copynumber: 2.6 Consensus size: 32
117003 CTTTGGCAGT
* *
117013 ACTTATGTATCCATACAATGTATCAATACAAA
1 ACTTATGTATCAATACATTGTATCAATACAAA
117045 ACTTATGTATCAATACATTGTATCAATACAAA
1 ACTTATGTATCAATACATTGTATCAATACAAA
*
117077 ACTTATGTATCGATACATT
1 ACTTATGTATCAATACATT
117096 TACTATTTGT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 48 1.00
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.35
Consensus pattern (32 bp):
ACTTATGTATCAATACATTGTATCAATACAAA
Found at i:117701 original size:159 final size:157
Alignment explanation
Indices: 117392--120040 Score: 950
Period size: 158 Copynumber: 16.8 Consensus size: 157
117382 GTGTCTACAC
* * * * * * * **
117392 CAATCATGAAAAAAAT-GAAAGTCATTAAGAGAATCGATGTTTATCTCATTTAATTGA-AAACTT
1 CAATCATGAAAAGAATGGAGA-TTATTATGAGAATCCATGTTTGTCTCATTTGAGGGATAAACTT
* ** * * **
117455 TGATTCTAAGGAAAATGATAGGAAGGAAA--TTTT-TTACAGTGAAACAAAAGCATTAATATTGT
65 TGATTCTAAGAAAAATGATAGGAAAAAAAGCTTTTCTT--AG-GAAACCAAAGCATCAATATCAT
* * * *
117517 GTATTCCAATA-AGGAGAATAAGTTTTTATTAAG
127 GTA-TCCCATAGAGGAAAACATGTTTTTATT--G
* * * * *
117550 GAATCATGAAAGGAATGGAAATTATTATGAGAATCCATGTTTGTCTCATATGAGGGACAAACTTT
1 CAATCATGAAAAGAATGGAGATTATTATGAGAATCCATGTTTGTCTCATTTGAGGGATAAACTTT
* *
117615 GATTCTAAGAAAAATGATGGGAAAAAAAGCTTTTCTTAGGAAACCAAAGCATTAATATCATGTAT
66 GATTCTAAGAAAAATGATAGGAAAAAAAGCTTTTCTTAGGAAACCAAAGCATCAATATCATGTAT
*
117680 CTCATAGAGGAAAACATGTTTTTATTG
131 CCCATAGAGGAAAACATGTTTTTATTG
* * * * * * * *
117707 TCCACTCA-AAAGAATAATGCAGATTATTATGATAATCCAT-TTTGTCTCATTTAAGGAATGAAC
1 --CAATCATGAA-AAGAATGGAGATTATTATGAGAATCCATGTTTGTCTCATTTGAGGGATAAAC
* * * ** * *
117770 TTTAATTCTTACAAAAATGAT-GG-AAAAAAGCTTTTCTTATAAAACCAAAGCCTAAATATCGA-
63 TTTGATTCTAAGAAAAATGATAGGAAAAAAAGCTTTTCTTAGGAAACCAAAGCATCAATATC-AT
*
117832 GTATCCCA-ATGAGGAAAACTTGTTTTTATTG
127 GTATCCCATA-GAGGAAAACATGTTTTTATTG
* * * * *** *
117863 CCAATTAGGAAAAGAATAGAGATTATTATAAGAATTTGTGTTTGTCTCATTTGAGGGATGAACTT
1 -CAATCATGAAAAGAATGGAGATTATTATGAGAATCCATGTTTGTCTCATTTGAGGGATAAACTT
* * * * *
117928 TGATTCTAA-AGAAAATGAT-GGAAGGAAAAGCTTTTCAT-GCAAAACCAAAGCATCCATATCGT
65 TGATTCTAAGA-AAAATGATAGGAA-AAAAAGCTTTTCTTAG-GAAACCAAAGCATCAATATCAT
* * * *** *
117990 GTATCCTATTGAGGATAGTGTATTTTTATTG
127 GTATCCCATAGAGGAAAACATGTTTTTATTG
* * * * *
118021 CCATATCCT-AGAAAGAATGGAGATCATTATGAGAATCTAT-TTTGTC-CTATTT--TGGAAAAA
1 -CA-ATCATGA-AAAGAATGGAGATTATTATGAGAATCCATGTTTGTCTC-ATTTGAGGGATAAA
* * ** * * *
118081 CTTTGATTCTAAAAAAAATGAT-GGGAAAAAAGCTTTTCTTCTGAAACCAAATCATTAATATCGT
62 CTTTGATTCTAAGAAAAATGATAGGAAAAAAAGCTTTTCTTAGGAAACCAAAGCATCAATATCAT
* ** ** *
118145 GTATCCTA-ATGA-GAAAATGTGTTTTCGTTACC
127 GTATCCCATA-GAGGAAAACATGTTTTTATT--G
* * * * * * * * *
118177 CAATCATGAAAATAATGGATATTAATATGAGACTCCATGATTATCTCCTTTGAGGGATGAATTTT
1 CAATCATGAAAAGAATGGAGATTATTATGAGAATCCATGTTTGTCTCATTTGAGGGATAAACTTT
* * * * * *
118242 GATTCTAAGGAAAATGATAGGAAGAAAAGATTTTCTTATGAAGCCAAAGCATCAATAACATGTAT
66 GATTCTAAGAAAAATGATAGGAAAAAAAGCTTTTCTTAGGAAACCAAAGCATCAATATCATGTAT
* * *
118307 CCCAAAGAAGAGAACATGTTTTTATTAG
131 CCCATAGAGGAAAACATGTTTTTATT-G
* ** ** * *
118335 CCAAT--TGTAACAAGAATGGAGATTGTTAACAGAATTGATGTTTGCCTCATTTAAGGGA-AAAC
1 -CAATCATG-AA-AAGAATGGAGATTATTATGAGAATCCATGTTTGTCTCATTTGAGGGATAAAC
* * * * * * **
118397 TTTGATTTTAAGGAAAATAATAGGAAAGAAAGTTTTTCTT-GTGAAACAAAAATATCAATATCAT
63 TTTGATTCTAAGAAAAATGATAGGAAAAAAAGCTTTTCTTAG-GAAACCAAAGCATCAATATCAT
* *
118461 GTATCCCA-ATGAGGAGAACAAGTTTTTATTG
127 GTATCCCATA-GAGGAAAACATGTTTTTATTG
** * * * * * *
118492 CCTTAA-CACAAAAAGAATGGAGCTTTTTATTAGAATCTATGTTTGTCTTATTTGAGGGATAGAC
1 -C--AATCATGAAAAGAATGGAGATTATTATGAGAATCCATGTTTGTCTCATTTGAGGGATAAAC
* * * * * * * * * *
118556 TTTAATTCTAAGGAAAATGGTAGGAAGAAAAGCTATTCTCAAGAAACTAAAGGATCAATCTCATG
63 TTTGATTCTAAGAAAAATGATAGGAAAAAAAGCTTTTCTTAGGAAACCAAAGCATCAATATCATG
* * * *
118621 TATCCCA-ACAAGGAGAACTTGTTTTTGTTG
128 TATCCCATA-GAGGAAAACATGTTTTTATTG
* * * * * ** * *
118651 TCCGATGATGAAAATAATGTAGATTGTTAAAAGAATCCATTTTTTATCTCATTTGAGGGATAAAC
1 --CAATCATGAAAAGAATGGAGATTATTATGAGAATCCA-TGTTTGTCTCATTTGAGGGATAAAC
* *** ** ** *
118716 TTTGATTCTTATCATTTGAGGATGAACTTTGATTCTTAGGAAAA--TGGTCAT-GTGAAACCAAA
63 TTTGATTC-TA--A---GA--A--AA--ATGA-TAGGAAAAAAAGCTTTTCTTAG-GAAACCAAA
* * * * *
118778 TCATCAATATCGTGTA-CCTCA-ATGAGGAGAACCT-TTTTT-TTAC
114 GCATCAATATCATGTATCC-CATA-GAGGAAAACATGTTTTTATT-G
** * ** * * *
118821 CAAATCAACAAAAAAACAGAGATTATAATGAGAATCAATGTTTGTCTCATTTGAGGGATGAACTT
1 C-AATCATGAAAAGAATGGAGATTATTATGAGAATCCATGTTTGTCTCATTTGAGGGATAAACTT
* * * * *
118886 TCATTCTAATAAAACTGAT--GAAAGGAAAAGCTTTACTT-GCGAAATCAAA--A-C-ATATCAT
65 TGATTCTAAGAAAAATGATAGGAAA--AAAAGCTTTTCTTAG-GAAACCAAAGCATCAATATCAT
* * **
118944 GTATCCCA-ACAAGGATAATGTGTTTTTATTG
127 GTATCCCATA-GAGGAAAACATGTTTTTATTG
* * * * ** *
118975 CCATATCCAAG-AAAGAA-GAGAGGTTGTTATGAGAATCCAT-CTTGTCTTGTTTGAAAGGCA-A
1 -CA-AT-CATGAAAAGAATG-GAGATTATTATGAGAATCCATGTTTGTCTCATTTG--AGGGATA
* * *
119036 AA-TTTGATTCTAAGAAAAATGATGGGAAGAAAAA-CTTTTATT-GTGAAACCAAATCATCAATA
60 AACTTTGATTCTAAGAAAAATGATAGGAA-AAAAAGCTTTTCTTAG-GAAACCAAAGCATCAATA
** * *
119098 TCATGTATCTTAATA-AAGACAACATGGTTTTT-TTGG
123 TCATGTATC-CCATAGAGGAAAACAT-GTTTTTATT-G
* * * * * ** * * * *
119134 CCAATTATGAATAGAATAGAGATTGTTATGAGATTTAATATTTATTTTATTTGAGGGACT-AACT
1 -CAATCATGAAAAGAATGGAGATTATTATGAGAATCCATGTTTGTCTCATTTGAGGGA-TAAACT
* * * * * * *
119198 TTGATTCTAAGGAAAATGATAAG-AGAAAAG-TTATT-TT-GTGAAAGCAATGCATTAATAT-GT
64 TTGATTCTAAGAAAAATGATAGGAAAAAAAGCTT-TTCTTAG-GAAACCAAAGCATCAATATCAT
* * ** ** * * *
119258 GTGTCCTA-ATGAGGCGAATGTGCTTTGACTG
127 GTATCCCATA-GAGGAAAACATGTTTTTATTG
** * * * ** * * * * *
119289 CTCAAAAATGAAAACAATGGTGCTTATTACAAGAATCCCTCTTTGTCTCATTTAAAGGACT-AAT
1 --CAATCATGAAAAGAATGGAGATTATTATGAGAATCCATGTTTGTCTCATTTGAGGGA-TAAAC
* * * * * * * ** * ** *
119353 TTTGATTTTAAGGAATACGGTGGGAAAGAAAGCTTTTCTTCTGAAACCAAGGTGTCATTATCATG
63 TTTGATTCTAAGAAAAATGATAGGAAAAAAAGCTTTTCTTAGGAAACCAAAGCATCAATATCATG
* *
119418 TATGCCAATA-AGGATAACATGTTTTTATTG
128 TAT-CCCATAGAGGAAAACATGTTTTTATTG
* * * * * * **
119448 CCATATCCT-AGAAAGAATGAAGATTGTTATGAGAATCTATGTTTATCTCATTTTATAGATAAAC
1 -CA-ATCATGA-AAAGAATGGAGATTATTATGAGAATCCATGTTTGTCTCATTTGAGGGATAAAC
* * * ** *
119512 TTTAATTCTAA-AAAAAGTAATGGGAAAAAAAAGCTTTTCTT-GTGAAACCAATTCATAAATATC
63 TTTGATTCTAAGAAAAA-TGATAGG-AAAAAAAGCTTTTCTTAG-GAAACCAAAGCATCAATATC
*** * **
119575 ATGT-TTTAAT-GAGGATAATGTGTTTTTATTG
125 ATGTATCCCATAGAGGAAAACATGTTTTTATTG
*
119606 CCCAATTATGAAAAGAATGTG-GATTATTATGAG-AT--A--TTTGTCTCATTTGAGGGACT-AA
1 --CAATCATGAAAAGAATG-GAGATTATTATGAGAATCCATGTTTGTCTCATTTGAGGGA-TAAA
* * * * * * *
119664 CTTTGATTCCAAG-GAAATGATA-GAAAGAAAAACTATTC-TCGTGAAACCAAATCATAAATATC
62 CTTTGATTCTAAGAAAAATGATAGGAAA-AAAAGCTTTTCTTAG-GAAACCAAAGCATCAATATC
** ** *
119726 ATGTATCTTATTA-AGGAAAATGTGTTTTGATTG
125 ATGTATCCCA-TAGAGGAAAACATGTTTTTATTG
* * * ** * * * * * *
119759 CCCAATCTTGAATAGGATAAAGATTATTATGAGAATCCATTTTTGGCTTATTTAAGGAATGAACT
1 --CAATCATGAAAAGAATGGAGATTATTATGAGAATCCATGTTTGTCTCATTTGAGGGATAAACT
* * **
119824 TTTATTCTAA-AAAAATGATTATTAGAAAGCAAGC-TTTCTTATGG-AACCAAAGCATCAATATC
64 TTGATTCTAAGAAAAATGA-TA--GGAAAAAAAGCTTTTCTTA-GGAAACCAAAGCATCAATATC
* * ** * *
119886 ATGTATCCCAATA-AAGATAACATCATTTTGTTCC
125 ATGTATCCC-ATAGAGGAAAACATGTTTTTATT-G
* * * * *
119920 CAATTATGAAAAGAATGGACATTGA-TACT-AGAATCCATGTTTGTTTCATTTGAAGGATGAACT
1 CAATCATGAAAAGAATGGAGATT-ATTA-TGAGAATCCATGTTTGTCTCATTTGAGGGATAAACT
* * * * * * * * * *
119983 TTAATTATAGGGAAAATAATAGGAAGAAAAGTTTTTCTAAGGAAACTAAAGCACCAAT
64 TTGATTCTAAGAAAAATGATAGGAAAAAAAGCTTTTCTTAGGAAACCAAAGCATCAAT
120041 GTTGTGTATC
Statistics
Matches: 1858, Mismatches: 486, Indels: 294
0.70 0.18 0.11
Matches are distributed among these distances:
150 4 0.00
151 35 0.02
152 6 0.00
153 94 0.05
154 95 0.05
155 123 0.07
156 216 0.12
157 100 0.05
158 482 0.26
159 451 0.24
160 117 0.06
161 13 0.01
162 8 0.00
163 1 0.00
165 1 0.00
166 1 0.00
167 2 0.00
168 31 0.02
169 25 0.01
170 9 0.00
171 35 0.02
172 2 0.00
173 7 0.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (157 bp):
CAATCATGAAAAGAATGGAGATTATTATGAGAATCCATGTTTGTCTCATTTGAGGGATAAACTTT
GATTCTAAGAAAAATGATAGGAAAAAAAGCTTTTCTTAGGAAACCAAAGCATCAATATCATGTAT
CCCATAGAGGAAAACATGTTTTTATTG
Found at i:118016 original size:158 final size:152
Alignment explanation
Indices: 117573--118161 Score: 469
Period size: 156 Copynumber: 3.8 Consensus size: 152
117563 AATGGAAATT
* * * **
117573 ATTATGAGAATCCATGTTTGTCTCATATGAGGGACAAACTTTGATTCTAAGAAAAATGATGGGAA
1 ATTATAAGAATCTAT-TTTGTCTCAT-TTAGGGATGAACTTTGATTCTAA-AAAAATGAT-GG-A
** * * * * *
117638 AAAAAGCTTTTCTTAGGAAACCAAAGCATTAATATCATGTAT-CTCATAGAGGAAAACATGTTTT
61 AAAAAGCTTTTC-TACAAAACCAAAGCATAAATATCGTGTATCCTAAT-GAGGAAAACTTATTTT
* *
117702 TATTGTCCA-CTC-A-AAAGAATAATGCAGATT
124 TATTG-CCATATCTAGAAAGAAT-A-G-AGATC
* * * * * *
117732 ATTATGATAATCCATTTTGTCTCATTTAAGGAATGAACTTTAATTCTTACAAAAATGATGGAAAA
1 ATTATAAGAATCTATTTTGTCTCATTT-AGGGATGAACTTTGATTC-TAAAAAAATGATGGAAAA
* * * * *
117797 AAGCTTTTCTTATAAAACCAAAGCCTAAATATCGAGTATCCCAATGAGGAAAACTTGTTTTTATT
64 AAGCTTTTC-TACAAAACCAAAGCATAAATATCGTGTATCCTAATGAGGAAAACTTATTTTTATT
*
117862 GCCA-AT-TAGGAAAAGAATAGAGATT
128 GCCATATCTA-G-AAAGAATAGAGATC
* *
117887 ATTATAAGAATTTGTGTTTGTCTCATTTGAGGGATGAACTTTGATTCTAAAGAAAATGATGGAAG
1 ATTATAAGAATCTAT-TTTGTCTCATTT-AGGGATGAACTTTGATTCTAAA-AAAATGATGGAA-
* ** * * *
117952 GAAAAGCTTTTCATGCAAAACCAAAGCATCCATATCGTGTATCCTATTGAGG-ATAGTGTATTTT
62 -AAAAGCTTTTC-TACAAAACCAAAGCATAAATATCGTGTATCCTAATGAGGAAAACT-TATTTT
*
118016 TATTGCCATATCCTAGAAAGAATGGAGATC
124 TATTGCCATAT-CTAGAAAGAATAGAGATC
* * **
118046 ATTATGAGAATCTATTTTGTC-CTATTT-TGGAAAAACTTTGATTCTAAAAAAAATGATGGGAAA
1 ATTATAAGAATCTATTTTGTCTC-ATTTAGGGATGAACTTTGATTCT-AAAAAAATGAT-GGAAA
* * * *
118109 AAAGCTTTTCTTCTGAAACCAAATCATTAATATCGTGTATCCTAATGA-GAAAA
63 AAAGCTTTTCTAC-AAAACCAAAGCATAAATATCGTGTATCCTAATGAGGAAAA
118162 TGTGTTTTCG
Statistics
Matches: 357, Mismatches: 53, Indels: 44
0.79 0.12 0.10
Matches are distributed among these distances:
154 3 0.01
155 65 0.18
156 121 0.34
157 18 0.05
158 105 0.29
159 42 0.12
160 1 0.00
161 2 0.01
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (152 bp):
ATTATAAGAATCTATTTTGTCTCATTTAGGGATGAACTTTGATTCTAAAAAAATGATGGAAAAAA
GCTTTTCTACAAAACCAAAGCATAAATATCGTGTATCCTAATGAGGAAAACTTATTTTTATTGCC
ATATCTAGAAAGAATAGAGATC
Found at i:118257 original size:313 final size:314
Alignment explanation
Indices: 117551--118624 Score: 852
Period size: 313 Copynumber: 3.4 Consensus size: 314
117541 TTTATTAAGG
* * **
117551 AATCATGAAAGGAATGGAAATTATTATGAGAATCCATGTTTGTCTCATATGAGGGACAAACTTTG
1 AATCATGAAAAGAATGGAAATTATTATGAGAATCCATGTTTGTCTCATTTGAGGGATGAACTTTG
* * * * * *
117616 ATTCTAAGAAAAATGATGGGAAAAAAAGCTTTTCTTAGGAAACCAAAGCATTAATATCATGTATC
66 ATTCTAAGGAAAATGATAGGAAGAAAAGCTTTTCATAGAAAACCAAAGCATCAATATCATGTATC
* * * * *
117681 TCATAGAGGAAAACATGTTTTTATTGTCCACTCAAAAGAATAATGCAGATTATTATGATAATCCA
131 TCATAGAGGAAAACATATTTTTATTGTCCAATCAAAAGAAGAATGCAGATCATTATGAGAATCCA
* * *
117746 TTTTGTCTCATTTAAGGAATGAACTTTAATTCTTACAAAAATGATGGAAAAAAGCTTTTCTTATA
196 TTTTGTCTCATTTAAGGAATAAACTTTAATTCTAAAAAAAATGATGGAAAAAAGCTTTTCTTATA
* * *
117811 AAACCAAAGCCTAAATATCGAGTATCCCAATGAGGAAAACTTGTTTTTATTGCC
261 AAACCAAAGCATAAATATCGAGTATCCCAATGAGGAAAACTTGTTTTCATTCCC
* * * * * ***
117865 AATTAGGAAAAGAATAGAGATTATTATAAGAATTTGTGTTTGTCTCATTTGAGGGATGAACTTTG
1 AATCATGAAAAGAATGGAAATTATTATGAGAATCCATGTTTGTCTCATTTGAGGGATGAACTTTG
* * *
117930 ATTCTAAAGAAAATGAT-GGAAGGAAAAGCTTTTCAT-GCAAAACCAAAGCATCCATATCGTGTA
66 ATTCTAAGGAAAATGATAGGAA-GAAAAGCTTTTCATAG-AAAACCAAAGCATCAATATCATGTA
* * *** ** *
117993 TC-CTATTGAGGATAGTGTATTTTTATTG-CCATATC-CTAGAAAGAATGGAGATCATTATGAGA
129 TCTC-ATAGAGGAAAACATATTTTTATTGTCCA-ATCAAAAG-AAGAATGCAGATCATTATGAGA
* * *
118055 ATCTATTTTGTC-CTATTT-TGGAA-AAACTTTGATTCTAAAAAAAATGATGGGAAAAAAGCTTT
191 ATCCATTTTGTCTC-ATTTAAGGAATAAACTTTAATTCTAAAAAAAATGAT-GGAAAAAAGCTTT
* * * * * * *
118117 TCTTCTGAAACCAAATCATTAATATCGTGTATCCTAATGA-GAAAA-TGTGTTTTCGTTACCC
254 TCTTATAAAACCAAAGCATAAATATCGAGTATCCCAATGAGGAAAACT-TGTTTTCATT-CCC
* * * * * * * *
118178 AATCATGAAAATAATGGATATTAATATGAGACTCCATGATTATCTCCTTTGAGGGATGAATTTTG
1 AATCATGAAAAGAATGGAAATTATTATGAGAATCCATGTTTGTCTCATTTGAGGGATGAACTTTG
* * * *
118243 ATTCTAAGGAAAATGATAGGAAGAAAAGATTTTCTTATG-AAGCCAAAGCATCAATAACATGTAT
66 ATTCTAAGGAAAATGATAGGAAGAAAAGCTTTTCATA-GAAAACCAAAGCATCAATATCATGTAT
* * * * * *** * * ** ** *
118307 CCCAAAGAAGAGAACATGTTTTTATTAG-CCAATTGTAACAAGAATGGAGATTGTTAACAGAATT
130 CTCATAGAGGAAAACATATTTTTATT-GTCCAATCAAAAGAAGAATGCAGATCATTATGAGAATC
* * * * * ** * *
118371 GATGTTTGCCTCATTTAAGGGA-AAACTTTGATTTTAAGGAAAATAATAGGAAAGAAAGTTTTTC
194 CAT-TTTGTCTCATTTAAGGAATAAACTTTAATTCTAAAAAAAATGAT-GGAAA-AAAGCTTTTC
* * * ** * * ** * *
118435 TTGTGAAACAAAAATATCAATATC-ATGTATCCCAATGAGGAGAACAAGTTTTTATTGCCTT
256 TTATAAAACCAAAGCATAAATATCGA-GTATCCCAATGAGGAAAACTTGTTTTCATT-CC-C
** ** * * * *
118496 AA-CACAAAAAGAATGGAGCTTTTTATTAGAATCTATGTTTGTCTTATTTGAGGGAT-AGACTTT
1 AATCATGAAAAGAATGGAAATTATTATGAGAATCCATGTTTGTCTCATTTGAGGGATGA-ACTTT
* * * * *
118559 AATTCTAAGGAAAATGGTAGGAAGAAAAGCTATTCTCA-AG-AAACTAAAGGATCAATCTCATGT
65 GATTCTAAGGAAAATGATAGGAAGAAAAGCT-TT-TCATAGAAAACCAAAGCATCAATATCATGT
118622 ATC
128 ATC
118625 CCAACAAGGA
Statistics
Matches: 598, Mismatches: 136, Indels: 49
0.76 0.17 0.06
Matches are distributed among these distances:
311 1 0.00
312 34 0.06
313 203 0.34
314 175 0.29
315 31 0.05
316 40 0.07
317 107 0.18
318 5 0.01
319 2 0.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.32
Consensus pattern (314 bp):
AATCATGAAAAGAATGGAAATTATTATGAGAATCCATGTTTGTCTCATTTGAGGGATGAACTTTG
ATTCTAAGGAAAATGATAGGAAGAAAAGCTTTTCATAGAAAACCAAAGCATCAATATCATGTATC
TCATAGAGGAAAACATATTTTTATTGTCCAATCAAAAGAAGAATGCAGATCATTATGAGAATCCA
TTTTGTCTCATTTAAGGAATAAACTTTAATTCTAAAAAAAATGATGGAAAAAAGCTTTTCTTATA
AAACCAAAGCATAAATATCGAGTATCCCAATGAGGAAAACTTGTTTTCATTCCC
Found at i:118745 original size:27 final size:28
Alignment explanation
Indices: 118699--118753 Score: 94
Period size: 27 Copynumber: 2.0 Consensus size: 28
118689 ATTTTTTATC
118699 TCATTTGAGGGATAAACTTTGATTCTTA
1 TCATTTGAGGGATAAACTTTGATTCTTA
*
118727 TCATTTGA-GGATGAACTTTGATTCTTA
1 TCATTTGAGGGATAAACTTTGATTCTTA
118754 GGAAAATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 18 0.69
28 8 0.31
ACGTcount: A:0.27, C:0.11, G:0.18, T:0.44
Consensus pattern (28 bp):
TCATTTGAGGGATAAACTTTGATTCTTA
Found at i:121727 original size:144 final size:144
Alignment explanation
Indices: 121440--121720 Score: 377
Period size: 144 Copynumber: 2.0 Consensus size: 144
121430 GATCATTTTG
* *
121440 GGCTAGGGATGATAGGATGCCTATTGAAACCTATGTTTTGAGTTACGTAACTCGAAACATTGATC
1 GGCTAGGGATGATAGGATGCCTATTGAAACCTATGTTTTGAGTTACGAAACTCAAAACATTGATC
* * * * * * * * * * *** *
121505 TCTTGGTCTACATAATTCAAGGATTTTCTAGTTGGGTTTGAAAGTTTGTTATGTGCAAAGAGGTT
66 CCGTGGTCTACATAATTCAAAGATTTGCCAATTGGGATTCAAAATTGGTTACACGCAAAGAGGTA
121570 TGAACCTTCTTGCA
131 TGAACCTTCTTGCA
*
121584 GGCTAGGTATGATCA-GATGCCTATTGAAACCTATGTTTTGAGTTACGAAACTCAAAACATTGAT
1 GGCTAGGGATGAT-AGGATGCCTATTGAAACCTATGTTTTGAGTTACGAAACTCAAAACATTGAT
121648 CCCGTGGTCTACATAATTCAAAGATTTGCCAATT-GGATTCAAGAATTGGTTACACGCAAAGAGG
65 CCCGTGGTCTACATAATTCAAAGATTTGCCAATTGGGATTCAA-AATTGGTTACACGCAAAGAGG
121712 TATGAACCT
129 TATGAACCT
121721 CTTTGCAACA
Statistics
Matches: 118, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
143 6 0.05
144 111 0.94
145 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.33
Consensus pattern (144 bp):
GGCTAGGGATGATAGGATGCCTATTGAAACCTATGTTTTGAGTTACGAAACTCAAAACATTGATC
CCGTGGTCTACATAATTCAAAGATTTGCCAATTGGGATTCAAAATTGGTTACACGCAAAGAGGTA
TGAACCTTCTTGCA
Found at i:125219 original size:51 final size:51
Alignment explanation
Indices: 125126--125225 Score: 130
Period size: 51 Copynumber: 2.0 Consensus size: 51
125116 TCATTGATGT
* * * *
125126 TTTTATTTCTAAAACATTGATTTTCCACCATCAGGGATACTCCAACCCCGA
1 TTTTATTCCTAAAACATTGATTTTCCACAATCAGAGAAACTCCAACCCCGA
* *
125177 TTTTATTCCTAAAACA-TGATTTTTTCACAATTAGAGAAACTCCAACCCC
1 TTTTATTCCTAAAACATTGA-TTTTCCACAATCAGAGAAACTCCAACCCC
125226 ATTATTTTCA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
50 3 0.07
51 39 0.93
ACGTcount: A:0.32, C:0.26, G:0.08, T:0.34
Consensus pattern (51 bp):
TTTTATTCCTAAAACATTGATTTTCCACAATCAGAGAAACTCCAACCCCGA
Found at i:125243 original size:79 final size:80
Alignment explanation
Indices: 125158--125407 Score: 276
Period size: 79 Copynumber: 3.2 Consensus size: 80
125148 TTCCACCATC
* * *
125158 AGGGATACTCCAACCCCGATTTTATTCCTAAAACA-TGATTTTTTCACAATTAGAGAAACTCCAA
1 AGGGATACTCCAACCCCGATTTTATTTCTAAAACACTGATTTTTTCACCATTAGAGATACTCCAA
*
125222 CCCCATTATTTTCAA
66 CCCCGTTATTTTCAA
* * * * * *
125237 AGGGATACTCCAACCCCGATCTTATTTCTAAAATACCGATTTTCT-ACCATTGGGGATACTCCAA
1 AGGGATACTCCAACCCCGATTTTATTTCTAAAACACTGATTTTTTCACCATTAGAGATACTCCAA
*
125301 CCCCGTTATTTCCAA
66 CCCCGTTATTTTCAA
* * * * * * *
125316 GGGGATACACCAAACTCGATTTTATTTCTAAAACACT-AATTTTTCACCA-TCGAGATACTTCAA
1 AGGGATACTCCAACCCCGATTTTATTTCTAAAACACTGATTTTTTCACCATTAGAGATACTCCAA
*
125379 CCCCGTTA-TTTCTGA
66 CCCCGTTATTTTC-AA
*
125394 GGGGATACTCCAAC
1 AGGGATACTCCAAC
125408 TCTCGTTATT
Statistics
Matches: 141, Mismatches: 27, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
77 3 0.02
78 37 0.26
79 94 0.67
80 7 0.05
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.31
Consensus pattern (80 bp):
AGGGATACTCCAACCCCGATTTTATTTCTAAAACACTGATTTTTTCACCATTAGAGATACTCCAA
CCCCGTTATTTTCAA
Found at i:125428 original size:29 final size:28
Alignment explanation
Indices: 125369--125437 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 28
125359 TCACCATCGA
* **
125369 GATACTTCAACCCCGTTATTTCTGAGGG
1 GATACTCCAACCCCGTTATTTCTGAACG
* *
125397 GATACTCCAACTCTCGTTATTTTTGAACG
1 GATACTCCAAC-CCCGTTATTTCTGAACG
125426 GATACTCCAACC
1 GATACTCCAACC
125438 ACGATTTTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
28 11 0.31
29 24 0.69
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.32
Consensus pattern (28 bp):
GATACTCCAACCCCGTTATTTCTGAACG
Found at i:125430 original size:107 final size:107
Alignment explanation
Indices: 125288--125519 Score: 299
Period size: 107 Copynumber: 2.2 Consensus size: 107
125278 TTCTACCATT
* *
125288 GGGGATACTCCAACCCCGTTATTTCCAAGGGGATACACCAAACTCGATTTTATTTCTAAAACACT
1 GGGGATACTCCAACCCCGTTATTTCCAAGCGGATACACCAAACACGATTTTATTTCTAAAACACT
**
125353 AATTTTTCACCATCGA-GATACTTCAACCCCGTTA-TTTCTGA
66 AATTTTTCACCATCGAGGATACTTCAACCCCACTATTTTC-GA
* ** * *
125394 GGGGATACTCCAACTCTCGTTATTTTTGAA-CGGATACTCCAACCACGATTTTATTTCTAAAACA
1 GGGGATACTCCAAC-CCCGTTA-TTTCCAAGCGGATACACCAAACACGATTTTATTTCTAAAACA
* * *
125458 TTGATTTTTCACCATCGAGGATACTTCAACCCTACTATTTTCGA
64 CTAATTTTTCACCATCGAGGATACTTCAACCCCACTATTTTCGA
*
125502 GCGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
125520 GTTTTATTTC
Statistics
Matches: 108, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
106 14 0.13
107 55 0.51
108 35 0.32
109 4 0.04
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (107 bp):
GGGGATACTCCAACCCCGTTATTTCCAAGCGGATACACCAAACACGATTTTATTTCTAAAACACT
AATTTTTCACCATCGAGGATACTTCAACCCCACTATTTTCGA
Found at i:125453 original size:186 final size:187
Alignment explanation
Indices: 125212--125590 Score: 442
Period size: 186 Copynumber: 2.0 Consensus size: 187
125202 CACAATTAGA
* * ** * * *
125212 GAAACTCCAAC-CCCATTATTTTCAAAGGGATACTCCAACCCCGATCTTATTTCTAAAATACCGA
1 GAAACTCCAACTCTCGTTATTTTTGAACGGATACTCCAACCACGATCTTATTTCTAAAACACCGA
* * ** * *
125276 -TTTTCTACCATTGGGGATACTCCAACCCCGTTATTTCCAAGGGGATACACCAAACTCGATTTTA
66 TTTTTC-ACCATCGAGGATACTCCAACCCCACTATTTCCAAGCGGATACACCAAACCCGATTTTA
* * *
125340 TTTCTAAAACACTAATTTTTCACCATCGA-GATACTTCAACCCCGTTA-TTTCTGAGGG
130 TTTCTAAAACACCAATTTTCCACCATCGAGGATACTCCAACCCCGTTATTTTC-GAGGG
* * **
125397 GATACTCCAACTCTCGTTATTTTTGAACGGATACTCCAACCACGATTTTATTTCTAAAACATTGA
1 GAAACTCCAACTCTCGTTATTTTTGAACGGATACTCCAACCACGATCTTATTTCTAAAACACCGA
* * * * * * *
125462 TTTTTCACCATCGAGGATACTTCAACCCTACTATTTTCGAGCGGATACTCCAACCCCGGTTTTAT
66 TTTTTCACCATCGAGGATACTCCAACCCCACTATTTCCAAGCGGATACACCAAACCCGATTTTAT
* * *
125527 TTCTAAAACACCGATTTTCCACCATTGAGGATACTCCAACCCTGTTATTTTCGAGGG
131 TTCTAAAACACCAATTTTCCACCATCGAGGATACTCCAACCCCGTTATTTTCGAGGG
125584 GAAACTC
1 GAAACTC
125591 TAACCCTAGT
Statistics
Matches: 159, Mismatches: 31, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
185 10 0.06
186 113 0.71
187 32 0.20
188 4 0.03
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (187 bp):
GAAACTCCAACTCTCGTTATTTTTGAACGGATACTCCAACCACGATCTTATTTCTAAAACACCGA
TTTTTCACCATCGAGGATACTCCAACCCCACTATTTCCAAGCGGATACACCAAACCCGATTTTAT
TTCTAAAACACCAATTTTCCACCATCGAGGATACTCCAACCCCGTTATTTTCGAGGG
Found at i:125550 original size:79 final size:79
Alignment explanation
Indices: 125396--125644 Score: 320
Period size: 79 Copynumber: 3.1 Consensus size: 79
125386 ATTTCTGAGG
* * * * * *
125396 GGATACTCCAACTCT-CGTTATTTTTGAACGGATACTCCAACCACGATTTTATTTCTAAAACATT
1 GGATACTCCAACCCTAC--TATTTTCGAGCGGATACTCCAACCCCGGTTTTATTTCTAAAACATC
125460 GATTTTTCACCATCGA
64 GATTTTTCACCATCGA
* *
125476 GGATACTTCAACCCTACTATTTTCGAGCGGATACTCCAACCCCGGTTTTATTTCTAAAACACCGA
1 GGATACTCCAACCCTACTATTTTCGAGCGGATACTCCAACCCCGGTTTTATTTCTAAAACATCGA
* *
125541 TTTTCCACCATTGA
66 TTTTTCACCATCGA
** * * * **
125555 GGATACTCCAACCCTGTTATTTTCGAGGGGAAACTCTAACCCTAGTTTTATTTCTAAAACATCGA
1 GGATACTCCAACCCTACTATTTTCGAGCGGATACTCCAACCCCGGTTTTATTTCTAAAACATCGA
125620 TTTTTCACCATCGA
66 TTTTTCACCATCGA
125634 GGATACTCCAA
1 GGATACTCCAA
125645 ACCCGTTTTT
Statistics
Matches: 147, Mismatches: 21, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
79 133 0.90
80 13 0.09
81 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (79 bp):
GGATACTCCAACCCTACTATTTTCGAGCGGATACTCCAACCCCGGTTTTATTTCTAAAACATCGA
TTTTTCACCATCGA
Found at i:125633 original size:265 final size:266
Alignment explanation
Indices: 125160--125651 Score: 674
Period size: 265 Copynumber: 1.9 Consensus size: 266
125150 CCACCATCAG
* *
125160 GGATACTCCAACCCCGATTTTATTCCTAAAACATGATTTTTTCACAATTAGAGAAACTCCAACCC
1 GGATACTCCAACCACGATTTTATTCCTAAAACATGATTTTTTCACAATGAGAGAAACTCCAACCC
* * * *
125225 CATTATTTTCAAAGGGATACTCCAACCCCGATCTTATTTCTAAAATACCGATTTTCTACCATTGG
66 CACTATTTTCAAAGGGATACTCCAACCCCGATCTTATTTCTAAAACACCGATTTTCCACCATTGA
*
125290 GGATACTCCAACCCCGTTATTTCCAAGGGGATACACCAAACTCGATTTTATTTCTAAAACACTAA
131 GGATACTCCAACCCCGTTATTTCCAAGGGGATACACCAAACCCGATTTTATTTCTAAAACACTAA
* *
125355 TTTTTCACCATCGA-GATACTTCAACCCCGTTATTTCTGAGGGGATACTCCAACTCTCGTTATTT
196 TTTTTCACCATCGAGGATACTCCAAACCCGTTATTTCTGAGGGGATACTCCAACTCTCGTTATTT
125419 TTGAAC
261 TTGAAC
* * * *
125425 GGATACTCCAACCACGATTTTATTTCTAAAACATTGA-TTTTTCACCATCGAG-GATACTTCAAC
1 GGATACTCCAACCACGATTTTATTCCTAAAACA-TGATTTTTTCACAAT-GAGAGAAACTCCAAC
* * * *
125488 CCTACTATTTTC-GAGCGGATACTCCAACCCCGGTTTTATTTCTAAAACACCGATTTTCCACCAT
64 CCCACTATTTTCAAAG-GGATACTCCAACCCCGATCTTATTTCTAAAACACCGATTTTCCACCAT
* * * * *
125552 TGAGGATACTCCAACCCTGTTATTTTCGAGGGGA-A-ACTCTAACCCTAGTTTTATTTCTAAAAC
128 TGAGGATACTCCAACCCCGTTATTTCCAAGGGGATACAC-CAAACCCGA-TTTTATTTCTAAAAC
*
125615 A-TCGATTTTTCACCATCGAGGATACTCCAAACCCGTT
191 ACT-AATTTTTCACCATCGAGGATACTCCAAACCCGTT
125652 TTTATCTCCA
Statistics
Matches: 197, Mismatches: 23, Indels: 13
0.85 0.10 0.06
Matches are distributed among these distances:
263 2 0.01
264 10 0.05
265 165 0.84
266 20 0.10
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (266 bp):
GGATACTCCAACCACGATTTTATTCCTAAAACATGATTTTTTCACAATGAGAGAAACTCCAACCC
CACTATTTTCAAAGGGATACTCCAACCCCGATCTTATTTCTAAAACACCGATTTTCCACCATTGA
GGATACTCCAACCCCGTTATTTCCAAGGGGATACACCAAACCCGATTTTATTTCTAAAACACTAA
TTTTTCACCATCGAGGATACTCCAAACCCGTTATTTCTGAGGGGATACTCCAACTCTCGTTATTT
TTGAAC
Found at i:125938 original size:22 final size:20
Alignment explanation
Indices: 125913--125964 Score: 50
Period size: 22 Copynumber: 2.4 Consensus size: 20
125903 ATCCTTCTTA
125913 TGTATTTTTGTGTGTGTTATTT
1 TGTATTTTTGT-T-TGTTATTT
*
125935 TGTATGAATTTGTTTGTTATTT
1 TGTAT--TTTTGTTTGTTATTT
*
125957 TCTATTTT
1 TGTATTTT
125965 ACTAACATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
20 2 0.08
22 17 0.68
23 1 0.04
24 5 0.20
ACGTcount: A:0.13, C:0.02, G:0.17, T:0.67
Consensus pattern (20 bp):
TGTATTTTTGTTTGTTATTT
Found at i:128147 original size:28 final size:27
Alignment explanation
Indices: 128115--128189 Score: 100
Period size: 27 Copynumber: 2.7 Consensus size: 27
128105 ATTTTTCACA
128115 ATCGGGGATACTCCAACCCCGTTATTT
1 ATCGGGGATACTCCAACCCCGTTATTT
*
128142 CATCGGGGATTCTCCAA-CCCGTTATTT
1 -ATCGGGGATACTCCAACCCCGTTATTT
128169 -TCGAAGGGATACTCCAACCCC
1 ATCG--GGGATACTCCAACCCC
128190 AGCTTTATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
25 3 0.07
27 21 0.50
28 18 0.43
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.27
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCGTTATTT
Found at i:128273 original size:79 final size:79
Alignment explanation
Indices: 128143--128346 Score: 302
Period size: 79 Copynumber: 2.6 Consensus size: 79
128133 CCGTTATTTC
* *
128143 ATCGGGGATTCTCCAA-CCCGTTATTTTCGAAGGGATACTCCAACCCCAGCTTTATTTCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCAGCTTTATTTCTAAAAT
*
128207 ATTAATTTCTCACA
66 ATCAATTTCTCACA
* * *
128221 ATCGGGGATACTCCAACCCCGTTATTTTTGCGGGGATACTCCAACCCCAGCTTTATTTCTAAAGT
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCAGCTTTATTTCTAAAAT
* *
128286 ATCGATTTTTCACA
66 ATCAATTTCTCACA
* * *
128300 ATCGAGGATACTCCAGCCCCATTATTTTCGAGGGGATACTCCAACCC
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCC
128347 TGATTTTATT
Statistics
Matches: 112, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
78 15 0.13
79 97 0.87
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.31
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCAGCTTTATTTCTAAAAT
ATCAATTTCTCACA
Found at i:140773 original size:16 final size:16
Alignment explanation
Indices: 140744--140813 Score: 74
Period size: 16 Copynumber: 4.5 Consensus size: 16
140734 CCTTCTTTTT
140744 AAAAAATAACAAAAAA-
1 AAAAAA-AACAAAAAAC
* *
140760 ACAAAAAA-TAAAAA-
1 AAAAAAAACAAAAAAC
* *
140774 AAACAAAACAAAAAGC
1 AAAAAAAACAAAAAAC
140790 AAAAAAAACAAAAAAC
1 AAAAAAAACAAAAAAC
140806 AAAAAAAA
1 AAAAAAAA
140814 AAGAGAGAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
14 11 0.25
15 6 0.14
16 27 0.61
ACGTcount: A:0.86, C:0.10, G:0.01, T:0.03
Consensus pattern (16 bp):
AAAAAAAACAAAAAAC
Found at i:140783 original size:21 final size:20
Alignment explanation
Indices: 140744--140815 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 20
140734 CCTTCTTTTT
* *
140744 AAAAAATAACAAA-AAAACA
1 AAAAAAAAAAAAACAAAACA
140763 AAAAATAAAAAAAACAAAACA
1 AAAAA-AAAAAAAACAAAACA
*
140784 AAAAGCAAAAAAAACAAAA-A
1 AAAA-AAAAAAAAACAAAACA
140804 ACAAAAAAAAAA
1 A-AAAAAAAAAA
140816 GAGAGAAAAG
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
19 5 0.11
20 14 0.31
21 26 0.58
ACGTcount: A:0.86, C:0.10, G:0.01, T:0.03
Consensus pattern (20 bp):
AAAAAAAAAAAAACAAAACA
Found at i:140786 original size:28 final size:27
Alignment explanation
Indices: 140744--140815 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 27
140734 CCTTCTTTTT
* *
140744 AAAAAATAACAAAAAAACAAAAAATAA-
1 AAAAAACAAAAAAAAAACAAAAAA-AAC
*
140771 AAAAAACAAAACAAAAAGCAAAAAAAAC
1 AAAAAACAAAA-AAAAAACAAAAAAAAC
140799 AAAAAACAAAAAAAAAA
1 AAAAAACAAAAAAAAAA
140816 GAGAGAAAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
27 16 0.41
28 23 0.59
ACGTcount: A:0.86, C:0.10, G:0.01, T:0.03
Consensus pattern (27 bp):
AAAAAACAAAAAAAAAACAAAAAAAAC
Found at i:140824 original size:28 final size:28
Alignment explanation
Indices: 140744--140832 Score: 87
Period size: 28 Copynumber: 3.2 Consensus size: 28
140734 CCTTCTTTTT
* *
140744 AAAAAATAACAAAAAAA-CAAAAAATA-A
1 AAAAAACAAAAAAAAAAGCAAAAAA-AGA
*
140771 AAAAAACAAAACAAAAAGCAAAAAAA-A
1 AAAAAACAAAAAAAAAAGCAAAAAAAGA
*
140798 CAAAAAACAAAAAAAAAAG-AGAGAAAAGA
1 -AAAAAACAAAAAAAAAAGCA-AAAAAAGA
140827 AAAAAA
1 AAAAAA
140833 GAACCTGCTT
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
27 17 0.32
28 35 0.66
29 1 0.02
ACGTcount: A:0.84, C:0.08, G:0.06, T:0.02
Consensus pattern (28 bp):
AAAAAACAAAAAAAAAAGCAAAAAAAGA
Found at i:140825 original size:37 final size:36
Alignment explanation
Indices: 140754--140832 Score: 106
Period size: 37 Copynumber: 2.2 Consensus size: 36
140744 AAAAAATAAC
*
140754 AAAAAAACAAAAAATAAAAAAAACAAAACAAAAAGCA
1 AAAAAAACAAAAAACAAAAAAAACAAAACAAAAAG-A
* *
140791 AAAAAAACAAAAAACAAAAAAAA-AAGAGAGAAAAGA
1 AAAAAAACAAAAAACAAAAAAAACAAAACA-AAAAGA
140827 AAAAAA
1 AAAAAA
140833 GAACCTGCTT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
36 11 0.29
37 27 0.71
ACGTcount: A:0.85, C:0.08, G:0.06, T:0.01
Consensus pattern (36 bp):
AAAAAAACAAAAAACAAAAAAAACAAAACAAAAAGA
Found at i:140832 original size:1 final size:1
Alignment explanation
Indices: 140744--140815 Score: 54
Period size: 1 Copynumber: 72.0 Consensus size: 1
140734 CCTTCTTTTT
* * * * * * ** * *
140744 AAAAAATAACAAAAAAACAAAAAATAAAAAAAACAAAACAAAAAGCAAAAAAAACAAAAAACAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
140809 AAAAAAA
1 AAAAAAA
140816 GAGAGAAAAG
Statistics
Matches: 52, Mismatches: 19, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.86, C:0.10, G:0.01, T:0.03
Consensus pattern (1 bp):
A
Found at i:141959 original size:94 final size:94
Alignment explanation
Indices: 141840--142077 Score: 361
Period size: 94 Copynumber: 2.5 Consensus size: 94
141830 TTCTCTTTTT
*
141840 AAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCATGATGCTCTCTCCTTTCA-CC
1 AAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCATGACGCTCTCTCCTTTCATCC
*
141904 TTTTAGTCCTCAAAGAGCAGGATACCTTTC
66 -TTTAGTCCTCAAAGAGCAGGACACCTTTC
*
141934 AAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCATGACGCTCTCTTCTTTCATCC
1 AAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCATGACGCTCTCTCCTTTCATCC
* *
141999 TTTAGTCCTCAAAGAGTAGGACGCCTTTC
66 TTTAGTCCTCAAAGAGCAGGACACCTTTC
* * ** * *
142028 AAAGCCTATACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGC
1 AAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCATGACGC
142078 CTTTTAAAGC
Statistics
Matches: 132, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
94 130 0.98
95 2 0.02
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (94 bp):
AAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCATGACGCTCTCTCCTTTCATCC
TTTAGTCCTCAAAGAGCAGGACACCTTTC
Found at i:142067 original size:55 final size:54
Alignment explanation
Indices: 142002--142428 Score: 365
Period size: 55 Copynumber: 7.5 Consensus size: 54
141992 TTCATCCTTT
* *
142002 AGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCTATACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCTACACAAGTTGGTGGCATTTT-C
* * * *
142057 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCTATACAAATTGGTGGCATCTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCTACACAAGTTGGTGGCAT-TTTC
* * *
142112 AGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCTACACAAGTTGGTGGCA-TTTTC
* * * **
142167 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGCTGGTGACACCTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCTACACAAGTTGGTGGCATTTTC
* * * *
142221 AGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCTACACAAGTTGATGGCACCTTCC
1 AGTCCTCAAAGAGCAGGACGCC-TTT-C----AAAGCCTACACAAGTTGGTGGCA-TTTTC
* * * *
142282 AGTCCTCAAAGAGCATGG-CGCTTTCTCTTTGCAAAGCCCATACAAGTTGGTGGCACCTTCC
1 AGTCCTCAAAGAGCA-GGACG----C-CTTT-CAAAGCCTACACAAGTTGGTGGCA-TTTTC
* *
142343 AGTCCTCAAAGAGTAGGGCAC-CTTTTCTTTTCAAAGCCTACACGAA-TTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCA-GG-ACGC----C-TTTCAAAGCCTACAC-AAGTTGGTGGCA-TTTTC
*
142404 AGTCCTCAAAGAGCAGGACACCTTT
1 AGTCCTCAAAGAGCAGGACGCCTTT
142429 TCCTTTTCTC
Statistics
Matches: 314, Mismatches: 35, Indels: 46
0.79 0.09 0.12
Matches are distributed among these distances:
54 23 0.07
55 147 0.47
56 6 0.02
58 1 0.00
59 2 0.01
60 22 0.07
61 99 0.32
62 7 0.02
63 1 0.00
65 5 0.02
66 1 0.00
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (54 bp):
AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCTACACAAGTTGGTGGCATTTTC
Found at i:142197 original size:110 final size:112
Alignment explanation
Indices: 141994--142428 Score: 427
Period size: 110 Copynumber: 3.8 Consensus size: 112
141984 TCTCTTCTTT
* * * *
141994 CATCCTTTAGTCCTCAAAGAGTAGG-AC-GCCTTTCAAAGCCTATACAAGTTGGTGGCATTTTCC
1 CATCCTTCAGTCCTCAAAGAGCAGGCACTGCCTTTCAAAGCCTACACAAGTTGGTGGCACTTTCC
* * *
142057 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCTATACAAATTGGTGG
66 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCATACAAGTTGGTGG
* * * * **
142104 CATCTTTTAGTCCTCAAAGAGCAGG-A-TGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTT
1 CATCCTTCAGTCCTCAAAGAGCAGGCACTGCCTTTCAAAGCCTACACAAGTTGGTGGCACTTTCC
* * *
142167 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGCTGGTGA
66 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCATACAAGTTGGTGG
* * * *
142214 CA-CCTTCAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCTACACAAGTTGATGGCACC
1 CATCCTTCAGTCCTCAAAGAGCAGG-CA-C--TGCCTTTCAAAGCCTACACAAGTTGGTGGCACT
142278 TTCCAGTCCTCAAAGAGCATGG-CGCTTTCTCTTTGCAAAGCCCATACAAGTTGGTGG
62 TTCCAGTCCTCAAAGAGCA-GGACG----C-CTTT-CAAAGCCCATACAAGTTGGTGG
* * *
142335 CA-CCTTCCAGTCCTCAAAGAGTAGGGCACCTTTTCTTTTCAAAGCCTACACGAA-TTGGTGGCA
1 CATCCTT-CAGTCCTCAAAGAGCA-GGCA-C--TGCCTTTCAAAGCCTACAC-AAGTTGGTGGCA
** *
142398 CTTTTTAGTCCTCAAAGAGCAGGACACCTTT
60 CTTTCCAGTCCTCAAAGAGCAGGACGCCTTT
142429 TCCTTTTCTC
Statistics
Matches: 274, Mismatches: 33, Indels: 29
0.82 0.10 0.09
Matches are distributed among these distances:
109 20 0.07
110 99 0.36
111 1 0.00
115 46 0.17
116 2 0.01
117 4 0.01
118 1 0.00
119 1 0.00
120 4 0.01
121 27 0.10
122 65 0.24
123 4 0.01
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (112 bp):
CATCCTTCAGTCCTCAAAGAGCAGGCACTGCCTTTCAAAGCCTACACAAGTTGGTGGCACTTTCC
AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCATACAAGTTGGTGG
Found at i:142426 original size:61 final size:61
Alignment explanation
Indices: 142024--142436 Score: 354
Period size: 61 Copynumber: 7.1 Consensus size: 61
142014 GTAGGACGCC
* *
142024 TTTCAAAGCCTATACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGAC-GC----CT
1 TTTCAAAGCCTACACAAGTTGGTGGCACTTTT-CAGTCCTCAAAGAGCAGGACACCTTTTCT
* * * *
142080 TTT-AAAGCCTATACAAATTGGTGGCATCTTTT-AGTCCTCAAAGAGCAGG--A----TGCC
1 TTTCAAAGCCTACACAAGTTGGTGGCA-CTTTTCAGTCCTCAAAGAGCAGGACACCTTTTCT
* * * *
142134 TTTCAAAGCCCACACAAGTTGGTGGCATTTTTTAGTCCTCAAAGAGCAGGAC-GC----C-
1 TTTCAAAGCCTACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACACCTTTTCT
* * * *
142189 TTTCAAAGCCCACACAAGCTGGTGACAC-CTTCAGTCCTCAAAGAGCAGGACACCTTTTCCT
1 TTTCAAAGCCTACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACACCTTTT-CT
* * * *
142250 TTT-AAAGCCTACACAAGTTGATGGCACCTTCCAGTCCTCAAAGAGCATGG-C-GCTTTCTCT
1 TTTCAAAGCCTACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCA-GGACACCTTT-TCT
* * * * * * *
142310 TTGCAAAGCCCATACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGTAGGGCACCTTTTCT
1 TTTCAAAGCCTACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACACCTTTTCT
*
142371 TTTCAAAGCCTACACGAA-TTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGACACCTTTTCCT
1 TTTCAAAGCCTACAC-AAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACACCTTTT-CT
142433 TTTC
1 TTTC
142437 TCTTTTGTCC
Statistics
Matches: 298, Mismatches: 33, Indels: 46
0.79 0.09 0.12
Matches are distributed among these distances:
54 29 0.10
55 102 0.34
56 4 0.01
57 4 0.01
60 31 0.10
61 114 0.38
62 14 0.05
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (61 bp):
TTTCAAAGCCTACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACACCTTTTCT
Found at i:142518 original size:40 final size:41
Alignment explanation
Indices: 142398--142691 Score: 144
Period size: 45 Copynumber: 7.0 Consensus size: 41
142388 ATTGGTGGCA
* *
142398 CTTTTTAGTCCTCAAAGAGCAGGA--CAC-CTTTTCCTTTT-
1 CTTTTT-GTCCTCAAAGAGCAGGATGCACTTTTTTTCTTTTC
* ** *
142436 CTCTTTTGTCCTCAAAGGGCAGGACACATTTCATTTCCTTCTTTTC
1 CT-TTTTGTCCTCAAAGAGCAGGATGCACTT--TTT--TTCTTTTC
*
142482 CTTTTTGTCCTCAAATAGCAGGATGC-CTTTTTTTCTTTT-
1 CTTTTTGTCCTCAAAGAGCAGGATGCACTTTTTTTCTTTTC
*
142521 -TTCCTTTGTCCTCAAAGAGCATGATGCACTTCATTTCTTTCTTTTCC
1 CTT--TTTGTCCTCAAAGAGCAGGATGCAC-T--TTT-TTTCTTTT-C
* * * *
142568 CTTCTAGTTCTCAAAGAGCAGGATGCATTTTATTCTTCTTTTTC
1 CTTTTTGTCCTCAAAGAGCAGGATGCACTTT-TT-TTC-TTTTC
* * * *
142612 C--TTTGTCCTCAAAAAGCAAGA--CACATTTAATTTCCTTTTT
1 CTTTTTGTCCTCAAAGAGCAGGATGCAC-TTT--TTTTCTTTTC
* * * *
142652 C-TTTTGTCTTCAAAGGGCATGATGCATTTTATTTTCTTTT
1 CTTTTTGTCCTCAAAGAGCAGGATGCACTTT-TTTTCTTTT
142692 TTCCTTAGTC
Statistics
Matches: 199, Mismatches: 30, Indels: 51
0.71 0.11 0.18
Matches are distributed among these distances:
38 20 0.10
39 4 0.02
40 37 0.19
41 31 0.16
42 25 0.13
43 8 0.04
44 11 0.06
45 39 0.20
46 22 0.11
48 2 0.01
ACGTcount: A:0.20, C:0.23, G:0.12, T:0.45
Consensus pattern (41 bp):
CTTTTTGTCCTCAAAGAGCAGGATGCACTTTTTTTCTTTTC
Found at i:142554 original size:85 final size:85
Alignment explanation
Indices: 142398--142737 Score: 311
Period size: 83 Copynumber: 4.0 Consensus size: 85
142388 ATTGGTGGCA
** * * * * *
142398 CTTTTTAGTCCTCAAAGAGCAGGACACC--TTTTCCTTTTCTCTTTTGTCCTCAAAGGGCAGGAC
1 CTTTTT-GTCCTCAAAGAGCAGGATGCCTTTTTTTCTTTTTTCCTTTGTCCTCAAAGAGCAAGAC
142461 ACATTTCATTTCCTTCTTTTC
65 ACATTTCATTTCCTTCTTTTC
* * **
142482 CTTTTTGTCCTCAAATAGCAGGATGCCTTTTTTTCTTTTTTCCTTTGTCCTCAAAGAGCATGATG
1 CTTTTTGTCCTCAAAGAGCAGGATGCCTTTTTTTCTTTTTTCCTTTGTCCTCAAAGAGCAAGACA
* *
142547 CACTTCATTTCTTTCTTTTCC
66 CATTTCATTTCCTTCTTTT-C
* * * * * *
142568 CTTCTAGTTCTCAAAGAGCAGGATGCATTTTATTCTTCTTTTTCCTTTGTCCTCAAAAAGCAAGA
1 CTTTTTGTCCTCAAAGAGCAGGATGCCTTTTTTTC-T-TTTTTCCTTTGTCCTCAAAGAGCAAGA
*
142633 CACATTTAATTTCC-T-TTTT-
64 CACATTTCATTTCCTTCTTTTC
* * * * * * *
142652 C-TTTTGTCTTCAAAGGGCATGATGCATTTTATTTTCTTTTTTCCTTAGTCCCCAAGGAGCAAGA
1 CTTTTTGTCCTCAAAGAGCAGGATGC-CTTT-TTTTCTTTTTTCCTTTGTCCTCAAAGAGCAAGA
*
142716 CCCATTTCA-TT-C-TCTTTTC
64 CACATTTCATTTCCTTCTTTTC
142735 CTT
1 CTT
142738 AATCCTCAAA
Statistics
Matches: 207, Mismatches: 39, Indels: 20
0.78 0.15 0.08
Matches are distributed among these distances:
81 2 0.01
82 6 0.03
83 67 0.32
84 12 0.06
85 50 0.24
86 34 0.16
87 2 0.01
88 34 0.16
ACGTcount: A:0.20, C:0.24, G:0.12, T:0.44
Consensus pattern (85 bp):
CTTTTTGTCCTCAAAGAGCAGGATGCCTTTTTTTCTTTTTTCCTTTGTCCTCAAAGAGCAAGACA
CATTTCATTTCCTTCTTTTC
Found at i:142639 original size:42 final size:42
Alignment explanation
Indices: 142431--142756 Score: 218
Period size: 42 Copynumber: 7.7 Consensus size: 42
142421 ACACCTTTTC
* * **
142431 CTTTTCTCTTTTGTCCTCAAAGGGCAGGACACATTTCATTTCCTT
1 CTTTT-TCCTTTGTCCTCAAAGAGCAGGATGCATTTCA-TT-CTT
* *
142476 C-TTTTCCTTTTTGTCCTCAAATAGCAGGATGCCTTT--TT-TT
1 CTTTTTCC--TTTGTCCTCAAAGAGCAGGATGCATTTCATTCTT
* *
142516 CTTTTTTCCTTTGTCCTCAAAGAGCATGATGCACTTCATTTCTTT
1 C-TTTTTCCTTTGTCCTCAAAGAGCAGGATGCATTTCA-TTC-TT
* * *
142561 CTTTTCCCTTCTAGTTCTCAAAGAGCAGGATGCATTTTATTCTT
1 CTTTTTCCTT-T-GTCCTCAAAGAGCAGGATGCATTTCATTCTT
* * ** * *
142605 CTTTTTCCTTTGTCCTCAAAAAGCAAGACACATTTAATT-TC
1 CTTTTTCCTTTGTCCTCAAAGAGCAGGATGCATTTCATTCTT
* * * * *
142646 CTTTTTCTTTTGTCTTCAAAGGGCATGATGCATTTTATT-TT
1 CTTTTTCCTTTGTCCTCAAAGAGCAGGATGCATTTCATTCTT
* * * * **
142687 CTTTTTTCCTTAGTCCCCAAGGAGCAAGACCCATTTCATTC-T
1 C-TTTTTCCTTTGTCCTCAAAGAGCAGGATGCATTTCATTCTT
** *
142729 C-TTTTCCTTAATCCTCAAAGAGAAGGAT
1 CTTTTTCCTTTGTCCTCAAAGAGCAGGAT
142757 ACTTTCTCCT
Statistics
Matches: 220, Mismatches: 48, Indels: 31
0.74 0.16 0.10
Matches are distributed among these distances:
40 47 0.21
41 34 0.15
42 60 0.27
43 5 0.02
44 22 0.10
45 30 0.14
46 22 0.10
ACGTcount: A:0.21, C:0.24, G:0.12, T:0.43
Consensus pattern (42 bp):
CTTTTTCCTTTGTCCTCAAAGAGCAGGATGCATTTCATTCTT
Found at i:142680 original size:41 final size:41
Alignment explanation
Indices: 142427--142692 Score: 192
Period size: 41 Copynumber: 6.2 Consensus size: 41
142417 CAGGACACCT
* **
142427 TTTCCTTTTCTCTTTTGTCCTCAAAGGGCAGGACACATTTCA
1 TTTCCTTTT-TCTTTTGTCCTCAAAGAGCAGGATGCATTTCA
* * *
142469 TTTCCTTCTTTTCCTTTTTGTCCTCAAATAGCAGGATGCCTTT-T
1 TTTCC-T-TTTT-C-TTTTGTCCTCAAAGAGCAGGATGCATTTCA
* * * *
142513 TTTCTTTTTTCCTTTGTCCTCAAAGAGCATGATGCACTTCA
1 TTTCCTTTTTCTTTTGTCCTCAAAGAGCAGGATGCATTTCA
* * * *
142554 TTTCTTTCTTTTCCCTTCTAGTTCTCAAAGAGCAGGATGCATTTTA
1 TTTC---CTTTT-TCTT-TTGTCCTCAAAGAGCAGGATGCATTTCA
* * * * ** *
142600 TTCTTCTTTTTCCTTTGTCCTCAAAAAGCAAGACACATTTAA
1 TT-TCCTTTTTCTTTTGTCCTCAAAGAGCAGGATGCATTTCA
* * * *
142642 TTTCCTTTTTCTTTTGTCTTCAAAGGGCATGATGCATTTTA
1 TTTCCTTTTTCTTTTGTCCTCAAAGAGCAGGATGCATTTCA
*
142683 TTTTCTTTTT
1 TTTCCTTTTT
142693 TCCTTAGTCC
Statistics
Matches: 172, Mismatches: 41, Indels: 23
0.73 0.17 0.10
Matches are distributed among these distances:
40 23 0.13
41 44 0.26
42 32 0.19
43 5 0.03
44 17 0.10
45 25 0.15
46 25 0.15
47 1 0.01
ACGTcount: A:0.19, C:0.23, G:0.12, T:0.47
Consensus pattern (41 bp):
TTTCCTTTTTCTTTTGTCCTCAAAGAGCAGGATGCATTTCA
Found at i:142986 original size:61 final size:61
Alignment explanation
Indices: 142778--143009 Score: 233
Period size: 61 Copynumber: 3.8 Consensus size: 61
142768 TTAAAGACTG
* * * * *
142778 CACAAGTTAGTGGCACTTT-CAGTCCTCAAGGAGCAAGACGCCTTCTCCTTTT-AAAGCCTA
1 CACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTT-TTCTTTTCAAAGCCCA
* * *
142838 CACAAGTTGGTGGCACCTTCCGGTCCTCAAAGAGCAAGG-TG-C-TTTCTATTTGCAAAAAGCCC
1 CACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGC-AGGACGCCTTTTCT-TTT-C--AAAGCCC
142900 A
61 A
* * * *
142901 CAAAAGTTGGTGGCA-TCTTCTAGTCCTCAAAGAGTAGGACGTCTTTTCTTTTCAAAGCCCA
1 CACAAGTTGGTGGCACT-TTCCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCA
**
142962 CACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGACGCCTTTTC
1 CACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTC
143010 CTTCTCTCCT
Statistics
Matches: 142, Mismatches: 18, Indels: 23
0.78 0.10 0.13
Matches are distributed among these distances:
58 3 0.02
59 4 0.03
60 18 0.13
61 64 0.45
62 6 0.04
63 38 0.27
64 4 0.03
65 5 0.04
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.28
Consensus pattern (61 bp):
CACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCA
Found at i:143027 original size:38 final size:38
Alignment explanation
Indices: 142984--143073 Score: 162
Period size: 38 Copynumber: 2.4 Consensus size: 38
142974 GCACTTTTTA
142984 GTCCTCAAAGAGCAGGACGCCTTTTCCTTCTCTCCTTT
1 GTCCTCAAAGAGCAGGACGCCTTTTCCTTCTCTCCTTT
* *
143022 GTCCTCAAAGAGCAGGATGCCTTTTCCTTCTCTCTTTT
1 GTCCTCAAAGAGCAGGACGCCTTTTCCTTCTCTCCTTT
143060 GTCCTCAAAGAGCA
1 GTCCTCAAAGAGCA
143074 TGACACATTT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 50 1.00
ACGTcount: A:0.19, C:0.31, G:0.17, T:0.33
Consensus pattern (38 bp):
GTCCTCAAAGAGCAGGACGCCTTTTCCTTCTCTCCTTT
Found at i:143159 original size:41 final size:41
Alignment explanation
Indices: 143016--143376 Score: 226
Period size: 41 Copynumber: 8.6 Consensus size: 41
143006 TTTCCTTCTC
* * * *
143016 TCCTTTGTCCTCAAAGAGCAGGATGC---CTTTTCCTTCTC
1 TCCTTTGTCCTCAAAGAGCAGGATGCATTTTTTTTCTTTTT
* * ** * *
143054 TCTTTTGTCCTCAAAGAGCATGACACATTTCATTTCCTTATTT
1 TCCTTTGTCCTCAAAGAGCAGGATGCATTT-TTTTTCTT-TTT
* *
143097 TCCTTTTTATCCTCAAAGAGCAGGATGCGTTTTTTTTCTTTTT
1 TCC--TTTGTCCTCAAAGAGCAGGATGCATTTTTTTTCTTTTT
* * *
143140 TCCTTTGTCCTCAAAGAGCAGGACGCACTTTATTTCCTTCTTT
1 TCCTTTGTCCTCAAAGAGCAGGATGCA-TTTTTTTTCTT-TTT
* * * ** *
143183 TCCCTTTTAGTTCTCAAATAGCAGGACGCATTTTATCCTCCTTTT
1 T-CC-TTT-GTCCTCAAAGAGCAGGATGCATTTT-TTTTCTTTTT
* * ** ** *
143228 TCCTTTGTCCTTAAAAAGCAGGACACATTTAATTTCCTTTT
1 TCCTTTGTCCTCAAAGAGCAGGATGCATTTTTTTTCTTTTT
* * * * *
143269 TCCTTTGTCTTCAAAGGGCATGATGCATTTTATTTCCTTTT
1 TCCTTTGTCCTCAAAGAGCAGGATGCATTTTTTTTCTTTTT
* * * ** *
143310 TCCTTTGTCCTCAAGGAGCAGAATCCA-TTTCATTCTCCTTT
1 TCCTTTGTCCTCAAAGAGCAGGATGCATTTTTTTTCT-TTTT
**
143351 TCCTTAATCCTCAAAGAGCAGGATGC
1 TCCTTTGTCCTCAAAGAGCAGGATGC
143377 CTCCTTCCTT
Statistics
Matches: 250, Mismatches: 59, Indels: 25
0.75 0.18 0.07
Matches are distributed among these distances:
38 22 0.09
40 6 0.02
41 106 0.42
42 36 0.14
43 16 0.06
44 10 0.04
45 32 0.13
46 22 0.09
ACGTcount: A:0.20, C:0.25, G:0.13, T:0.42
Consensus pattern (41 bp):
TCCTTTGTCCTCAAAGAGCAGGATGCATTTTTTTTCTTTTT
Found at i:143323 original size:577 final size:573
Alignment explanation
Indices: 142218--143273 Score: 1371
Period size: 577 Copynumber: 1.8 Consensus size: 573
142208 TGGTGACACC
* *
142218 TTCAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCTACACAAGTTGATGGCACCTTCCA
1 TTCAGTCCTCAAAGAGCAAGACACCTTCTCCTTTTAAAGCCTACACAAGTTGATGGCACCTTCCA
* * * *
142283 GTCCTCAAAGAGCATGGCGCTTTCTCTTTGCAAAGCCCATACAAGTTGGTGGCACCTTCCAGTCC
66 GTCCTCAAAGAGCAAGGCGCTTTCTATTTGCAAAGCCCACAAAAGTTGGTGGCACCTTCCAGTCC
* *
142348 TCAAAGAGTAGGGCACCTTTTCTTTTCAAAGCCTACACGAATTGGTGGCACTTTTTAGTCCTCAA
131 TCAAAGAGTAGGACACCTTTTCTTTTCAAAGCCCACACGAATTGGTGGCACTTTTTAGTCCTCAA
* * * **
142413 AGAGCAGGACACCTTTTCCTTTTCTCTTTTGTCCTCAAAGGGCAGGACACATTTCATTTCCTTCT
196 AGAGCAGGACACCTTTTCCTTCTCTCCTTTGTCCTCAAAGAGCAGG--A-ATGCCATTTCCTTCT
* * ** * * * *
142478 TTTCCTTTTTGTCCTCAAATAGCAGGATGCCTTTTTTTCTTTTTTCCTTTGTCCTCAAAGAGCAT
258 TCTCCTTTTTGTCCTCAAAGAGCAGGACACATTTTTTCCTTTTTTCCTTTATCCTCAAAGAGCAG
* * *
142543 GATGCACTTCATTTCTTTCTTTTCCCTTCTAGTTCTCAAAGAGCAGGATGCATTTTATTCTTCTT
323 GATGCACTT-ATTTCTTTCTTTTCCCTTCTAGTCCTCAAAGAGCAGGACGCACTTTATTCTTCTT
* * * ** *
142608 TTTCCTTTGTCCTCAAAAAGCAAGACACATTTAATTTCCTTTTTCTTTTGTCTTCAAAGGGCATG
387 TTCCCTTTGTCCTCAAAAAGCAAGACACATTTAATCTCCTTTTTCCTTTGTCTTCAAAAAGCAGG
** * * *
142673 ATGCATTTTATTTTCTTTTTTCCTTAGTCCCCAAGGAGCAAGACCCATTTCATTCTCTTTTCCTT
452 ACACATTTTAATTTCCTTTTTCCTTAGTCCCAAAGGAGCAAGACCCATTTCATTCTCTTTTCCTT
142738 AATCCTCAAAGAGAAGGATACTTTCTCCTTTTAAAGACTGCACAAGTTAGTGGCACT
517 AATCCTCAAAGAGAAGGATACTTTCTCCTTTTAAAGACTGCACAAGTTAGTGGCACT
* * * *
142795 TTCAGTCCTCAAGGAGCAAGACGCCTTCTCCTTTTAAAGCCTACACAAGTTGGTGGCACCTTCCG
1 TTCAGTCCTCAAAGAGCAAGACACCTTCTCCTTTTAAAGCCTACACAAGTTGATGGCACCTTCCA
* * *
142860 GTCCTCAAAGAGCAAGGTGCTTTCTATTTGCAAAAAGCCCACAAAAGTTGGTGGCATCTTCTAGT
66 GTCCTCAAAGAGCAAGGCGCTTTCTATTTGC--AAAGCCCACAAAAGTTGGTGGCACCTTCCAGT
**
142925 CCTCAAAGAGTAGGACGTCTTTTCTTTTCAAAGCCCACAC-AAGTTGGTGGCACTTTTTAGTCCT
129 CCTCAAAGAGTAGGACACCTTTTCTTTTCAAAGCCCACACGAA-TTGGTGGCACTTTTTAGTCCT
* *
142989 CAAAGAGCAGGACGCCTTTTCCTTCTCTCCTTTGTCCTCAAAGAGCAGG-ATGCCTTTTCCTTC-
193 CAAAGAGCAGGACACCTTTTCCTTCTCTCCTTTGTCCTCAAAGAGCAGGAATGCCATTTCCTTCT
*
143052 TCT-C-TTTTGTCCTCAAAGAGCATGACACATTTCATTTCCTTATTTTCCTTTTTATCCTCAAAG
258 TCTCCTTTTTGTCCTCAAAGAGCAGGACACATTT--TTTCCTT-TTTTCC--TTTATCCTCAAAG
* *
143115 AGCAGGATGC-GTT-TTT-TTTCTTTTTTCCTT-T-GTCCTCAAAGAGCAGGACGCACTTTATTT
318 AGCAGGATGCACTTATTTCTTTC-TTTTCCCTTCTAGTCCTCAAAGAGCAGGACGCACTTTA-TT
* * * * *
143175 CCTTCTTTTCCCTTTTAGTTCTCAAATAGCAGGACGCATTTTATCCTCCTTTTTCCTTTGTCCTT
381 -CTTCTTTTCCC-TTT-GTCCTCAAAAAGCAAGACACATTTAAT-CTCCTTTTTCCTTTGT-CTT
143240 -AAAAAGCAGGACACA-TTTAATTTCCTTTTTCCTT
441 CAAAAAGCAGGACACATTTTAATTTCCTTTTTCCTT
143274 TGTCTTCAAA
Statistics
Matches: 411, Mismatches: 53, Indels: 31
0.83 0.11 0.06
Matches are distributed among these distances:
572 46 0.11
573 8 0.02
574 29 0.07
575 20 0.05
576 41 0.10
577 132 0.32
578 5 0.01
579 130 0.32
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.37
Consensus pattern (573 bp):
TTCAGTCCTCAAAGAGCAAGACACCTTCTCCTTTTAAAGCCTACACAAGTTGATGGCACCTTCCA
GTCCTCAAAGAGCAAGGCGCTTTCTATTTGCAAAGCCCACAAAAGTTGGTGGCACCTTCCAGTCC
TCAAAGAGTAGGACACCTTTTCTTTTCAAAGCCCACACGAATTGGTGGCACTTTTTAGTCCTCAA
AGAGCAGGACACCTTTTCCTTCTCTCCTTTGTCCTCAAAGAGCAGGAATGCCATTTCCTTCTTCT
CCTTTTTGTCCTCAAAGAGCAGGACACATTTTTTCCTTTTTTCCTTTATCCTCAAAGAGCAGGAT
GCACTTATTTCTTTCTTTTCCCTTCTAGTCCTCAAAGAGCAGGACGCACTTTATTCTTCTTTTCC
CTTTGTCCTCAAAAAGCAAGACACATTTAATCTCCTTTTTCCTTTGTCTTCAAAAAGCAGGACAC
ATTTTAATTTCCTTTTTCCTTAGTCCCAAAGGAGCAAGACCCATTTCATTCTCTTTTCCTTAATC
CTCAAAGAGAAGGATACTTTCTCCTTTTAAAGACTGCACAAGTTAGTGGCACT
Found at i:143365 original size:82 final size:81
Alignment explanation
Indices: 142984--143376 Score: 282
Period size: 82 Copynumber: 4.7 Consensus size: 81
142974 GCACTTTTTA
* * * * * ** *
142984 GTCCTCAAAGAGCAGGACGCCTTT-TCCTTC-TCTCCTTTGTCCTCAAAGAGCAGGATGC---CT
1 GTCCTCAAAGAGCAGGACACATTTATTCTCCTTTTCCTTAATCCTCAAAGAGCAGGATGCATTTT
* *
143044 -TTTCCTTCTCTCTTTT
66 ATTTCCTT-TTTCCTTT
* *
143060 GTCCTCAAAGAGCATGACACATTTCATT-TCCTTATTTTCCTTTTTATCCTCAAAGAGCAGGATG
1 GTCCTCAAAGAGCAGGACACATTT-ATTCTCC---TTTTCC--TTAATCCTCAAAGAGCAGGATG
* * *
143124 CGTTTTTTTTCTTTTTTCCTTT
60 CATTTTATTTCCTTTTTCCTTT
* * * * * *
143146 GTCCTCAAAGAGCAGGACGCACTTTATTTCCTTCTTTTCCCTTTTAGTTCTCAAATAGCAGGACG
1 GTCCTCAAAGAGCAGGACACA-TTTA-TT-CTCCTTTT-CC--TTAATCCTCAAAGAGCAGGATG
*
143211 CATTTTATCCTCCTTTTTCCTTT
60 CATTTTAT-TTCCTTTTTCCTTT
* * ** * * *
143234 GTCCTTAAAAAGCAGGACACATTTAATT-TCCTTTTTCCTTTGTCTTCAAAGGGCATGATGCATT
1 GTCCTCAAAGAGCAGGACACATTT-ATTCTCC-TTTTCCTTAATCCTCAAAGAGCAGGATGCATT
143298 TTATTTCCTTTTTCCTTT
64 TTATTTCCTTTTTCCTTT
* *
143316 GTCCTCAAGGAGCAGAATC-CATTTCATTCTCCTTTTCCTTAATCCTCAAAGAGCAGGATGC
1 GTCCTCAAAGAGCAGGA-CACATTT-ATTCTCCTTTTCCTTAATCCTCAAAGAGCAGGATGC
143377 CTCCTTCCTT
Statistics
Matches: 250, Mismatches: 45, Indels: 38
0.75 0.14 0.11
Matches are distributed among these distances:
76 21 0.08
77 2 0.01
78 1 0.00
81 4 0.02
82 58 0.23
83 49 0.20
85 4 0.02
86 35 0.14
87 43 0.17
88 31 0.12
89 2 0.01
ACGTcount: A:0.20, C:0.26, G:0.13, T:0.40
Consensus pattern (81 bp):
GTCCTCAAAGAGCAGGACACATTTATTCTCCTTTTCCTTAATCCTCAAAGAGCAGGATGCATTTT
ATTTCCTTTTTCCTTT
Found at i:146474 original size:51 final size:51
Alignment explanation
Indices: 146419--146515 Score: 144
Period size: 51 Copynumber: 1.9 Consensus size: 51
146409 CTAACCCCGG
* *
146419 TTTTATTTCTAAAACACCAA-TTTTCTACAATC-GAGGATATTCCAACTCTGA
1 TTTTATTTCCAAAACACCAATTTTTC-ACAATCGGA-GATACTCCAACTCTGA
146470 TTTTATTTCCAAAACACCAATTTTTCACAATCGGAGATACTCCAAC
1 TTTTATTTCCAAAACACCAATTTTTCACAATCGGAGATACTCCAAC
146516 CCTGTTATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
51 35 0.83
52 7 0.17
ACGTcount: A:0.34, C:0.24, G:0.07, T:0.35
Consensus pattern (51 bp):
TTTTATTTCCAAAACACCAATTTTTCACAATCGGAGATACTCCAACTCTGA
Found at i:146527 original size:31 final size:29
Alignment explanation
Indices: 146499--146554 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
146489 ATTTTTCACA
*
146499 ATCGGAGATACTCCAACCCTGTTATTT-C
1 ATCGGAGATACTCCAACCCCGTTATTTCC
* *
146527 ATTGGGGATACTCCAACCCCGTTATTTC
1 ATCGGAGATACTCCAACCCCGTTATTTC
146555 TGAGGTGATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.32
Consensus pattern (29 bp):
ATCGGAGATACTCCAACCCCGTTATTTCC
Found at i:146564 original size:28 final size:27
Alignment explanation
Indices: 146505--146575 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 27
146495 CACAATCGGA
*
146505 GATACTCCAACCCTGTTATTTCATTGGG
1 GATACTCCAACCCCGTTATTTCA-TGGG
146533 GATACTCCAACCCCGTTATTTC-TGAGG
1 GATACTCCAACCCCGTTATTTCATG-GG
*
146560 TGATACTCTAACCCCG
1 -GATACTCCAACCCCG
146576 GCTTTATTTC
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
26 2 0.05
27 2 0.05
28 35 0.90
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.31
Consensus pattern (27 bp):
GATACTCCAACCCCGTTATTTCATGGG
Found at i:146613 original size:79 final size:77
Alignment explanation
Indices: 146530--146783 Score: 328
Period size: 79 Copynumber: 3.2 Consensus size: 77
146520 TTATTTCATT
* * *
146530 GGGGATACTCCAACCCCGTTATTTCTGAGGTGATACTCTAACCCCGGCTTTATTTCTAAAATATT
1 GGGGATACTCCAACCCCGTTATTT-TGAGG-GATACTCCAACCCCGGCTTTATTTCTAAAACATC
*
146595 GATTTCTCACAATC
64 GATTTTTCACAATC
* * *
146609 GGGGATACTCCAACCCCGTTATTTTCGCGGGGATACTCCAACCCCGGCCTTATTTCTAAAGCATC
1 GGGGATACTCCAACCCCGTTATTTT-G-AGGGATACTCCAACCCCGGCTTTATTTCTAAAACATC
146674 GATTTTTCACAATC
64 GATTTTTCACAATC
* ** *
146688 GAGGATACTCCAACCCCGTTATTTTTGAGAGGATACTCCAACCCCGATTTTATTTCCAAAACATC
1 GGGGATACTCCAACCCCGTTA-TTTTGAG-GGATACTCCAACCCCGGCTTTATTTCTAAAACATC
* *
146753 GATTTTTCATAATT
64 GATTTTTCACAATC
*
146767 GGGGATACTCCAGCCCC
1 GGGGATACTCCAACCCC
146784 ATTGTTATCC
Statistics
Matches: 153, Mismatches: 18, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
78 2 0.01
79 145 0.95
80 6 0.04
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (77 bp):
GGGGATACTCCAACCCCGTTATTTTGAGGGATACTCCAACCCCGGCTTTATTTCTAAAACATCGA
TTTTTCACAATC
Found at i:149502 original size:27 final size:25
Alignment explanation
Indices: 149460--149509 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
149450 TTTAAAATCA
* *
149460 TAAAAAAATATTAATATTATAATTT
1 TAAAAAAATATAAATAATATAATTT
149485 TAAAAAAATATAAAAATAATATAAT
1 TAAAAAAATAT--AAATAATATAAT
149510 AAATATGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 11 0.52
27 10 0.48
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (25 bp):
TAAAAAAATATAAATAATATAATTT
Found at i:156588 original size:4 final size:4
Alignment explanation
Indices: 156568--156612 Score: 51
Period size: 4 Copynumber: 12.0 Consensus size: 4
156558 TTAAGATAAA
* *
156568 AATT AA-T AATA AATT AATT AATT AATT AA-T AA-A AATT AATT AATT
1 AATT AATT AATT AATT AATT AATT AATT AATT AATT AATT AATT AATT
156613 TTATACTTAC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
3 8 0.23
4 27 0.77
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (4 bp):
AATT
Found at i:156606 original size:22 final size:23
Alignment explanation
Indices: 156568--156612 Score: 83
Period size: 22 Copynumber: 2.0 Consensus size: 23
156558 TTAAGATAAA
156568 AATTAATAATAAATTAATTAATT
1 AATTAATAATAAATTAATTAATT
156591 AATTAATAA-AAATTAATTAATT
1 AATTAATAATAAATTAATTAATT
156613 TTATACTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
AATTAATAATAAATTAATTAATT
Found at i:158401 original size:20 final size:20
Alignment explanation
Indices: 158376--158420 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
158366 TTCTTCATCT
158376 ATACAATGTCCCATGTATCG
1 ATACAATGTCCCATGTATCG
*
158396 ATACAATGTCCCATGTGTCG
1 ATACAATGTCCCATGTATCG
158416 ATACA
1 ATACA
158421 TCTCACTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (20 bp):
ATACAATGTCCCATGTATCG
Found at i:158495 original size:19 final size:19
Alignment explanation
Indices: 158449--158504 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
158439 CTGCCAGTTT
*
158449 CATGTATTGATACAATTGAG
1 CATGTATCGATACAA-TGAG
* *
158469 TATCTATCGATACAATGAG
1 CATGTATCGATACAATGAG
*
158488 CATGTATCGATATAATG
1 CATGTATCGATACAATG
158505 TATCGATACA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 18 0.60
20 12 0.40
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (19 bp):
CATGTATCGATACAATGAG
Found at i:163386 original size:20 final size:19
Alignment explanation
Indices: 163361--163434 Score: 94
Period size: 20 Copynumber: 3.7 Consensus size: 19
163351 TTTTAACTAG
163361 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAA-A
* *
163381 ATGTATCGATACATTCACAC
1 ATGTATCGATACATTGA-AA
*
163401 ATATATCGATACATTGAAAA
1 ATGTATCGATACATTG-AAA
163421 ATGTATCGATACAT
1 ATGTATCGATACAT
163435 CTGGGTAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
20 44 0.96
21 2 0.04
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.31
Consensus pattern (19 bp):
ATGTATCGATACATTGAAA
Found at i:165028 original size:20 final size:20
Alignment explanation
Indices: 164995--165046 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
164985 TAGTAACTCA
164995 TGTATCGATACAAAGAACAT
1 TGTATCGATACAAAGAACAT
* * *
165015 TGTGTCGATGCAAAGAATAT
1 TGTATCGATACAAAGAACAT
165035 TGTATCGATACA
1 TGTATCGATACA
165047 TTTGGGATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.29
Consensus pattern (20 bp):
TGTATCGATACAAAGAACAT
Found at i:171228 original size:28 final size:28
Alignment explanation
Indices: 171147--171228 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
171137 TTTTGGAGAT
*
171147 AATAACGAGGTTGGAGTGTTCCCTCG--GA
1 AATAACGAGGTTGGAGT-AT-CCTCGATGA
* * *
171175 AGTAACGGGGTTGGAGTATCCCCGATGA
1 AATAACGAGGTTGGAGTATCCTCGATGA
171203 AATAACGAGGTTGGAGTATCCTCGAT
1 AATAACGAGGTTGGAGTATCCTCGAT
171229 TGTGAAAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
26 4 0.09
27 1 0.02
28 40 0.89
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (28 bp):
AATAACGAGGTTGGAGTATCCTCGATGA
Found at i:171371 original size:51 final size:51
Alignment explanation
Indices: 171211--171381 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
171201 GAAATAACGA
* * *
171211 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGAAAATAAAATCGG
** * * * * *
171263 AATTGGAGTATCCCCGATTAAAGGAGAAATTGGTGTTGTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--ATGAAAAATTGGTATTTTGAAAATAAAATCGG
* * *
171316 GGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
171367 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
171382 TCAGAAATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 39 0.40
52 16 0.16
53 32 0.33
54 10 0.10
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
Found at i:171427 original size:27 final size:28
Alignment explanation
Indices: 171364--171439 Score: 93
Period size: 27 Copynumber: 2.8 Consensus size: 28
171354 AAAATAAAGT
*
171364 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-GATGAAATAA
* *
171392 CAGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
171419 CGGGGTTGGAGTGTCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
171440 TGTGAAGAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
27 24 0.57
28 18 0.43
ACGTcount: A:0.22, C:0.21, G:0.33, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:173926 original size:13 final size:13
Alignment explanation
Indices: 173908--173933 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
173898 ACAAAGATCC
173908 ATGTATCGATACA
1 ATGTATCGATACA
173921 ATGTATCGATACA
1 ATGTATCGATACA
173934 CAGAAAAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:173929 original size:33 final size:33
Alignment explanation
Indices: 173887--173953 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
173877 AAAATTTCCA
***
173887 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
173920 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
173953 A
1 A
173954 TTCCTTGGCA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:173992 original size:18 final size:17
Alignment explanation
Indices: 173970--174056 Score: 96
Period size: 18 Copynumber: 5.2 Consensus size: 17
173960 GGCAGTAGCT
173970 ATTATGTATCGATACAA
1 ATTATGTATCGATACAA
173987 TATTATGTATCGATAC--
1 -ATTATGTATCGATACAA
174003 A-T-TGTATCGATACAAA
1 ATTATGTATCGATAC-AA
174019 ACTTATGTA-CGATACAA
1 A-TTATGTATCGATACAA
174036 ATT-TGTATCGATACATA
1 ATTATGTATCGATACA-A
174053 ATTA
1 ATTA
174057 GCTACTGCCA
Statistics
Matches: 60, Mismatches: 0, Indels: 18
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.18
14 1 0.02
15 5 0.08
16 10 0.17
17 7 0.12
18 22 0.37
19 4 0.07
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (17 bp):
ATTATGTATCGATACAA
Found at i:174010 original size:13 final size:13
Alignment explanation
Indices: 173992--174016 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
173982 TACAATATTA
173992 TGTATCGATACAT
1 TGTATCGATACAT
174005 TGTATCGATACA
1 TGTATCGATACA
174017 AAACTTATGT
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):
TGTATCGATACAT
Found at i:174012 original size:31 final size:33
Alignment explanation
Indices: 173974--174050 Score: 106
Period size: 31 Copynumber: 2.4 Consensus size: 33
173964 GTAGCTATTA
*
173974 TGTATCGATACAATA-TTATGTATCGATAC-A-T
1 TGTATCGATACAAAACTTATGTA-CGATACAATT
174005 TGTATCGATACAAAACTTATGTACGATACAAATT
1 TGTATCGATACAAAACTTATGTACGATAC-AATT
174039 TGTATCGATACA
1 TGTATCGATACA
174051 TAATTAGCTA
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
31 20 0.49
32 7 0.17
33 1 0.02
34 13 0.32
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (33 bp):
TGTATCGATACAAAACTTATGTACGATACAATT
Found at i:174111 original size:13 final size:13
Alignment explanation
Indices: 174093--174118 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
174083 CATTTTTCTG
174093 TGTATCGATACAT
1 TGTATCGATACAT
174106 TGTATCGATACAT
1 TGTATCGATACAT
174119 GGATCTTTGT
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
Done.