Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167871.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_14, whole genome shotgun sequence
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: 22631831
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 114000 characters in sequence are not A, C, G, or T
File 1 of 125
Found at i:2435 original size:102 final size:102
Alignment explanation
Indices: 2259--2462 Score: 399
Period size: 102 Copynumber: 2.0 Consensus size: 102
2249 TCTAATGTAG
*
2259 GAATGAAGCACTACATCTACTCCTTTTGGAGCCATGATATTTACTTGGAGATCGAGCATGAAATG
1 GAATGAAGCACTACATCTACTCCTTTTGGAGCCATGATATTTACTTGGAGATCAAGCATGAAATG
2324 GGATGGGGATGATGTTTCCTTTTGATATTGACATAAC
66 GGATGGGGATGATGTTTCCTTTTGATATTGACATAAC
2361 GAATGAAGCACTACATCTACTCCTTTTGGAGCCATGATATTTACTTGGAGATCAAGCATGAAATG
1 GAATGAAGCACTACATCTACTCCTTTTGGAGCCATGATATTTACTTGGAGATCAAGCATGAAATG
2426 GGATGGGGATGATGTTTCCTTTTGATATTGACATAAC
66 GGATGGGGATGATGTTTCCTTTTGATATTGACATAAC
2463 AATTGTAGTG
Statistics
Matches: 101, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
102 101 1.00
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (102 bp):
GAATGAAGCACTACATCTACTCCTTTTGGAGCCATGATATTTACTTGGAGATCAAGCATGAAATG
GGATGGGGATGATGTTTCCTTTTGATATTGACATAAC
Found at i:5137 original size:13 final size:13
Alignment explanation
Indices: 5101--5140 Score: 62
Period size: 14 Copynumber: 3.0 Consensus size: 13
5091 TAAATATTAA
5101 TTTTAATAAAATT
1 TTTTAATAAAATT
5114 TATTTAATAAAATT
1 T-TTTAATAAAATT
*
5128 TTTTATTAAAATT
1 TTTTAATAAAATT
5141 ATAATAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 12 0.48
14 13 0.52
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TTTTAATAAAATT
Found at i:6044 original size:2 final size:2
Alignment explanation
Indices: 6039--6074 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
6029 CAATGGTGTG
*
6039 TA TA TA TA TA TA TA TA TA TA TA TA TA GA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6075 CTTCCATTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:6994 original size:24 final size:24
Alignment explanation
Indices: 6963--7014 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
6953 TTTCATTAAA
* *
6963 TTTTTTAATCGTAGTTACAATAAT
1 TTTTTTAATCATAATTACAATAAT
* *
6987 TTTTTTAATTATAATTATAATAAT
1 TTTTTTAATCATAATTACAATAAT
7011 TTTT
1 TTTT
7015 ATTATTATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (24 bp):
TTTTTTAATCATAATTACAATAAT
Found at i:12783 original size:28 final size:28
Alignment explanation
Indices: 12749--12815 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
12739 ACTAGGCTCT
* * *
12749 AAGCCCAATTTTGGCTTAATTGGTCTTC
1 AAGCCCAATTTTGACTCAATTGGGCTTC
*
12777 AGGCCCAATTTTGACTCAATTGGGCTTC
1 AAGCCCAATTTTGACTCAATTGGGCTTC
*
12805 AAGCTCAATTT
1 AAGCCCAATTT
12816 GATCCAACCA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (28 bp):
AAGCCCAATTTTGACTCAATTGGGCTTC
Found at i:13914 original size:15 final size:16
Alignment explanation
Indices: 13890--13922 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
13880 ACTGGTTCGG
*
13890 TTCAAGTTTTTTT-TT
1 TTCAAATTTTTTTATT
13905 TTCAAATTTTTTTATT
1 TTCAAATTTTTTTATT
13921 TT
1 TT
13923 TATTTTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.18, C:0.06, G:0.03, T:0.73
Consensus pattern (16 bp):
TTCAAATTTTTTTATT
Found at i:13942 original size:24 final size:24
Alignment explanation
Indices: 13915--13977 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 24
13905 TTCAAATTTT
13915 TTTATTTTTATTTTTTATATATTA-
1 TTTATTTTTATTTTTTA-ATATTAG
*
13939 TTTATTTATATCATTTTTAATATTAG
1 TTTATTTTTAT--TTTTTAATATTAG
*
13965 TATTATTGTTATT
1 T-TTATTTTTATT
13978 ATGCATACTT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
24 10 0.31
25 7 0.22
26 7 0.22
27 8 0.25
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.68
Consensus pattern (24 bp):
TTTATTTTTATTTTTTAATATTAG
Found at i:13946 original size:15 final size:14
Alignment explanation
Indices: 13912--13949 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
13902 TTTTTCAAAT
*
13912 TTTTTTAT-TTTTA
1 TTTTTTATATATTA
13925 TTTTTTATATATTA
1 TTTTTTATATATTA
13939 TTTATTTATAT
1 TTT-TTTATAT
13950 CATTTTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 8 0.36
14 7 0.32
15 7 0.32
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTTTATATATTA
Found at i:14467 original size:16 final size:14
Alignment explanation
Indices: 14413--14498 Score: 59
Period size: 16 Copynumber: 5.9 Consensus size: 14
14403 TCTGAAATTG
*
14413 AAACCCTAAATCCTT
1 AAACCCTAAAACC-T
14428 CAAACCCTAAAACC-
1 -AAACCCTAAAACCT
**
14442 AAACTTTAAAACTCTT
1 AAACCCTAAAAC-C-T
*
14458 AAACCCTAAACCTCT
1 AAACCCTAAAAC-CT
*
14473 AAACCCTAAAA-TT
1 AAACCCTAAAACCT
14486 AAATCCCTAAAAC
1 AAA-CCCTAAAAC
14499 ATCCAAACCT
Statistics
Matches: 57, Mismatches: 8, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
13 14 0.25
14 9 0.16
15 11 0.19
16 23 0.40
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (14 bp):
AAACCCTAAAACCT
Found at i:14495 original size:14 final size:13
Alignment explanation
Indices: 14456--14526 Score: 52
Period size: 14 Copynumber: 4.9 Consensus size: 13
14446 TTTAAAACTC
*
14456 TTAAACCCTAAACC
1 TTAAACCCTAAA-A
14470 TCTAAACCCTAAAA
1 T-TAAACCCTAAAA
14484 TTAAATCCCTAAAACA
1 TTAAA-CCCT-AAA-A
* *
14500 TCCAAACCTTAAAA
1 T-TAAACCCTAAAA
14514 TTAAAACCCTAAA
1 TT-AAACCCTAAA
14527 TTCAAAAACC
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
13 4 0.09
14 17 0.37
15 17 0.37
16 5 0.11
17 3 0.07
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.23
Consensus pattern (13 bp):
TTAAACCCTAAAA
Found at i:14513 original size:30 final size:29
Alignment explanation
Indices: 14456--14526 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 29
14446 TTTAAAACTC
* *
14456 TTAAACCCT-AAACCTCTAAACCCTAAAA
1 TTAAACCCTAAAACATCCAAACCCTAAAA
*
14484 TTAAATCCCTAAAACATCCAAACCTTAAAA
1 TTAAA-CCCTAAAACATCCAAACCCTAAAA
14514 TTAAAACCCTAAA
1 TT-AAACCCTAAA
14527 TTCAAAAACC
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 5 0.14
29 4 0.11
30 25 0.68
31 3 0.08
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.23
Consensus pattern (29 bp):
TTAAACCCTAAAACATCCAAACCCTAAAA
Found at i:14630 original size:31 final size:29
Alignment explanation
Indices: 14572--14711 Score: 156
Period size: 29 Copynumber: 4.8 Consensus size: 29
14562 ATTCCAGTCT
* **
14572 CTAAACACTCTAAACCCT-AAATTAAACC
1 CTAAACCCTCTAAACCCTAAAAACAAACC
*
14600 TTAAACCCTCTAAACCCTAAAAACCAAAACC
1 CTAAACCCTCTAAACCCTAAAAA-C-AAACC
* *
14631 CTAAACCCTCTAAACCTTAAAAATGAAACC
1 CTAAACCCTCTAAACCCTAAAAA-CAAACC
* * *
14661 TTAAACCCTCTAAATCCTAAAATCAAACC
1 CTAAACCCTCTAAACCCTAAAAACAAACC
*
14690 CTAAATCCTCTAAACCCTAAAA
1 CTAAACCCTCTAAACCCTAAAA
14712 CTAAAATCCT
Statistics
Matches: 93, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
28 16 0.17
29 27 0.29
30 24 0.26
31 26 0.28
ACGTcount: A:0.46, C:0.32, G:0.01, T:0.21
Consensus pattern (29 bp):
CTAAACCCTCTAAACCCTAAAAACAAACC
Found at i:14666 original size:30 final size:30
Alignment explanation
Indices: 14572--14725 Score: 170
Period size: 30 Copynumber: 5.2 Consensus size: 30
14562 ATTCCAGTCT
* *
14572 CTAAACACTCTAAACCCT--AAATTAAACC
1 CTAAACCCTCTAAACCCTAAAAATAAAACC
* *
14600 TTAAACCCTCTAAACCCTAAAAACCAAAACC
1 CTAAACCCTCTAAACCCTAAAAA-TAAAACC
* *
14631 CTAAACCCTCTAAACCTTAAAAATGAAACC
1 CTAAACCCTCTAAACCCTAAAAATAAAACC
* * *
14661 TTAAACCCTCTAAATCCT-AAAATCAAACC
1 CTAAACCCTCTAAACCCTAAAAATAAAACC
* * *
14690 CTAAATCCTCTAAACCCTAAAACTAAAATC
1 CTAAACCCTCTAAACCCTAAAAATAAAACC
14720 CTAAAC
1 CTAAAC
14726 TTCAAGCCCC
Statistics
Matches: 103, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
28 16 0.16
29 25 0.24
30 36 0.35
31 26 0.25
ACGTcount: A:0.47, C:0.32, G:0.01, T:0.21
Consensus pattern (30 bp):
CTAAACCCTCTAAACCCTAAAAATAAAACC
Found at i:14725 original size:59 final size:60
Alignment explanation
Indices: 14572--14725 Score: 190
Period size: 59 Copynumber: 2.6 Consensus size: 60
14562 ATTCCAGTCT
* *
14572 CTAAACACTCTAAACCCT-AAATTAAACCTTAAACCCTCTAAACCCTAAAAACCAAAACC
1 CTAAACCCTCTAAACCCTAAAATAAAACCTTAAACCCTCTAAACCCTAAAAACCAAAACC
* * * *
14631 CTAAACCCTCTAAACCTTAAAAATGAAACCTTAAACCCTCTAAATCCT-AAAATC-AAACC
1 CTAAACCCTCTAAACCCT-AAAATAAAACCTTAAACCCTCTAAACCCTAAAAACCAAAACC
*
14690 CTAAATCCTCTAAACCCTAAAACTAAAATCC-TAAAC
1 CTAAACCCTCTAAACCCTAAAA-TAAAA-CCTTAAAC
14726 TTCAAGCCCC
Statistics
Matches: 83, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
58 4 0.05
59 46 0.55
60 7 0.08
61 26 0.31
ACGTcount: A:0.47, C:0.32, G:0.01, T:0.21
Consensus pattern (60 bp):
CTAAACCCTCTAAACCCTAAAATAAAACCTTAAACCCTCTAAACCCTAAAAACCAAAACC
Found at i:14824 original size:7 final size:7
Alignment explanation
Indices: 14812--14858 Score: 58
Period size: 7 Copynumber: 6.4 Consensus size: 7
14802 AAAAACCCCT
14812 AAAATCC
1 AAAATCC
14819 AAAATCCC
1 AAAAT-CC
*
14827 AAACTCC
1 AAAATCC
14834 AAAATCC
1 AAAATCC
*
14841 AAAATCTA
1 AAAATC-C
14849 AAAATCC
1 AAAATCC
14856 AAA
1 AAA
14859 GGTAAAGACC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
7 22 0.65
8 12 0.35
ACGTcount: A:0.57, C:0.28, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAATCC
Found at i:14852 original size:15 final size:15
Alignment explanation
Indices: 14772--14858 Score: 54
Period size: 15 Copynumber: 5.7 Consensus size: 15
14762 CCTAAACCCT
*
14772 AAAATCC-AAAGCTTA
1 AAAATCCAAAATC-TA
*
14787 AAAATCCAAATTTCTA
1 AAAATCCAAA-ATCTA
* *
14803 AAAACCCCTAAAATC-C
1 AAAA-TCC-AAAATCTA
* *
14819 AAAATCCCAAA-CTCC
1 AAAATCCAAAATCT-A
14834 AAAATCCAAAATCTA
1 AAAATCCAAAATCTA
14849 AAAATCCAAA
1 AAAATCCAAA
14859 GGTAAAGACC
Statistics
Matches: 56, Mismatches: 9, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
13 1 0.02
14 3 0.05
15 30 0.54
16 14 0.25
17 5 0.09
18 3 0.05
ACGTcount: A:0.54, C:0.26, G:0.01, T:0.18
Consensus pattern (15 bp):
AAAATCCAAAATCTA
Found at i:16577 original size:4 final size:4
Alignment explanation
Indices: 16568--16608 Score: 64
Period size: 4 Copynumber: 10.0 Consensus size: 4
16558 CTTATACTTG
*
16568 TTTA TTTA TTTA CTTA TTTA TTTA TTTA TTTA TTTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA
16609 CATTATTGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
4 30 0.88
5 4 0.12
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:16587 original size:16 final size:16
Alignment explanation
Indices: 16562--16608 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
16552 TCATATCTTA
*
16562 TACTTGTTTATTTATT
1 TACTTATTTATTTATT
16578 TACTTATTTATTTATT
1 TACTTATTTATTTATT
*
16594 TATTTATTTTATTTA
1 TACTTA-TTTATTTA
16609 CATTATTGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
16 20 0.71
17 8 0.29
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.70
Consensus pattern (16 bp):
TACTTATTTATTTATT
Found at i:26346 original size:10 final size:10
Alignment explanation
Indices: 26331--26366 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
26321 ATTTTGCTTA
26331 AAAAAAAGAG
1 AAAAAAAGAG
*
26341 AAAAAAAAGAA
1 -AAAAAAAGAG
26352 AAAAAAAGAG
1 AAAAAAAGAG
26362 AAAAA
1 AAAAA
26367 GTAAAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAG
Found at i:26346 original size:11 final size:11
Alignment explanation
Indices: 26330--26366 Score: 67
Period size: 11 Copynumber: 3.5 Consensus size: 11
26320 TATTTTGCTT
26330 AAAAAAAAGAG
1 AAAAAAAAGAG
26341 AAAAAAAAGA-
1 AAAAAAAAGAG
26351 AAAAAAAAGAG
1 AAAAAAAAGAG
26362 AAAAA
1 AAAAA
26367 GTAAAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 10 0.40
11 15 0.60
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (11 bp):
AAAAAAAAGAG
Found at i:26355 original size:19 final size:19
Alignment explanation
Indices: 26329--26377 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 19
26319 ATATTTTGCT
26329 TAAAAAAAAGAGAAAAAAAAG
1 TAAAAAAAA-AG-AAAAAAAG
*
26350 -AAAAAAAAAGAGAAAAAG
1 TAAAAAAAAAGAAAAAAAG
26368 TAAAAAAAAA
1 TAAAAAAAAA
26378 AGGGAAGTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 7 0.27
19 11 0.42
20 8 0.31
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.04
Consensus pattern (19 bp):
TAAAAAAAAAGAAAAAAAG
Found at i:26356 original size:21 final size:20
Alignment explanation
Indices: 26330--26379 Score: 73
Period size: 21 Copynumber: 2.5 Consensus size: 20
26320 TATTTTGCTT
26330 AAAAAAAAGAGAAAAAAAAGA
1 AAAAAAAAGAGAAAAAAAA-A
**
26351 AAAAAAAAGAGAAAAAGTAA
1 AAAAAAAAGAGAAAAAAAAA
26371 AAAAAAAAG
1 AAAAAAAAG
26380 GGAAGTGATT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 10 0.37
21 17 0.63
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (20 bp):
AAAAAAAAGAGAAAAAAAAA
Found at i:27978 original size:36 final size:38
Alignment explanation
Indices: 27909--27979 Score: 92
Period size: 36 Copynumber: 1.9 Consensus size: 38
27899 TCGATCCTCA
* * * *
27909 TTCTCTGACTTTGTGATTTAATCTCAGTTTCTTTATTT
1 TTCTCTGACTTTGTGATTCAATCCCAATCTCTTTATTT
27947 TTCT-TGAC-TTGTGATTCAATCCCAATCTCTTTA
1 TTCTCTGACTTTGTGATTCAATCCCAATCTCTTTA
27980 CTTCTAAGTC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 21 0.72
37 4 0.14
38 4 0.14
ACGTcount: A:0.18, C:0.20, G:0.10, T:0.52
Consensus pattern (38 bp):
TTCTCTGACTTTGTGATTCAATCCCAATCTCTTTATTT
Found at i:28223 original size:201 final size:203
Alignment explanation
Indices: 27816--29029 Score: 1372
Period size: 201 Copynumber: 6.0 Consensus size: 203
27806 CTATTCTCTA
* * * * *
27816 ACTTACGATTTAATCTTGATCTTTTTATTTTCTTGACTCGCGGTTCAATCCTGATCTTTTTACTT
1 ACTTACGATTTAATCCTGATCTCTTTATTTTCTTAACTCGCGGTTCAATCCCGATCTTTTTAATT
* * * * * * *
27881 TTGAGTCGCGGTTTAATCTCGATCC-TCATTCTCTGACTTTGTGATTTAATCTC-AGTTTCTTTA
66 CTAAGTCACGGTTTAATCCCGATCCTTCATTCTCTGAC-TTGCGGTTTAATCTCGAGTCTCTTTA
* * * *
27944 TTTTTCTTGACTTGTGATTCAATCCCAATCTCTTTACTTCTAAGTCACGATTTTATCCCGATCCT
130 TTTTTCTTGACTCGCGGTTCAATCCCGATCTCTTTACTTCTAAGTCACGATTTTATCCCGATCCT
*
28009 CATTCTCTG
195 CATTCTTTG
* ** *
28018 ACTTACGATTTAATCCTGATCTTTTTATTTTCTTAACTCATGGTTCAATCCTGATCTTTTTAATT
1 ACTTACGATTTAATCCTGATCTCTTTATTTTCTTAACTCGCGGTTCAATCCCGATCTTTTTAATT
*
28083 CTAAGTCACGGTTTAATCCCGAT-CTTCATTCTCTGACTTACGGTTTAATCTCGA-TCTCTTTAT
66 CTAAGTCACGGTTTAATCCCGATCCTTCATTCTCTGACTTGCGGTTTAATCTCGAGTCTCTTTAT
* * * *
28146 TTTTTTTGACTCGCGGTTCAATCTCAATCTCTTTACTTCTAAGTCATGATTTTATCCCGATCCTC
131 TTTTCTTGACTCGCGGTTCAATCCCGATCTCTTTACTTCTAAGTCACGATTTTATCCCGATCCTC
28211 ATTCTTTG
196 ATTCTTTG
* * **
28219 ACTTACGGTTTAATCCTGATCTCTTTATTTTCTTAACTCCCGGTTCAATCTTGATCTTTTTAATT
1 ACTTACGATTTAATCCTGATCTCTTTATTTTCTTAACTCGCGGTTCAATCCCGATCTTTTTAATT
* * *
28284 CTAAGTCACGGTTTAATCCCGATCCTCATTCTTTCTCTGACTTGCGGATTAATCTC-AGTCTTTT
66 CTAAGTCACGGTTTAATCCCGAT-C-C-TTCATTCTCTGACTTGCGGTTTAATCTCGAGTCTCTT
* ** * * *
28348 TA-TTTTCTTAACTTACAGTTTAATCCCGATCTCTTTACTTTTAAGTCACGATTTTATCCCGATC
128 TATTTTTCTTGACTCGCGGTTCAATCCCGATCTCTTTACTTCTAAGTCACGATTTTATCCCGATC
28412 CTCATTCTTTG
193 CTCATTCTTTG
* * * * *
28423 ACTT--GTAGTTTAATCCCGATCTTTTTATTTTATTAACTCGCAGTTCAATCCCAATCTTTTTAA
1 ACTTACG-A-TTTAATCCTGATCTCTTTATTTTCTTAACTCGCGGTTCAATCCCGATCTTTTTAA
* * * * *
28486 TTCTAAGTTACGGTTTAATCCCGATCCTT-ATTCTTTGACTTGCGATTTAATCTTGA-T-TTTTT
64 TTCTAAGTCACGGTTTAATCCCGATCCTTCATTCTCTGACTTGCGGTTTAATCTCGAGTCTCTTT
* * * * *
28548 CATTTTTCTTGACTCACGGTTCAATCCCGATCTCTTTACTTTTAAGTCACAATTTTATCTCAATC
129 -ATTTTTCTTGACTCGCGGTTCAATCCCGATCTCTTTACTTCTAAGTCACGATTTTATCCCGATC
28613 CTCATTCTTTG
193 CTCATTCTTTG
* ** *
28624 ACTT--GTAGTTTAAT-CTCAATCTCTTTATTTTTCTTAACTCGCAATTCAATCCCAATCTTTTT
1 ACTTACG-A-TTTAATCCT-GATCTCTTTA-TTTTCTTAACTCGCGGTTCAATCCCGATCTTTTT
* * *
28686 AATTCTAAGTCTCGGGTTTAATCCCGATCCTT-ATTCTCTGACTTGCGATTTAATCTCG-GTGTC
62 AATTCTAAGTCAC-GGTTTAATCCCGATCCTTCATTCTCTGACTTGCGGTTTAATCTCGAGTCTC
* * * *
28749 TTTATTTTTCTTGACTTGCGATTCAATCTCGATCTCTTTACTTCTAAGTCACAATTTTATCCCGA
126 TTTATTTTTCTTGACTCGCGGTTCAATCCCGATCTCTTTACTTCTAAGTCACGATTTTATCCCGA
* *
28814 TCTTCATTCTCTG
191 TCCTCATTCTTTG
* * ** *
28827 ACTTGCGGTTTAAT-CTCGATCTCTTTATTTTTCTTAACTCATGGTTCAACCCCGATC-TTTTAA
1 ACTTACGATTTAATCCT-GATCTCTTTA-TTTTCTTAACTCGCGGTTCAATCCCGATCTTTTTAA
** * ** *
28890 TTCTAAGTCACGGTTTAATTTCGATCCTCATTATTTCTCTGACTTATGGTTTAATC-CTAGTCTC
64 TTCTAAGTCACGGTTTAATCCCGATCCT--TCA-TTCTCTGACTTGCGGTTTAATCTCGAGTCTC
* * * **
28954 TTTATTTTT-TTGACTCGTGGTTCAATCCCGATCTCTTTACTTTTAAGTCAC-AGTTTAATCTTG
126 TTTATTTTTCTTGACTCGCGGTTCAATCCCGATCTCTTTACTTCTAAGTCACGA-TTTTATCCCG
29017 ATCCTCATTCTTT
190 ATCCTCATTCTTT
29030 CTCTAACTTG
Statistics
Matches: 881, Mismatches: 106, Indels: 48
0.85 0.10 0.05
Matches are distributed among these distances:
199 5 0.01
200 23 0.03
201 276 0.31
202 153 0.17
203 158 0.18
204 201 0.23
205 65 0.07
ACGTcount: A:0.20, C:0.23, G:0.11, T:0.46
Consensus pattern (203 bp):
ACTTACGATTTAATCCTGATCTCTTTATTTTCTTAACTCGCGGTTCAATCCCGATCTTTTTAATT
CTAAGTCACGGTTTAATCCCGATCCTTCATTCTCTGACTTGCGGTTTAATCTCGAGTCTCTTTAT
TTTTCTTGACTCGCGGTTCAATCCCGATCTCTTTACTTCTAAGTCACGATTTTATCCCGATCCTC
ATTCTTTG
Found at i:28450 original size:405 final size:401
Alignment explanation
Indices: 27816--29029 Score: 1477
Period size: 405 Copynumber: 3.0 Consensus size: 401
27806 CTATTCTCTA
* * * * *
27816 ACTTACGATTTAATCTTGATCTTTTTATTTTCTTGACTCGCGGTTCAATCCTGATCTTTTTACTT
1 ACTTACGGTTTAATCCTGATCTCTTTATTTTCTTAACTCGCGGTTCAATCCTGATCTTTTTAATT
* * * * *
27881 TTGAGTCGCGGTTTAATCTCGATCCTCA--TTCTCTGACTTTGTGATTTAATCTCAGTTTCTTTA
66 CTAAGTCACGGTTTAATCCCGATCCTCATTTTCTCTGAC-TTGCGATTTAATCTCAGTTT-TTTA
* *
27944 TTTTTCTTGACTTGTGATTCAATCCCAATCTCTTTACTTCTAAGTCACGATTTTATCCCGATCCT
129 TTTTTCTTGACTT-CGATTCAATCCCGATCTCTTTACTTCTAAGTCACGATTTTATCCCGATCCT
* *
28009 CATTCTCTGAC-T-TACGATTTAATCCTGATCTTTTTATTTTCTTAACTCATGGTTCAATCCTGA
193 CATTCTCTGACTTGTA-G-TTTAATCCCGATCTTTTTATTTTCTTAACTCATGGTTCAATCCCGA
28072 TCTTTTTAATTCTAAGTCACGGTTTAATCCCGAT-CTTCATTCTCTGACTTACGGTTTAATCTCG
256 TCTTTTTAATTCTAAGTCACGGTTTAATCCCGATCCTT-ATTCTCTGACTTACGGTTTAATCTCG
* * * *
28136 ATCTCTTTATTTTTTTTGACTCGCGGTTCAATCTCAATCTCTTTACTTCTAAGTCATGATTTTAT
320 ATCTCTTTATTTTTTTTGACTCGCGGTTCAATCCCGATCTCTTTACTTTTAAGTCA-AATTTTAT
*
28201 CCCGATCCTCATTCTTTG
384 CTCGATCCTCATTCTTTG
* *
28219 ACTTACGGTTTAATCCTGATCTCTTTATTTTCTTAACTCCCGGTTCAATCTTGATCTTTTTAATT
1 ACTTACGGTTTAATCCTGATCTCTTTATTTTCTTAACTCGCGGTTCAATCCTGATCTTTTTAATT
28284 CTAAGTCACGGTTTAATCCCGATCCTCATTCTTTCTCTGACTTGCGGA-TTAATCTCAGTCTTTT
66 CTAAGTCACGGTTTAATCCCGATCCTCA-T-TTTCTCTGACTTGC-GATTTAATCTCAGT-TTTT
* * *
28348 TA-TTTTCTTAACTTAC-AGTTTAATCCCGATCTCTTTACTTTTAAGTCACGATTTTATCCCGAT
127 TATTTTTCTTGACTT-CGA-TTCAATCCCGATCTCTTTACTTCTAAGTCACGATTTTATCCCGAT
* * *** *
28411 CCTCATTCTTTGACTTGTAGTTTAATCCCGATCTTTTTATTTTATTAACTCGCAGTTCAATCCCA
190 CCTCATTCTCTGACTTGTAGTTTAATCCCGATCTTTTTATTTTCTTAACTCATGGTTCAATCCCG
* * * * *
28476 ATCTTTTTAATTCTAAGTTACGGTTTAATCCCGATCCTTATTCTTTGACTTGCGATTTAATCTTG
255 ATCTTTTTAATTCTAAGTCACGGTTTAATCCCGATCCTTATTCTCTGACTTACGGTTTAATCTCG
* * *
28541 AT-TTTTTCATTTTTCTTGACTCACGGTTCAATCCCGATCTCTTTACTTTTAAGTCACAATTTTA
320 ATCTCTTT-ATTTTTTTTGACTCGCGGTTCAATCCCGATCTCTTTACTTTTAAGTCA-AATTTTA
*
28605 TCTCAATCCTCATTCTTTG
383 TCTCGATCCTCATTCTTTG
*** * ** **
28624 ACTTGTAGTTTAAT-CTCAATCTCTTTATTTTTCTTAACTCGCAATTCAATCCCAATCTTTTTAA
1 ACTTACGGTTTAATCCT-GATCTCTTTA-TTTTCTTAACTCGCGGTTCAATCCTGATCTTTTTAA
* * * *
28688 TTCTAAGTCTCGGGTTTAATCCCGATCCT--TATTCTCTGACTTGCGATTTAATCTCGGTGTCTT
64 TTCTAAGTCAC-GGTTTAATCCCGATCCTCATTTTCTCTGACTTGCGATTTAATCTCAGT-TTTT
* *
28751 TATTTTTCTTGACTTGCGATTCAATCTCGATCTCTTTACTTCTAAGTCACAATTTTATCCCGATC
127 TATTTTTCTTGACTT-CGATTCAATCCCGATCTCTTTACTTCTAAGTCACGATTTTATCCCGATC
* ** * * *
28816 TTCATTCTCTGACTTGCGGTTTAATCTCGATCTCTTTATTTTTCTTAACTCATGGTTCAACCCCG
191 CTCATTCTCTGACTTGTAGTTTAATCCCGATCTTTTTA-TTTTCTTAACTCATGGTTCAATCCCG
** *
28881 ATC-TTTTAATTCTAAGTCACGGTTTAATTTCGATCCTCATTATTTCTCTGACTTATGGTTTAAT
255 ATCTTTTTAATTCTAAGTCACGGTTTAATCCCGAT-C-C-TTA-TTCTCTGACTTACGGTTTAAT
* * *
28945 C-CTAGTCTCTTTA-TTTTTTTGACTCGTGGTTCAATCCCGATCTCTTTACTTTTAAGTCACAGT
316 CTCGA-TCTCTTTATTTTTTTTGACTCGCGGTTCAATCCCGATCTCTTTACTTTTAAGTCA-AAT
* *
29008 TTAATCTTGATCCTCATTCTTT
379 TTTATCTCGATCCTCATTCTTT
29030 CTCTAACTTG
Statistics
Matches: 696, Mismatches: 91, Indels: 44
0.84 0.11 0.05
Matches are distributed among these distances:
402 2 0.00
403 110 0.16
404 122 0.18
405 273 0.39
406 64 0.09
407 101 0.15
408 20 0.03
409 4 0.01
ACGTcount: A:0.20, C:0.23, G:0.11, T:0.46
Consensus pattern (401 bp):
ACTTACGGTTTAATCCTGATCTCTTTATTTTCTTAACTCGCGGTTCAATCCTGATCTTTTTAATT
CTAAGTCACGGTTTAATCCCGATCCTCATTTTCTCTGACTTGCGATTTAATCTCAGTTTTTTATT
TTTCTTGACTTCGATTCAATCCCGATCTCTTTACTTCTAAGTCACGATTTTATCCCGATCCTCAT
TCTCTGACTTGTAGTTTAATCCCGATCTTTTTATTTTCTTAACTCATGGTTCAATCCCGATCTTT
TTAATTCTAAGTCACGGTTTAATCCCGATCCTTATTCTCTGACTTACGGTTTAATCTCGATCTCT
TTATTTTTTTTGACTCGCGGTTCAATCCCGATCTCTTTACTTTTAAGTCAAATTTTATCTCGATC
CTCATTCTTTG
Found at i:28766 original size:36 final size:37
Alignment explanation
Indices: 28719--28788 Score: 106
Period size: 36 Copynumber: 1.9 Consensus size: 37
28709 CCGATCCTTA
* * *
28719 TTCTCTGACTTGCGATTTAATCTCGGTGTCTTTATTT
1 TTCTCTGACTTGCGATTCAATCTCGATCTCTTTATTT
28756 TTCT-TGACTTGCGATTCAATCTCGATCTCTTTA
1 TTCTCTGACTTGCGATTCAATCTCGATCTCTTTA
28789 CTTCTAAGTC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
36 26 0.87
37 4 0.13
ACGTcount: A:0.16, C:0.21, G:0.14, T:0.49
Consensus pattern (37 bp):
TTCTCTGACTTGCGATTCAATCTCGATCTCTTTATTT
Found at i:28840 original size:608 final size:607
Alignment explanation
Indices: 27824--29029 Score: 1588
Period size: 608 Copynumber: 2.0 Consensus size: 607
27814 TAACTTACGA
** * * * ** * * * *
27824 TTTAATCTTGATCTTTTTATTTTCTTGACTCGCGGTTCAATCCTGATCTTTTTACTTTTGAGTCG
1 TTTAATCCCGATCTTTTTATTTTATTAACTCGCAGTTCAATCCCAATCTTTTTAATTCTAAGTCA
* *
27889 CGGTTTAATCTCGATCCTCATTCTCTGACTTTGTGATTTAATCTCAGTTTCTTTATTTTTCTTGA
66 CGGTTTAATCCCGATCCTCATTCTCTGACTTTGCGATTTAATCTCAGTTTCTTTATTTTTCTTGA
*** * *
27954 CTTGTGATTCAATCCCAATCTCTTTACTTCTAAGTCACGATTTTATCCCGATCCTCATTCTCTGA
131 CTCACGATTCAATCCCAATCTCTTTACTTCTAAGTCACAATTTTATCCCAATCCTCATTCTCTGA
* * *** **
28019 CTTACGATTTAATCCTGATCTTTTTATTTTCTTAACTCATGGTTCAATCCTGATCTTTTTAATTC
196 CTTACGATTTAATCCTAATCTCTTTATTTTCTTAACTCACAATTCAATCCCAATCTTTTTAATTC
*
28084 TAAGTCACGGTTTAATCCCGATCTTCATTCTCTGACTTACGGTTTAATCTCGATCTCTTTATTTT
261 TAAGTCACGGTTTAATCCCGATCTTCATTCTCTGACTTACGATTTAATCTCGATCTCTTTATTTT
* * **
28149 TTTTGACTCGCGGTTCAATCTCAATCTCTTTACTTCTAAGTCATGATTTTATCCCGATCCTCATT
326 TCTTGACTCGCGATTCAATCTCAATCTCTTTACTTCTAAGTCACAATTTTATCCCGATCCTCATT
* * * **
28214 CTTTGACTTACGGTTTAATC-CTGATCTCTTTA-TTTTCTTAACTCCCGGTTCAATCTTGATCTT
391 CTCTGACTTACGGTTTAATCTC-GATCTCTTTATTTTTCTTAACTCACGGTTCAACCCCGATC-T
* *
28277 TTTAATTCTAAGTCACGGTTTAATCCCGATCCTCATTCTTTCTCTGACTTGCGGATTAAT-CTCA
454 TTTAATTCTAAGTCACGGTTTAATCCCGATCCTCATTATTTCTCTGACTTACGGATTAATCCT-A
* * * *
28341 GTCTTTTTATTTTCTTAACTTACAGTTTAATCCCGATCTCTTTACTTTTAAGTCAC-GATTTTAT
518 GTCTCTTTATTTTCTTAACTCACAGTTCAATCCCGATCTCTTTACTTTTAAGTCACAG-TTTAAT
28405 CCCGATCCTCATTCTTTGACTTGTAG
582 CCCGATCCTCATTCTTTGACTTGTAG
*
28431 TTTAATCCCGATCTTTTTATTTTATTAACTCGCAGTTCAATCCCAATCTTTTTAATTCTAAGTTA
1 TTTAATCCCGATCTTTTTATTTTATTAACTCGCAGTTCAATCCCAATCTTTTTAATTCTAAGTCA
* * *
28496 CGGTTTAATCCCGATCCTTATTCTTTGAC-TTGCGATTTAATCT-TGATTT-TTTCATTTTTCTT
66 CGGTTTAATCCCGATCCTCATTCTCTGACTTTGCGATTTAATCTCAG-TTTCTTT-ATTTTTCTT
* * * * *
28558 GACTCACGGTTCAATCCCGATCTCTTTACTTTTAAGTCACAATTTTATCTCAATCCTCATTCTTT
129 GACTCACGATTCAATCCCAATCTCTTTACTTCTAAGTCACAATTTTATCCCAATCCTCATTCTCT
*
28623 GACTT--GTAGTTTAAT-CTCAATCTCTTTATTTTTCTTAACTCGCAATTCAATCCCAATCTTTT
194 GACTTACG-A-TTTAATCCT-AATCTCTTTA-TTTTCTTAACTCACAATTCAATCCCAATCTTTT
* * * *
28685 TAATTCTAAGTCTCGGGTTTAATCCCGATCCTT-ATTCTCTGACTTGCGATTTAATCTCGGTGTC
255 TAATTCTAAGTCAC-GGTTTAATCCCGAT-CTTCATTCTCTGACTTACGATTTAATCTCGATCTC
* *
28749 TTTATTTTTCTTGACTTGCGATTCAATCTCGATCTCTTTACTTCTAAGTCACAATTTTATCCCGA
318 TTTATTTTTCTTGACTCGCGATTCAATCTCAATCTCTTTACTTCTAAGTCACAATTTTATCCCGA
* * *
28814 TCTTCATTCTCTGACTTGCGGTTTAATCTCGATCTCTTTATTTTTCTTAACTCATGGTTCAACCC
383 TCCTCATTCTCTGACTTACGGTTTAATCTCGATCTCTTTATTTTTCTTAACTCACGGTTCAACCC
** * *
28879 CGATCTTTTAATTCTAAGTCACGGTTTAATTTCGATCCTCATTATTTCTCTGACTTATGGTTTAA
448 CGATCTTTTAATTCTAAGTCACGGTTTAATCCCGATCCTCATTATTTCTCTGACTTACGGATTAA
* * ***
28944 TCCTAGTCTCTTTATTTTTTTGACTCGTGGTTCAATCCCGATCTCTTTACTTTTAAGTCACAGTT
513 TCCTAGTCTCTTTATTTTCTTAACTCACAGTTCAATCCCGATCTCTTTACTTTTAAGTCACAGTT
**
29009 TAATCTTGATCCTCATTCTTT
578 TAATCCCGATCCTCATTCTTT
29030 CTCTAACTTG
Statistics
Matches: 516, Mismatches: 71, Indels: 23
0.85 0.12 0.04
Matches are distributed among these distances:
604 1 0.00
605 7 0.01
606 99 0.19
607 119 0.23
608 259 0.50
609 31 0.06
ACGTcount: A:0.20, C:0.23, G:0.11, T:0.46
Consensus pattern (607 bp):
TTTAATCCCGATCTTTTTATTTTATTAACTCGCAGTTCAATCCCAATCTTTTTAATTCTAAGTCA
CGGTTTAATCCCGATCCTCATTCTCTGACTTTGCGATTTAATCTCAGTTTCTTTATTTTTCTTGA
CTCACGATTCAATCCCAATCTCTTTACTTCTAAGTCACAATTTTATCCCAATCCTCATTCTCTGA
CTTACGATTTAATCCTAATCTCTTTATTTTCTTAACTCACAATTCAATCCCAATCTTTTTAATTC
TAAGTCACGGTTTAATCCCGATCTTCATTCTCTGACTTACGATTTAATCTCGATCTCTTTATTTT
TCTTGACTCGCGATTCAATCTCAATCTCTTTACTTCTAAGTCACAATTTTATCCCGATCCTCATT
CTCTGACTTACGGTTTAATCTCGATCTCTTTATTTTTCTTAACTCACGGTTCAACCCCGATCTTT
TAATTCTAAGTCACGGTTTAATCCCGATCCTCATTATTTCTCTGACTTACGGATTAATCCTAGTC
TCTTTATTTTCTTAACTCACAGTTCAATCCCGATCTCTTTACTTTTAAGTCACAGTTTAATCCCG
ATCCTCATTCTTTGACTTGTAG
Found at i:30551 original size:6 final size:6
Alignment explanation
Indices: 30542--30571 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
30532 CAATTTTTTT
30542 TTTTAA TTTTAA TTTTAA TTTTATA TTTTA
1 TTTTAA TTTTAA TTTTAA TTTTA-A TTTTA
30572 TTTATTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (6 bp):
TTTTAA
Found at i:31074 original size:15 final size:15
Alignment explanation
Indices: 31054--31122 Score: 63
Period size: 15 Copynumber: 4.7 Consensus size: 15
31044 TTTGAAATTG
31054 AAACCCTAAACCTTC
1 AAACCCTAAACCTTC
*
31069 AAACCCTAAAAC--C
1 AAACCCTAAACCTTC
**
31082 AAACTTTAAAACTCTT-
1 AAACCCT-AAAC-CTTC
*
31098 AAACCCTAAACCTCC
1 AAACCCTAAACCTTC
31113 AAACCCTAAA
1 AAACCCTAAA
31123 ATCAAATCCC
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
13 6 0.14
14 5 0.12
15 26 0.62
16 5 0.12
ACGTcount: A:0.46, C:0.35, G:0.00, T:0.19
Consensus pattern (15 bp):
AAACCCTAAACCTTC
Found at i:31135 original size:14 final size:13
Alignment explanation
Indices: 31067--31172 Score: 59
Period size: 13 Copynumber: 7.4 Consensus size: 13
31057 CCCTAAACCT
31067 TCAAACCCTAAAA
1 TCAAACCCTAAAA
* **
31080 CCAAACTTTAAAA
1 TCAAACCCTAAAA
*
31093 CTCTTAAACCCTAAACC
1 -TC--AAACCCTAAA-A
31110 TCCAAACCCTAAAA
1 T-CAAACCCTAAAA
31124 TCAAATCCCTAAAATA
1 TCAAA-CCCT-AAA-A
*
31140 TCCAAACCTTAAAA
1 T-CAAACCCTAAAA
* *
31154 TTGAAACCCTAAAT
1 -TCAAACCCTAAAA
31168 TCAAA
1 TCAAA
31173 ACGCAAAAAT
Statistics
Matches: 70, Mismatches: 13, Indels: 20
0.68 0.13 0.19
Matches are distributed among these distances:
13 18 0.26
14 16 0.23
15 17 0.24
16 14 0.20
17 5 0.07
ACGTcount: A:0.48, C:0.29, G:0.01, T:0.22
Consensus pattern (13 bp):
TCAAACCCTAAAA
Found at i:31164 original size:30 final size:28
Alignment explanation
Indices: 31066--31166 Score: 89
Period size: 30 Copynumber: 3.5 Consensus size: 28
31056 ACCCTAAACC
*
31066 TTCAAACCCTAAAA-CCAAACTTTAAAA
1 TTCAAACCCTAAAATCCAAACCTTAAAA
* * *
31093 CTCTTAAACCCTAAACCTCCAAACCCTAAAA
1 -T-TCAAACCCTAAA-ATCCAAACCTTAAAA
31124 -TCAAATCCCTAAAATATCCAAACCTTAAAA
1 TTCAAA-CCCT-AAA-ATCCAAACCTTAAAA
*
31154 TTGAAACCCTAAA
1 TTCAAACCCTAAA
31167 TTCAAAACGC
Statistics
Matches: 58, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
28 5 0.09
29 18 0.31
30 20 0.34
31 15 0.26
ACGTcount: A:0.48, C:0.30, G:0.01, T:0.22
Consensus pattern (28 bp):
TTCAAACCCTAAAATCCAAACCTTAAAA
Found at i:31328 original size:13 final size:13
Alignment explanation
Indices: 31309--31339 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
31299 CTTAAACCCT
31309 CTAAACCCTAAAA
1 CTAAACCCTAAAA
*
31322 TTAAACCCTAAAA
1 CTAAACCCTAAAA
31335 CTAAA
1 CTAAA
31340 ATCTCAAACT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (13 bp):
CTAAACCCTAAAA
Found at i:31333 original size:29 final size:29
Alignment explanation
Indices: 31193--31333 Score: 122
Period size: 30 Copynumber: 4.8 Consensus size: 29
31183 CCAAAATCTC
* * * *
31193 AAACCCTAAATTTCAATCTCTAAACACTCT
1 AAACCCTAAAATT-AAACCCTAAACCCTCT
* *
31223 AAA-CCTTAAATTAAACTCTAAACCCTCT
1 AAACCCTAAAATTAAACCCTAAACCCTCT
* * *
31251 TAACCCTAAAAATGAAACCCTAAACCCTTT
1 AAACCCT-AAAATTAAACCCTAAACCCTCT
* * * * *
31281 GAACCTTAAAAATGAAGCCTTAAACCCTCT
1 AAACCCT-AAAATTAAACCCTAAACCCTCT
31311 AAACCCTAAAATTAAACCCTAAA
1 AAACCCTAAAATTAAACCCTAAA
31334 ACTAAAATCT
Statistics
Matches: 90, Mismatches: 19, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
28 16 0.18
29 23 0.26
30 51 0.57
ACGTcount: A:0.44, C:0.28, G:0.03, T:0.25
Consensus pattern (29 bp):
AAACCCTAAAATTAAACCCTAAACCCTCT
Found at i:31396 original size:21 final size:21
Alignment explanation
Indices: 31370--31411 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
31360 AACACGAATC
*
31370 CCTT-AAATTCAAAATCCTAAA
1 CCTTAAAATCCAAAA-CCTAAA
31391 CCTTAAAATCCAAAACCTAAA
1 CCTTAAAATCCAAAACCTAAA
31412 AATCCAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (21 bp):
CCTTAAAATCCAAAACCTAAA
Found at i:31400 original size:15 final size:15
Alignment explanation
Indices: 31380--31419 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
31370 CCTTAAATTC
* *
31380 AAAATCCTAAACCTT
1 AAAATCCAAAACCTA
31395 AAAATCCAAAACCTA
1 AAAATCCAAAACCTA
31410 AAAATCCAAA
1 AAAATCCAAA
31420 TTTTTAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.57, C:0.25, G:0.00, T:0.17
Consensus pattern (15 bp):
AAAATCCAAAACCTA
Found at i:35136 original size:44 final size:44
Alignment explanation
Indices: 35088--35181 Score: 170
Period size: 44 Copynumber: 2.1 Consensus size: 44
35078 GTTTAACATA
* *
35088 TTAATATGAATTATGATATAATAATTTTTATATTTTATATGTAT
1 TTAATATGAACTATGATATAATAATTTTTATATTTTATATATAT
35132 TTAATATGAACTATGATATAATAATTTTTATATTTTATATATAT
1 TTAATATGAACTATGATATAATAATTTTTATATTTTATATATAT
35176 TTAATA
1 TTAATA
35182 CAAAATAAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.40, C:0.01, G:0.05, T:0.53
Consensus pattern (44 bp):
TTAATATGAACTATGATATAATAATTTTTATATTTTATATATAT
Found at i:40238 original size:98 final size:98
Alignment explanation
Indices: 40109--40312 Score: 408
Period size: 98 Copynumber: 2.1 Consensus size: 98
40099 AATGACTCGG
40109 AATAAAAATTTAAGGATATAATACAAATAAAAAAATATTTAACGAGGGTAAAAGGATCTAGTTGA
1 AATAAAAATTTAAGGATATAATACAAATAAAAAAATATTTAACGAGGGTAAAAGGATCTAGTTGA
40174 GGGACCAATGGTCTACTAAACCCCATTTCTTCC
66 GGGACCAATGGTCTACTAAACCCCATTTCTTCC
40207 AATAAAAATTTAAGGATATAATACAAATAAAAAAATATTTAACGAGGGTAAAAGGATCTAGTTGA
1 AATAAAAATTTAAGGATATAATACAAATAAAAAAATATTTAACGAGGGTAAAAGGATCTAGTTGA
40272 GGGACCAATGGTCTACTAAACCCCATTTCTTCC
66 GGGACCAATGGTCTACTAAACCCCATTTCTTCC
40305 AATAAAAA
1 AATAAAAA
40313 ATTGGGGCTT
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
98 106 1.00
ACGTcount: A:0.46, C:0.14, G:0.15, T:0.26
Consensus pattern (98 bp):
AATAAAAATTTAAGGATATAATACAAATAAAAAAATATTTAACGAGGGTAAAAGGATCTAGTTGA
GGGACCAATGGTCTACTAAACCCCATTTCTTCC
Found at i:40902 original size:79 final size:80
Alignment explanation
Indices: 40811--40975 Score: 187
Period size: 79 Copynumber: 2.1 Consensus size: 80
40801 TAGAATTAAC
* * *
40811 AAAAATATTTTTAA-TACAAGTTATTTA-ATGAAATTAAAATTTTTATTTACAAATT-GA-AAAG
1 AAAAATATTTTTAACGACAA-TCA-TTAGATGAAATTAAAATTCTTA-TTACAAATTAGATAAA-
*
40872 TTTTATGAATATTTATAAT
62 TCTTATGAATATTTATAAT
* * *
40891 AAAAATA-TTTTAACGATAATCATTAGATGCAATTAAAATTCTTATTGCAAATTAGATAAATCTT
1 AAAAATATTTTTAACGACAATCATTAGATGAAATTAAAATTCTTATTACAAATTAGATAAATCTT
*
40955 ATTAATATTTATAAT
66 ATGAATATTTATAAT
40970 AAAAAT
1 AAAAAT
40976 TTAAAATGAC
Statistics
Matches: 73, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
78 11 0.15
79 49 0.67
80 13 0.18
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.42
Consensus pattern (80 bp):
AAAAATATTTTTAACGACAATCATTAGATGAAATTAAAATTCTTATTACAAATTAGATAAATCTT
ATGAATATTTATAAT
Found at i:41047 original size:20 final size:21
Alignment explanation
Indices: 41019--41068 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
41009 ACTTGTTGTT
*
41019 TTATCTATTTGTAA-ATATAA
1 TTATATATTTGTAATATATAA
*
41039 TTATATA-TTGTAATATATAG
1 TTATATATTTGTAATATATAA
41059 TTATATATTT
1 TTATATATTT
41069 TATAAATAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 6 0.23
20 18 0.69
21 2 0.08
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.54
Consensus pattern (21 bp):
TTATATATTTGTAATATATAA
Found at i:52512 original size:30 final size:30
Alignment explanation
Indices: 52473--52560 Score: 108
Period size: 30 Copynumber: 2.9 Consensus size: 30
52463 CAAATAAGTT
*
52473 TTTAACTTTTAATTTGTACTTAAATAAATCC
1 TTTAACTTTTAATTTGTA-TTAAATAAAGCC
*
52504 -TTATCTTTTAATTTGTATATAAAT-AAGCC
1 TTTAACTTTTAATTTGTAT-TAAATAAAGCC
*
52533 TTTAACTTTTGATTTGTAATTAAATAAA
1 TTTAACTTTTAATTTGT-ATTAAATAAA
52561 CTTATTTGAA
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
29 5 0.10
30 40 0.82
31 4 0.08
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.49
Consensus pattern (30 bp):
TTTAACTTTTAATTTGTATTAAATAAAGCC
Found at i:57267 original size:21 final size:20
Alignment explanation
Indices: 57222--57267 Score: 51
Period size: 19 Copynumber: 2.3 Consensus size: 20
57212 ATTATAATTT
57222 ATATTTACTTATAGTTCATC
1 ATATTTACTTATAGTTCATC
*
57242 A-ATTTA-TTATTATTTGCATC
1 ATATTTACTTA-TAGTT-CATC
57262 ATATTT
1 ATATTT
57268 TGATATTGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
18 3 0.14
19 9 0.41
20 6 0.27
21 4 0.18
ACGTcount: A:0.30, C:0.11, G:0.04, T:0.54
Consensus pattern (20 bp):
ATATTTACTTATAGTTCATC
Found at i:57911 original size:23 final size:24
Alignment explanation
Indices: 57869--57915 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
57859 AATGATTTAG
57869 TAATTAAGTTTAAAAATATGCATT
1 TAATTAAGTTTAAAAATATGCATT
*
57893 TAATTGAGTTT-AAAATATGCATT
1 TAATTAAGTTTAAAAATATGCATT
57916 CGAAACATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.43, C:0.04, G:0.11, T:0.43
Consensus pattern (24 bp):
TAATTAAGTTTAAAAATATGCATT
Found at i:60127 original size:20 final size:20
Alignment explanation
Indices: 60097--60145 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
60087 CTTTGATCCT
60097 TTTGAATTTTGACCTTTGACA
1 TTTGAATTTTGA-CTTTGACA
60118 TTTG-ATTTTGACTTTGAC-
1 TTTGAATTTTGACTTTGACA
*
60136 TTTAAATTTT
1 TTTGAATTTT
60146 TCAATAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 3 0.12
19 12 0.46
20 7 0.27
21 4 0.15
ACGTcount: A:0.22, C:0.10, G:0.12, T:0.55
Consensus pattern (20 bp):
TTTGAATTTTGACTTTGACA
Found at i:61051 original size:2 final size:2
Alignment explanation
Indices: 61044--61086 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
61034 TTAATTTAAG
*
61044 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
61086 T
1 T
61087 CTCTTTTGCA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:68028 original size:72 final size:72
Alignment explanation
Indices: 67866--68028 Score: 163
Period size: 72 Copynumber: 2.2 Consensus size: 72
67856 ATTAAAAACG
* * * *
67866 TCATCTTTTCAATAAAAATTATGTTTTCTATTTTAGAAACATCATTTTTGTTAAATTTTAAAAAA
1 TCATATTTTCAA-AAAAATCATGTTTTCTATATTAGAAACATCATTTTTGTTAAATTATAAAAAA
67931 TAATTTTT
65 TAATTTTT
* * ** * *
67939 TCATATTTTTAATAAAATCCATGTTTT-TATATTAGAAATGTCGTATTTT-TTGAATTATAAAAA
1 TCATATTTTCAAAAAAAT-CATGTTTTCTATATTAGAAACATCAT-TTTTGTTAAATTATAAAAA
68002 ATAACTTTTT
64 ATAA-TTTTT
68012 T-AT-TTTTCAACAAAAAT
1 TCATATTTTCAA-AAAAAT
68029 TATATTTTTA
Statistics
Matches: 74, Mismatches: 12, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
71 6 0.08
72 41 0.55
73 27 0.36
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.49
Consensus pattern (72 bp):
TCATATTTTCAAAAAAATCATGTTTTCTATATTAGAAACATCATTTTTGTTAAATTATAAAAAAT
AATTTTT
Found at i:69501 original size:16 final size:16
Alignment explanation
Indices: 69477--69597 Score: 50
Period size: 16 Copynumber: 7.2 Consensus size: 16
69467 ATTAAAAATA
*
69477 TATTGAAATTATTTAT
1 TATTAAAATTATTTAT
69493 TATTAAAATTATTAATAT
1 TATTAAAATTATT--TAT
* *
69511 TA-CAAAATAATTATAT
1 TATTAAAATTATT-TAT
*
69527 T-TTAATAATAATATTTAA
1 TATTAA-AAT--TATTTAT
*
69545 TATTAAATATTATGTTAA
1 TATTAAA-ATTAT-TTAT
* * *
69563 TATAAAAAATACTTA-
1 TATTAAAATTATTTAT
* * *
69578 AAATAAAACTATTTAT
1 TATTAAAATTATTTAT
69594 TATT
1 TATT
69598 CTTTATATTA
Statistics
Matches: 79, Mismatches: 16, Indels: 20
0.69 0.14 0.17
Matches are distributed among these distances:
15 10 0.13
16 24 0.30
17 17 0.22
18 19 0.24
19 9 0.11
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (16 bp):
TATTAAAATTATTTAT
Found at i:69503 original size:9 final size:9
Alignment explanation
Indices: 69455--69512 Score: 50
Period size: 9 Copynumber: 6.6 Consensus size: 9
69445 ATATTAATAT
69455 AATTATTAA
1 AATTATTAA
69464 AA-TATTAAA
1 AATTATT-AA
*
69473 AATATATTGA
1 AAT-TATTAA
69483 AATTATT--
1 AATTATTAA
*
69490 TATTATTAA
1 AATTATTAA
69499 AATTATTAA
1 AATTATTAA
*
69508 TATTA
1 AATTA
69513 CAAAATAATT
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
7 6 0.15
8 4 0.10
9 22 0.55
10 4 0.10
11 4 0.10
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (9 bp):
AATTATTAA
Found at i:69682 original size:18 final size:18
Alignment explanation
Indices: 69601--69864 Score: 77
Period size: 18 Copynumber: 14.9 Consensus size: 18
69591 TATTATTCTT
*
69601 TATATTATTTATTAATATA
1 TATACTATTTATTAATA-A
* *
69620 TTATAATA-TTATTTATTAA
1 -TATACTATTTA-TTAATAA
69639 TA-A-TATTTATTAAT-A
1 TATACTATTTATTAATAA
*
69654 TAT--TA--TATTAATAG
1 TATACTATTTATTAATAA
*
69668 TATGCTATTTATTAATAA
1 TATACTATTTATTAATAA
*
69686 TATATTATTTATTAATATA
1 TATACTATTTATTAATA-A
*
69705 TTATTAATATATTTATTAATTAAA
1 -TA-T-A-CTATTTATTAA-T-AA
*
69729 TTAATAATATTTATT-AT-A
1 -T-ATACTATTTATTAATAA
*
69747 TGT--TA-TTATTAATATAA
1 TATACTATTTATT-A-ATAA
69764 TATACTATTTATTAAT-A
1 TATACTATTTATTAATAA
*
69781 TAT--TA--TATTAATAG
1 TATACTATTTATTAATAA
* * *
69795 TATATTA-TTAGTAATAT
1 TATACTATTTATTAATAA
* *
69812 TAT-TTATTAATATATTATAA
1 TATACTATT--TAT-TAATAA
69832 TAT--TATTTATTAATAA
1 TATACTATTTATTAATAA
*
69848 TATGCTATTTATTAATA
1 TATACTATTTATTAATA
69865 TATTATAATA
Statistics
Matches: 194, Mismatches: 17, Indels: 68
0.70 0.06 0.24
Matches are distributed among these distances:
13 19 0.10
14 8 0.04
15 7 0.04
16 24 0.12
17 26 0.13
18 40 0.21
19 14 0.07
20 26 0.13
21 2 0.01
22 10 0.05
23 11 0.06
24 5 0.03
25 2 0.01
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.54
Consensus pattern (18 bp):
TATACTATTTATTAATAA
Found at i:69747 original size:127 final size:119
Alignment explanation
Indices: 69655--69941 Score: 263
Period size: 121 Copynumber: 2.4 Consensus size: 119
69645 TTATTAATAT
69655 ATTATATTAATAGTATGCTATTTATTAATAATATATTATTTATTAATATATTATTAATA-TATTT
1 ATTATATTAATAGTA---TA-TTATTAAT-A-ATATTATTTATTAATATATTA-TAATATTATTT
* ** *
69719 ATTAATTAA-AT-TAATAATATTTAT-TA-TATGTTATTATTAATATAATATACTATTTATTAAT
59 ATTAA-TAATATCT-AT-ATATTAATATATTATAATATTATTTAT-TAATA-A-TATTTATTAAT
69780 AT
118 AT
*
69782 ATTATATTAATAGTATATTATTAGTAATATTATTTATTAATATATTATAATATTATTTATTAATA
1 ATTATATTAATAGTATATTATTAATAATATTATTTATTAATATATTATAATATTATTTATTAATA
* * *
69847 ATATGCTATTTATTAATATATTATAATATTATTTATTAAT-ATAATATTATTTATTT
66 ATAT-CTATATATTAATATATTATAATATTATTTATTAATAAT-AT-TTATTAATAT
69903 ATTAATATTAATA--A-ATTATT-ATAATATTTATTTA-TAATA
1 ATT-ATATTAATAGTATATTATTAATAATA-TTATTTATTAATA
69942 ATATGTATTA
Statistics
Matches: 141, Mismatches: 9, Indels: 29
0.79 0.05 0.16
Matches are distributed among these distances:
118 10 0.07
119 14 0.10
120 12 0.09
121 50 0.35
122 18 0.13
123 20 0.14
124 2 0.01
127 15 0.11
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (119 bp):
ATTATATTAATAGTATATTATTAATAATATTATTTATTAATATATTATAATATTATTTATTAATA
ATATCTATATATTAATATATTATAATATTATTTATTAATAATATTTATTAATAT
Found at i:69846 original size:23 final size:23
Alignment explanation
Indices: 69687--69787 Score: 78
Period size: 24 Copynumber: 4.0 Consensus size: 23
69677 TATTAATAAT
69687 ATATTATTTATTAATATATTATTA
1 ATATTATTTATTAATATATTA-TA
*
69711 ATA-TATTTATTAATTAAATTAATA
1 ATATTATTTATTAA-TATATT-ATA
* *
69735 ATATTTATTATATGTTATTATTAATATA
1 ATA-TTATT-TA--TTAATA-TATTATA
69763 ATATACTATTTATTAATATATTATA
1 ATAT--TATTTATTAATATATTATA
69788 TTAATAGTAT
Statistics
Matches: 61, Mismatches: 6, Indels: 19
0.71 0.07 0.22
Matches are distributed among these distances:
23 10 0.16
24 13 0.21
25 7 0.11
26 9 0.15
27 3 0.05
28 10 0.16
29 9 0.15
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (23 bp):
ATATTATTTATTAATATATTATA
Found at i:69906 original size:162 final size:139
Alignment explanation
Indices: 69606--69864 Score: 70
Period size: 139 Copynumber: 1.9 Consensus size: 139
69596 TTCTTTATAT
* *
69606 TATTTATTAATATATTATAATATTATTT--ATTAATA-A--TATTTATTAATATATTATATTAAT
1 TATTTATTAATATATT-TAAT-TAATTTAAATTAATATATTTATTTATTAAT-TATTA-ATAAAT
* * * *
69666 AGTATGCTATTTATT-AATAATATATT-ATTTATTAATATATTATTAATA-TATTTATTAATTAA
62 A-TAT-AT-TTTATTAAATAATATTTTAATATA-T-ATATATTAATAATATTATTTATTAA-T-A
* * *
69728 ATTAATAATATTTATTATATGT
120 A-T-ATATTATTTATTAAATGA
* * * *
69750 TA-TTATTAATATA-ATATACT-ATTT--ATTAATATATTATATTAATAGTATATTATTAGT-AA
1 TATTTATTAATATATTTA-ATTAATTTAAATTAATATATT-TATT--TATTA-ATTATTAATAAA
* *
69809 TAT-TA-TTTATT-AAT-ATATTATAATAT-TATTTATTAATAATATGCTATTTATTAATA
61 TATATATTTTATTAAATAATATTTTAATATATATATATTAATAATAT--TATTTATTAATA
69865 TATTATAATA
Statistics
Matches: 93, Mismatches: 10, Indels: 31
0.69 0.07 0.23
Matches are distributed among these distances:
136 12 0.13
137 2 0.02
138 6 0.06
139 22 0.24
140 11 0.12
141 4 0.04
142 2 0.02
143 12 0.13
144 10 0.11
145 1 0.01
146 9 0.10
147 2 0.02
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.54
Consensus pattern (139 bp):
TATTTATTAATATATTTAATTAATTTAAATTAATATATTTATTTATTAATTATTAATAAATATAT
ATTTTATTAAATAATATTTTAATATATATATATTAATAATATTATTTATTAATAATATATTATTT
ATTAAATGA
Found at i:69914 original size:23 final size:23
Alignment explanation
Indices: 69600--69915 Score: 164
Period size: 23 Copynumber: 14.0 Consensus size: 23
69590 TTATTATTCT
*
69600 TTATATTATTTATTAATA-TATTA
1 TTAT-TTATTTATTAATATTAATA
* *
69623 TAATATTATTTATTAATAAT-AT-
1 TTAT-TTATTTATTAATATTAATA
* *
69645 TTATTAATATATT-ATATTAATA
1 TTATTTATTTATTAATATTAATA
* * *
69667 GTATGCTATTTATTAATAAT-ATA
1 TTAT-TTATTTATTAATATTAATA
* *
69690 TTATTTATTAATATATTATTAATA
1 TTATTTATTTAT-TAATATTAATA
*
69714 -TATTTATTAATTAA-ATTAATA
1 TTATTTATTTATTAATATTAATA
* *
69735 ATATTTATTATATGTTATTATTAATA
1 TTATTTATT-TA--TTAATATTAATA
* *
69761 TAATATACTATTTATTAATATATTATA
1 T--TAT-TTATTTATTAATAT-TAATA
* * * *
69788 TTA-ATAGTATATTATTAGTAATA
1 TTATTTA-TTTATTAATATTAATA
*
69811 TTATTTA-TTAAT-ATATT-ATA
1 TTATTTATTTATTAATATTAATA
* * *
69831 ATA-TTATTTATTAATAAT-ATG
1 TTATTTATTTATTAATATTAATA
* *
69852 CTATTTA-TTAAT-ATATT-ATA
1 TTATTTATTTATTAATATTAATA
*
69872 ATA-TTATTTATTAATA-TAATA
1 TTATTTATTTATTAATATTAATA
69893 TTATTTATTTATTAATATTAATA
1 TTATTTATTTATTAATATTAATA
69916 AATTATTATA
Statistics
Matches: 223, Mismatches: 44, Indels: 52
0.70 0.14 0.16
Matches are distributed among these distances:
19 6 0.03
20 26 0.12
21 39 0.17
22 41 0.18
23 61 0.27
24 18 0.08
25 5 0.02
26 13 0.06
27 5 0.02
28 5 0.02
29 4 0.02
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (23 bp):
TTATTTATTTATTAATATTAATA
Found at i:69953 original size:23 final size:23
Alignment explanation
Indices: 69600--69953 Score: 127
Period size: 23 Copynumber: 15.2 Consensus size: 23
69590 TTATTATTCT
69600 TTATATTATTTATTAAT-ATATTA
1 TTAT-TTATTTATTAATAATATTA
*
69623 TAATATTATTTATTAATAATA-T-
1 TTAT-TTATTTATTAATAATATTA
* * * *
69645 TTATTAATATATT-ATATTAATA
1 TTATTTATTTATTAATAATATTA
* *
69667 GTATGCTATTTATTAATAATAT-A
1 TTAT-TTATTTATTAATAATATTA
* *
69690 TTATTTA-TTAAT-ATATTATTAA
1 TTATTTATTTATTAATAATATT-A
* *
69712 TATATTTATTAATTAAATTAATAATA
1 T-TATTTATTTATT-AA-TAATATTA
*
69738 TTTATTATATGTTATTATTAATA-TA
1 -TTATT-TAT-TTATTAATAATATTA
* *
69763 ATATACTATTTATTAAT-ATATTA
1 TTAT-TTATTTATTAATAATATTA
* * *
69786 -TA-TTA-ATAGT-ATATTATTA
1 TTATTTATTTATTAATAATATTA
*
69805 GTAATATTATTTATTAATATAT-TATA
1 -TTAT-TTATTTATTAATA-ATAT-TA
* *
69831 ATA-TTATTTATTAATAATAT-G
1 TTATTTATTTATTAATAATATTA
* * * *
69852 CTATTTA-TTAATATATTATAATA
1 TTATTTATTTATTA-ATAATATTA
*
69875 TTATTTA-TTAAT-ATAATATTA
1 TTATTTATTTATTAATAATATTA
69896 TTTATTTATTAATATTAATAAATTATTA
1 -TTATTTATT--TATTAAT-AA-TATTA
69924 TAATATTTATTTA-TAATAATATGTA
1 T--TATTTATTTATTAATAATAT-TA
69949 TTATT
1 TTATT
69954 ATAAATAAAA
Statistics
Matches: 247, Mismatches: 44, Indels: 80
0.67 0.12 0.22
Matches are distributed among these distances:
18 2 0.01
19 8 0.03
20 13 0.05
21 27 0.11
22 32 0.13
23 75 0.30
24 23 0.09
25 15 0.06
26 20 0.08
27 15 0.06
28 9 0.04
29 8 0.03
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (23 bp):
TTATTTATTTATTAATAATATTA
Found at i:69957 original size:18 final size:17
Alignment explanation
Indices: 69622--69957 Score: 91
Period size: 19 Copynumber: 19.1 Consensus size: 17
69612 TTAATATATT
69622 ATAATATTATTTATTAATA
1 ATAATATTA-TTATT-ATA
*
69641 ATATTTATTAATATATTATA
1 ATA-ATATT-AT-TATTATA
* *
69661 TTAATAGTATGCTATTTATTA
1 ATAATATTAT--TA-TTA-TA
69682 ATAATA-TATTATT-TA
1 ATAATATTATTATTATA
*
69697 TTAATA-TATTA-T-TA
1 ATAATATTATTATTATA
69711 AT-ATATTTATTAATTA-A
1 ATAATA-TTATT-ATTATA
* *
69728 ATTAATAATA-T-TTATT
1 A-TAATATTATTATTATA
*
69744 AT-ATGTTATTATTA-A
1 ATAATATTATTATTATA
*
69759 TATAATA-TACTATT-TA
1 -ATAATATTATTATTATA
*
69775 TTAATA-TATTA-TATTA
1 ATAATATTATTATTA-TA
*
69791 ATAGTA-TATTATTAGTA
1 ATAATATTATTATTA-TA
* *
69808 ATATTATTTATTAATATATT
1 ATAATA-TTATT-AT-TATA
69828 ATAATATTATTTATTAATA
1 ATAATATTA-TTATT-ATA
* *
69847 ATATGCTATTTATTAATATATT
1 ATA--ATA-TTATT-AT-TATA
69869 ATAATATTATTTATTA-A
1 ATAATATTA-TTATTATA
69886 TATAATATTATTTATT-TA
1 -ATAATATTA-TTATTATA
* * *
69904 TTAATATTAATAAATTATT
1 ATAATATT-AT-TATTATA
69923 ATAATA-T-TTATTTATA
1 ATAATATTATTA-TTATA
69939 ATAATATGTATTATTATA
1 ATAATAT-TATTATTATA
69957 A
1 A
69958 ATAAAATGCA
Statistics
Matches: 240, Mismatches: 34, Indels: 87
0.66 0.09 0.24
Matches are distributed among these distances:
13 3 0.01
14 9 0.04
15 31 0.13
16 36 0.15
17 25 0.10
18 38 0.16
19 39 0.16
20 30 0.12
21 18 0.08
22 10 0.04
23 1 0.00
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (17 bp):
ATAATATTATTATTATA
Found at i:69958 original size:41 final size:40
Alignment explanation
Indices: 69605--69959 Score: 173
Period size: 41 Copynumber: 8.7 Consensus size: 40
69595 ATTCTTTATA
* * *
69605 TTATTTATTAATATATTA-TAATATTATTTATTAATAATAT
1 TTATTTATTAATATATTATTATTATAAATTATT-ATAATAT
* * * * * *
69645 TTATTAATATATTATATTAATAGTATGCTATTTATTAATAATAT
1 TTATTTAT-TAATATATTATTATTAT--AAATTATT-ATAATAT
* *
69689 ATTATTTATTAATATATTATTAATAT-ATTTATTAATTAA-A-
1 -TTATTTATTAATATATTATTATTATAAATTATT-A-TAATAT
* * * * * *
69729 TTA-ATAAT-ATTTATTATATGTTAT-TATTAATATAATAT
1 TTATTTATTAATATATTAT-TATTATAAATTATTATAATAT
*
69767 ACTATTTATTAATATATTA-TATTAATAGTATATTATTAGTAATA-
1 -TTATTTATTAATATATTATTATT-ATA--A-ATTATTA-TAATAT
* * *
69811 TTATTTATTAATATATTA-TAATATTATTTATTAATAATAT
1 TTATTTATTAATATATTATTATTATAAATTATT-ATAATAT
* ** *
69851 GCTATTTATTAATATATTATAATATTATTTATTAATATAATA-
1 -TTATTTATTAATATATTAT--TATTATAAATTATTATAATAT
* *
69893 TTATTTATTTAT-TAATATTA--ATAAATTATTATAATAT
1 TTATTTATTAATATATTATTATTATAAATTATTATAATAT
69930 TTATTTA-TAATAATATGTATTATTATAAAT
1 TTATTTATTAAT-ATAT-TATTATTATAAAT
69960 AAAATGCATC
Statistics
Matches: 246, Mismatches: 39, Indels: 59
0.72 0.11 0.17
Matches are distributed among these distances:
36 19 0.08
37 17 0.07
38 15 0.06
39 23 0.09
40 19 0.08
41 59 0.24
42 10 0.04
43 26 0.11
44 46 0.19
45 12 0.05
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (40 bp):
TTATTTATTAATATATTATTATTATAAATTATTATAATAT
Found at i:69960 original size:16 final size:15
Alignment explanation
Indices: 69917--69957 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
69907 ATATTAATAA
*
69917 ATTATTATAATATTT
1 ATTATTATAATATGT
*
69932 ATTTATAATAATATGT
1 A-TTATTATAATATGT
69948 ATTATTATAA
1 ATTATTATAA
69958 ATAAAATGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTATTATAATATGT
Found at i:73625 original size:20 final size:20
Alignment explanation
Indices: 73588--73625 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
73578 ATATTAAGAA
*
73588 AATAAAAAAATAATAAATGG
1 AATAAAAAAATAAGAAATGG
73608 AATAAACAAAAT-AGAAAT
1 AATAAA-AAAATAAGAAAT
73626 AAATATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.71, C:0.03, G:0.08, T:0.18
Consensus pattern (20 bp):
AATAAAAAAATAAGAAATGG
Found at i:74231 original size:13 final size:13
Alignment explanation
Indices: 74213--74240 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
74203 GAGTAATTTT
74213 TAAAAAAATAAAA
1 TAAAAAAATAAAA
74226 TAAAAAAATAAAA
1 TAAAAAAATAAAA
74239 TA
1 TA
74241 TTTTGTTCTA
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:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (13 bp):
TAAAAAAATAAAA
Found at i:79593 original size:8 final size:8
Alignment explanation
Indices: 79548--79595 Score: 53
Period size: 8 Copynumber: 6.0 Consensus size: 8
79538 CAAATCTTAT
*
79548 ATATATAT
1 ATATATAA
*
79556 ATATATAT
1 ATATATAA
*
79564 ATATATAT
1 ATATATAA
79572 ATATATAA
1 ATATATAA
79580 CA-ATATAA
1 -ATATATAA
79588 ATATATAA
1 ATATATAA
79596 GTTTGCTACA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
7 1 0.03
8 35 0.95
9 1 0.03
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (8 bp):
ATATATAA
Found at i:79594 original size:2 final size:2
Alignment explanation
Indices: 79545--79578 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
79535 TATCAAATCT
79545 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
79579 ACAATATAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:80407 original size:16 final size:15
Alignment explanation
Indices: 80386--80421 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
80376 TGGAAAATAA
*
80386 TTTTTTTTCAATTTAT
1 TTTTTTTTC-ATATAT
80402 TTTTTTTTCATATAT
1 TTTTTTTTCATATAT
80417 TTTTT
1 TTTTT
80422 AACATTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTTTTTCATATAT
Found at i:81271 original size:2 final size:2
Alignment explanation
Indices: 81264--81288 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
81254 CCTTTTGGTT
81264 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
81289 TGTTTAAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:83217 original size:23 final size:22
Alignment explanation
Indices: 83175--83238 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 22
83165 ATAGTATCTC
*
83175 TTTTTTTTTTTATTAGATTT-TT
1 TTTTTTTTTTTTTTA-ATTTGTT
83197 TTTTATTTTTGTTTTTAATTTGTT
1 TTTT-TTTTT-TTTTTAATTTGTT
83221 TTTTTTTTCTTTTTTAAT
1 TTTTTTTT-TTTTTTAAT
83239 ATCCATTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
22 4 0.11
23 21 0.57
24 12 0.32
ACGTcount: A:0.12, C:0.02, G:0.05, T:0.81
Consensus pattern (22 bp):
TTTTTTTTTTTTTTAATTTGTT
Found at i:83223 original size:28 final size:27
Alignment explanation
Indices: 83175--83235 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 27
83165 ATAGTATCTC
*
83175 TTTTTTTTTTTATTAGATTTTTTTTTA
1 TTTTTTTTTTAATTAGATTTTTTTTTA
* * *
83202 TTTTTGTTTTTAATTTGTTTTTTTTTTC
1 TTTTT-TTTTTAATTAGATTTTTTTTTA
83230 TTTTTT
1 TTTTTT
83236 AATATCCATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 6 0.21
28 23 0.79
ACGTcount: A:0.10, C:0.02, G:0.05, T:0.84
Consensus pattern (27 bp):
TTTTTTTTTTAATTAGATTTTTTTTTA
Found at i:83226 original size:15 final size:14
Alignment explanation
Indices: 83177--83227 Score: 59
Period size: 15 Copynumber: 3.6 Consensus size: 14
83167 AGTATCTCTT
*
83177 TTTTTTTTTATTAG
1 TTTTTTTTTATTTG
83191 ATTTTTTTTTATTT-
1 -TTTTTTTTTATTTG
* *
83205 TTGTTTTTAATTTG
1 TTTTTTTTTATTTG
83219 TTTTTTTTT
1 TTTTTTTTT
83228 TCTTTTTTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
13 11 0.37
14 7 0.23
15 12 0.40
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.82
Consensus pattern (14 bp):
TTTTTTTTTATTTG
Found at i:83936 original size:29 final size:28
Alignment explanation
Indices: 83898--83954 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 28
83888 CATTTATTTT
*
83898 GTTTTTATTTTTAT-TTTTATTTTTTTAA
1 GTTTTTATTTTT-TGTTTCATTTTTTTAA
83926 GTTTTTAATTTTTTGTTTCATTTTTTTAA
1 GTTTTT-ATTTTTTGTTTCATTTTTTTAA
83955 AATTTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 7 0.27
29 19 0.73
ACGTcount: A:0.18, C:0.02, G:0.05, T:0.75
Consensus pattern (28 bp):
GTTTTTATTTTTTGTTTCATTTTTTTAA
Found at i:84562 original size:21 final size:21
Alignment explanation
Indices: 84538--84580 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
84528 ATTTATATTT
* *
84538 ATATATGTATTATTTTAATAA
1 ATATATATATTAATTTAATAA
*
84559 ATATATATCTTAATTTAATAA
1 ATATATATATTAATTTAATAA
84580 A
1 A
84581 AAAATTTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (21 bp):
ATATATATATTAATTTAATAA
Found at i:85186 original size:23 final size:20
Alignment explanation
Indices: 85155--85200 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 20
85145 TTTTAATATT
85155 AAAAAAATTATAAAAATTATAA
1 AAAAAAATT-TAAAAA-TATAA
*
85177 AAAAATAATTTTAAAATATAA
1 AAAAA-AATTTAAAAATATAA
85198 AAA
1 AAA
85201 GTAAGAGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 8 0.36
22 10 0.45
23 4 0.18
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (20 bp):
AAAAAAATTTAAAAATATAA
Found at i:89482 original size:2 final size:2
Alignment explanation
Indices: 89475--89516 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
89465 GATTGTATAT
89475 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
89517 GTGTGTGTGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:89522 original size:2 final size:2
Alignment explanation
Indices: 89517--89546 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
89507 TCTCTCTCTC
89517 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
89547 TACTGAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:92790 original size:22 final size:23
Alignment explanation
Indices: 92746--92793 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
92736 AATTTGAAGG
*
92746 AAAATTTTTCATTAGACATCCCC
1 AAAATTTTTCAATAGACATCCCC
*
92769 AAAATTTTTCAATGGACA-CCCC
1 AAAATTTTTCAATAGACATCCCC
92791 AAA
1 AAA
92794 GACTAGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.40, C:0.25, G:0.06, T:0.29
Consensus pattern (23 bp):
AAAATTTTTCAATAGACATCCCC
Found at i:92960 original size:2 final size:2
Alignment explanation
Indices: 92953--92988 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
92943 TGTCACTAAT
92953 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
92989 AACTAACAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:94006 original size:4 final size:4
Alignment explanation
Indices: 93999--94083 Score: 53
Period size: 4 Copynumber: 20.5 Consensus size: 4
93989 CTGTGCTTGC
* * * * * *
93999 ATGT ATGT ATGC ATGC ATGT CTGT ATGAT ATGT ATGC ATTT ATGTCT ATCT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATG-T ATGT ATGT ATGT ATG--T ATGT
* * * *
94050 ATGT ATGT GTGT ATGA ATGC ATAT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
94084 ATCCTACTTA
Statistics
Matches: 61, Mismatches: 17, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
4 54 0.89
5 4 0.07
6 3 0.05
ACGTcount: A:0.26, C:0.08, G:0.21, T:0.45
Consensus pattern (4 bp):
ATGT
Found at i:95061 original size:42 final size:41
Alignment explanation
Indices: 94968--95116 Score: 169
Period size: 41 Copynumber: 3.6 Consensus size: 41
94958 AATTTTGTGA
* * * *
94968 CAGTGAAA-ATTTCTCTGTTGACTCGACCAACAG-AAAAAAG
1 CAGTGAAAGATTTTTC-GTTGAATCAAGCAACAGAAAAAAAG
*
95008 ACAGTGAAAGATTTTTCTTTGAATCAAGCAACAGAAAAAGAAG
1 -CAGTGAAAGATTTTTCGTTGAATCAAGCAACAGAAAAA-AAG
* *
95051 CAGTGAAAGATTCTTT-GTTGAATCAAGCAAAAAAAAAAAAG
1 CAGTGAAAGATT-TTTCGTTGAATCAAGCAACAGAAAAAAAG
*
95092 CAGTGAAAGATTCTTCGTTGAATCA
1 CAGTGAAAGATTTTTCGTTGAATCA
95117 TGCTATCAAA
Statistics
Matches: 94, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
40 2 0.02
41 45 0.48
42 41 0.44
43 6 0.06
ACGTcount: A:0.44, C:0.14, G:0.18, T:0.24
Consensus pattern (41 bp):
CAGTGAAAGATTTTTCGTTGAATCAAGCAACAGAAAAAAAG
Found at i:96777 original size:104 final size:104
Alignment explanation
Indices: 96597--96798 Score: 368
Period size: 104 Copynumber: 1.9 Consensus size: 104
96587 AAAAAAATTA
* *
96597 TTTTTAAGAAAAGACTATCATATCCATATTTTTATTTAACATTGCTTAAAAAAGCCATGTCTCTT
1 TTTTTAAGAAAAGACTATAATATCCATATTTTTATTTAACATTACTTAAAAAAGCCATGTCTCTT
*
96662 TTCTCGACTCACTCCTCTTCTGTCAACTCTCCTAATTTT
66 TTCTCAACTCACTCCTCTTCTGTCAACTCTCCTAATTTT
*
96701 TTTTTAAGAAAGGACTATAATATCCATATTTTTATTTAACATTACTTAAAAAAGCCATGTCTCTT
1 TTTTTAAGAAAAGACTATAATATCCATATTTTTATTTAACATTACTTAAAAAAGCCATGTCTCTT
96766 TTCTCAACTCACTCCTCTTCTGTCAACTCTCCT
66 TTCTCAACTCACTCCTCTTCTGTCAACTCTCCT
96799 CCCTAGGTAC
Statistics
Matches: 94, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
104 94 1.00
ACGTcount: A:0.29, C:0.23, G:0.06, T:0.42
Consensus pattern (104 bp):
TTTTTAAGAAAAGACTATAATATCCATATTTTTATTTAACATTACTTAAAAAAGCCATGTCTCTT
TTCTCAACTCACTCCTCTTCTGTCAACTCTCCTAATTTT
Found at i:97083 original size:15 final size:15
Alignment explanation
Indices: 97065--97102 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
97055 CTTAAAAAAA
* *
97065 CTTTCTTTTTCTTTC
1 CTTTCCTTTACTTTC
97080 CTTTCCTTTACTTTC
1 CTTTCCTTTACTTTC
97095 CTTTCCTT
1 CTTTCCTT
97103 ATTAATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.03, C:0.32, G:0.00, T:0.66
Consensus pattern (15 bp):
CTTTCCTTTACTTTC
Found at i:100038 original size:17 final size:18
Alignment explanation
Indices: 100010--100061 Score: 63
Period size: 17 Copynumber: 2.9 Consensus size: 18
100000 TATTAATCCA
100010 ATTTAATAATATTTTTA-T
1 ATTT-ATAATATTTTTATT
*
100028 ATTTTTAATA-TTTTATT
1 ATTTATAATATTTTTATT
100045 ATTTATATATATTTTTA
1 ATTTATA-ATATTTTTA
100062 AACATTTCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
16 5 0.17
17 12 0.41
18 7 0.24
19 5 0.17
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
ATTTATAATATTTTTATT
Found at i:100040 original size:27 final size:27
Alignment explanation
Indices: 100016--100088 Score: 71
Period size: 28 Copynumber: 2.7 Consensus size: 27
100006 TCCAATTTAA
100016 TAATATTT-T-TATATTTTTAATATTT
1 TAATATTTATATATATTTTTAATATTT
* *
100041 TATTATTTATATATATTTTTAAACATTT
1 TAATATTTATATATATTTTT-AATATTT
* *
100069 CAATGATTCATAT-TATTTTT
1 TAAT-ATTTATATATATTTTT
100089 TTTATCATAA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
25 7 0.18
26 1 0.03
27 9 0.23
28 15 0.38
29 7 0.18
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (27 bp):
TAATATTTATATATATTTTTAATATTT
Found at i:100408 original size:11 final size:11
Alignment explanation
Indices: 100392--100424 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
100382 TATTTTTATG
100392 TATATGTAAAT
1 TATATGTAAAT
100403 TATATGTAAAT
1 TATATGTAAAT
*
100414 TATATATAAAT
1 TATATGTAAAT
100425 AATTCACATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (11 bp):
TATATGTAAAT
Found at i:101285 original size:15 final size:13
Alignment explanation
Indices: 101245--101287 Score: 52
Period size: 12 Copynumber: 3.2 Consensus size: 13
101235 ATTTAAATAC
*
101245 AAATTTTT-TTCA
1 AAATTTTTATTAA
101257 AAATTTTTATTAA
1 AAATTTTTATTAA
101270 AAATATTTTATATAA
1 AAAT-TTTTAT-TAA
101285 AAA
1 AAA
101288 ATATATCAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 8 0.30
13 7 0.26
14 6 0.22
15 6 0.22
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (13 bp):
AAATTTTTATTAA
Found at i:101386 original size:14 final size:14
Alignment explanation
Indices: 101347--101386 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
101337 TACCATAAGA
**
101347 ATTTTTAATTTATT
1 ATTTTTAATAAATT
*
101361 ATTTTTATTAAATT
1 ATTTTTAATAAATT
101375 ATTTTTAATAAA
1 ATTTTTAATAAA
101387 AAAGTTCATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
ATTTTTAATAAATT
Found at i:103368 original size:3 final size:3
Alignment explanation
Indices: 103360--103393 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
103350 ATTCTTGTAC
103360 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
103394 CCTTGTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:103484 original size:22 final size:22
Alignment explanation
Indices: 103449--103492 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
103439 CATCTTTTTG
* * *
103449 TTTTTTTTCCTCCTTTCCTTGA
1 TTTTTCTTCATCCTTTCATTGA
103471 TTTTTCTTCATCCTTTCATTGA
1 TTTTTCTTCATCCTTTCATTGA
103493 AGTCTTTAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.09, C:0.25, G:0.05, T:0.61
Consensus pattern (22 bp):
TTTTTCTTCATCCTTTCATTGA
Found at i:104451 original size:23 final size:23
Alignment explanation
Indices: 104425--104469 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
104415 CATTTTTAGT
104425 ATTTTCTT-CATAATTTTTTTTTC
1 ATTTT-TTGCATAATTTTTTTTTC
*
104448 ATTTTTTGCTTAATTTTTTTTT
1 ATTTTTTGCATAATTTTTTTTT
104470 ATATATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.16, C:0.09, G:0.02, T:0.73
Consensus pattern (23 bp):
ATTTTTTGCATAATTTTTTTTTC
Found at i:104484 original size:17 final size:19
Alignment explanation
Indices: 104460--104503 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
104450 TTTTTGCTTA
*
104460 ATTTTTTTTTATATATTTT
1 ATTTTTTATTATATATTTT
104479 -TATTTTTATTATATATTTT
1 AT-TTTTTATTATATATTTT
104498 ATTTTT
1 ATTTTT
104504 GTGTGAACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 1 0.05
19 20 0.91
20 1 0.05
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (19 bp):
ATTTTTTATTATATATTTT
Found at i:104484 original size:19 final size:18
Alignment explanation
Indices: 104460--104503 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
104450 TTTTTGCTTA
104460 ATTTT-TTTTTA-TATAT
1 ATTTTATTTTTATTATAT
104476 -TTTTATTTTTATTATAT
1 ATTTTATTTTTATTATAT
104493 ATTTTATTTTT
1 ATTTTATTTTT
104504 GTGTGAACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 4 0.16
16 6 0.24
17 5 0.20
18 10 0.40
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (18 bp):
ATTTTATTTTTATTATAT
Found at i:105650 original size:23 final size:23
Alignment explanation
Indices: 105624--105680 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
105614 GGTTGTCAGT
* **
105624 ATTTTAATTTTTTTTGTTTATTG
1 ATTTTAATTTCTTTAATTTATTG
105647 ATTTTAATTTCTTTAATTTATTG
1 ATTTTAATTTCTTTAATTTATTG
105670 ATTTTAATTTC
1 ATTTTAATTTC
105681 AACATTTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.23, C:0.04, G:0.05, T:0.68
Consensus pattern (23 bp):
ATTTTAATTTCTTTAATTTATTG
Found at i:116669 original size:33 final size:33
Alignment explanation
Indices: 116584--116990 Score: 263
Period size: 33 Copynumber: 12.3 Consensus size: 33
116574 AAAATTCACC
* * *
116584 ACCTCTAGTTAAAAGAATCTTTCACATACCATTG
1 ACCTCTAGTTAAAGGAATCTTTCAAATATCA-TG
* * *
116618 -CCT-TGGGTTAGAA-AAATCTTTTAAATATCATG
1 ACCTCT-AGTTA-AAGGAATCTTTCAAATATCATG
* *
116650 ACCTCTAGTTAAAGGAATCTTTCATATACCATG
1 ACCTCTAGTTAAAGGAATCTTTCAAATATCATG
* * * *
116683 ACATCTAGTTAAAGGAATATTTCAAATACCATT
1 ACCTCTAGTTAAAGGAATCTTTCAAATATCATG
* * *
116716 ACTTCTAGTTAGAGAAATCTTTCAAATAGT-ATTG
1 ACCTCTAGTTAAAGGAATCTTTCAAATA-TCA-TG
* * * * *
116750 -TCACTAGTTAGAGAAATCTTTCAAATATCATA
1 ACCTCTAGTTAAAGGAATCTTTCAAATATCATG
* * * *
116782 ACCCCTGGTTAAAGGAATCTTTCAAATCTCATC
1 ACCTCTAGTTAAAGGAATCTTTCAAATATCATG
* * * *
116815 ACCTCTGGTTAGAGGAATGC-TTCAAAAATCATC
1 ACCTCTAGTTAAAGGAAT-CTTTCAAATATCATG
* * *
116848 ACTTCTAGTTAGAA-GAATCTTTCAAATCTCATT
1 ACCTCTAGTTA-AAGGAATCTTTCAAATATCATG
* * *
116881 ACCTCTAGTTAGAGGAATCTTTCAAACATCATT
1 ACCTCTAGTTAAAGGAATCTTTCAAATATCATG
* * * * *
116914 ACCTTTGGTTAAAGAAAAT-TTTCAAATCTCATT
1 ACCTCTAGTTAAAG-GAATCTTTCAAATATCATG
* * * * * * *
116947 ATCTTTATTTAAAAGAGTTTTTCAAATATCATT
1 ACCTCTAGTTAAAGGAATCTTTCAAATATCATG
*
116980 ACCTCTGGTTA
1 ACCTCTAGTTA
116991 GAAGAGTTTT
Statistics
Matches: 296, Mismatches: 62, Indels: 31
0.76 0.16 0.08
Matches are distributed among these distances:
32 11 0.04
33 276 0.93
34 9 0.03
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.36
Consensus pattern (33 bp):
ACCTCTAGTTAAAGGAATCTTTCAAATATCATG
Found at i:116710 original size:66 final size:66
Alignment explanation
Indices: 116584--116990 Score: 292
Period size: 66 Copynumber: 6.2 Consensus size: 66
116574 AAAATTCACC
* * * ** *
116584 ACCTCTAGTTAAAAGAATCTTTCACATACCATTG-CCT-TGGGTTAGAAAAATCTTTTAAATATC
1 ACCTCTAGTTAAAGGAATCTTTCAAATACCA-TGACCTCT-AGTTAGAGGAATCTTTCAAATATC
*
116647 ATG
64 ATT
* * * * *
116650 ACCTCTAGTTAAAGGAATCTTTCATATACCATGACATCTAGTTAAAGGAATATTTCAAATACCAT
1 ACCTCTAGTTAAAGGAATCTTTCAAATACCATGACCTCTAGTTAGAGGAATCTTTCAAATATCAT
116715 T
66 T
* * * ** * * *
116716 ACTTCTAGTTAGAGAAATCTTTCAAATAGTATTG-TCACTAGTTAGAGAAATCTTTCAAATATCA
1 ACCTCTAGTTAAAGGAATCTTTCAAATACCA-TGACCTCTAGTTAGAGGAATCTTTCAAATATCA
*
116780 TA
65 TT
* * * * *
116782 ACCCCTGGTTAAAGGAATCTTTCAAAT-CTCATCACCTCTGGTTAGAGGAATGC-TTCAAAAATC
1 ACCTCTAGTTAAAGGAATCTTTCAAATAC-CATGACCTCTAGTTAGAGGAAT-CTTTCAAATATC
*
116845 ATC
64 ATT
* * *
116848 ACTTCTAGTTAGAA-GAATCTTTCAAAT-CTCATTACCTCTAGTTAGAGGAATCTTTCAAACATC
1 ACCTCTAGTTA-AAGGAATCTTTCAAATAC-CATGACCTCTAGTTAGAGGAATCTTTCAAATATC
116911 ATT
64 ATT
* * * * * * * * * * *
116914 ACCTTTGGTTAAAGAAAAT-TTTCAAAT-CTCATTATCTTTATTTAAAAGAGTTTTTCAAATATC
1 ACCTCTAGTTAAAG-GAATCTTTCAAATAC-CATGACCTCTAGTTAGAGGAATCTTTCAAATATC
116977 ATT
64 ATT
*
116980 ACCTCTGGTTA
1 ACCTCTAGTTA
116991 GAAGAGTTTT
Statistics
Matches: 272, Mismatches: 59, Indels: 20
0.77 0.17 0.06
Matches are distributed among these distances:
65 6 0.02
66 257 0.94
67 9 0.03
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.36
Consensus pattern (66 bp):
ACCTCTAGTTAAAGGAATCTTTCAAATACCATGACCTCTAGTTAGAGGAATCTTTCAAATATCAT
T
Found at i:116727 original size:99 final size:99
Alignment explanation
Indices: 116584--116990 Score: 310
Period size: 99 Copynumber: 4.1 Consensus size: 99
116574 AAAATTCACC
* * * * * *
116584 ACCTCTAGTTAAAAGAATCTTTCACATACCATTGCCTT-GGGTTAGAAAAATCTTTTAAATATCA
1 ACCTCTAGTTAAAGGAATCTTTCAAATACCATT-ACTTCTGGTTAGAGAAATCTTTCAAATATCA
* *
116648 TGACCTCTAGTTAAAGGAATCTTTCATATACCATG
65 TGACCTCTAGTTAAAGGAATCTTTCAAATACCATA
* * *
116683 ACATCTAGTTAAAGGAATATTTCAAATACCATTACTTCTAGTTAGAGAAATCTTTCAAATAGT-A
1 ACCTCTAGTTAAAGGAATCTTTCAAATACCATTACTTCTGGTTAGAGAAATCTTTCAAATA-TCA
* * * * *
116747 TTG-TCACTAGTTAGAGAAATCTTTCAAATATCATA
65 -TGACCTCTAGTTAAAGGAATCTTTCAAATACCATA
* * * * * *
116782 ACCCCTGGTTAAAGGAATCTTTCAAAT-CTCATCACCTCTGGTTAGAGGAATGC-TTCAAAAATC
1 ACCTCTAGTTAAAGGAATCTTTCAAATAC-CATTACTTCTGGTTAGAGAAAT-CTTTCAAATATC
* * *
116845 ATCACTTCTAGTTAGAA-GAATCTTTCAAAT-CTCATT
64 ATGACCTCTAGTTA-AAGGAATCTTTCAAATAC-CATA
* * * * *
116881 ACCTCTAGTTAGAGGAATCTTTCAAACATCATTACCTT-TGGTTAAAGAAAAT-TTTCAAATCTC
1 ACCTCTAGTTAAAGGAATCTTTCAAATACCATTA-CTTCTGGTTAGAG-AAATCTTTCAAATATC
* * * * * * * * *
116944 ATTATCTTTATTTAAAAGAGTTTTTCAAATATCATT
64 ATGACCTCTAGTTAAAGGAATCTTTCAAATACCATA
*
116980 ACCTCTGGTTA
1 ACCTCTAGTTA
116991 GAAGAGTTTT
Statistics
Matches: 240, Mismatches: 53, Indels: 30
0.74 0.16 0.09
Matches are distributed among these distances:
98 8 0.03
99 222 0.93
100 10 0.04
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.36
Consensus pattern (99 bp):
ACCTCTAGTTAAAGGAATCTTTCAAATACCATTACTTCTGGTTAGAGAAATCTTTCAAATATCAT
GACCTCTAGTTAAAGGAATCTTTCAAATACCATA
Found at i:116996 original size:33 final size:33
Alignment explanation
Indices: 116584--117088 Score: 260
Period size: 33 Copynumber: 15.3 Consensus size: 33
116574 AAAATTCACC
* * * * *
116584 ACCTCTAGTTAAAAGAATCTTTCACATACCATT
1 ACCTCTGGTTAGAAGAATTTTTCAAATATCATT
* * *
116617 GCCT-TGGGTTAGAAAAATCTTTT-AAATATCATG
1 ACCTCT-GGTTAGAAGAAT-TTTTCAAATATCATT
* * * * *
116650 ACCTCTAGTTA-AAGGAATCTTTCATATACCATG
1 ACCTCTGGTTAGAA-GAATTTTTCAAATATCATT
* * * *
116683 ACATCTAGTTA-AAGGAATATTTCAAATACCATT
1 ACCTCTGGTTAGAA-GAATTTTTCAAATATCATT
* * *
116716 ACTTCTAGTTAG-AGAAATCTTTCAAATAGT-ATT
1 ACCTCTGGTTAGAAG-AATTTTTCAAATA-TCATT
** * * * *
116749 GTCACTAGTTAG-AGAAATCTTTCAAATATCATA
1 ACCTCTGGTTAGAAG-AATTTTTCAAATATCATT
* * * *
116782 ACCCCTGGTTA-AAGGAATCTTTCAAATCTCATC
1 ACCTCTGGTTAGAA-GAATTTTTCAAATATCATT
* ** * *
116815 ACCTCTGGTTAGAGGAATGCTTCAAAAATCATC
1 ACCTCTGGTTAGAAGAATTTTTCAAATATCATT
* * * *
116848 ACTTCTAGTTAGAAGAATCTTTCAAATCTCATT
1 ACCTCTGGTTAGAAGAATTTTTCAAATATCATT
* * * *
116881 ACCTCTAGTTAGAGGAATCTTTCAAACATCATT
1 ACCTCTGGTTAGAAGAATTTTTCAAATATCATT
* * *
116914 ACCTTTGGTTA-AAGAAAATTTTCAAATCTCATT
1 ACCTCTGGTTAGAAG-AATTTTTCAAATATCATT
* * ** * *
116947 ATCTTTATTTAAAAGAGTTTTTCAAATATCATT
1 ACCTCTGGTTAGAAGAATTTTTCAAATATCATT
* *
116980 ACCTCTGGTTAGAAGAGTTTTTTCAAGTATCATT
1 ACCTCTGGTTAGAAGA-ATTTTTCAAATATCATT
* * * * * *
117014 GCCTTTGGTTAGAGGAGTTTTT-AAAGCATCATA
1 ACCTCTGGTTAGAAGAATTTTTCAAA-TATCATT
*
117047 ACCTTTGGTTAG-AGAAGTTTTTCAAATATCA-T
1 ACCTCTGGTTAGAAGAA-TTTTTCAAATATCATT
117079 ACCCTCTGGT
1 A-CCTCTGGT
117089 AAAAGGAGTT
Statistics
Matches: 370, Mismatches: 83, Indels: 38
0.75 0.17 0.08
Matches are distributed among these distances:
32 15 0.04
33 315 0.85
34 40 0.11
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.36
Consensus pattern (33 bp):
ACCTCTGGTTAGAAGAATTTTTCAAATATCATT
Found at i:117069 original size:133 final size:132
Alignment explanation
Indices: 116573--117078 Score: 315
Period size: 132 Copynumber: 3.8 Consensus size: 132
116563 AACCTTTAAA
* * * * * * **
116573 AAAAATTCACCACCTCTAGTTAAAAGAATCTTTCACATACCATTGCCT-TGGGTTAGAAAAATCT
1 AAAAA-TCATCACCTCTAGTTAGAAGAATCTTTCAAATATCATTACCTCT-AGTTAGAGGAATCT
* * * * * * * * * * * * *
116637 TTTAAATATCATGACCTCTAGTTAAAG-GAATCTTTCATATACCATGA-CATCTAGTTAAAGGAA
64 TTCAAACATCATAACCTTTGGTTAAAGAAAAT-TTTCAAATATCATTATC-TTTATTTAAAAGAG
*
116700 TATTTC
127 TTTTTC
* * * * ** * *
116706 AAATACCATTACTTCTAGTTAG-AGAAATCTTTCAAATAGT-ATTGTCACTAGTTAGAGAAATCT
1 AAAAATCATCACCTCTAGTTAGAAG-AATCTTTCAAATA-TCATTACCTCTAGTTAGAGGAATCT
* ** * * * * * ** * * *
116769 TTCAAATATCATAACCCCTGGTTAAAG-GAATCTTTCAAATCTCATCACCTCTGGTTAGAGGAAT
64 TTCAAACATCATAACCTTTGGTTAAAGAAAAT-TTTCAAATATCATTATCTTTATTTAAAAGAGT
**
116833 GCTTC
128 TTTTC
* *
116838 AAAAATCATCACTTCTAGTTAGAAGAATCTTTCAAATCTCATTACCTCTAGTTAGAGGAATCTTT
1 AAAAATCATCACCTCTAGTTAGAAGAATCTTTCAAATATCATTACCTCTAGTTAGAGGAATCTTT
* *
116903 CAAACATCATTACCTTTGGTTAAAGAAAATTTTCAAATCTCATTATCTTTATTTAAAAGAGTTTT
66 CAAACATCATAACCTTTGGTTAAAGAAAATTTTCAAATATCATTATCTTTATTTAAAAGAGTTTT
116968 TC
131 TC
* * * * * * * * * *
116970 AAATATCATTACCTCTGGTTAGAAGAGTTTTTTCAAGTATCATTGCCTTTGGTTAGAGGAGT-TT
1 AAAAATCATCACCTCTAGTTAGAAGA-ATCTTTCAAATATCATTACCTCTAGTTAGAGGAATCTT
* * **
117034 TTAAAGCATCATAACCTTTGGTTAGAGAAGTTTTTCAAATATCAT
65 TCAAA-CATCATAACCTTTGGTTAAAGAAAATTTTCAAATATCAT
117079 ACCCTCTGGT
Statistics
Matches: 299, Mismatches: 65, Indels: 18
0.78 0.17 0.05
Matches are distributed among these distances:
131 3 0.01
132 224 0.75
133 72 0.24
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (132 bp):
AAAAATCATCACCTCTAGTTAGAAGAATCTTTCAAATATCATTACCTCTAGTTAGAGGAATCTTT
CAAACATCATAACCTTTGGTTAAAGAAAATTTTCAAATATCATTATCTTTATTTAAAAGAGTTTT
TC
Found at i:117102 original size:67 final size:67
Alignment explanation
Indices: 116956--117105 Score: 164
Period size: 66 Copynumber: 2.3 Consensus size: 67
116946 TATCTTTATT
* * * * ** *
116956 TAAAA-GAGTTTTTCAAATATCATTACCTCTGGTTAGAAGAGTTTTTTCAAGTATCATTGCCTTT
1 TAAAAGGAGTTTTTTAAACATCATAACCTCTGGTTAGAAGAGTTTTTTCAAATATCATACCCTCT
117020 GG
66 GG
* * *
117022 TTAGAGGAG-TTTTTAAAGCATCATAACCTTTGGTTAG-AGAAG-TTTTTCAAATATCATACCCT
1 TAAAAGGAGTTTTTTAAA-CATCATAACCTCTGGTTAGAAG-AGTTTTTTCAAATATCATACCCT
117084 CTGG
64 CTGG
117088 TAAAAGGAGTTTTTTAAA
1 TAAAAGGAGTTTTTTAAA
117106 ATCTAAGAAC
Statistics
Matches: 68, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
66 39 0.57
67 29 0.43
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.39
Consensus pattern (67 bp):
TAAAAGGAGTTTTTTAAACATCATAACCTCTGGTTAGAAGAGTTTTTTCAAATATCATACCCTCT
GG
Found at i:117321 original size:34 final size:33
Alignment explanation
Indices: 117198--117355 Score: 133
Period size: 33 Copynumber: 4.8 Consensus size: 33
117188 AATTTTAGTC
* * *
117198 TTTTAAA-TGCCATAGCCTCTGGTTAAAAAAGT
1 TTTTAAAGTGCCATAACCTCTAGTTAAAGAAGT
* * *
117230 TTTTAAAGTGTCATAACCTTTGGTTAAAGAAGT
1 TTTTAAAGTGCCATAACCTCTAGTTAAAGAAGT
** * *
117263 TTTTAAAGCACCATAACC-CTTAGTTAGATGAATT
1 TTTTAAAGTGCCATAACCTC-TAGTTA-AAGAAGT
* *
117297 TTTTAAAGTGTCATAGCCTCTAGTTAGAAG-AGT
1 TTTTAAAGTGCCATAACCTCTAGTTA-AAGAAGT
* * *
117330 TTTTAAAGTCCCAAAACCTCTTGTTA
1 TTTTAAAGTGCCATAACCTCTAGTTA
117356 GAGGAGTTGT
Statistics
Matches: 100, Mismatches: 22, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
32 7 0.07
33 64 0.64
34 28 0.28
35 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (33 bp):
TTTTAAAGTGCCATAACCTCTAGTTAAAGAAGT
Found at i:117356 original size:67 final size:67
Alignment explanation
Indices: 117229--117357 Score: 174
Period size: 67 Copynumber: 1.9 Consensus size: 67
117219 GTTAAAAAAG
* * *
117229 TTTTTAAAGTGTCATAACCTTTGGTTAAAGAAGTTTTTAAAGCACCATAACCCTTAGTTAGATGA
1 TTTTTAAAGTGTCATAACCTCTAGTTAAAGAAGTTTTTAAAGCACCAAAACCCTTAGTTAGATGA
117294 AT
66 AT
*
117296 TTTTTAAAGTGTCATAGCCTCTAGTTAGAAG-AGTTTTTAAAGTC-CCAAAACCTCTT-GTTAGA
1 TTTTTAAAGTGTCATAACCTCTAGTTA-AAGAAGTTTTTAAAG-CACCAAAACC-CTTAGTTAGA
117358 GGAGTTGTAA
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
67 48 0.87
68 7 0.13
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.37
Consensus pattern (67 bp):
TTTTTAAAGTGTCATAACCTCTAGTTAAAGAAGTTTTTAAAGCACCAAAACCCTTAGTTAGATGA
AT
Found at i:117953 original size:26 final size:26
Alignment explanation
Indices: 117924--117978 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
117914 TGGGTTATTC
*
117924 TTATACTATTTAAATTTTATTTTTCA
1 TTATACTATTTAAATTTTAATTTTCA
** * *
117950 TTATTTTATTTTATTTTTAATTTTCA
1 TTATACTATTTAAATTTTAATTTTCA
117976 TTA
1 TTA
117979 CTATTATTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.67
Consensus pattern (26 bp):
TTATACTATTTAAATTTTAATTTTCA
Found at i:119399 original size:127 final size:129
Alignment explanation
Indices: 119283--119547 Score: 292
Period size: 127 Copynumber: 2.1 Consensus size: 129
119273 AAAGGTTGAG
**
119283 GAAAAAGTTGAAATATCAATTTTTTCTTAAAATAAAATTTTGGAA-AT-TTTAGAAAAAAGTTAA
1 GAAAAAGTTGAAATATCAATTTTTTCTTAAAATAAAA-TTTCAAAGATATTTAGAAAAAAGTTAA
119346 AATAT-ACATTTTTCCT-AATT-TGTTAAGAATAAAAATAAAATGAGATAAATAAAAATAAATTA
65 AATATCA-ATTTTTCCTAAATTCT-TTAAGAATAAAAATAAAATGAGATAAATAAAAATAAATTA
119408 AA
128 AA
* * * ** * * * *
119410 GAAAGAGTTGAGATATTAATTTTTTCTTTGAATGAAATTTCAAAGATATTTAGGAAAAAGTTGAC
1 GAAAAAGTTGAAATATCAATTTTTTCTTAAAATAAAATTTCAAAGATATTTAGAAAAAAGTTAAA
* * * * *
119475 ATATCAATTTTTCTTAAAATTCTTTAAGAATAAAAATAAAATAAAATAGA-CAAAATAAATT-AA
66 ATATCAATTTTTCCT-AAATTCTTTAAGAATAAAAATAAAATGAGATAAATAAAAATAAATTAAA
119538 GTAAAAAGTT
1 G-AAAAAGTT
119548 AATATAAACT
Statistics
Matches: 114, Mismatches: 17, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
126 5 0.04
127 33 0.29
128 29 0.25
129 18 0.16
130 28 0.25
131 1 0.01
ACGTcount: A:0.51, C:0.05, G:0.10, T:0.35
Consensus pattern (129 bp):
GAAAAAGTTGAAATATCAATTTTTTCTTAAAATAAAATTTCAAAGATATTTAGAAAAAAGTTAAA
ATATCAATTTTTCCTAAATTCTTTAAGAATAAAAATAAAATGAGATAAATAAAAATAAATTAAA
Found at i:120395 original size:20 final size:19
Alignment explanation
Indices: 120372--120433 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 19
120362 ATTTAATTAT
120372 AATTATAATATTTTAACT-AA
1 AATTATAAT-TTTTAA-TAAA
*
120392 AATTAGAATTTTTAATAAA
1 AATTATAATTTTTAATAAA
120411 AATTAT-ATTTATTAAATAAA
1 AATTATAATTT-TT-AATAAA
120431 AAT
1 AAT
120434 ACTTAAAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
18 5 0.14
19 15 0.41
20 17 0.46
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (19 bp):
AATTATAATTTTTAATAAA
Found at i:120740 original size:31 final size:30
Alignment explanation
Indices: 120697--120770 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 30
120687 GAGTTTGGTT
120697 GTGAAGATATCAAAGGGTCACGTGGCATTC
1 GTGAAGATATCAAAGGGTCACGTGGCATTC
* *
120727 GTGAAGAATATCAAAGGGTTAGGTGGCATTC
1 GTGAAG-ATATCAAAGGGTCACGTGGCATTC
*
120758 ATGGAAGATATCA
1 GT-GAAGATATCA
120771 TGCCTTAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
30 6 0.15
31 29 0.74
32 4 0.10
ACGTcount: A:0.34, C:0.12, G:0.30, T:0.24
Consensus pattern (30 bp):
GTGAAGATATCAAAGGGTCACGTGGCATTC
Found at i:124732 original size:3 final size:3
Alignment explanation
Indices: 124724--124762 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
124714 ATTGGCTCTT
124724 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
124763 AGTTTGGCAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:127831 original size:159 final size:159
Alignment explanation
Indices: 127542--127861 Score: 631
Period size: 159 Copynumber: 2.0 Consensus size: 159
127532 TATATGTTAC
127542 TTATAATTGAAAAGTTATTAAATTTATAAACTGTTTATATTTAAAATTATTTTGAATTTACTAAT
1 TTATAATTGAAAAGTTATTAAATTTATAAACTGTTTATATTTAAAATTATTTTGAATTTACTAAT
127607 TAAATTTTGATTAATAAAATACACAAAAGTACTTAAAATTCATTCTTTATTATTGAATTCAAGTA
66 TAAATTTTGATTAATAAAATACACAAAAGTACTTAAAATTCATTCTTTATTATTGAATTCAAGTA
127672 AGGTTGTACTATTAACTAATTAAAGGGGT
131 AGGTTGTACTATTAACTAATTAAAGGGGT
127701 TTATAATTGAAAAGTTATTAAATTTATAAACTGTTTATATTTAAAATTATTTTGAATTTACTAAT
1 TTATAATTGAAAAGTTATTAAATTTATAAACTGTTTATATTTAAAATTATTTTGAATTTACTAAT
*
127766 TAAATTTTGATTAATAAAATACACAAAAGTACTTAAAATTTATTCTTTATTATTGAATTCAAGTA
66 TAAATTTTGATTAATAAAATACACAAAAGTACTTAAAATTCATTCTTTATTATTGAATTCAAGTA
127831 AGGTTGTACTATTAACTAATTAAAGGGGT
131 AGGTTGTACTATTAACTAATTAAAGGGGT
127860 TT
1 TT
127862 GGATTTAGGC
Statistics
Matches: 160, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
159 160 1.00
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.43
Consensus pattern (159 bp):
TTATAATTGAAAAGTTATTAAATTTATAAACTGTTTATATTTAAAATTATTTTGAATTTACTAAT
TAAATTTTGATTAATAAAATACACAAAAGTACTTAAAATTCATTCTTTATTATTGAATTCAAGTA
AGGTTGTACTATTAACTAATTAAAGGGGT
Found at i:129053 original size:20 final size:20
Alignment explanation
Indices: 129005--129057 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
128995 ATCTGGGAAA
129005 ATTTGAATTTTTCGACAACC
1 ATTTGAATTTTTCGACAACC
* ***
129025 ATTTAAATTTTTCGGTGACC
1 ATTTGAATTTTTCGACAACC
*
129045 GTTTGAATTTTTC
1 ATTTGAATTTTTC
129058 AACGATTGGA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.25, C:0.15, G:0.13, T:0.47
Consensus pattern (20 bp):
ATTTGAATTTTTCGACAACC
Found at i:129433 original size:3 final size:3
Alignment explanation
Indices: 129425--129450 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
129415 TTTTATGATG
129425 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
129451 GTTGTTGTTG
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:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:152057 original size:17 final size:16
Alignment explanation
Indices: 152022--152068 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
152012 ATTTTTAGGT
*
152022 ATTTATTTTAT-TTCA
1 ATTTATTTTTTATTCA
*
152037 ATTTCATTTTTTATTCT
1 ATTT-ATTTTTTATTCA
152054 ATTTATTTATTTATT
1 ATTTATTT-TTTATT
152069 TTTTAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 4 0.15
16 10 0.37
17 13 0.48
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.70
Consensus pattern (16 bp):
ATTTATTTTTTATTCA
Found at i:152147 original size:11 final size:11
Alignment explanation
Indices: 152133--152171 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
152123 AACATCATAA
152133 AAAAATAACAT
1 AAAAATAACAT
152144 AAAAA-AACCAT
1 AAAAATAA-CAT
152155 AAAAATCAACAT
1 AAAAAT-AACAT
152167 AAAAA
1 AAAAA
152172 ATCAAAATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
10 2 0.08
11 13 0.52
12 8 0.32
13 2 0.08
ACGTcount: A:0.74, C:0.13, G:0.00, T:0.13
Consensus pattern (11 bp):
AAAAATAACAT
Found at i:152176 original size:13 final size:12
Alignment explanation
Indices: 152132--152173 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
152122 TAACATCATA
152132 AAAAAATAACAT
1 AAAAAATAACAT
*
152144 AAAAAA-ACCAT
1 AAAAAATAACAT
152155 -AAAAATCAACAT
1 AAAAAAT-AACAT
152167 AAAAAAT
1 AAAAAAT
152174 CAAAATCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
10 5 0.20
11 4 0.16
12 10 0.40
13 6 0.24
ACGTcount: A:0.74, C:0.12, G:0.00, T:0.14
Consensus pattern (12 bp):
AAAAAATAACAT
Found at i:160676 original size:30 final size:31
Alignment explanation
Indices: 160614--160676 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
160604 TGATATATTC
160614 CATGAATGCCACCTAACCCTTTGATATTCTT
1 CATGAATGCCACCTAACCCTTTGATATTCTT
* *
160645 CATGAATGCCACGTGACCCTTTGAT-TTCTT
1 CATGAATGCCACCTAACCCTTTGATATTCTT
160675 CA
1 CA
160677 CAACCAAACT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 7 0.23
31 23 0.77
ACGTcount: A:0.24, C:0.29, G:0.13, T:0.35
Consensus pattern (31 bp):
CATGAATGCCACCTAACCCTTTGATATTCTT
Found at i:160985 original size:19 final size:20
Alignment explanation
Indices: 160941--161003 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 20
160931 TATTTTAAAT
*
160941 ATTTTTATTTAATAAA-TATA
1 ATTTTTAGTTAA-AAATTATA
*
160961 ATTTTTTA-TTAAAAATTCTA
1 A-TTTTTAGTTAAAAATTATA
160981 A-TTTTAGTTAAAATATTATA
1 ATTTTTAGTTAAAA-ATTATA
161001 ATT
1 ATT
161004 ATAATTAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
18 5 0.14
19 9 0.25
20 15 0.42
21 7 0.19
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (20 bp):
ATTTTTAGTTAAAAATTATA
Found at i:161011 original size:20 final size:19
Alignment explanation
Indices: 160968--161012 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
160958 ATAATTTTTT
* *
160968 ATTAAAAATTCTAATTTTA
1 ATTAAAAATTATAATTATA
*
160987 GTTAAAATATTATAATTATA
1 ATTAAAA-ATTATAATTATA
161007 ATTAAA
1 ATTAAA
161013 TTAGGTTAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (19 bp):
ATTAAAAATTATAATTATA
Found at i:161984 original size:129 final size:127
Alignment explanation
Indices: 161824--162056 Score: 333
Period size: 129 Copynumber: 1.8 Consensus size: 127
161814 AATCTATTAT
* * * * *
161824 AAGGAAAAGTTTATATTAACTTTTTCGTTAATTTA-CTTTGTCTATTTTATTTTATTTTTATTCT
1 AAGGAAAAATTAATATTAACTCTTTCGTTAATTTATCTTTATCTATCTTATTTTATTTTTATTCT
**
161888 TAAAGAATTTTAAGAAAAATTAATATTTCAACTTTTTCCTAAATATCTTTGAAACTTCATTCA
66 TAAA-AAAATTAAGAAAAATTAATATTTCAACTTTTTCCTAAATATCTTTGAAACTTCATTCA
* * *
161951 AAGGAAAAATTAATATCTCAACTCTTTCTTTAATTTATTTTTATTTATCTTATTTTATTTTTATT
1 AAGGAAAAATTAATAT-T-AACTCTTTCGTTAATTTATCTTTATCTATCTTATTTTATTTTTATT
*
162016 CTTAAAAAAATTAAGAAAAATTGATATTTCAACTTTTTCCT
64 CTTAAAAAAATTAAGAAAAATTAATATTTCAACTTTTTCCT
162057 TAGCCTTTTT
Statistics
Matches: 92, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
127 14 0.15
128 1 0.01
129 48 0.52
130 29 0.32
ACGTcount: A:0.35, C:0.10, G:0.05, T:0.50
Consensus pattern (127 bp):
AAGGAAAAATTAATATTAACTCTTTCGTTAATTTATCTTTATCTATCTTATTTTATTTTTATTCT
TAAAAAAATTAAGAAAAATTAATATTTCAACTTTTTCCTAAATATCTTTGAAACTTCATTCA
Found at i:163269 original size:18 final size:21
Alignment explanation
Indices: 163229--163292 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 21
163219 AGACTTTGGT
163229 GAAGGGATGAAGAAAAATCAAA
1 GAAGGGATGAAGAAAAA-CAAA
163251 GAAGGGA-GAA-AAAAA-AAA
1 GAAGGGATGAAGAAAAACAAA
*
163269 GAGAGAGATGATAGAAGAAACAAA
1 GA-AGGGATGA-AGAA-AAACAAA
163293 AAAAGGGCAA
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
18 5 0.14
19 4 0.11
20 7 0.20
21 4 0.11
22 9 0.26
23 3 0.09
24 3 0.09
ACGTcount: A:0.62, C:0.03, G:0.28, T:0.06
Consensus pattern (21 bp):
GAAGGGATGAAGAAAAACAAA
Found at i:163325 original size:3 final size:3
Alignment explanation
Indices: 163319--163373 Score: 55
Period size: 3 Copynumber: 18.7 Consensus size: 3
163309 AAAAAAAAGA
163319 AAT AAT AAT AAT AAT AAT AAT AAT AAT GAA- AATT AGA- AAT AA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AA-T A-AT AAT AAT AAT
163364 AA- AAT AAT AA
1 AAT AAT AAT AA
163374 AAAATAAAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 14
0.76 0.00 0.24
Matches are distributed among these distances:
2 7 0.16
3 34 0.76
4 3 0.07
5 1 0.02
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:163390 original size:26 final size:27
Alignment explanation
Indices: 163328--163383 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
163318 AAATAATAAT
* *
163328 AATAATAATAATAATAATGAAAATTAGA
1 AATAA-AATAATAATAATAAAAAATAGA
163356 AATAAAATAA-AATAATAAAAAATA-A
1 AATAAAATAATAATAATAAAAAATAGA
163381 AAT
1 AAT
163384 TTAAATAGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 4 0.15
26 12 0.46
27 5 0.19
28 5 0.19
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (27 bp):
AATAAAATAATAATAATAAAAAATAGA
Found at i:163911 original size:33 final size:33
Alignment explanation
Indices: 163874--164122 Score: 198
Period size: 33 Copynumber: 7.8 Consensus size: 33
163864 AAAACACGTA
* *
163874 TAACTAAAGGTAATGGCACTTTAAAAACTCCTC
1 TAACCAAAGGTTATGGCACTTTAAAAACTCCTC
* * * *
163907 TAACTAAAGGTTATGACACTTTTAAAACCTCGTC
1 TAACCAAAGGTTATGGCAC-TTTAAAAACTCCTC
163941 TAACC--A-G--A-GG---TTT-AAAACTCCTC
1 TAACCAAAGGTTATGGCACTTTAAAAACTCCTC
*
163964 TAA-CAAGAGGTTATGGGACTTTAAAAACTCCTC
1 TAACCAA-AGGTTATGGCACTTTAAAAACTCCTC
* * * * *
163997 TAACTAGAGGCTATGACACTTTAAAAAACTCATC
1 TAACCAAAGGTTATGGCACTTT-AAAAACTCCTC
* * * *
164031 TAACCAAGGGTTATGGTACTTTAAAAACTTCTT
1 TAACCAAAGGTTATGGCACTTTAAAAACTCCTC
* **
164064 TAACCAAAGGTTATGACACTTTAAAAACTTTTC
1 TAACCAAAGGTTATGGCACTTTAAAAACTCCTC
* *
164097 TAACCAGAGGCTATGGCA-TTTAAAAA
1 TAACCAAAGGTTATGGCACTTTAAAAA
164123 ACTAAAATTT
Statistics
Matches: 171, Mismatches: 31, Indels: 29
0.74 0.13 0.13
Matches are distributed among these distances:
22 1 0.01
23 11 0.06
24 3 0.02
25 1 0.01
26 1 0.01
28 2 0.01
29 3 0.02
31 1 0.01
32 12 0.07
33 93 0.54
34 43 0.25
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (33 bp):
TAACCAAAGGTTATGGCACTTTAAAAACTCCTC
Found at i:163972 original size:23 final size:24
Alignment explanation
Indices: 163927--163975 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 24
163917 TTATGACACT
* *
163927 TTTAAAACCTCGTCTAACCAGAGG
1 TTTAAAACCTCCTCTAACAAGAGG
163951 TTTAAAA-CTCCTCTAACAAGAGG
1 TTTAAAACCTCCTCTAACAAGAGG
163974 TT
1 TT
163976 ATGGGACTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (24 bp):
TTTAAAACCTCCTCTAACAAGAGG
Found at i:163985 original size:57 final size:56
Alignment explanation
Indices: 163897--164006 Score: 150
Period size: 57 Copynumber: 1.9 Consensus size: 56
163887 TGGCACTTTA
* *
163897 AAAACTCCTCTAACTAAAGGTTATGACACTTTTAAAACCTCGTCTAACCAGAGGTTT
1 AAAACTCCTCTAACTAAAGGTTATGACAC-TTTAAAAACTCCTCTAACCAGAGGTTT
** *
163954 AAAACTCCTCTAAC-AAGAGGTTATGGGACTTTAAAAACTCCTCTAACTAGAGG
1 AAAACTCCTCTAACTAA-AGGTTATGACACTTTAAAAACTCCTCTAACCAGAGG
164007 CTATGACACT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
56 23 0.49
57 24 0.51
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (56 bp):
AAAACTCCTCTAACTAAAGGTTATGACACTTTAAAAACTCCTCTAACCAGAGGTTT
Found at i:164079 original size:67 final size:67
Alignment explanation
Indices: 163954--164122 Score: 200
Period size: 67 Copynumber: 2.6 Consensus size: 67
163944 CCAGAGGTTT
* * *
163954 AAAACTCCTCTAACAAGAGGTTATGGGACTTTAAAAACTCCTCTAACTAGAGGCTATGACACTTT
1 AAAACTCATCTAACAAGAGGTTATGGGACTTTAAAAACTCCTCTAACCAAAGGCTATGACACTTT
164019 AA
66 AA
* * * *
164021 AAAACTCATCTAACCAAG-GGTTATGGTACTTTAAAAACTTCTTTAACCAAAGGTTATGACACTT
1 AAAACTCATCTAA-CAAGAGGTTATGGGACTTTAAAAACTCCTCTAACCAAAGGCTATGACACTT
164085 T-A
65 TAA
** * * *
164087 AAAACTTTTCTAACCAGAGGCTATGGCA-TTTAAAAA
1 AAAACTCATCTAACAAGAGGTTATGGGACTTTAAAAA
164123 ACTAAAATTT
Statistics
Matches: 88, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
65 11 0.12
66 20 0.23
67 53 0.60
68 4 0.05
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (67 bp):
AAAACTCATCTAACAAGAGGTTATGGGACTTTAAAAACTCCTCTAACCAAAGGCTATGACACTTT
AA
Found at i:164287 original size:32 final size:33
Alignment explanation
Indices: 164218--164667 Score: 196
Period size: 33 Copynumber: 13.6 Consensus size: 33
164208 TTAAATTTTA
* * **
164218 AAAAACTCATCTTACCAGAGGGTATGATATTTG
1 AAAAACTCCTCTAACCAGAGGCAATGATATTTG
*
164251 AAAAACTCCTCTAACCAGAGGC-ATGATGCTTT-
1 AAAAACTCCTCTAACCAGAGGCAATGAT-ATTTG
* *
164283 AAAAACTCCTCTAACCAAAGGCAATGATACTTG
1 AAAAACTCCTCTAACCAGAGGCAATGATATTTG
* *
164316 AAAAAACTCTTATAACCAGAGGCAATGATATTTG
1 -AAAAACTCCTCTAACCAGAGGCAATGATATTTG
* * * ** *
164350 AAAAACTCCT-TTACATAAAGATAATGAGATTTG
1 AAAAACTCCTCTAAC-CAGAGGCAATGATATTTG
*** * * * *
164383 AAATTTTCCTTTAACCAAAGGTAATGATGTTTG
1 AAAAACTCCTCTAACCAGAGGCAATGATATTTG
* * * **
164416 AAAGATTCCTTTAACCAGAGGCAATGGGATTTG
1 AAAAACTCCTCTAACCAGAGGCAATGATATTTG
* * * * * * ** *
164449 AAAGATTCTTCTAACTAAAAGTGATGATTTTTG
1 AAAAACTCCTCTAACCAGAGGCAATGATATTTG
** * **
164482 AAGCATTCCTCTAACCAGAGGTGATGATATTTG
1 AAAAACTCCTCTAACCAGAGGCAATGATATTTG
* * * **
164515 AAAGATTCCTTTAACCA-ATGGTTATGATATTTG
1 AAAAACTCCTCTAACCAGA-GGCAATGATATTTG
* * * * *
164548 AAAGATTTCTCTAACTAGAGACAAT-ACTATTTG
1 AAAAACTCCTCTAACCAGAGGCAATGA-TATTTG
* * ** * *
164581 AAAGATTTTTCTAACTAGAGACAAT-ACTATTTG
1 AAAAACTCCTCTAACCAGAGGCAATGA-TATTTG
* * * * * * *
164614 AAAAATTTCTCTAACTAAAAGTAATGGTATTT-
1 AAAAACTCCTCTAACCAGAGGCAATGATATTTG
164646 AAAATA-TCCCTCTAACCAGAGG
1 AAAA-ACT-CCTCTAACCAGAGG
164668 TCATGGTTTA
Statistics
Matches: 333, Mismatches: 72, Indels: 24
0.78 0.17 0.06
Matches are distributed among these distances:
32 38 0.11
33 262 0.79
34 33 0.10
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (33 bp):
AAAAACTCCTCTAACCAGAGGCAATGATATTTG
Found at i:164431 original size:99 final size:99
Alignment explanation
Indices: 164289--164550 Score: 255
Period size: 99 Copynumber: 2.6 Consensus size: 99
164279 CTTTAAAAAC
* * **
164289 TCCTCTAACCAAAGGCAATGATACTTGAAA-AAACTCTTATAACCAGAGGCAATGATATTTGAAA
1 TCCTCTAACCAAAGGTAATGATATTTGAAAGATTC-CTT-TAACCAGAGGCAATGATATTTGAAA
**
164353 AACTCCTT-T-AC-ATAAAGATAATGAGATTTGAAATTT
64 AA-TCCTTCTAACTA-AAAG-TAATGAGATTTGAAACAT
* * ** *
164389 TCCTTTAACCAAAGGTAATGATGTTTGAAAGATTCCTTTAACCAGAGGCAATGGGATTTGAAAGA
1 TCCTCTAACCAAAGGTAATGATATTTGAAAGATTCCTTTAACCAGAGGCAATGATATTTGAAAAA
* * ** *
164454 TTCTTCTAACTAAAAGTGATGATTTTTGAAGCAT
66 TCCTTCTAACTAAAAGTAATGAGATTTGAAACAT
* * **
164488 TCCTCTAACCAGAGGTGATGATATTTGAAAGATTCCTTTAACCA-ATGGTTATGATATTTGAAA
1 TCCTCTAACCAAAGGTAATGATATTTGAAAGATTCCTTTAACCAGA-GGCAATGATATTTGAAA
164551 GATTTCTCTA
Statistics
Matches: 133, Mismatches: 24, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
98 5 0.04
99 90 0.68
100 35 0.26
101 3 0.02
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (99 bp):
TCCTCTAACCAAAGGTAATGATATTTGAAAGATTCCTTTAACCAGAGGCAATGATATTTGAAAAA
TCCTTCTAACTAAAAGTAATGAGATTTGAAACAT
Found at i:164447 original size:66 final size:66
Alignment explanation
Indices: 164372--164587 Score: 222
Period size: 66 Copynumber: 3.3 Consensus size: 66
164362 ACATAAAGAT
** * *
164372 AATGAGATTTGAAATTTTCCTTTAACCAAAGGTAATGATGTTTGAAAGATTCCTTTAACCAGAGG
1 AATGAGATTTGAAAGATTCCTTTAACCAAAGGTAATGATATTTGAAAGATTCCTCTAACCAGAGG
164437 C
66 C
* * * * *
164438 AATGGGATTTGAAAGATT-CTTCTAACTAAAAGTGATGATTTTTG-AAGCATTCCTCTAACCAGA
1 AATGAGATTTGAAAGATTCCTT-TAACCAAAGGTAATGATATTTGAAAG-ATTCCTCTAACCAGA
*
164501 GGT
64 GGC
* * * * * * *
164504 GATGATATTTGAAAGATTCCTTTAACCAATGGTTATGATATTTGAAAGATTTCTCTAACTAGAGA
1 AATGAGATTTGAAAGATTCCTTTAACCAAAGGTAATGATATTTGAAAGATTCCTCTAACCAGAGG
164569 C
66 C
*
164570 AAT-ACTATTTGAAAGATT
1 AATGA-GATTTGAAAGATT
164588 TTTCTAACTA
Statistics
Matches: 123, Mismatches: 22, Indels: 10
0.79 0.14 0.06
Matches are distributed among these distances:
65 7 0.06
66 110 0.89
67 6 0.05
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (66 bp):
AATGAGATTTGAAAGATTCCTTTAACCAAAGGTAATGATATTTGAAAGATTCCTCTAACCAGAGG
C
Done.