Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 271 of 322
Found at i:89980359 original size:56 final size:55
Alignment explanation
Indices: 89980243--89980360 Score: 159
Period size: 55 Copynumber: 2.1 Consensus size: 55
89980233 TGCATGCTTT
* * * *
89980243 CATT-AATGCCGTCCATGCATGGTGAATATCTCATTTAATTCATGTTTTGCTTCC
1 CATTAAATGCCGTCCATACATGGTGAACATCTCATTTAATTCATGTTTTGCTGCA
*
89980297 CTTTAAATGCCGTTCCATACATGG-GAACATCTCATTTAATTCATGTCTTTGCTGCA
1 CATTAAATGCCG-TCCATACATGGTGAACATCTCATTTAATTCATGT-TTTGCTGCA
89980353 CATTAAAT
1 CATTAAAT
89980361 CAGCAAGCAG
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
54 3 0.05
55 28 0.51
56 24 0.44
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (55 bp):
CATTAAATGCCGTCCATACATGGTGAACATCTCATTTAATTCATGTTTTGCTGCA
Found at i:89981009 original size:20 final size:20
Alignment explanation
Indices: 89980984--89981038 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
89980974 ACGAGTTAAA
* *
89980984 TTGAGCTTGAATGAGCTGAC
1 TTGAGCTCGAATGAGCTAAC
*
89981004 TTGAGCACGAATGAGCTAAC
1 TTGAGCTCGAATGAGCTAAC
89981024 TTGAGCTCGAATGAG
1 TTGAGCTCGAATGAG
89981039 TTGAACCACA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.25
Consensus pattern (20 bp):
TTGAGCTCGAATGAGCTAAC
Found at i:89986028 original size:16 final size:15
Alignment explanation
Indices: 89986007--89986046 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
89985997 CCGTATGCAA
89986007 TTTTTTTTTTCAAATT
1 TTTTTTTTTTC-AATT
*
89986023 TTTTTTCCTTTCAATT
1 TTTTTT-TTTTCAATT
89986039 TTTTTTTT
1 TTTTTTTT
89986047 GATTTTGACT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 1 0.05
16 16 0.76
17 4 0.19
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTTTTTTTCAATT
Found at i:89986403 original size:21 final size:21
Alignment explanation
Indices: 89986377--89986439 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
89986367 TTGGTATTTG
89986377 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
*
89986398 GGAATTGGTATGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
89986419 GGTATTTGGTACGAATTGGTA
1 GG-AATTGGTACGAAATGGTA
89986440 ATGGTTCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 22 0.59
22 15 0.41
ACGTcount: A:0.30, C:0.03, G:0.33, T:0.33
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:89992003 original size:20 final size:20
Alignment explanation
Indices: 89991978--89992020 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
89991968 AAAAGAAAAG
89991978 AAAGAAGAGAGATTGAGAGA
1 AAAGAAGAGAGATTGAGAGA
** *
89991998 AAAGAATCGAGATTGTGAGA
1 AAAGAAGAGAGATTGAGAGA
89992018 AAA
1 AAA
89992021 ACAAGAGCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.53, C:0.02, G:0.30, T:0.14
Consensus pattern (20 bp):
AAAGAAGAGAGATTGAGAGA
Found at i:89994963 original size:29 final size:27
Alignment explanation
Indices: 89994930--89994984 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 27
89994920 GTGATTAAAT
89994930 AAAATCGACA-CAAGCAGAATTTAAAAGAA
1 AAAATCGACAGCAAG-A-AA-TTAAAAGAA
*
89994959 AAAATTGACAGCAAGAAATTAAAAGA
1 AAAATCGACAGCAAGAAATTAAAAGA
89994985 TAAGTCCTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 8 0.33
28 2 0.08
29 10 0.42
30 4 0.17
ACGTcount: A:0.60, C:0.11, G:0.15, T:0.15
Consensus pattern (27 bp):
AAAATCGACAGCAAGAAATTAAAAGAA
Found at i:90005199 original size:22 final size:22
Alignment explanation
Indices: 90005168--90005232 Score: 85
Period size: 22 Copynumber: 2.9 Consensus size: 22
90005158 ACCTTTTTGA
*
90005168 ACCATTACCAATTCGTACCAAAT
1 ACCA-TACCATTTCGTACCAAAT
* *
90005191 ACCATACCATTTCATACCAACT
1 ACCATACCATTTCGTACCAAAT
*
90005213 TCCATACCATTTCGTACCAA
1 ACCATACCATTTCGTACCAA
90005233 TTCCTAGATA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
22 33 0.89
23 4 0.11
ACGTcount: A:0.35, C:0.34, G:0.03, T:0.28
Consensus pattern (22 bp):
ACCATACCATTTCGTACCAAAT
Found at i:90006540 original size:25 final size:25
Alignment explanation
Indices: 90006495--90006542 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
90006485 ACAACTTCTA
* *
90006495 AAGAAAACTCAAGAGAGAATTCTTG
1 AAGAAAACCCAAGAGAAAATTCTTG
90006520 AAGAAAACCCCAA-AGAAAATTCT
1 AAGAAAA-CCCAAGAGAAAATTCT
90006543 GCACTCAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.52, C:0.17, G:0.15, T:0.17
Consensus pattern (25 bp):
AAGAAAACCCAAGAGAAAATTCTTG
Found at i:90007984 original size:20 final size:21
Alignment explanation
Indices: 90007959--90007997 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
90007949 TCAAACAAGC
90007959 AAATGAGCTCAA-TGAGCTAG
1 AAATGAGCTCAATTGAGCTAG
*
90007979 AAATGAGCTGAATTGAGCT
1 AAATGAGCTCAATTGAGCT
90007998 CAACGAGCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.38, C:0.13, G:0.26, T:0.23
Consensus pattern (21 bp):
AAATGAGCTCAATTGAGCTAG
Found at i:90009272 original size:17 final size:17
Alignment explanation
Indices: 90009252--90009305 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 17
90009242 CTTCACTCGT
90009252 TTTCTTTTCAAACTCTC
1 TTTCTTTTCAAACTCTC
*
90009269 TTTCTTTTTCAATCTCAT-
1 TTTC-TTTTCAAACTC-TC
90009287 TTTGCTTTTC--ACTCTC
1 TTT-CTTTTCAAACTCTC
90009303 TTT
1 TTT
90009306 TGTTTTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
15 1 0.03
16 6 0.19
17 4 0.13
18 18 0.58
19 2 0.06
ACGTcount: A:0.13, C:0.26, G:0.02, T:0.59
Consensus pattern (17 bp):
TTTCTTTTCAAACTCTC
Found at i:90009295 original size:18 final size:18
Alignment explanation
Indices: 90009274--90009325 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
90009264 CTCTCTTTCT
90009274 TTTTCAATCTCATTTTGC
1 TTTTCAATCTCATTTTGC
* *
90009292 TTTTCACTCTC-TTTTGT
1 TTTTCAATCTCATTTTGC
*
90009309 TTTTGAAATCTCATTTT
1 TTTT-CAATCTCATTTT
90009326 CATATTTTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
17 9 0.32
18 15 0.54
19 4 0.14
ACGTcount: A:0.15, C:0.19, G:0.06, T:0.60
Consensus pattern (18 bp):
TTTTCAATCTCATTTTGC
Found at i:90009339 original size:6 final size:6
Alignment explanation
Indices: 90009330--90009428 Score: 74
Period size: 6 Copynumber: 16.0 Consensus size: 6
90009320 CATTTTCATA
* * * **
90009330 TTTTTC TTTTTC AATTTTC TTTTCTTC ATTTTC TTTTTC TCTCAC TTTTTC
1 TTTTTC TTTTTC -TTTTTC -TTT-TTC TTTTTC TTTTTC TTTTTC TTTTTC
* * **
90009381 GTTTTC TTTTTC TTTTT- TGTTTTC TTTTTC TTCTTC ACTTTC TTTTTC
1 TTTTTC TTTTTC TTTTTC T-TTTTC TTTTTC TTTTTC TTTTTC TTTTTC
90009429 GAATTCATTA
Statistics
Matches: 70, Mismatches: 19, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
5 1 0.01
6 56 0.80
7 10 0.14
8 3 0.04
ACGTcount: A:0.05, C:0.20, G:0.02, T:0.73
Consensus pattern (6 bp):
TTTTTC
Found at i:90010406 original size:10 final size:10
Alignment explanation
Indices: 90010380--90010429 Score: 66
Period size: 11 Copynumber: 4.8 Consensus size: 10
90010370 CAATCCACGA
90010380 ATTTTTTTATT
1 ATTTTTTT-TT
90010391 ACTTTTTTTTT
1 A-TTTTTTTTT
90010402 A-TTTTTTTT
1 ATTTTTTTTT
90010411 ATTTTTTTTT
1 ATTTTTTTTT
90010421 AATTTTTTT
1 -ATTTTTTT
90010430 AATCACTTAC
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
9 9 0.25
10 8 0.22
11 12 0.33
12 7 0.19
ACGTcount: A:0.14, C:0.02, G:0.00, T:0.84
Consensus pattern (10 bp):
ATTTTTTTTT
Found at i:90010408 original size:8 final size:9
Alignment explanation
Indices: 90010394--90010430 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
90010384 TTTTATTACT
90010394 TTTTTTTTA
1 TTTTTTTTA
90010403 TTTTTTTTA
1 TTTTTTTTA
90010412 TTTTTTTTTA
1 -TTTTTTTTA
*
90010422 ATTTTTTTA
1 TTTTTTTTA
90010431 ATCACTTACT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
9 17 0.65
10 9 0.35
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:90011559 original size:13 final size:13
Alignment explanation
Indices: 90011541--90011566 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
90011531 ACCTGAATGC
90011541 AATTTAATTCATA
1 AATTTAATTCATA
90011554 AATTTAATTCATA
1 AATTTAATTCATA
90011567 TTAGGACACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
AATTTAATTCATA
Found at i:90015262 original size:20 final size:21
Alignment explanation
Indices: 90015234--90015272 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
90015224 TCAAACAAGC
*
90015234 AAATGAGCTCAA-TGAGCTGG
1 AAATAAGCTCAATTGAGCTGG
*
90015254 AAATAAGCTGAATTGAGCT
1 AAATAAGCTCAATTGAGCT
90015273 CAACGAGCTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.38, C:0.13, G:0.26, T:0.23
Consensus pattern (21 bp):
AAATAAGCTCAATTGAGCTGG
Found at i:90017051 original size:27 final size:25
Alignment explanation
Indices: 90017021--90017076 Score: 67
Period size: 27 Copynumber: 2.2 Consensus size: 25
90017011 TTTTGTTCAA
*
90017021 TCTCAATCTCAATCTCGTTTTTCTTTT
1 TCTCAATCTCAATCTC-TTTTT-TTCT
* *
90017048 TCTCACTCTCACTCTCTTTTTTTCT
1 TCTCAATCTCAATCTCTTTTTTTCT
90017073 TCTC
1 TCTC
90017077 TTGAGTTCGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 7 0.27
26 5 0.19
27 14 0.54
ACGTcount: A:0.11, C:0.32, G:0.02, T:0.55
Consensus pattern (25 bp):
TCTCAATCTCAATCTCTTTTTTTCT
Found at i:90021199 original size:21 final size:21
Alignment explanation
Indices: 90021173--90021235 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
90021163 TTGGTATTTG
*
90021173 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTATGAAATGGTAT
90021194 GGAATTGGTATGAAATGGTAT
1 GGAATTGGTATGAAATGGTAT
* *
90021215 GGTATTTGGTATGAATTGGTA
1 GG-AATTGGTATGAAATGGTA
90021236 ATGGTTCAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
21 22 0.58
22 16 0.42
ACGTcount: A:0.30, C:0.02, G:0.33, T:0.35
Consensus pattern (21 bp):
GGAATTGGTATGAAATGGTAT
Found at i:90021233 original size:10 final size:10
Alignment explanation
Indices: 90021174--90021235 Score: 61
Period size: 10 Copynumber: 5.9 Consensus size: 10
90021164 TGGTATTTGG
*
90021174 GAATTGGTAC
1 GAATTGGTAT
*
90021184 GAAATGGTAT
1 GAATTGGTAT
90021194 GGAATTGGTAT
1 -GAATTGGTAT
*
90021205 GAAATGGTAT
1 GAATTGGTAT
*
90021215 GGTATTTGGTAT
1 -G-AATTGGTAT
90021227 GAATTGGTA
1 GAATTGGTA
90021236 ATGGTTCAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
10 24 0.57
11 11 0.26
12 7 0.17
ACGTcount: A:0.31, C:0.02, G:0.32, T:0.35
Consensus pattern (10 bp):
GAATTGGTAT
Found at i:90021524 original size:100 final size:100
Alignment explanation
Indices: 90021351--90021550 Score: 391
Period size: 100 Copynumber: 2.0 Consensus size: 100
90021341 TACTTAGGAA
*
90021351 AGTATGAACCAAAGGTATCAAAGGTGAACGCCACCCTCGGGTTTAAGGAGTGATAAGTTCAGAAA
1 AGTATGAACCAAAGGTATCAAAGGTGAACGCCACACTCGGGTTTAAGGAGTGATAAGTTCAGAAA
90021416 AGACTCGGAAAGACGCCACTAAAAGCTTAGATAAG
66 AGACTCGGAAAGACGCCACTAAAAGCTTAGATAAG
90021451 AGTATGAACCAAAGGTATCAAAGGTGAACGCCACACTCGGGTTTAAGGAGTGATAAGTTCAGAAA
1 AGTATGAACCAAAGGTATCAAAGGTGAACGCCACACTCGGGTTTAAGGAGTGATAAGTTCAGAAA
90021516 AGACTCGGAAAGACGCCACTAAAAGCTTAGATAAG
66 AGACTCGGAAAGACGCCACTAAAAGCTTAGATAAG
90021551 TCTTACGAGC
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 99 1.00
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.18
Consensus pattern (100 bp):
AGTATGAACCAAAGGTATCAAAGGTGAACGCCACACTCGGGTTTAAGGAGTGATAAGTTCAGAAA
AGACTCGGAAAGACGCCACTAAAAGCTTAGATAAG
Found at i:90023290 original size:11 final size:10
Alignment explanation
Indices: 90023265--90023325 Score: 54
Period size: 10 Copynumber: 6.1 Consensus size: 10
90023255 ACCAATAAAA
90023265 TAAA-TGAGC
1 TAAATTGAGC
*
90023274 TGAATTGTAGC
1 TAAATTG-AGC
90023285 TAAATTGAGC
1 TAAATTGAGC
**
90023295 TCGATTGAGC
1 TAAATTGAGC
90023305 TGAAA-TGAGC
1 T-AAATTGAGC
*
90023315 TCAATTGAGC
1 TAAATTGAGC
90023325 T
1 T
90023326 GGTCGGAGTT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
9 5 0.12
10 26 0.63
11 10 0.24
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.30
Consensus pattern (10 bp):
TAAATTGAGC
Found at i:90023326 original size:20 final size:20
Alignment explanation
Indices: 90023266--90023326 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
90023256 CCAATAAAAT
*
90023266 AAATGAGCTGAATTGTAGCT-
1 AAATGAGCTCAATTG-AGCTG
*
90023286 AAATTGAGCTCGATTGAGCTG
1 AAA-TGAGCTCAATTGAGCTG
90023307 AAATGAGCTCAATTGAGCTG
1 AAATGAGCTCAATTGAGCTG
90023327 GTCGGAGTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (20 bp):
AAATGAGCTCAATTGAGCTG
Found at i:90025118 original size:30 final size:30
Alignment explanation
Indices: 90025084--90025180 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
90025074 AGCTCACTCC
90025084 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
90025114 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
90025144 CAGCTCAACTTTAGCTCACGAGCTAAAACT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
90025174 TAGCTCA
1 TAGCTCA
90025181 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:90050026 original size:23 final size:22
Alignment explanation
Indices: 90049974--90050026 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
90049964 TCCACGTCTT
*
90049974 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
90049996 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
90050019 TTTCTTTT
1 TTTCTTTT
90050027 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:90055237 original size:11 final size:11
Alignment explanation
Indices: 90055223--90055253 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
90055213 TATATATGTT
90055223 TAAAAATTATA
1 TAAAAATTATA
*
90055234 TAAAAATAATA
1 TAAAAATTATA
90055245 TAAAAATTA
1 TAAAAATTA
90055254 ATACAGGCTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:90056622 original size:38 final size:39
Alignment explanation
Indices: 90056552--90056743 Score: 153
Period size: 39 Copynumber: 5.0 Consensus size: 39
90056542 TGAAACCAAT
* *
90056552 TACCAGCAC-AAGCCTGCGGGAATTTAAACCCGG-TATAA
1 TACCAGCACGAAGCCTGC-GGACTTTAAGCCCGGATATAA
* * *
90056590 TACCAGCTCGAAGCCTGCAGGACTTT-AGCCCGGACATAT
1 TACCAGCACGAAGCCTGC-GGACTTTAAGCCCGGATATAA
* * *
90056629 TTCCAGCACGTAGCCTGCGGACTTTAAGTCCGGATATAA
1 TACCAGCACGAAGCCTGCGGACTTTAAGCCCGGATATAA
* ** *
90056668 TTCCAGCAC-ATAGCCTGCGGACCCTAAGTCCGGATATAA
1 TACCAGCACGA-AGCCTGCGGACTTTAAGCCCGGATATAA
* * ** *
90056707 TTCGAGCAC-ATAG-CTGCGGACCCTAAGTCCGGATATA
1 TACCAGCACGA-AGCCTGCGGACTTTAAGCCCGGATATA
90056744 CATCACTGAA
Statistics
Matches: 134, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
38 45 0.34
39 89 0.66
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.21
Consensus pattern (39 bp):
TACCAGCACGAAGCCTGCGGACTTTAAGCCCGGATATAA
Found at i:90056667 original size:78 final size:77
Alignment explanation
Indices: 90056549--90056743 Score: 182
Period size: 78 Copynumber: 2.5 Consensus size: 77
90056539 ACTTGAAACC
* * ** *
90056549 AATTACCAGCACAAGCCTGCGGGAATTTAAACCCGG-TATAATACCAGCTCGA-AGCCTGCAGGA
1 AATT-CCAGCACTAGCCTGC-GGACTTTAAGTCCGGATATAATACCAGCAC-ATAGCCTGC-GGA
* *
90056612 -CTTTAGCCCGGACAT
62 CCCTAAGCCCGGACAT
* *
90056627 ATTTCCAGCACGTAGCCTGCGGACTTTAAGTCCGGATATAATTCCAGCACATAGCCTGCGGACCC
1 AATTCCAGCAC-TAGCCTGCGGACTTTAAGTCCGGATATAATACCAGCACATAGCCTGCGGACCC
* *
90056692 TAAGTCCGGATAT
65 TAAGCCCGGACAT
* **
90056705 AATTCGAGCACATAG-CTGCGGACCCTAAGTCCGGATATA
1 AATTCCAGCAC-TAGCCTGCGGACTTTAAGTCCGGATATA
90056744 CATCACTGAA
Statistics
Matches: 97, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
77 45 0.46
78 52 0.54
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (77 bp):
AATTCCAGCACTAGCCTGCGGACTTTAAGTCCGGATATAATACCAGCACATAGCCTGCGGACCCT
AAGCCCGGACAT
Found at i:90060737 original size:39 final size:39
Alignment explanation
Indices: 90060683--90060757 Score: 150
Period size: 39 Copynumber: 1.9 Consensus size: 39
90060673 TTATGCTTAC
90060683 TTAGTTTTATTTCCCTATTTTATAGTAAATCGAAAGTTT
1 TTAGTTTTATTTCCCTATTTTATAGTAAATCGAAAGTTT
90060722 TTAGTTTTATTTCCCTATTTTATAGTAAATCGAAAG
1 TTAGTTTTATTTCCCTATTTTATAGTAAATCGAAAG
90060758 CTCGTTGGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.49
Consensus pattern (39 bp):
TTAGTTTTATTTCCCTATTTTATAGTAAATCGAAAGTTT
Found at i:90067031 original size:40 final size:40
Alignment explanation
Indices: 90066933--90067195 Score: 309
Period size: 40 Copynumber: 6.6 Consensus size: 40
90066923 TCCTCGTTCA
* * * ** *
90066933 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
90066972 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
90067012 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
90067052 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
90067092 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
90067132 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
90067172 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
90067196 CAGCATTCAA
Statistics
Matches: 199, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
39 37 0.19
40 154 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:90073064 original size:80 final size:80
Alignment explanation
Indices: 90072927--90073085 Score: 264
Period size: 80 Copynumber: 2.0 Consensus size: 80
90072917 TCCGAAAACA
*
90072927 CATGGCACTTCTCACCAAACAAATAATGTCGCCATATTTTCAATGCAAACACAATGGCGGCTAGC
1 CATGGCACTTCTCACCAAACAAATAATGTCGCCATATTTTCAAAGCAAACACAATGGCGGCTAGC
90072992 TCGAGATCATGGGTC
66 TCGAGATCATGGGTC
* * * * *
90073007 CATGGCACTTTTCGCCAAACAAATAATGTCGCCATATTTTCAAAGCAAATACGATGGCGGCTAGT
1 CATGGCACTTCTCACCAAACAAATAATGTCGCCATATTTTCAAAGCAAACACAATGGCGGCTAGC
90073072 TCGAGATCATGGGT
66 TCGAGATCATGGGT
90073086 TGGATAATTT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
80 73 1.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (80 bp):
CATGGCACTTCTCACCAAACAAATAATGTCGCCATATTTTCAAAGCAAACACAATGGCGGCTAGC
TCGAGATCATGGGTC
Found at i:90077488 original size:27 final size:27
Alignment explanation
Indices: 90077458--90077635 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
90077448 ATATTGAGTC
* * * *
90077458 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
90077485 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
90077512 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
90077540 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
90077567 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
90077594 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
90077621 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
90077636 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:90077597 original size:82 final size:81
Alignment explanation
Indices: 90077479--90077634 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
90077469 TGCTATATAA
* *
90077479 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
90077544 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
90077561 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
90077625 CACTTAGTGC
65 CACTTAGTGC
90077635 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:90082534 original size:20 final size:20
Alignment explanation
Indices: 90082511--90082550 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
90082501 ATTTTTTATC
90082511 ACATTTACTTTAATTTTTAA
1 ACATTTACTTTAATTTTTAA
*
90082531 ACATTTTCTTTAATTTTTAA
1 ACATTTACTTTAATTTTTAA
90082551 CTTAAGCTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.57
Consensus pattern (20 bp):
ACATTTACTTTAATTTTTAA
Found at i:90086354 original size:32 final size:30
Alignment explanation
Indices: 90086299--90086368 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 30
90086289 ATTTTCAAGT
*
90086299 TTTTATAATTTTGATAAAATTTTGGAAATTCA
1 TTTTATAATTTT-ATAAAATTTTGAAAATT-A
90086331 TTTTATATATTTT-TAAAATTTTTGAAAATTA
1 TTTTATA-ATTTTATAAAA-TTTTGAAAATTA
90086362 TATTTAT
1 T-TTTAT
90086369 TTTAATTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
31 7 0.21
32 22 0.65
33 5 0.15
ACGTcount: A:0.37, C:0.01, G:0.06, T:0.56
Consensus pattern (30 bp):
TTTTATAATTTTATAAAATTTTGAAAATTA
Found at i:90089322 original size:30 final size:29
Alignment explanation
Indices: 90089251--90089323 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 29
90089241 TATATTGTTT
* *
90089251 TTAAACAAGCCCTTAACCTATTTTTGTAG
1 TTAAATAAGCCCTTAACCTATTTTTGTAC
*
90089280 TTAAATAAGCCCTTAACTTATGGTTTT-TAC
1 TTAAATAAGCCCTTAACCTAT--TTTTGTAC
90089310 TTATAA-AAGCCCTT
1 TTA-AATAAGCCCTT
90089324 TTATTTTAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
29 19 0.50
30 13 0.34
31 6 0.16
ACGTcount: A:0.32, C:0.19, G:0.10, T:0.40
Consensus pattern (29 bp):
TTAAATAAGCCCTTAACCTATTTTTGTAC
Found at i:90092550 original size:9 final size:9
Alignment explanation
Indices: 90092528--90092586 Score: 50
Period size: 9 Copynumber: 6.7 Consensus size: 9
90092518 ATTAATTAGT
*
90092528 TTAATATTTT
1 TTAATA-TTA
90092538 TTAATATTA
1 TTAATATTA
*
90092547 TTAAT-TAA
1 TTAATATTA
* *
90092555 TTAAAATAA
1 TTAATATTA
90092564 TTAATATTA
1 TTAATATTA
*
90092573 TTAAT-TTT
1 TTAATATTA
90092581 TTAATA
1 TTAATA
90092587 AAATGTGTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
8 13 0.32
9 22 0.54
10 6 0.15
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TTAATATTA
Found at i:90096559 original size:9 final size:9
Alignment explanation
Indices: 90096547--90096618 Score: 54
Period size: 9 Copynumber: 8.0 Consensus size: 9
90096537 ATTTCTAGAA
*
90096547 ATCATTATC
1 ATCAATATC
*
90096556 ATCAATAGC
1 ATCAATATC
* * *
90096565 GTCACTAGC
1 ATCAATATC
90096574 ATCAATATC
1 ATCAATATC
* * *
90096583 GTCACTAGC
1 ATCAATATC
90096592 ATCAATATC
1 ATCAATATC
* *
90096601 GTCACTATC
1 ATCAATATC
90096610 ATCAATATC
1 ATCAATATC
90096619 GATATCATCA
Statistics
Matches: 46, Mismatches: 17, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
9 46 1.00
ACGTcount: A:0.35, C:0.26, G:0.08, T:0.31
Consensus pattern (9 bp):
ATCAATATC
Found at i:90096578 original size:18 final size:18
Alignment explanation
Indices: 90096555--90096619 Score: 112
Period size: 18 Copynumber: 3.6 Consensus size: 18
90096545 AAATCATTAT
*
90096555 CATCAATAGCGTCACTAG
1 CATCAATATCGTCACTAG
90096573 CATCAATATCGTCACTAG
1 CATCAATATCGTCACTAG
*
90096591 CATCAATATCGTCACTAT
1 CATCAATATCGTCACTAG
90096609 CATCAATATCG
1 CATCAATATCG
90096620 ATATCATCAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 45 1.00
ACGTcount: A:0.34, C:0.28, G:0.11, T:0.28
Consensus pattern (18 bp):
CATCAATATCGTCACTAG
Found at i:90096624 original size:15 final size:17
Alignment explanation
Indices: 90096552--90096631 Score: 92
Period size: 18 Copynumber: 4.6 Consensus size: 17
90096542 TAGAAATCAT
*
90096552 TATCATCAATAGCGTCAC
1 TATCATCAATATCG-CAC
*
90096570 TAGCATCAATATCGTCAC
1 TATCATCAATATCG-CAC
*
90096588 TAGCATCAATATCGTCAC
1 TATCATCAATATCG-CAC
90096606 TATCATCAATATCG-A-
1 TATCATCAATATCGCAC
90096621 TATCATCAATA
1 TATCATCAATA
90096632 AGAAAACCTT
Statistics
Matches: 59, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
15 11 0.19
16 1 0.02
18 47 0.80
ACGTcount: A:0.36, C:0.25, G:0.09, T:0.30
Consensus pattern (17 bp):
TATCATCAATATCGCAC
Found at i:90098109 original size:12 final size:12
Alignment explanation
Indices: 90098089--90098126 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
90098079 TTTTTATATG
*
90098089 TTATATGTTATT
1 TTATCTGTTATT
90098101 TTATCTGTTATT
1 TTATCTGTTATT
90098113 TTATC--TTATT
1 TTATCTGTTATT
90098123 TTAT
1 TTAT
90098127 GTTGTTTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 9 0.36
12 16 0.64
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.68
Consensus pattern (12 bp):
TTATCTGTTATT
Found at i:90098134 original size:10 final size:10
Alignment explanation
Indices: 90098092--90098134 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
90098082 TTATATGTTA
90098092 TATGTTATTT
1 TATGTTATTT
90098102 TATCTGTTATTT
1 TA--TGTTATTT
*
90098114 TATCTTATTT
1 TATGTTATTT
*
90098124 TATGTTGTTT
1 TATGTTATTT
90098134 T
1 T
90098135 GTAAATGTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
10 18 0.64
12 10 0.36
ACGTcount: A:0.16, C:0.05, G:0.09, T:0.70
Consensus pattern (10 bp):
TATGTTATTT
Found at i:90098276 original size:16 final size:16
Alignment explanation
Indices: 90098251--90098283 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
90098241 ACGGTATTCT
*
90098251 ATATTTTATAGTAGCA
1 ATATTCTATAGTAGCA
90098267 ATATTCTATAGTAGCA
1 ATATTCTATAGTAGCA
90098283 A
1 A
90098284 AGGAATAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.39
Consensus pattern (16 bp):
ATATTCTATAGTAGCA
Found at i:90099586 original size:54 final size:54
Alignment explanation
Indices: 90099504--90099665 Score: 249
Period size: 54 Copynumber: 3.0 Consensus size: 54
90099494 TGGAGGAAGC
90099504 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGTCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGTCACATATATCT
*
90099558 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGTCACATATATCT
* * *
90099612 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTGACT-TCGTCACA-ATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTGGCTCT-GTCACATATATCT
90099665 G
1 G
90099666 GCAGCCTCGC
Statistics
Matches: 101, Mismatches: 5, Indels: 5
0.91 0.05 0.05
Matches are distributed among these distances:
53 14 0.14
54 87 0.86
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.35
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGTCACATATATCT
Found at i:90099658 original size:27 final size:27
Alignment explanation
Indices: 90099507--90099665 Score: 184
Period size: 27 Copynumber: 5.9 Consensus size: 27
90099497 AGGAAGCGTC
*
90099507 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
* *
90099534 CTGGTGGCTCTGTCACATATATCTGT-C
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
*
90099561 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
90099588 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
90099615 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
90099642 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
90099666 GCAGCCTCGC
Statistics
Matches: 115, Mismatches: 9, Indels: 16
0.82 0.06 0.11
Matches are distributed among these distances:
26 10 0.09
27 103 0.90
28 2 0.02
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:90099659 original size:81 final size:80
Alignment explanation
Indices: 90099507--90099665 Score: 207
Period size: 81 Copynumber: 2.0 Consensus size: 80
90099497 AGGAAGCGTC
* *
90099507 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGTCACATATATCTGTCCTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
90099572 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* * *
90099588 CTGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGACT
1 CTGGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTGCCACATATATCTGT-CCTGGTGACT
*
90099651 -TCGTCACAATATCTG
64 AT-GCCACAATATCTG
90099666 GCAGCCTCGC
Statistics
Matches: 69, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
80 17 0.25
81 52 0.75
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.35
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
GCCACAATATCTGAT
Found at i:90103407 original size:30 final size:31
Alignment explanation
Indices: 90103322--90103410 Score: 110
Period size: 31 Copynumber: 2.9 Consensus size: 31
90103312 ATTGATGTAT
* * *
90103322 TATATAATTAAATCAAAATAAAAATTTTATA
1 TATATAATTATATCAAAATCAAAATTTAATA
*
90103353 TATA-AATTAATATCAAAGTCAAAATTTAATA
1 TATATAATT-ATATCAAAATCAAAATTTAATA
*
90103384 TATATAATTGTAT-AAAATCAAAATTTA
1 TATATAATTATATCAAAATCAAAATTTA
90103411 TGTAATGAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
30 17 0.34
31 29 0.58
32 4 0.08
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.38
Consensus pattern (31 bp):
TATATAATTATATCAAAATCAAAATTTAATA
Found at i:90107785 original size:43 final size:43
Alignment explanation
Indices: 90107724--90107809 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
90107714 ATCTCACCAT
90107724 CTTACATTCAATTTGACTTCTCCCCATCAAAGTTTAAAAGTGA
1 CTTACATTCAATTTGACTTCTCCCCATCAAAGTTTAAAAGTGA
90107767 CTTACATTCAATTTGACTTCTCCCCATCAAAGTTTAAAAGTGA
1 CTTACATTCAATTTGACTTCTCCCCATCAAAGTTTAAAAGTGA
90107810 AAACCCCGTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.33, C:0.23, G:0.09, T:0.35
Consensus pattern (43 bp):
CTTACATTCAATTTGACTTCTCCCCATCAAAGTTTAAAAGTGA
Found at i:90114729 original size:255 final size:255
Alignment explanation
Indices: 90114278--90114772 Score: 945
Period size: 255 Copynumber: 1.9 Consensus size: 255
90114268 TAAATATTAC
90114278 TTTTTTGCCTACATCATGGGTGTTCCTTAATCTAATGCCTTAAGAGAAGAGGTGAATCTTACCAT
1 TTTTTTGCCTACATCATGGGTGTTCCTTAATCTAATGCCTTAAGAGAAGAGGTGAATCTTACCAT
*
90114343 GAAAGATTAATGAAAATGGTGGTCAATACCACCACTGCTGATATACATTTTATACTTGGTCTGCA
66 GAAAGATTAATGAAAATGGTGGTCAATACCACCACTGCTGATATACATTTCATACTTGGTCTGCA
90114408 AAATGATTAAGAATAAAAATTAGGTTTAGAAGTAAATACTTGAAACCTAGTGAGATGCATATTTC
131 AAATGATTAAGAATAAAAATTAGGTTTAGAAGTAAATACTTGAAACCTAGTGAGATGCATATTTC
90114473 ATTTTTAGTGCCTTGGCTCTTTGCTATCTTTCTGCTTGATTTAAGTGAGATGCATATTCT
196 ATTTTTAGTGCCTTGGCTCTTTGCTATCTTTCTGCTTGATTTAAGTGAGATGCATATTCT
90114533 TTTTTTGCCTACATCATGGGTGTTCCTTAATCTAATGCCTTAAGAGAAGAGGTGAATCTTACCAT
1 TTTTTTGCCTACATCATGGGTGTTCCTTAATCTAATGCCTTAAGAGAAGAGGTGAATCTTACCAT
* * *
90114598 GAAAGATTAATGAAAATGGTGGTCAATGCCGCCACTGCTGATATGCATTTCATACTTGGTCTGCA
66 GAAAGATTAATGAAAATGGTGGTCAATACCACCACTGCTGATATACATTTCATACTTGGTCTGCA
*
90114663 AAATGATTAAGAATAAAAATTAGGTTTAGAAGTAAATACTTGAAACCTTGTGAGATGCATATTTC
131 AAATGATTAAGAATAAAAATTAGGTTTAGAAGTAAATACTTGAAACCTAGTGAGATGCATATTTC
90114728 ATTTTTAGTGCCTTGGCTCTTTGCTATCTTTCTGCTTGATTTAAG
196 ATTTTTAGTGCCTTGGCTCTTTGCTATCTTTCTGCTTGATTTAAG
90114773 GGTTGTATGT
Statistics
Matches: 235, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
255 235 1.00
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (255 bp):
TTTTTTGCCTACATCATGGGTGTTCCTTAATCTAATGCCTTAAGAGAAGAGGTGAATCTTACCAT
GAAAGATTAATGAAAATGGTGGTCAATACCACCACTGCTGATATACATTTCATACTTGGTCTGCA
AAATGATTAAGAATAAAAATTAGGTTTAGAAGTAAATACTTGAAACCTAGTGAGATGCATATTTC
ATTTTTAGTGCCTTGGCTCTTTGCTATCTTTCTGCTTGATTTAAGTGAGATGCATATTCT
Found at i:90117019 original size:76 final size:76
Alignment explanation
Indices: 90116893--90117126 Score: 459
Period size: 76 Copynumber: 3.1 Consensus size: 76
90116883 GAGCCCATAT
*
90116893 GGTATCATTTTGAACAAATGACGTCTCTTATCCATTTTTGTCAATAAATTCAAGTGCTGTTTCAA
1 GGTATCATTTTGAACAAATGACGTCTCTTATCCATTTTTGTCAATAAATTCAAGTTCTGTTTCAA
90116958 GTACGTTAATA
66 GTACGTTAATA
90116969 GGTATCATTTTGAACAAATGACGTCTCTTATCCATTTTTGTCAATAAATTCAAGTTCTGTTTCAA
1 GGTATCATTTTGAACAAATGACGTCTCTTATCCATTTTTGTCAATAAATTCAAGTTCTGTTTCAA
90117034 GTACGTTAATA
66 GTACGTTAATA
90117045 GGTATCATTTTGAACAAATGACGTCTCTTATCCATTTTTGTCAATAAATTCAAGTTCTGTTTCAA
1 GGTATCATTTTGAACAAATGACGTCTCTTATCCATTTTTGTCAATAAATTCAAGTTCTGTTTCAA
90117110 GTACGTTAATA
66 GTACGTTAATA
90117121 GGTATC
1 GGTATC
90117127 TTATACATGA
Statistics
Matches: 157, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 157 1.00
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (76 bp):
GGTATCATTTTGAACAAATGACGTCTCTTATCCATTTTTGTCAATAAATTCAAGTTCTGTTTCAA
GTACGTTAATA
Found at i:90132533 original size:42 final size:42
Alignment explanation
Indices: 90132486--90132567 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 42
90132476 TGGTTATGTG
* *
90132486 TGATTTCGTGTAAAACCATATCTGAGATATGGCATCGATATT
1 TGATTTCCTGTAAAACCATATCTGAGACATGGCATCGATATT
* * *
90132528 TGATTTCCTGTAAGACCATGTCTGGGACATGGCATCGATA
1 TGATTTCCTGTAAAACCATATCTGAGACATGGCATCGATA
90132568 CGAGACATCG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (42 bp):
TGATTTCCTGTAAAACCATATCTGAGACATGGCATCGATATT
Found at i:90132582 original size:42 final size:42
Alignment explanation
Indices: 90132491--90132584 Score: 98
Period size: 42 Copynumber: 2.2 Consensus size: 42
90132481 ATGTGTGATT
* * *** **
90132491 TCGTGTAAAACCATATCTGAGATATGGCATCGATATTTGATT
1 TCGTGTAAGACCATATCTGAGACATGGCATCGATACGAGACA
* * *
90132533 TCCTGTAAGACCATGTCTGGGACATGGCATCGATACGAGACA
1 TCGTGTAAGACCATATCTGAGACATGGCATCGATACGAGACA
90132575 TCGTGTAAGA
1 TCGTGTAAGA
90132585 GCATTGTTGG
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (42 bp):
TCGTGTAAGACCATATCTGAGACATGGCATCGATACGAGACA
Found at i:90134294 original size:42 final size:42
Alignment explanation
Indices: 90134247--90134338 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
90134237 TGGCCCATAG
* ** *
90134247 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
90134289 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
90134331 GCCCATTT
1 GCCCATTT
90134339 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:90134514 original size:25 final size:25
Alignment explanation
Indices: 90134486--90134543 Score: 91
Period size: 25 Copynumber: 2.3 Consensus size: 25
90134476 CTATTTTAAT
90134486 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
90134511 AACTGGGGCAAAGCCCTTTTCGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
90134536 AATTGGGG
1 AACTGGGG
90134544 TAGATCCCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 27 0.87
26 4 0.13
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:90135426 original size:27 final size:27
Alignment explanation
Indices: 90135365--90135428 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
90135355 GGTGTATTCA
90135365 TCATTTTACCATACAAGGGTATTACGG
1 TCATTTTACCATACAAGGGTATTACGG
* * *
90135392 TCACTTTACCCTACAGGGGCT-TTACGG
1 TCATTTTACCATACAAGGG-TATTACGG
*
90135419 TCTTTTTACC
1 TCATTTTACC
90135429 TATTAGGGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (27 bp):
TCATTTTACCATACAAGGGTATTACGG
Found at i:90135512 original size:27 final size:27
Alignment explanation
Indices: 90135486--90135615 Score: 86
Period size: 27 Copynumber: 4.7 Consensus size: 27
90135476 ATCAACAAAC
90135486 CAAGGGTATTTCAGTAATTTTGTAAA-
1 CAAGGGTATTTCAGTAATTTTGTAAAT
* *
90135512 CTAATGGTATTTCTA-TAGTTTT-TAGAAAGT
1 C-AAGGGTATTTC-AGTAATTTTGT--AAA-T
* **
90135542 CAATGGTATTTTTGTAATTTTGTAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
* ** **
90135569 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
**
90135596 TGAGGGTATTTCAGTAATTT
1 CAAGGGTATTTCAGTAATTT
90135616 CACAAACCAG
Statistics
Matches: 81, Mismatches: 15, Indels: 15
0.73 0.14 0.14
Matches are distributed among these distances:
26 2 0.02
27 54 0.67
28 7 0.09
29 16 0.20
30 2 0.02
ACGTcount: A:0.30, C:0.06, G:0.19, T:0.45
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTTTGTAAAT
Found at i:90135657 original size:81 final size:81
Alignment explanation
Indices: 90135545--90135701 Score: 210
Period size: 81 Copynumber: 1.9 Consensus size: 81
90135535 AGAAAGTCAA
* ** * *
90135545 TGGTATTTTTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTA-CAAATTGAGGGTATTTCA
1 TGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTCTACCAAATAG-GGGTATTTCA
90135609 GTAATTTCACAAACCAG
65 GTAATTTCACAAACCAG
**
90135626 TGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTCTACCCTATAGGGGTATTTCA
1 TGGTATTTTGGTAATTTTACAAATC-AGGGGTATTTTGGTAATTCTACCAAATAGGGGTATTTCA
*
90135690 GTAATTTTACAA
65 GTAATTTCACAA
90135702 TAGAGGGTAA
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
80 1 0.02
81 61 0.92
82 4 0.06
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.42
Consensus pattern (81 bp):
TGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTCTACCAAATAGGGGTATTTCAG
TAATTTCACAAACCAG
Found at i:90135661 original size:27 final size:26
Alignment explanation
Indices: 90135546--90135710 Score: 143
Period size: 27 Copynumber: 6.2 Consensus size: 26
90135536 GAAAGTCAAT
* **
90135546 GGTATTTTTGTAATTTTGTAAATCAGG
1 GGTATTTTGGTAATTTTACAAAT-AGG
*
90135573 GGTATTTTGGTAATTTTACAAATTGAG
1 GGTATTTTGGTAATTTTACAAATAG-G
** * * *
90135600 GGTATTTCAGTAATTTCACAAACCAGT
1 GGTATTTTGGTAATTTTACAAA-TAGG
90135627 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAA-TAGG
* **
90135654 GGTATTTTGGTAATTCTACCCTATAGG
1 GGTATTTTGGTAATTTTA-CAAATAGG
**
90135681 GGTATTTCAGTAATTTTAC-AATAGAG
1 GGTATTTTGGTAATTTTACAAATAG-G
90135707 GGTA
1 GGTA
90135711 AAACAGTAAT
Statistics
Matches: 112, Mismatches: 22, Indels: 9
0.78 0.15 0.06
Matches are distributed among these distances:
25 4 0.04
26 7 0.06
27 98 0.88
28 3 0.03
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (26 bp):
GGTATTTTGGTAATTTTACAAATAGG
Found at i:90135734 original size:27 final size:27
Alignment explanation
Indices: 90135688--90135791 Score: 149
Period size: 27 Copynumber: 3.9 Consensus size: 27
90135678 AGGGGTATTT
*
90135688 CAGTAATT-T-TACAATAGAGGGTAAAA
1 CAGTAATTCTGTA-AATCGAGGGTAAAA
*
90135714 CAGTAATTTTGTAAATCGAGGGTAAAA
1 CAGTAATTCTGTAAATCGAGGGTAAAA
*
90135741 TAGTAATTCTGTAAATCGAGGGTAAAA
1 CAGTAATTCTGTAAATCGAGGGTAAAA
*
90135768 CAGTAATTCTATAAATCGAGGGTA
1 CAGTAATTCTGTAAATCGAGGGTA
90135792 CTTTGGTAAT
Statistics
Matches: 71, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
26 8 0.11
27 61 0.86
28 2 0.03
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.29
Consensus pattern (27 bp):
CAGTAATTCTGTAAATCGAGGGTAAAA
Found at i:90135810 original size:27 final size:27
Alignment explanation
Indices: 90135546--90135826 Score: 131
Period size: 27 Copynumber: 10.4 Consensus size: 27
90135536 GAAAGTCAAT
* **
90135546 GGTATTTTTGTAATTTTGTAAATC-AGG
1 GGTATTTTAGTAATTTTACAAATCGA-G
* *
90135573 GGTATTTTGGTAATTTTACAAATTGAG
1 GGTATTTTAGTAATTTTACAAATCGAG
* * *
90135600 GGTATTTCAGTAATTTCACAAA-CCAG
1 GGTATTTTAGTAATTTTACAAATCGAG
* *
90135626 TGGTATTTTGGTAATTTTACAAA-CTAGG
1 -GGTATTTTAGTAATTTTACAAATCGA-G
* * ** *
90135654 GGTATTTTGGTAATTCTACCCTATAG-G
1 GGTATTTTAGTAATTTTA-CAAATCGAG
* *
90135681 GGTATTTCAGTAATTTTAC-AATAGAG
1 GGTATTTTAGTAATTTTACAAATCGAG
**** **
90135707 GGTAAAACAGTAATTTTGTAAATCGAG
1 GGTATTTTAGTAATTTTACAAATCGAG
*** * **
90135734 GGTAAAATAGTAATTCTGTAAATCGAG
1 GGTATTTTAGTAATTTTACAAATCGAG
**** * *
90135761 GGTAAAACAGTAATTCTATAAATCGAG
1 GGTATTTTAGTAATTTTACAAATCGAG
* * * *
90135788 GGTACTTTGGTAATTTTACAAATTGAA
1 GGTATTTTAGTAATTTTACAAATCGAG
*
90135815 GGTATTTCAGTA
1 GGTATTTTAGTA
90135827 GTTTGGTAAA
Statistics
Matches: 203, Mismatches: 44, Indels: 14
0.78 0.17 0.05
Matches are distributed among these distances:
25 4 0.02
26 18 0.09
27 177 0.87
28 4 0.02
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37
Consensus pattern (27 bp):
GGTATTTTAGTAATTTTACAAATCGAG
Found at i:90135826 original size:54 final size:54
Alignment explanation
Indices: 90135546--90135826 Score: 169
Period size: 54 Copynumber: 5.2 Consensus size: 54
90135536 GAAAGTCAAT
** * *
90135546 GGTATTTTTGTAATTTTGTAAATC-AGGGGTATTTTGGTAATTTTACAAATTGAG
1 GGTATTTCAGTAATTCTATAAATCGA-GGGTATTTTGGTAATTTTACAAATTGAG
* * *
90135600 GGTATTTCAGTAATT-TCACAAA-CCAGTGGTATTTTGGTAATTTTACAAACT-AGG
1 GGTATTTCAGTAATTCT-ATAAATCGAG-GGTATTTTGGTAATTTTACAAATTGA-G
** *** * ** *
90135654 GGTATTTTGGTAATTCTACCCTATAG-GGGTATTTCAGTAATTTTAC-AATAGAG
1 GGTATTTCAGTAATTCTA-TAAATCGAGGGTATTTTGGTAATTTTACAAATTGAG
*** * * *** * * ** *
90135707 GGTAAAACAGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAG
1 GGTATTTCAGTAATTCTATAAATCGAGGGTATTTTGGTAATTTTACAAATTGAG
*** * *
90135761 GGTAAAACAGTAATTCTATAAATCGAGGGTACTTTGGTAATTTTACAAATTGAA
1 GGTATTTCAGTAATTCTATAAATCGAGGGTATTTTGGTAATTTTACAAATTGAG
90135815 GGTATTTCAGTA
1 GGTATTTCAGTA
90135827 GTTTGGTAAA
Statistics
Matches: 169, Mismatches: 48, Indels: 20
0.71 0.20 0.08
Matches are distributed among these distances:
52 3 0.02
53 31 0.18
54 131 0.78
55 4 0.02
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37
Consensus pattern (54 bp):
GGTATTTCAGTAATTCTATAAATCGAGGGTATTTTGGTAATTTTACAAATTGAG
Found at i:90143385 original size:27 final size:27
Alignment explanation
Indices: 90143354--90143531 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
90143344 TAAATTGTAC
90143354 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
90143381 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
90143407 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
90143435 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
90143463 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
90143490 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
90143517 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
90143532 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:90143468 original size:82 final size:81
Alignment explanation
Indices: 90143355--90143510 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
90143345 AAATTGTACA
* *
90143355 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
90143419 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
90143436 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
90143501 TGCGAGTTGA
65 TGCGAATTGA
90143511 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:90143522 original size:82 final size:81
Alignment explanation
Indices: 90143351--90143531 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
90143341 GATTAAATTG
* *
90143351 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
90143416 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
90143432 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
90143496 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
90143514 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
90143532 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:90151444 original size:27 final size:27
Alignment explanation
Indices: 90151413--90151590 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
90151403 TAAATTGTAC
90151413 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
90151440 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
90151466 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
90151494 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
90151522 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
90151549 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
90151576 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
90151591 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:90151527 original size:82 final size:81
Alignment explanation
Indices: 90151414--90151569 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
90151404 AAATTGTACA
* *
90151414 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
90151478 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
90151495 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
90151560 TGCGAGTTGA
65 TGCGAATTGA
90151570 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:90151581 original size:82 final size:81
Alignment explanation
Indices: 90151410--90151590 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
90151400 GATTAAATTG
* *
90151410 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
90151475 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
90151491 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
90151555 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
90151573 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
90151591 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:90155240 original size:15 final size:15
Alignment explanation
Indices: 90155215--90155267 Score: 61
Period size: 15 Copynumber: 3.4 Consensus size: 15
90155205 ATCCAGAATG
90155215 AAATAAAATAAAAATA
1 AAAT-AAATAAAAATA
90155231 AAATAAATAAAAATA
1 AAATAAATAAAAATA
** *
90155246 AATATAACCAATAATA
1 AA-ATAAATAAAAATA
90155262 AAATAA
1 AAATAA
90155268 TTACTCACTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
15 17 0.52
16 16 0.48
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.21
Consensus pattern (15 bp):
AAATAAATAAAAATA
Found at i:90163672 original size:18 final size:19
Alignment explanation
Indices: 90163624--90163691 Score: 102
Period size: 19 Copynumber: 3.6 Consensus size: 19
90163614 ATAATCTTCA
90163624 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
* *
90163643 GTGATATGCAATCTTAAAT
1 ATGATATGCAATCTTAGAT
90163662 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
90163680 ATGATATACAAT
1 ATGATATGCAAT
90163692 ATTAAAAGTT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
18 17 0.40
19 26 0.60
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:90163672 original size:37 final size:38
Alignment explanation
Indices: 90163624--90163697 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 38
90163614 ATAATCTTCA
* * *
90163624 ATGATATGCAATCTTAGATGTGATATGCAATCTTAAAT
1 ATGATATGCAATCTTAGATATGATATACAATATTAAAT
90163662 ATGAT-TGCAATCTTAGATATGATATACAATATTAAA
1 ATGATATGCAATCTTAGATATGATATACAATATTAAA
90163698 AGTTATGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
37 28 0.85
38 5 0.15
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (38 bp):
ATGATATGCAATCTTAGATATGATATACAATATTAAAT
Found at i:90169439 original size:1 final size:1
Alignment explanation
Indices: 90169433--90169519 Score: 66
Period size: 1 Copynumber: 87.0 Consensus size: 1
90169423 CTTCTATTTC
* * ** * * * * * *
90169433 AAAAAAAAAAAAGAAAAAAAAGAAGGAAAAAAAGAAAAGAAAAAGATAAAAAAAAAGAAAAAAGA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
90169498 GAAAAAAGAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAA
90169520 GCAGAGGCCA
Statistics
Matches: 64, Mismatches: 22, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 64 1.00
ACGTcount: A:0.86, C:0.00, G:0.13, T:0.01
Consensus pattern (1 bp):
A
Found at i:90169451 original size:9 final size:9
Alignment explanation
Indices: 90169433--90169519 Score: 81
Period size: 9 Copynumber: 9.2 Consensus size: 9
90169423 CTTCTATTTC
90169433 AAAA-AAAA
1 AAAAGAAAA
90169441 AAAAGAAAA
1 AAAAGAAAA
90169450 AAAAGAAGGAAA
1 AAAAG-A--AAA
90169462 AAAAGAAAAGA
1 AAAAG-AAA-A
90169473 AAAAGATAAA
1 AAAAGA-AAA
90169483 AAAA-AAGAA
1 AAAAGAA-AA
*
90169492 AAAAGAGAA
1 AAAAGAAAA
90169501 AAAAGAAAA
1 AAAAGAAAA
90169510 AAAA-AAAA
1 AAAAGAAAA
90169518 AA
1 AA
90169520 GCAGAGGCCA
Statistics
Matches: 69, Mismatches: 2, Indels: 16
0.79 0.02 0.18
Matches are distributed among these distances:
8 11 0.16
9 30 0.43
10 10 0.14
11 8 0.12
12 10 0.14
ACGTcount: A:0.86, C:0.00, G:0.13, T:0.01
Consensus pattern (9 bp):
AAAAGAAAA
Found at i:90169475 original size:23 final size:22
Alignment explanation
Indices: 90169436--90169520 Score: 88
Period size: 21 Copynumber: 3.9 Consensus size: 22
90169426 CTATTTCAAA
90169436 AAAAAAAAAG-AAAAAAAAGA-
1 AAAAAAAAAGAAAAAAAAAGAT
*
90169456 AGGAAAAAAAGAAAAGAAAAAGAT
1 A-AAAAAAAAGAAAA-AAAAAGAT
*
90169480 AAAAAAAAAG-AAAAAAGAGA-
1 AAAAAAAAAGAAAAAAAAAGAT
*
90169500 AAAAAGAAAAAAAAAAAAAAG
1 AAAAA-AAAAGAAAAAAAAAG
90169521 CAGAGGCCAA
Statistics
Matches: 54, Mismatches: 5, Indels: 10
0.78 0.07 0.14
Matches are distributed among these distances:
20 6 0.11
21 18 0.33
22 14 0.26
23 15 0.28
24 1 0.02
ACGTcount: A:0.85, C:0.00, G:0.14, T:0.01
Consensus pattern (22 bp):
AAAAAAAAAGAAAAAAAAAGAT
Found at i:90169484 original size:32 final size:34
Alignment explanation
Indices: 90169434--90169520 Score: 108
Period size: 32 Copynumber: 2.6 Consensus size: 34
90169424 TTCTATTTCA
* *
90169434 AAAAAAAAAAAGAAAAAAAAGAAGGAAAAAA-AG
1 AAAAAGAAAAAGAAAAAAAAGAAAGAAAAAAGAG
*
90169467 -AAAAGAAAAAGATAAAAAA-AAAGAAAAAAGAG
1 AAAAAGAAAAAGAAAAAAAAGAAAGAAAAAAGAG
*
90169499 AAAAAAGAAAAAAAAAAAAAAG
1 -AAAAAGAAAAAGAAAAAAAAG
90169521 CAGAGGCCAA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
31 9 0.20
32 19 0.42
34 17 0.38
ACGTcount: A:0.85, C:0.00, G:0.14, T:0.01
Consensus pattern (34 bp):
AAAAAGAAAAAGAAAAAAAAGAAAGAAAAAAGAG
Found at i:90170507 original size:43 final size:42
Alignment explanation
Indices: 90170459--90170767 Score: 123
Period size: 43 Copynumber: 7.3 Consensus size: 42
90170449 CGCCTTAATC
90170459 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTTAAA-TTGCAGATCTTATCT
* * * *
90170502 CCCTAAGCAGTAGTGG-AGCAGATTGAAGACT-C--ACCTTAATC-
1 CCCTAAGCAGTAG-GGTAACAGGTT-AA-ATTGCAGATCTT-ATCT
* *
90170543 CCTTAAGCAGTAGGGTAACAGGTT-CA---CAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTTAAATTGCAGATCTTATCT
* * * * * *
90170581 CCCTAAGCAGTAGCGG-AGCAGATCGACGA-TGACTCG-TCTTAAAC-
1 CCCTAAGCAGTAG-GGTAACAGGT-TA-AATTG-C-AGATCTT-ATCT
* *
90170625 CCCTAAGCAGTAGGGTAACAGGCTAAAATTACAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGG-TTAAATTGCAGATCTTATCT
* * * * *
90170668 CCCTAAGCAATAGCAG-AACA-GATCAA-CG-ACGACTCGCCTTAATC-
1 CCCTAAGCAGTAG-GGTAACAGGTTAAATTGCA-GA-T---CTT-ATCT
* *
90170712 CCCTAAGCAGTAGGGTAACAGGTCAAAATTGCGGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGT-TAAATTGCAGATCTTATCT
90170755 CCCTAAGCAGTAG
1 CCCTAAGCAGTAG
90170768 TGGAGCAGAT
Statistics
Matches: 194, Mismatches: 37, Indels: 70
0.64 0.12 0.23
Matches are distributed among these distances:
36 1 0.01
37 3 0.02
38 22 0.11
39 3 0.02
40 4 0.02
41 26 0.13
42 10 0.05
43 61 0.31
44 49 0.25
45 9 0.05
46 3 0.02
47 3 0.02
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.23
Consensus pattern (42 bp):
CCCTAAGCAGTAGGGTAACAGGTTAAATTGCAGATCTTATCT
Found at i:90170593 original size:38 final size:38
Alignment explanation
Indices: 90170459--90170593 Score: 105
Period size: 41 Copynumber: 3.3 Consensus size: 38
90170449 CGCCTTAATC
90170459 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTT-AA----CAGATCTTATCT
* * *
90170502 CCCTAAGCAGTAGTGG-AGCAGATTGA-AGACTCACCTTAATC-
1 CCCTAAGCAGTAG-GGTAACAGGTTAACAGA-T---CTT-ATCT
* *
90170543 CCTTAAGCAGTAGGGTAACAGGTTCACAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTTAACAGATCTTATCT
90170581 CCCTAAGCAGTAG
1 CCCTAAGCAGTAG
90170594 CGGAGCAGAT
Statistics
Matches: 75, Mismatches: 8, Indels: 23
0.71 0.08 0.22
Matches are distributed among these distances:
37 6 0.08
38 16 0.21
40 2 0.03
41 23 0.31
42 7 0.09
43 19 0.25
44 2 0.03
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.26
Consensus pattern (38 bp):
CCCTAAGCAGTAGGGTAACAGGTTAACAGATCTTATCT
Found at i:90170702 original size:87 final size:85
Alignment explanation
Indices: 90170449--90170818 Score: 434
Period size: 87 Copynumber: 4.4 Consensus size: 85
90170439 CAAAATTCAG
* *
90170449 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGG-TAAAATTACAGATCTTATCTCCCTAAGCAGTA
* *
90170514 GTGGAGCAGAT--TGAAGACT
65 GCGGAGCAGATCACGAAGACT
* * *
90170533 CACCTTAATCCCTTAAGCAGTAGGGTAACAGGT----TCACAGATCTTATCTCCCTAAGCAGTAG
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTAAAATTACAGATCTTATCTCCCTAAGCAGTAG
*
90170594 CGGAGCAGATCGACGATGACT
66 CGGAGCAGATC-ACGAAGACT
* * *
90170615 CGTCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAGATCTTATCTCCCTAAGCAATA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGG-TAAAATTACAGATCTTATCTCCCTAAGCAGTA
* * *
90170680 GCAGAACAGATCAACGACGACT
65 GCGGAGCAGATC-ACGAAGACT
* *
90170702 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTCAAAATTGCGGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGT-AAAATTACAGATCTTATCTCCCTAAGCAGTA
*
90170767 GTGGAGCAGAT--CGAAGA-T
65 GCGGAGCAGATCACGAAGACT
* * **
90170785 GCACCTTAACCCCCTAAATAGTAGGGTAACAGGT
1 -CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGT
90170819 TAAAGTATAT
Statistics
Matches: 246, Mismatches: 30, Indels: 20
0.83 0.10 0.07
Matches are distributed among these distances:
79 35 0.14
82 34 0.14
83 3 0.01
84 64 0.26
86 1 0.00
87 109 0.44
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.23
Consensus pattern (85 bp):
CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTAAAATTACAGATCTTATCTCCCTAAGCAGTAG
CGGAGCAGATCACGAAGACT
Found at i:90170732 original size:44 final size:42
Alignment explanation
Indices: 90170535--90170737 Score: 104
Period size: 44 Copynumber: 4.8 Consensus size: 42
90170525 TGAAGACTCA
* *
90170535 CCTTAATCCCTTAAGCAGTAGGGTAACAGGTTC-AC-A-GA-T
1 CCTTAATCCCCTAAGCAGTAGGGTAACA-GATCAACGACGACT
* * *
90170574 -CTT-ATCTCCCTAAGCAGTAGCGG-AGCAGATCGACGATGACT
1 CCTTAATC-CCCTAAGCAGTAG-GGTAACAGATCAACGACGACT
* * * **
90170615 CGTCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAGA-T
1 C--CTTAATCCCCTAAGCAGTAGGGTAACA-GAT-CAACGAC-GACT
* *
90170661 -CTT-ATCTCCCTAAGCAATAGCAG-AACAGATCAACGACGACT
1 CCTTAATC-CCCTAAGCAGTAG-GGTAACAGATCAACGACGACT
*
90170702 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTCAA
1 --CCTTAATCCCCTAAGCAGTAGGGTAACAGATCAA
90170738 AATTGCGGAT
Statistics
Matches: 121, Mismatches: 21, Indels: 39
0.67 0.12 0.22
Matches are distributed among these distances:
37 6 0.05
38 20 0.17
39 3 0.02
40 4 0.03
41 6 0.05
42 4 0.03
43 22 0.18
44 44 0.36
45 7 0.06
46 3 0.02
47 2 0.02
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.22
Consensus pattern (42 bp):
CCTTAATCCCCTAAGCAGTAGGGTAACAGATCAACGACGACT
Found at i:90171305 original size:207 final size:207
Alignment explanation
Indices: 90170947--90171661 Score: 1130
Period size: 207 Copynumber: 3.5 Consensus size: 207
90170937 CGGAGAGCAG
* * * *
90170947 ATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTATGATGAAGCAAATCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
*
90171012 TCTCTGTATTGTCAGAGAACAAATTGAAGTTTGACGTCTCCATATT-AGATGGAGGGCAGACACA
66 TCTCTGTATTGTCAGAGAACAAATTGAAGTTTGGCGTCTCCATATTCA-ATGGAGGGCAGACACA
90171076 TAGCAGATCTGACCTTCAGATGTTTATACTGAAGTAAGATCCAAGATGGTTTGGCATCCTTGTGC
130 TAGCAGATCTGACCTTCAGATGTTTATACTGAAGTAAGATCCAAGATGGTTTGGCATCCTTGTGC
90171141 TTACAAGGAACAA
195 TTACAAGGAACAA
90171154 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
* * * *
90171219 TCTCTCTATTGTCAGAGAACAAATTGATGCTTGGCGTCTCCATATTCAACGGAGGGCAGACACAT
66 TCTCTGTATTGTCAGAGAACAAATTGAAGTTTGGCGTCTCCATATTCAATGGAGGGCAGACACAT
*
90171284 AGCAGATCTGACCTCCAGATGTTTATACTGAAGTAAGATCCAAGATGGTTTGGCATCCTTGTGCT
131 AGCAGATCTGACCTTCAGATGTTTATACTGAAGTAAGATCCAAGATGGTTTGGCATCCTTGTGCT
*
90171349 TACAAGGAAGAA
196 TACAAGGAACAA
90171361 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
* * * * *
90171426 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCATCTCCATATGCGATGGAGGGCAAACACAT
66 TCTCTGTATTGTCAGAGAACAAATTGAAGTTTGGCGTCTCCATATTCAATGGAGGGCAGACACAT
* * * * *
90171491 AGCAGATCTGGCGTTCAGATGTTTATACTGAAGCAAGATCCAAGATGATTTAGCATCCTTGTG-T
131 AGCAGATCTGACCTTCAGATGTTTATACTGAAGTAAGATCCAAGATGGTTTGGCATCCTTGTGCT
* *
90171555 TGACAAGGAGCAG
196 T-ACAAGGAACAA
* * *
90171568 ATTGAAGACATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGC-AGATCTAAGATGATTTGGC
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAG-TCTAAGATGATTTGGC
* *
90171632 ATCTCTGTACTGTCAGAGAACAAATCGAAG
65 ATCTCTGTATTGTCAGAGAACAAATTGAAG
90171662 AAACAGATTT
Statistics
Matches: 472, Mismatches: 33, Indels: 6
0.92 0.06 0.01
Matches are distributed among these distances:
206 4 0.01
207 467 0.99
208 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (207 bp):
ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
TCTCTGTATTGTCAGAGAACAAATTGAAGTTTGGCGTCTCCATATTCAATGGAGGGCAGACACAT
AGCAGATCTGACCTTCAGATGTTTATACTGAAGTAAGATCCAAGATGGTTTGGCATCCTTGTGCT
TACAAGGAACAA
Found at i:90171662 original size:87 final size:88
Alignment explanation
Indices: 90171487--90171674 Score: 192
Period size: 87 Copynumber: 2.2 Consensus size: 88
90171477 GAGGGCAAAC
* *
90171487 ACATAGCAGATCTGGCGTTCAGATGTTTATACTGAAGCAAGATCCAAGATGATTTAGCATCCTTG
1 ACATAGCAGATTTGGCGTTCAGATGTTTACACTGAAGCAAGATCCAAGATGATTTAGCATCCTTG
** * * *
90171552 TGTTGACAAGGAGCAGATTGAAG
66 TACTGACAAGGAACAAATCGAAG
* * * *
90171575 ACATAGCAGATTTGGCTTTCACG-TGTTTACGCTGAAGC-AGATCTAAGATGATTTGGCAT-CTC
1 ACATAGCAGATTTGGCGTTCA-GATGTTTACACTGAAGCAAGATCCAAGATGATTTAGCATCCT-
*
90171637 TGTACTGTC-AGAGAACAAATCGAAG
64 TGTACTGACAAG-GAACAAATCGAAG
90171662 A-A-A-CAGATTTGGC
1 ACATAGCAGATTTGGC
90171675 ATCTCTATAT
Statistics
Matches: 85, Mismatches: 12, Indels: 10
0.79 0.11 0.09
Matches are distributed among these distances:
84 10 0.12
85 1 0.01
86 5 0.06
87 36 0.42
88 32 0.38
89 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (88 bp):
ACATAGCAGATTTGGCGTTCAGATGTTTACACTGAAGCAAGATCCAAGATGATTTAGCATCCTTG
TACTGACAAGGAACAAATCGAAG
Found at i:90171943 original size:44 final size:45
Alignment explanation
Indices: 90171745--90172012 Score: 274
Period size: 45 Copynumber: 5.9 Consensus size: 45
90171735 GATCCAAGAT
*
90171745 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAG--ATAACA
* * * * * * * *
90171792 GATCTGACCT-TCATGTGTTTACATC--GAAGCAGATCCAAGATGACA
1 GATTTGGCATCTC-TGT-ATTAGA-CGGGGAGCAGATCGAAGATAACA
* *
90171837 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGGAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* * * *
90171882 GATTTGGCATCTCTGTATTACATGGGGAGCAGATTGAAGA-AGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* *
90171926 GATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
** * *
90171971 GATTTGGTGTCTCTGTATTAGACAGGGAGCAGATCAAAGATA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATA
90172013 GTAGATATCG
Statistics
Matches: 181, Mismatches: 33, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
43 1 0.01
44 42 0.23
45 107 0.59
46 4 0.02
47 22 0.12
48 4 0.02
49 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.26
Consensus pattern (45 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
Found at i:90171949 original size:89 final size:89
Alignment explanation
Indices: 90171745--90172010 Score: 286
Period size: 89 Copynumber: 2.9 Consensus size: 89
90171735 GATCCAAGAT
* * * * *
90171745 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCT-TCATGTG
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCG--GAGATAACAGATTTGGCATCTC-TGT-
* * * *
90171809 TTTACATCGAAGCAGATCCAAGATGACA
62 ATTACATGGGAGCAGATCCAAGAAGACA
*
90171837 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGGAGATAACAGATTTGGCATCTCTGTATTA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGGAGATAACAGATTTGGCATCTCTGTATTA
**
90171902 CATGGGGAGCAGATTGAAGAAG-CA
66 CAT-GGGAGCAGATCCAAGAAGACA
* ** **
90171926 GATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAACAGATTTGGTGTCTCTGTATTA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGGAGATAACAGATTTGGCATCTCTGTATT-
*
90171991 GACA-GGGAGCAGATCAAAGA
65 -ACATGGGAGCAGATCCAAGA
90172011 TAGTAGATAT
Statistics
Matches: 150, Mismatches: 20, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
89 80 0.53
90 30 0.20
91 5 0.03
92 35 0.23
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (89 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGGAGATAACAGATTTGGCATCTCTGTATTA
CATGGGAGCAGATCCAAGAAGACA
Found at i:90172389 original size:19 final size:19
Alignment explanation
Indices: 90172364--90172452 Score: 139
Period size: 19 Copynumber: 4.8 Consensus size: 19
90172354 ATAATCTTCA
90172364 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
90172383 GTGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
90172402 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
90172419 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
90172437 ATGATATACAATCTTA
1 ATGATATGCAATCTTA
90172453 AAAGATATGA
Statistics
Matches: 64, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
17 16 0.25
18 16 0.25
19 32 0.50
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:90172404 original size:14 final size:15
Alignment explanation
Indices: 90172385--90172440 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 15
90172375 TCTTAGATGT
90172385 GATATG-CAATCTTA
1 GATATGACAATCTTA
90172399 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
90172416 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
90172434 GATATGA
1 GATATGA
90172441 TATACAATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.17
15 1 0.03
17 14 0.39
18 15 0.42
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:90172434 original size:35 final size:37
Alignment explanation
Indices: 90172372--90172452 Score: 130
Period size: 35 Copynumber: 2.2 Consensus size: 37
90172362 CAATGATATG
*
90172372 CAATCTTAGATGTGATATGCAATCTTAGATATG-ATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGAATA
90172408 CAATCTTAGATATGAT-TGCAATCTTAGATATGATATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGA-ATA
90172445 CAATCTTA
1 CAATCTTA
90172453 AAAGATATGA
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
35 16 0.38
36 15 0.36
37 11 0.26
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (37 bp):
CAATCTTAGATATGATATGCAATCTTAGATATGAATA
Found at i:90173663 original size:21 final size:21
Alignment explanation
Indices: 90173615--90173661 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
90173605 ATGAGTATTT
*
90173615 ATGTTTAATGATAGATTATGA
1 ATGTTTGATGATAGATTATGA
90173636 ATGTTTGATGATAG-TTATAGA
1 ATGTTTGATGATAGATTAT-GA
90173657 A-GTTT
1 ATGTTT
90173662 TGTTAAGTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (21 bp):
ATGTTTGATGATAGATTATGA
Found at i:90176601 original size:400 final size:400
Alignment explanation
Indices: 90175861--90176660 Score: 1564
Period size: 400 Copynumber: 2.0 Consensus size: 400
90175851 TTCAGAATTT
90175861 TTTACCCAGCCAATTAGTACAGTTTATTCATTAAAACTTCCCCTCTTTCACTGCCCAACGGTTCT
1 TTTACCCAGCCAATTAGTACAGTTTATTCATTAAAACTTCCCCTCTTTCACTGCCCAACGGTTCT
* *
90175926 GACCCTTCCTCAAAAAAATTCACTTAACTCTCTGTACAAAATTTTAAAAATGGTTTCGCTTGTTT
66 GACCCTTCCTCAAAAAAAATCACTTAACTCTCCGTACAAAATTTTAAAAATGGTTTCGCTTGTTT
90175991 CTATTAAAAATAGAGTCAATAAGGAATCCAGGAATATAAATTTCACACCATAATTATTTTTGTAC
131 CTATTAAAAATAGAGTCAATAAGGAATCCAGGAATATAAATTTCACACCATAATTATTTTTGTAC
90176056 AATTTTTGGTGATTTTCCAAAGTTAGAACAGGGGATCCCGAAATCAATCCAGCCCTGTTTCAGTA
196 AATTTTTGGTGATTTTCCAAAGTTAGAACAGGGGATCCCGAAATCAATCCAGCCCTGTTTCAGTA
90176121 AAATTCAGATATCTCCAAAAATACAACTCTTTTGCTTATTCTATTTATTTCATATGAAAATAGAC
261 AAATTCAGATATCTCCAAAAATACAACTCTTTTGCTTATTCTATTTATTTCATATGAAAATAGAC
90176186 ACATTCAACTTCAATTTCATATATTATTCAGCTTCCCATTCATTTTCCACCATTTATGGTGATTT
326 ACATTCAACTTCAATTTCATATATTATTCAGCTTCCCATTCATTTTCCACCATTTATGGTGATTT
90176251 TTCAAAGTTA
391 TTCAAAGTTA
*
90176261 TTTACCCAGCCAATTAGTACAGTTTATTCATTAAAACTTCCCCTGTTTCACTGCCCAACGGTTCT
1 TTTACCCAGCCAATTAGTACAGTTTATTCATTAAAACTTCCCCTCTTTCACTGCCCAACGGTTCT
90176326 GACCCTTCCTCAAAAAAAATCACTTAACTCTCCGTACAAAATTTTAAAAATGGTTTCGCTTGTTT
66 GACCCTTCCTCAAAAAAAATCACTTAACTCTCCGTACAAAATTTTAAAAATGGTTTCGCTTGTTT
90176391 CTATTAAAAATAGAGTCAATAAGGAATCCAGGAATATAAATTTCACACCATAATTATTTTTGTAC
131 CTATTAAAAATAGAGTCAATAAGGAATCCAGGAATATAAATTTCACACCATAATTATTTTTGTAC
90176456 AATTTTTGGTGATTTTCCAAAGTTAGAACAGGGGATCCCGAAATCAATCCAGCCCTGTTTCAGTA
196 AATTTTTGGTGATTTTCCAAAGTTAGAACAGGGGATCCCGAAATCAATCCAGCCCTGTTTCAGTA
90176521 AAATTCAGATATCTCCAAAAATACAACTCTTTTGCTTATTCTATTTATTTCATATGAAAATAGAC
261 AAATTCAGATATCTCCAAAAATACAACTCTTTTGCTTATTCTATTTATTTCATATGAAAATAGAC
*
90176586 ACATTCAGCTTCAATTTCATATATTATTCAGCTTCCCATTCATTTTCCACCATTTATGGTGATTT
326 ACATTCAACTTCAATTTCATATATTATTCAGCTTCCCATTCATTTTCCACCATTTATGGTGATTT
90176651 TTCAAAGTTA
391 TTCAAAGTTA
90176661 CCCATCTGCT
Statistics
Matches: 396, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
400 396 1.00
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (400 bp):
TTTACCCAGCCAATTAGTACAGTTTATTCATTAAAACTTCCCCTCTTTCACTGCCCAACGGTTCT
GACCCTTCCTCAAAAAAAATCACTTAACTCTCCGTACAAAATTTTAAAAATGGTTTCGCTTGTTT
CTATTAAAAATAGAGTCAATAAGGAATCCAGGAATATAAATTTCACACCATAATTATTTTTGTAC
AATTTTTGGTGATTTTCCAAAGTTAGAACAGGGGATCCCGAAATCAATCCAGCCCTGTTTCAGTA
AAATTCAGATATCTCCAAAAATACAACTCTTTTGCTTATTCTATTTATTTCATATGAAAATAGAC
ACATTCAACTTCAATTTCATATATTATTCAGCTTCCCATTCATTTTCCACCATTTATGGTGATTT
TTCAAAGTTA
Found at i:90177029 original size:103 final size:104
Alignment explanation
Indices: 90176850--90177114 Score: 408
Period size: 103 Copynumber: 2.6 Consensus size: 104
90176840 AACCGTTATT
* * * *
90176850 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
* ** *
90176915 ATCAGCACATAGTAACCCCCTTT-TTATTTCAGAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
90176953 GGTGGATATCGCACTTAGCACCACCAATGAA-CTGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 GGTGGATATCGCACTTAGCACCACCAATGAATC-GGGGAATCAGCACTTAGCAACCCCTCGGGGG
90177017 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
65 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* **
90177057 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
90177115 TTATGTACAA
Statistics
Matches: 148, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
102 1 0.01
103 81 0.55
104 65 0.44
105 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (104 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
Found at i:90183930 original size:26 final size:26
Alignment explanation
Indices: 90183894--90183945 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
90183884 CACCACTGAA
* *
90183894 TCGGGGAATCATCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
90183920 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
90183946 CTTTTTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.21, T:0.15
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:90184456 original size:29 final size:28
Alignment explanation
Indices: 90184423--90184485 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 28
90184413 TAATCCACCA
*
90184423 CCCAACTTTTTGAAAATTACAATTTTGCC
1 CCCAAC-TTTTCAAAATTACAATTTTGCC
* * *
90184452 CCCAAACTTTTCATAATTACACTTTTGTC
1 CCC-AACTTTTCAAAATTACAATTTTGCC
90184481 CCCAA
1 CCCAA
90184486 GCTCGGAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 2 0.07
29 24 0.83
30 3 0.10
ACGTcount: A:0.30, C:0.29, G:0.05, T:0.37
Consensus pattern (28 bp):
CCCAACTTTTCAAAATTACAATTTTGCC
Found at i:90184460 original size:30 final size:29
Alignment explanation
Indices: 90184430--90184485 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
90184420 CCACCCAACT
*
90184430 TTTTGAAAATTACAATTTTGCCCCCAAAC
1 TTTTCAAAATTACAATTTTGCCCCCAAAC
* * *
90184459 TTTTCATAATTACACTTTTGTCCCCAA
1 TTTTCAAAATTACAATTTTGCCCCCAA
90184486 GCTCGGAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.39
Consensus pattern (29 bp):
TTTTCAAAATTACAATTTTGCCCCCAAAC
Found at i:90185725 original size:16 final size:16
Alignment explanation
Indices: 90185704--90185734 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
90185694 ATATATTTTC
*
90185704 ATTTGCATCATATATA
1 ATTTGCATCACATATA
90185720 ATTTGCATCACATAT
1 ATTTGCATCACATAT
90185735 CAAATAACCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.16, G:0.06, T:0.42
Consensus pattern (16 bp):
ATTTGCATCACATATA
Found at i:90186806 original size:29 final size:29
Alignment explanation
Indices: 90186764--90186820 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
90186754 GTCTAGTTTC
*
90186764 AAATGAAATCAACGATAACATATTTTGAG
1 AAATGAAATCAACGAGAACATATTTTGAG
90186793 AAATGAAATCAACGAGAACATATTTTGA
1 AAATGAAATCAACGAGAACATATTTTGA
90186821 CTTCTGTACA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.49, C:0.11, G:0.14, T:0.26
Consensus pattern (29 bp):
AAATGAAATCAACGAGAACATATTTTGAG
Found at i:90187705 original size:38 final size:39
Alignment explanation
Indices: 90187644--90187802 Score: 200
Period size: 38 Copynumber: 4.1 Consensus size: 39
90187634 ATTTGATGTG
* *
90187644 TATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTGGAATTA
1 TATCCGGG-TTAAAGTCCCGCAGGCT-TCGTGCTGGAATTA
90187684 TATCCGGGTTAAA-TCCCGCAGGCTTCGTGCTGGTAA-TA
1 TATCCGGGTTAAAGTCCCGCAGGCTTCGTGCTGG-AATTA
* *
90187722 TATCCGGGTTAAA-TCCCGCAGGCTTCGTGCTAGTATTA
1 TATCCGGGTTAAAGTCCCGCAGGCTTCGTGCTGGAATTA
* * *
90187760 TATCCGGGTTAAAGTCCCGCAGGCCTAGTGCTGGTATTA
1 TATCCGGGTTAAAGTCCCGCAGGCTTCGTGCTGGAATTA
90187799 TATC
1 TATC
90187803 TGAACTTAAA
Statistics
Matches: 108, Mismatches: 7, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
37 2 0.02
38 65 0.60
39 33 0.31
40 8 0.07
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (39 bp):
TATCCGGGTTAAAGTCCCGCAGGCTTCGTGCTGGAATTA
Found at i:90188237 original size:39 final size:39
Alignment explanation
Indices: 90188183--90188273 Score: 164
Period size: 39 Copynumber: 2.3 Consensus size: 39
90188173 TATATACATA
* *
90188183 TATATTCAGCCAATAGGCTTTTTACTTGGTGTACTTGTG
1 TATATTCGGCCAATAGGCTTTTTAATTGGTGTACTTGTG
90188222 TATATTCGGCCAATAGGCTTTTTAATTGGTGTACTTGTG
1 TATATTCGGCCAATAGGCTTTTTAATTGGTGTACTTGTG
90188261 TATATTCGGCCAA
1 TATATTCGGCCAA
90188274 GTGATTTGTA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 50 1.00
ACGTcount: A:0.22, C:0.15, G:0.21, T:0.42
Consensus pattern (39 bp):
TATATTCGGCCAATAGGCTTTTTAATTGGTGTACTTGTG
Found at i:90189006 original size:43 final size:43
Alignment explanation
Indices: 90188866--90189017 Score: 200
Period size: 43 Copynumber: 3.6 Consensus size: 43
90188856 AACGTCCCAC
* * *
90188866 ACATGGTCTTACATGTAATCACATATCGATGCCATTGTCCCAG
1 ACATGGTCTTACACGTAATCACATATCGATGCCAATGTCCTAG
* * *
90188909 ACAGGGTCTTACAC-TAATCAAATA-CGATGCCGATGTCCTAG
1 ACATGGTCTTACACGTAATCACATATCGATGCCAATGTCCTAG
* *
90188950 ACATGGTCTTACACGTAATCACATATCGATGCCAACGTACTAG
1 ACATGGTCTTACACGTAATCACATATCGATGCCAATGTCCTAG
* *
90188993 ACATGGTCTTACACGAAAACACATA
1 ACATGGTCTTACACGTAATCACATA
90189018 CCGAAAATCC
Statistics
Matches: 94, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
41 27 0.29
42 18 0.19
43 49 0.52
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (43 bp):
ACATGGTCTTACACGTAATCACATATCGATGCCAATGTCCTAG
Found at i:90190723 original size:48 final size:48
Alignment explanation
Indices: 90190649--90190941 Score: 237
Period size: 48 Copynumber: 5.9 Consensus size: 48
90190639 CATTAGGGAA
* * *
90190649 TTCATTGATTTTGCTTCGGGCCATGATATCGGCACTTTGGGTGCGAGC
1 TTCATTGATTTGGCTTCGGGCCATGATATCGACACTTCGGGTGCGAGC
* * * *
90190697 TTTATTGATTTGGCTTTGGGCCATGATATTGACAATTCGGGTGCGAGCTCACCCGAGC
1 TTCATTGATTTGGCTTCGGGCCATGATATCGACACTTCGGGT----G------CGAGC
* * *
90190755 TTAATTGATTTGGCTTCGGGCCATGATATCGGCACTTCGGGTGTGAGC
1 TTCATTGATTTGGCTTCGGGCCATGATATCGACACTTCGGGTGCGAGC
**** * *
90190803 TTCATTGATTTGGCTTTTTTCCATGATATC-AGCACTTCAGGTGCAAGC
1 TTCATTGATTTGGCTTCGGGCCATGATATCGA-CACTTCGGGTGCGAGC
* ** * * * *
90190851 TTCATGGATTTGGCTTCAAGCTAGGATATCGATACTTCAGGTGCGAGC
1 TTCATTGATTTGGCTTCGGGCCATGATATCGACACTTCGGGTGCGAGC
* * * *
90190899 TTCATTGATTTGACTTTGGGCCATGATATTGACACTTAGGGTG
1 TTCATTGATTTGGCTTCGGGCCATGATATCGACACTTCGGGTG
90190942 AGATACCCCC
Statistics
Matches: 191, Mismatches: 42, Indels: 24
0.74 0.16 0.09
Matches are distributed among these distances:
48 146 0.76
49 1 0.01
52 1 0.01
54 1 0.01
58 42 0.22
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.35
Consensus pattern (48 bp):
TTCATTGATTTGGCTTCGGGCCATGATATCGACACTTCGGGTGCGAGC
Found at i:90190782 original size:58 final size:58
Alignment explanation
Indices: 90190692--90190803 Score: 170
Period size: 58 Copynumber: 1.9 Consensus size: 58
90190682 ACTTTGGGTG
* * *
90190692 CGAGCTTTATTGATTTGGCTTTGGGCCATGATATTGACAATTCGGGTGCGAGCTCACC
1 CGAGCTTAATTGATTTGGCTTCGGGCCATGATATCGACAATTCGGGTGCGAGCTCACC
* * *
90190750 CGAGCTTAATTGATTTGGCTTCGGGCCATGATATCGGCACTTCGGGTGTGAGCT
1 CGAGCTTAATTGATTTGGCTTCGGGCCATGATATCGACAATTCGGGTGCGAGCT
90190804 TCATTGATTT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
58 48 1.00
ACGTcount: A:0.18, C:0.21, G:0.29, T:0.32
Consensus pattern (58 bp):
CGAGCTTAATTGATTTGGCTTCGGGCCATGATATCGACAATTCGGGTGCGAGCTCACC
Found at i:90190846 original size:106 final size:106
Alignment explanation
Indices: 90190652--90190851 Score: 285
Period size: 106 Copynumber: 1.9 Consensus size: 106
90190642 TAGGGAATTC
* * *
90190652 ATTGATTTTGCTTCGGGCCATGATATCGGCACTTTGGGTGCGAGCTTTATTGATTTGGCTTTGGG
1 ATTGATTTGGCTTCGGGCCATGATATCGGCACTTCGGGTGCGAGCTTCATTGATTTGGCTTTGGG
* * *
90190717 CCATGATATTGACAATTCGGGTGCGAGCTCACCCGAGCTTA
66 CCATGATATAGACAATTCAGGTGCAAGCTCACCCGAGCTTA
* ***
90190758 ATTGATTTGGCTTCGGGCCATGATATCGGCACTTCGGGTGTGAGCTTCATTGATTTGGCTTTTTT
1 ATTGATTTGGCTTCGGGCCATGATATCGGCACTTCGGGTGCGAGCTTCATTGATTTGGCTTTGGG
*
90190823 CCATGATATCAG-CACTTCAGGTGCAAGCT
66 CCATGATAT-AGACAATTCAGGTGCAAGCT
90190852 TCATGGATTT
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
106 81 0.99
107 1 0.01
ACGTcount: A:0.18, C:0.20, G:0.27, T:0.35
Consensus pattern (106 bp):
ATTGATTTGGCTTCGGGCCATGATATCGGCACTTCGGGTGCGAGCTTCATTGATTTGGCTTTGGG
CCATGATATAGACAATTCAGGTGCAAGCTCACCCGAGCTTA
Found at i:90192235 original size:12 final size:12
Alignment explanation
Indices: 90192218--90192242 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
90192208 TATTTTGCAT
90192218 GAACTTAGATTA
1 GAACTTAGATTA
90192230 GAACTTAGATTA
1 GAACTTAGATTA
90192242 G
1 G
90192243 TTGTAAGGAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.20, T:0.32
Consensus pattern (12 bp):
GAACTTAGATTA
Found at i:90207986 original size:42 final size:44
Alignment explanation
Indices: 90207889--90208041 Score: 131
Period size: 43 Copynumber: 3.6 Consensus size: 44
90207879 GTACAATGTC
* *
90207889 GATGTCCCAAAC-GTGGTCTTACATGTAATTCAATATCGATGCCT
1 GATGTCCCAGACAG-GGTCTTACATGTAAATCAATATCGATGCCT
* *
90207933 -CTGTCTCAGACAGGGTCTTACATG-AAATCATATAT-GATG-CT
1 GATGTCCCAGACAGGGTCTTACATGTAAATCA-ATATCGATGCCT
* * * * *
90207974 GATGTCCCAGACATGGTCTTATACGTAAATCTCA-ATCGAGGCCT
1 GATGTCCCAGACAGGGTCTTACATGTAAATC-AATATCGATGCCT
**
90208018 -ATGTCCCAGACACAGTCTTACATG
1 GATGTCCCAGACAGGGTCTTACATG
90208042 ATGTCACAGA
Statistics
Matches: 87, Mismatches: 15, Indels: 15
0.74 0.13 0.13
Matches are distributed among these distances:
41 2 0.02
42 30 0.34
43 52 0.60
44 3 0.03
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (44 bp):
GATGTCCCAGACAGGGTCTTACATGTAAATCAATATCGATGCCT
Found at i:90211863 original size:23 final size:25
Alignment explanation
Indices: 90211813--90211863 Score: 61
Period size: 23 Copynumber: 2.1 Consensus size: 25
90211803 TTTGTGACTC
* *
90211813 AATTAGTTTAGTAATTATTTTCTAT
1 AATTAATTTAGTAATTAGTTTCTAT
*
90211838 AATTAATTTA-TAA-TAGTTTCTCT
1 AATTAATTTAGTAATTAGTTTCTAT
90211861 AAT
1 AAT
90211864 CTGTAATCCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 11 0.48
24 3 0.13
25 9 0.39
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.53
Consensus pattern (25 bp):
AATTAATTTAGTAATTAGTTTCTAT
Found at i:90212389 original size:45 final size:46
Alignment explanation
Indices: 90212218--90212391 Score: 140
Period size: 45 Copynumber: 3.8 Consensus size: 46
90212208 ACGAGCCCGC
** * * *
90212218 CATATATATGAATCATTTTCTATGAA-TCTATATGAACGAGT-T-CA
1 CATATATATGAATCATTTTCTATGAATTC-GCATGTATGAATCTGCA
* * **
90212262 CCATATATATGAATCGTTTTCTATGAATTTGCACATATGAATCTGCTA
1 -CATATATATGAATCATTTTCTATGAATTCGCATGTATGAATCTGC-A
* * * *
90212310 TATATATATGAATAATTTTCTATGAGTTCACATGTATGAATCTGC-
1 CATATATATGAATCATTTTCTATGAATTCGCATGTATGAATCTGCA
* * * *
90212355 CATGTCTATGAATCTTTTTCTATGAATACGCATGTAT
1 CATATATATGAATCATTTTCTATGAATTCGCATGTAT
90212392 AAGCCCATTA
Statistics
Matches: 100, Mismatches: 25, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
45 59 0.59
46 2 0.02
47 38 0.38
48 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.41
Consensus pattern (46 bp):
CATATATATGAATCATTTTCTATGAATTCGCATGTATGAATCTGCA
Found at i:90214454 original size:40 final size:41
Alignment explanation
Indices: 90214410--90214508 Score: 130
Period size: 40 Copynumber: 2.4 Consensus size: 41
90214400 ACTAGAGTGT
* * * *
90214410 AAACAGGGGCACATATGTGCTATTCAG-GGG-ACCGAAGTAC
1 AAACAGGGGCACGTATGTGCAATT-AGAGGGTACCAAAGAAC
90214450 AAACAGGGGCACGTATGTGCAATTAGAGGGTACCAAAGAAC
1 AAACAGGGGCACGTATGTGCAATTAGAGGGTACCAAAGAAC
*
90214491 AAATAGGGGCACGTATGT
1 AAACAGGGGCACGTATGT
90214509 TGAATTCAGG
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
39 2 0.04
40 25 0.48
41 25 0.48
ACGTcount: A:0.35, C:0.17, G:0.30, T:0.17
Consensus pattern (41 bp):
AAACAGGGGCACGTATGTGCAATTAGAGGGTACCAAAGAAC
Found at i:90214501 original size:41 final size:40
Alignment explanation
Indices: 90214410--90214519 Score: 134
Period size: 41 Copynumber: 2.7 Consensus size: 40
90214400 ACTAGAGTGT
* * * *
90214410 AAACAGGGGCACATATGTGCTATTCAGGGGACCGAAGTAC
1 AAACAGGGGCACGTATGTGCAATTCAGGGGACCAAAGAAC
90214450 AAACAGGGGCACGTATGTGCAATT-AGAGGGTACCAAAGAAC
1 AAACAGGGGCACGTATGTGCAATTCAG-GGG-ACCAAAGAAC
*
90214491 AAATAGGGGCACGTATGTTG-AATTCAGGG
1 AAACAGGGGCACGTATG-TGCAATTCAGGG
90214520 TATAATTAAT
Statistics
Matches: 61, Mismatches: 5, Indels: 7
0.84 0.07 0.10
Matches are distributed among these distances:
39 2 0.03
40 25 0.41
41 30 0.49
42 4 0.07
ACGTcount: A:0.35, C:0.16, G:0.31, T:0.18
Consensus pattern (40 bp):
AAACAGGGGCACGTATGTGCAATTCAGGGGACCAAAGAAC
Found at i:90216607 original size:44 final size:44
Alignment explanation
Indices: 90216544--90216632 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
90216534 AATTTCAATT
* *
90216544 CCATCATTTTGTCCCTTATATGGGCTTACGAGGCCCGAAGCATA
1 CCATCATTTTGTCCATTATATAGGCTTACGAGGCCCGAAGCATA
90216588 CCATCATTTTGTCCATTATATAGGCTTACGAGGCCCGAAGCATA
1 CCATCATTTTGTCCATTATATAGGCTTACGAGGCCCGAAGCATA
90216632 C
1 C
90216633 ATTTGAAGTG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (44 bp):
CCATCATTTTGTCCATTATATAGGCTTACGAGGCCCGAAGCATA
Found at i:90220319 original size:60 final size:60
Alignment explanation
Indices: 90220241--90220377 Score: 172
Period size: 60 Copynumber: 2.3 Consensus size: 60
90220231 CAGTGTTAAC
* *
90220241 TGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCC-CTTAC-AGTATC-AGAGTATAT
1 TGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAG--TCGAGA-TATAT
* *
90220302 TGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACAAGTCGAGATATAT
1 TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGTCGAGATATAT
*
90220362 TGGGCCTTGCCCATAT
1 TGGGCCTAGCCCATAT
90220378 TAACACAGTT
Statistics
Matches: 68, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
60 53 0.78
61 13 0.19
62 2 0.03
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (60 bp):
TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGTCGAGATATAT
Found at i:90220341 original size:28 final size:27
Alignment explanation
Indices: 90220240--90220341 Score: 80
Period size: 28 Copynumber: 3.5 Consensus size: 27
90220230 TCAGTGTTAA
* *
90220240 CTGGGCCTTAGCCCATATCAATATTAAT
1 CTGGGCC-TAGCCCATATCAGTATCAAT
*
90220268 CTGGGCCATAGCCCCT-TACAGTATCAGAGTAT
1 CTGGGCC-TAGCCCATAT-CAGTATC--A--AT
*
90220300 ATTGGGCCTAGCCCATATCAGTATCAAT
1 -CTGGGCCTAGCCCATATCAGTATCAAT
90220328 CTGGGCCGTAGCCC
1 CTGGGCC-TAGCCC
90220342 TATTACAAGT
Statistics
Matches: 59, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
27 7 0.12
28 27 0.46
30 2 0.03
32 16 0.27
33 7 0.12
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (27 bp):
CTGGGCCTAGCCCATATCAGTATCAAT
Found at i:90220395 original size:20 final size:20
Alignment explanation
Indices: 90220370--90220415 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
90220360 ATTGGGCCTT
90220370 GCCCATATT-AACACAGTTGG
1 GCCCATATTCAACACAGTT-G
*
90220390 GCCCAT-TTCAATACAGTTG
1 GCCCATATTCAACACAGTTG
90220409 GCCCATA
1 GCCCATA
90220416 ACAATACAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Found at i:90220413 original size:19 final size:20
Alignment explanation
Indices: 90220382--90220425 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
90220372 CCATATTAAC
**
90220382 ACAGTTGGGCCCATTTCAAT
1 ACAGTTGGGCCCATAACAAT
90220402 ACAGTT-GGCCCATAACAAT
1 ACAGTTGGGCCCATAACAAT
90220421 ACAGT
1 ACAGT
90220426 CTCATATGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (20 bp):
ACAGTTGGGCCCATAACAAT
Found at i:90226048 original size:27 final size:27
Alignment explanation
Indices: 90226017--90226194 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
90226007 TAAATTGTAC
90226017 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
90226044 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
90226070 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
90226098 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
90226126 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
90226153 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
90226180 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
90226195 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:90226131 original size:82 final size:81
Alignment explanation
Indices: 90226018--90226173 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
90226008 AAATTGTACA
* *
90226018 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
90226082 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
90226099 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
90226164 TGCGAGTTGA
65 TGCGAATTGA
90226174 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:90226185 original size:82 final size:81
Alignment explanation
Indices: 90226014--90226194 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
90226004 GATTAAATTG
* *
90226014 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
90226079 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
90226095 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
90226159 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
90226177 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
90226195 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:90234946 original size:38 final size:38
Alignment explanation
Indices: 90234898--90235289 Score: 613
Period size: 38 Copynumber: 10.3 Consensus size: 38
90234888 GGCACGAAGG
* * * *
90234898 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
90234936 CTCGGATATAATACCAGCACGAAGTCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
** * *
90234974 CCCGGATATTTTACCAACACGAAGCCTGCGGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG-ATTTAA
* *
90235013 GCCCAGATATAATACCAGCACGAAGCCTGCGGGGTTTAA
1 -CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
90235052 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
90235090 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
90235128 TCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
90235166 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
90235204 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
90235242 CTCGGATATAATACCAGCACAAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
90235280 CCCGAATATA
1 CCCGGATATA
90235290 CATCGAATAT
Statistics
Matches: 325, Mismatches: 27, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
38 287 0.88
39 10 0.03
40 28 0.09
ACGTcount: A:0.31, C:0.26, G:0.23, T:0.21
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:90242046 original size:43 final size:43
Alignment explanation
Indices: 90241941--90242055 Score: 117
Period size: 43 Copynumber: 2.7 Consensus size: 43
90241931 GTATCCCGAA
* * *
90241941 TATGATCTTACATGTTATCACATAGCGATGCCAACAGCCCAGC
1 TATGGTCTTACATGTAATCACATAACGATGCCAACAGCCCAGC
*** * * *
90241984 TATGGTCTTACACAAAATCAAATAATGATGCCAA-TGTCCCAGAC
1 TATGGTCTTACATGTAATCACATAACGATGCCAACAG-CCCAG-C
90242028 -ATGGTCTTACATGTAATCACATAACGAT
1 TATGGTCTTACATGTAATCACATAACGAT
90242056 AATCCTAATT
Statistics
Matches: 56, Mismatches: 14, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
42 1 0.02
43 54 0.96
44 1 0.02
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (43 bp):
TATGGTCTTACATGTAATCACATAACGATGCCAACAGCCCAGC
Found at i:90244315 original size:42 final size:43
Alignment explanation
Indices: 90244255--90244336 Score: 105
Period size: 42 Copynumber: 1.9 Consensus size: 43
90244245 ATGGTTTACA
*
90244255 TGTAAGACCAGGTCTGGGAC-GTTGGCATC-GTATTTGATTTTG
1 TGTAAGACCAGGTCTGGGACAG-TGGCATCAATATTTGATTTTG
** *
90244297 TGTAAGACCCTGTTTGGGACAGTGGCATCAATATTTGATT
1 TGTAAGACCAGGTCTGGGACAGTGGCATCAATATTTGATT
90244337 ACACGTAACA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
42 24 0.71
43 10 0.29
ACGTcount: A:0.22, C:0.15, G:0.28, T:0.35
Consensus pattern (43 bp):
TGTAAGACCAGGTCTGGGACAGTGGCATCAATATTTGATTTTG
Found at i:90246670 original size:32 final size:32
Alignment explanation
Indices: 90246629--90246692 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
90246619 TTAATGGGTA
*
90246629 AGTAAAGGTTAATGGCAAGGTATGTATACAAT
1 AGTAAAGGTTAATGGAAAGGTATGTATACAAT
90246661 AGTAAAGGTTAATGGAAAGGTATGTATACAAT
1 AGTAAAGGTTAATGGAAAGGTATGTATACAAT
90246693 TTTATAATTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.42, C:0.05, G:0.25, T:0.28
Consensus pattern (32 bp):
AGTAAAGGTTAATGGAAAGGTATGTATACAAT
Found at i:90249699 original size:46 final size:48
Alignment explanation
Indices: 90249544--90249915 Score: 277
Period size: 46 Copynumber: 7.9 Consensus size: 48
90249534 TGGGTCATAT
* * * * **
90249544 ATGTGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCACATT
1 ATGTAAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAAG
* * **
90249590 ATG-AGAGCCAGTGTAAGATCATGTCTGGGACATGGCATCGGCATTGAG
1 ATGTA-AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAAG
* * *
90249638 ACGAAAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCAAG
1 ATGTAAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAAG
* * *
90249684 ACGTAAGCCAATGTAAGA-CATGTCTGGGACAT-GCATCGG-CTACGAG
1 ATGTAAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CAAG
* * * * *
90249730 ATGT--GTCAGTGTAAGACCATGTCTAGGACATGGCATCAGCAC-AAAT
1 ATGTAAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCAAG
* * * * *
90249776 ATGTGAGAGCCAATGTAAGACCTTGTCTAGGACATGGCGTCGGCCTCGATG
1 ATGT-A-AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC-AAG
* * * * * * *
90249827 ATG-ATAGTCAATGTAAGACCATGTTTGGGACATGGCATCGACTTGAGAT
1 ATGTA-AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCA-AG
90249876 ATGT--GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 ATGTAAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
90249916 ACCTTACCCA
Statistics
Matches: 260, Mismatches: 49, Indels: 33
0.76 0.14 0.10
Matches are distributed among these distances:
44 10 0.04
45 15 0.06
46 79 0.30
47 60 0.23
48 23 0.09
49 38 0.15
50 31 0.12
51 4 0.02
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (48 bp):
ATGTAAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAAG
Found at i:90249790 original size:94 final size:94
Alignment explanation
Indices: 90249553--90249915 Score: 313
Period size: 94 Copynumber: 3.9 Consensus size: 94
90249543 TATGTGAGCT
* * * *
90249553 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAT-TATGAGAGCCAGTGTAAGATCATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAAATATGTGAGAGCCAATGTAAGACCATGTCTG
* * *
90249617 GGACATGGCATCGGC-ATTGAGACGAAAG-C
66 GGACATGGCATCGGCTA-CGAGATG-ATGTC
* * * *
90249646 TAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGACGT-A-AGCCAATGTAAGA-CATGTC
1 -AGTGTAAGACATGTCTGGGACATGCATCAGCC-AAATATGTGAGAGCCAATGTAAGACCATGTC
90249708 TGGGACAT-GCATCGGCTACGAGATG-TGTC
64 TGGGACATGGCATCGGCTACGAGATGATGTC
* *
90249737 AGTGTAAGACCATGTCTAGGACATGGCATCAGCACAAATATGTGAGAGCCAATGTAAGACCTTGT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGC-CAAATATGTGAGAGCCAATGTAAGACCATGT
* *
90249802 CTAGGACATGGCGTCGGCCT-CGATGATGATAGTC
63 CTGGGACATGGCATCGG-CTACGA-GATGAT-GTC
* * * * *
90249836 AATGTAAGACCATGTTTGGGACATGGCATC-GACTTGAGATATGT----GCCAGTGTAAGACCAT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAG-C--CAAATATGTGAGAGCCAATGTAAGACCAT
90249896 GTCTGGGACATGGCATCGGC
61 GTCTGGGACATGGCATCGGC
90249916 ACCTTACCCA
Statistics
Matches: 224, Mismatches: 28, Indels: 33
0.79 0.10 0.12
Matches are distributed among these distances:
90 10 0.04
91 14 0.06
92 25 0.11
93 17 0.08
94 56 0.25
95 15 0.07
96 41 0.18
97 6 0.03
98 2 0.01
99 31 0.14
100 7 0.03
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCAAATATGTGAGAGCCAATGTAAGACCATGTCTG
GGACATGGCATCGGCTACGAGATGATGTC
Found at i:90256816 original size:47 final size:46
Alignment explanation
Indices: 90256744--90256915 Score: 183
Period size: 47 Copynumber: 3.7 Consensus size: 46
90256734 TCAGGTATAT
90256744 GAGCTAGTGTAAGA-CATGTCTGGGACATGGCATCGGCATTGAGATAA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TTGAGAT-A
* * **
90256791 GAGCTAGTGTAAGA-CATGTCCGGGACAT-GCACCGGCTACAAGAT-
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCT-TGAGATA
* * *
90256835 GTG-TCAGTGTAAGACCATATCTGGGACATGGCATCGACTTGAGATA
1 GAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGAGATA
* *
90256881 TGCGCAAGTGTAAGACCATGTCTGGGACATGGCAT
1 -GAGCTAGTGTAAGACCATGTCTGGGACATGGCAT
90256916 TGGCACCTTA
Statistics
Matches: 104, Mismatches: 14, Indels: 14
0.79 0.11 0.11
Matches are distributed among these distances:
43 1 0.01
44 11 0.11
45 17 0.16
46 18 0.17
47 57 0.55
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (46 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGAGATA
Found at i:90257967 original size:21 final size:21
Alignment explanation
Indices: 90257943--90257988 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
90257933 TGTGGGACAT
90257943 GGGCATGTTACCCTTCCACAC
1 GGGCATGTTACCCTTCCACAC
*
90257964 GGGCATGTTGCCCTTCCACAC
1 GGGCATGTTACCCTTCCACAC
90257985 GGGC
1 GGGC
90257989 GTGTGACCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.15, C:0.37, G:0.26, T:0.22
Consensus pattern (21 bp):
GGGCATGTTACCCTTCCACAC
Done.