Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007759.1 Hibiscus syriacus cultivar Beakdansim tig00110027_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 284512
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Found at i:3907 original size:33 final size:33
Alignment explanation
Indices: 3828--3931 Score: 95
Period size: 33 Copynumber: 3.1 Consensus size: 33
3818 ATACAATCTG
* *
3828 TCCATCACCATTATCACGCCTATATCATCA-CCATAT
1 TCCATCACCA-TATCACGCCAATAACATCATCC---T
3864 TCCATCACCATATCACGCCAATAACATCATCCT
1 TCCATCACCATATCACGCCAATAACATCATCCT
* * * *
3897 TCCATTACCATTTCATCACCATTAA-ATCATCCT
1 TCCATCACCATATCA-CGCCAATAACATCATCCT
3930 TC
1 TC
3932 ATTCATCAAC
Statistics
Matches: 60, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
33 24 0.40
34 7 0.12
35 17 0.28
36 12 0.20
ACGTcount: A:0.31, C:0.37, G:0.02, T:0.31
Consensus pattern (33 bp):
TCCATCACCATATCACGCCAATAACATCATCCT
Found at i:6567 original size:91 final size:91
Alignment explanation
Indices: 6407--6589 Score: 285
Period size: 91 Copynumber: 2.0 Consensus size: 91
6397 GGTAGTTGAT
* * *
6407 GCTTGGCCGAATAGGGAGGGAACTCTTCATCTTGGCGCCTAAATGAACCACATGCAAGGCACATG
1 GCTTGGCCGAATAGGGAGAGAACTCTTCATCTTGGCACCTAAATGAACCACATGCAAGGCACATA
6472 GGGGCTGATCACATGCAAAACACATG
66 GGGGCTGATCACATGCAAAACACATG
* *
6498 GCTTGGCCGAATAGGGAGAGAACTCTTCATCTTGGCACCTAAATGATCCACATGCAAGGCGCATA
1 GCTTGGCCGAATAGGGAGAGAACTCTTCATCTTGGCACCTAAATGAACCACATGCAAGGCACATA
* * **
6563 GGGGCTGGTCATATGCAAGGCACATG
66 GGGGCTGATCACATGCAAAACACATG
6589 G
1 G
6590 GTGTTCTAGG
Statistics
Matches: 83, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
91 83 1.00
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.20
Consensus pattern (91 bp):
GCTTGGCCGAATAGGGAGAGAACTCTTCATCTTGGCACCTAAATGAACCACATGCAAGGCACATA
GGGGCTGATCACATGCAAAACACATG
Found at i:8405 original size:11 final size:13
Alignment explanation
Indices: 8373--8402 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
8363 TGGCCAAAGA
8373 TGAAAAGGTATGT
1 TGAAAAGGTATGT
8386 TGAAAAGGTATG-
1 TGAAAAGGTATGT
8398 TGAAA
1 TGAAA
8403 GGTGTTAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.43, C:0.00, G:0.30, T:0.27
Consensus pattern (13 bp):
TGAAAAGGTATGT
Found at i:17660 original size:23 final size:24
Alignment explanation
Indices: 17611--17661 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 24
17601 AAAAATCAGA
**
17611 AAAGCACTCAAAAAGAAGAAATTG
1 AAAGCACTCAAAAAGAAGAAAAAG
17635 AAAGCACTC-AAAAGAAGAAAAAG
1 AAAGCACTCAAAAAGAAGAAAAAG
17658 AAAG
1 AAAG
17662 AAAAGTTGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 16 0.64
24 9 0.36
ACGTcount: A:0.63, C:0.12, G:0.18, T:0.08
Consensus pattern (24 bp):
AAAGCACTCAAAAAGAAGAAAAAG
Found at i:20434 original size:11 final size:13
Alignment explanation
Indices: 20402--20431 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
20392 TGCCCAAAGA
20402 TGAAAAGGTATGT
1 TGAAAAGGTATGT
20415 TGAAAAGGTATG-
1 TGAAAAGGTATGT
20427 TGAAA
1 TGAAA
20432 GGTGTTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.43, C:0.00, G:0.30, T:0.27
Consensus pattern (13 bp):
TGAAAAGGTATGT
Found at i:23231 original size:11 final size:12
Alignment explanation
Indices: 23210--23258 Score: 50
Period size: 11 Copynumber: 4.2 Consensus size: 12
23200 TTGAGAATTT
23210 GGTGATGATATA
1 GGTGATGATATA
23222 GGTG-TGATAT-
1 GGTGATGATATA
*
23232 GATGATGGACTAT-
1 GGTGAT-GA-TATA
23245 GGTGATGATATA
1 GGTGATGATATA
23257 GG
1 GG
23259 CGTGATAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
10 3 0.10
11 10 0.32
12 10 0.32
13 8 0.26
ACGTcount: A:0.29, C:0.02, G:0.37, T:0.33
Consensus pattern (12 bp):
GGTGATGATATA
Found at i:23255 original size:35 final size:37
Alignment explanation
Indices: 23209--23288 Score: 119
Period size: 35 Copynumber: 2.2 Consensus size: 37
23199 TTTGAGAATT
* *
23209 TGGTGATGATATAGGTGTGAT-AT-GATGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGAAGATGGACTA
*
23244 TGGTGATGATATAGGCGTGATAATGGAAGATGGATTA
1 TGGTGATGATATAGGCGTGATAATGGAAGATGGACTA
23281 TGGTGATG
1 TGGTGATG
23289 GAAATAGTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
35 20 0.50
36 2 0.05
37 18 0.45
ACGTcount: A:0.29, C:0.03, G:0.36, T:0.33
Consensus pattern (37 bp):
TGGTGATGATATAGGCGTGATAATGGAAGATGGACTA
Found at i:23652 original size:20 final size:20
Alignment explanation
Indices: 23627--23682 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
23617 GAAACCCCTT
23627 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTTGA
23647 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTTGA
*
23667 TGAAAATACACGATTT
1 TGAAAATACATGATTT
23683 AAATGAAGAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.41, C:0.07, G:0.14, T:0.38
Consensus pattern (20 bp):
TGAAAATACATGATTTTTGA
Found at i:26822 original size:20 final size:20
Alignment explanation
Indices: 26784--26821 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
26774 TGCTTCACTT
*
26784 TTCTTTTGCTTTTGATTTTC
1 TTCTTTTGCTTTTCATTTTC
*
26804 TTCTTTTTCTTTTC-TTTT
1 TTCTTTTGCTTTTCATTTT
26822 TTTTGCACTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.03, C:0.16, G:0.05, T:0.76
Consensus pattern (20 bp):
TTCTTTTGCTTTTCATTTTC
Found at i:27315 original size:35 final size:37
Alignment explanation
Indices: 27269--27348 Score: 128
Period size: 35 Copynumber: 2.2 Consensus size: 37
27259 TTTGAGAATT
*
27269 TGGTGATGATATAGGCGTGAT-ATGG-TGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGAAGATGGACTA
*
27304 TGGTGATGATATAGGCGTGATAATGGAAGATGGATTA
1 TGGTGATGATATAGGCGTGATAATGGAAGATGGACTA
27341 TGGTGATG
1 TGGTGATG
27349 GAAATAGTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
35 21 0.51
36 4 0.10
37 16 0.39
ACGTcount: A:0.28, C:0.04, G:0.38, T:0.31
Consensus pattern (37 bp):
TGGTGATGATATAGGCGTGATAATGGAAGATGGACTA
Found at i:30711 original size:1 final size:1
Alignment explanation
Indices: 30707--30765 Score: 73
Period size: 1 Copynumber: 59.0 Consensus size: 1
30697 TATTTTTTTT
* ** * *
30707 AAAAACAAAAAAGGAAAAAAAAAAAAAAAAAAAAAAAAAAAAACAAAAAAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
30766 GCCAAAATTT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
1 50 1.00
ACGTcount: A:0.92, C:0.05, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:33631 original size:15 final size:16
Alignment explanation
Indices: 33604--33640 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
33594 CTTTATTATC
33604 TTATTTCATCTTTCGT
1 TTATTTCATCTTTCGT
*
33620 TTATTT-ATCTTTTGT
1 TTATTTCATCTTTCGT
33635 TTATTT
1 TTATTT
33641 TATTCTAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.14, C:0.11, G:0.05, T:0.70
Consensus pattern (16 bp):
TTATTTCATCTTTCGT
Found at i:36003 original size:9 final size:9
Alignment explanation
Indices: 35991--36022 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
35981 AAAAAAAGGG
35991 AAAAAACAA
1 AAAAAACAA
36000 AAAAACACAA
1 AAAAA-ACAA
36010 AAAAAACAA
1 AAAAAACAA
36019 AAAA
1 AAAA
36023 GCCAAAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 13 0.59
10 9 0.41
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAACAA
Found at i:36011 original size:17 final size:16
Alignment explanation
Indices: 35968--36022 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 16
35958 GCTATTTTTT
35968 AAAAACAAAAAACAAA
1 AAAAACAAAAAACAAA
**
35984 AAAAGGGAAAAAACAAA
1 AAAA-ACAAAAAACAAA
36001 AAAACACAAAAAA-AACA
1 AAAA-ACAAAAAACAA-A
36018 AAAAA
1 AAAAA
36023 GCCAAAATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
16 7 0.22
17 25 0.78
ACGTcount: A:0.84, C:0.11, G:0.05, T:0.00
Consensus pattern (16 bp):
AAAAACAAAAAACAAA
Found at i:39453 original size:12 final size:11
Alignment explanation
Indices: 39438--39490 Score: 63
Period size: 11 Copynumber: 4.7 Consensus size: 11
39428 AAATTTTGGC
39438 TTTTTTTGCTT
1 TTTTTTTGCTT
*
39449 TTTTTTGTGC-C
1 TTTTTT-TGCTT
*
39460 TTTTTTTACTT
1 TTTTTTTGCTT
39471 TTTTTTTGCCTT
1 TTTTTTTG-CTT
39483 TTTTTTTG
1 TTTTTTTG
39491 AAAAAAATAG
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
10 2 0.06
11 19 0.54
12 14 0.40
ACGTcount: A:0.02, C:0.11, G:0.09, T:0.77
Consensus pattern (11 bp):
TTTTTTTGCTT
Found at i:39487 original size:21 final size:21
Alignment explanation
Indices: 39431--39487 Score: 87
Period size: 22 Copynumber: 2.7 Consensus size: 21
39421 TTTTTTGAAA
* *
39431 TTTTGGCTTTTTTTGCTTTTT
1 TTTTGCCTTTTTTTACTTTTT
39452 TTTGTGCCTTTTTTTACTTTTT
1 TTT-TGCCTTTTTTTACTTTTT
39474 TTTTGCCTTTTTTT
1 TTTTGCCTTTTTTT
39488 TTGAAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
21 14 0.42
22 19 0.58
ACGTcount: A:0.02, C:0.12, G:0.11, T:0.75
Consensus pattern (21 bp):
TTTTGCCTTTTTTTACTTTTT
Found at i:55033 original size:17 final size:17
Alignment explanation
Indices: 55011--55060 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 17
55001 AAACTTGAAA
55011 TTTTGCAATTTTGGCTT
1 TTTTGCAATTTTGGCTT
55028 TTTTGCAA-TTT---TT
1 TTTTGCAATTTTGGCTT
*
55041 TTTTGAAATTTTGGCTT
1 TTTTGCAATTTTGGCTT
55058 TTT
1 TTT
55061 GGCTTTCTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
13 9 0.32
14 3 0.11
16 3 0.11
17 13 0.46
ACGTcount: A:0.14, C:0.08, G:0.14, T:0.64
Consensus pattern (17 bp):
TTTTGCAATTTTGGCTT
Found at i:55122 original size:10 final size:10
Alignment explanation
Indices: 55084--55121 Score: 60
Period size: 11 Copynumber: 3.8 Consensus size: 10
55074 TTTTTGCCTT
55084 TTTTTTTTGC
1 TTTTTTTTGC
55094 TTTTTTTTGCC
1 TTTTTTTTG-C
55105 TTTTTTTTG-
1 TTTTTTTTGC
55114 TTTTTTTT
1 TTTTTTTT
55122 TAAAATAGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 8 0.30
10 9 0.33
11 10 0.37
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.84
Consensus pattern (10 bp):
TTTTTTTTGC
Found at i:55122 original size:11 final size:11
Alignment explanation
Indices: 55072--55122 Score: 59
Period size: 11 Copynumber: 4.6 Consensus size: 11
55062 GCTTTCTTTC
*
55072 TTTTTTTGCCT
1 TTTTTTTGTCT
*
55083 TTTTTTTTTGCT
1 TTTTTTTGT-CT
*
55095 TTTTTTTGCCT
1 TTTTTTTGTCT
55106 TTTTTTTGT-T
1 TTTTTTTGTCT
55116 TTTTTTT
1 TTTTTTT
55123 AAAATAGCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
10 8 0.24
11 17 0.50
12 9 0.26
ACGTcount: A:0.00, C:0.10, G:0.08, T:0.82
Consensus pattern (11 bp):
TTTTTTTGTCT
Found at i:56201 original size:10 final size:10
Alignment explanation
Indices: 56178--56237 Score: 59
Period size: 11 Copynumber: 5.7 Consensus size: 10
56168 TTTTTTTCAA
**
56178 AAAAAAAACA
1 AAAAAAAAGG
56188 AAAAAAAAGG
1 AAAAAAAAGG
56198 -AAAAAAAGG
1 AAAAAAAAGG
56207 TAAAAAAAAGG
1 -AAAAAAAAGG
56218 CACAAAAAAATGG
1 -A-AAAAAAA-GG
56231 AAAAAAA
1 AAAAAAA
56238 GCCAAAATTT
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
9 9 0.21
10 8 0.19
11 16 0.37
12 8 0.19
13 2 0.05
ACGTcount: A:0.78, C:0.05, G:0.13, T:0.03
Consensus pattern (10 bp):
AAAAAAAAGG
Found at i:61046 original size:18 final size:18
Alignment explanation
Indices: 61024--61066 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
61014 AAATTTTGGA
61024 TTTTTTGGCTCTTTTTTTG
1 TTTTTTGGC-CTTTTTTTG
*
61043 TTTTTTTGCCTTTTTTT-
1 TTTTTTGGCCTTTTTTTG
61060 TTTTTTG
1 TTTTTTG
61067 AAAAAAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 6 0.27
18 8 0.36
19 8 0.36
ACGTcount: A:0.00, C:0.09, G:0.12, T:0.79
Consensus pattern (18 bp):
TTTTTTGGCCTTTTTTTG
Found at i:61059 original size:20 final size:19
Alignment explanation
Indices: 61024--61065 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
61014 AAATTTTGGA
*
61024 TTTTTTGGCTCTTTTTTTGT
1 TTTTTTGCCTCTTTTTTT-T
61044 TTTTTTGCCT-TTTTTTTT
1 TTTTTTGCCTCTTTTTTTT
61062 TTTT
1 TTTT
61066 GAAAAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.24
19 7 0.33
20 9 0.43
ACGTcount: A:0.00, C:0.10, G:0.10, T:0.81
Consensus pattern (19 bp):
TTTTTTGCCTCTTTTTTTT
Found at i:62893 original size:640 final size:640
Alignment explanation
Indices: 61673--62953 Score: 2129
Period size: 640 Copynumber: 2.0 Consensus size: 640
61663 AGAACTTGAA
*
61673 AGAACTCAAGGAGAAGAAGCTTCGAAGGCACAAGGCAATCAGCACTTGCAAAAACGAACTCTCGT
1 AGAACTCAAGGAGAAGAAGCTTCGAAGGCACAAGGCAATCAGCACTTGCAAAAACAAACTCTCGT
* * *
61738 TGTATTATTAATCAAAGAAATCTTATTTACAAAGTTGAATGAAGCCTCCTTTATATAGGGGCTGA
66 TGTATTATTAATCAAAGAAATCTTATTTACAAAGTAGAATAAAACCTCCTTTATATAGGGGCTGA
* * * *
61803 ATTCTAAAGGTCCTAAATAGCTAAAGAATAAAATATTAATAAACTAAACATGTTTTAACCCTAAT
131 ATTCTAAAGGTCATAAATAACTAAAGAATAAAATAATAATAAACTAAACATGTCTTAACCCTAAT
* *
61868 TCCTAATAAAATAATAATAACTAAAAATATTGTTTTAACCCAACCTTAATTCCTAATAAAATAAT
196 TCCTAATAAAATAATAATAACTAAAAATAATATTTTAACCCAACCTTAATTCCTAATAAAATAAT
* * * *
61933 AAATCTGATCCTAAAAGATAATTAATCATCCTATATTAAATTATATTACAAATAATCAATATAAA
261 AAATCTAATCCTAAAAGATAATGAATCATCATATATTAAATTATATTACAAATAATCAATAAAAA
61998 TATTGAAAATTCGTAATATTTACAAAATAACGTATTAATCCCGTATAGGATTTCCTGCATGCACC
326 TATTGAAAATTCGTAATATTTACAAAATAACGTATTAATCCCGTATAGGATTTCCTGCATGCACC
*
62063 GTCTTCAGTAAAATGACCATATCTTGAGTTTCCGATATCGGATTGATGCGATTCAAGAACCGTTA
391 GTCTTCAGTAAAATGACCATATCTTGAGTTCCCGATATCGGATTGATGCGATTCAAGAACCGTTA
* * *
62128 GAAAGATAAGAGACAGACGGTTGTATCTCCAGAAGACATGCCGACCAAATAATATCAGGATCCCA
456 GAAAGATAAGAGACAGACGGTCGTATCTCCAGAAGACATGCCGACCAAATAAGATCAGAATCCCA
*
62193 TTCAAAAAGTCGTCTCAAGTGCGCTGCTGTTCTGATCTTCTTTTCCAAAGCTTGGACGAGTGGAT
521 TTCAAAAAGTCATCTCAAGTGCGCTGCTGTTCTGATCTTCTTTTCCAAAGCTTGGACGAGTGGAT
62258 CATTTGGAAGAGTTATTACTTCTTCCTTTGATGTGAACCTTGTGATGCATGTATC
586 CATTTGGAAGAGTTATTACTTCTTCCTTTGATGTGAACCTTGTGATGCATGTATC
*
62313 AGAACTCCAGGAGAAGAAGCTTCGAAGGCACAAGGCAATCAGCACTTGCAAAAACAAACTCTCGT
1 AGAACTCAAGGAGAAGAAGCTTCGAAGGCACAAGGCAATCAGCACTTGCAAAAACAAACTCTCGT
*
62378 TGTATTATTGATCAAAGAAATCTTATTTACAAAGTAGAATAAAACCTCCTTTATATAGGGGCTGA
66 TGTATTATTAATCAAAGAAATCTTATTTACAAAGTAGAATAAAACCTCCTTTATATAGGGGCTGA
* * * *
62443 GTTCTAAATGTCATAAATAACTAATGAATAAAATAATAATAAACTAAACATGTCTTAACTCTAAT
131 ATTCTAAAGGTCATAAATAACTAAAGAATAAAATAATAATAAACTAAACATGTCTTAACCCTAAT
*
62508 TCCTAATAAAATAATAATAACTAAAGATAATATTTTAACCCAACCTTAATTCCTAATAAAATAAT
196 TCCTAATAAAATAATAATAACTAAAAATAATATTTTAACCCAACCTTAATTCCTAATAAAATAAT
* *
62573 AAATCTAATCCTAAAAGATAATGCATCATCATATATTAAGTTATATTACAAATAATCAATAAAAA
261 AAATCTAATCCTAAAAGATAATGAATCATCATATATTAAATTATATTACAAATAATCAATAAAAA
** *
62638 TATTGAAAATTCGTAATATTTACAAAATCCCGTATTAATCCCGTATAGGATTTTCTGCATGCACC
326 TATTGAAAATTCGTAATATTTACAAAATAACGTATTAATCCCGTATAGGATTTCCTGCATGCACC
*
62703 GTCTTCAGTAAAAT-AGTCATATCTTGAGTTCCCGATATCGGATTGATGCGATTCAAGAACCGTT
391 GTCTTCAGTAAAATGA-CCATATCTTGAGTTCCCGATATCGGATTGATGCGATTCAAGAACCGTT
* * * * *
62767 AGAAAGATAAGAGACAGACGGTCGTATCTTCAGAAGATAT-CTTGACTAAATAAGATCATAATCC
455 AGAAAGATAAGAGACAGACGGTCGTATCTCCAGAAGACATGC-CGACCAAATAAGATCAGAATCC
* * *
62831 CATTGAAAAAGTCATCGT-AAGT-CTGCTTCTGTTCTGATCTTCTTTTCCAATGCTTGGACGAGT
519 CATTCAAAAAGTCATC-TCAAGTGC-GCTGCTGTTCTGATCTTCTTTTCCAAAGCTTGGACGAGT
*
62894 GGATCATTTGGAAGAGTTATTACTTCTTCCTTTGATGTGAGCCTTGTGATGCATGTATC
582 GGATCATTTGGAAGAGTTATTACTTCTTCCTTTGATGTGAACCTTGTGATGCATGTATC
62953 A
1 A
62954 TCCTCCCTTT
Statistics
Matches: 596, Mismatches: 41, Indels: 8
0.92 0.06 0.01
Matches are distributed among these distances:
639 3 0.01
640 592 0.99
641 1 0.00
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.31
Consensus pattern (640 bp):
AGAACTCAAGGAGAAGAAGCTTCGAAGGCACAAGGCAATCAGCACTTGCAAAAACAAACTCTCGT
TGTATTATTAATCAAAGAAATCTTATTTACAAAGTAGAATAAAACCTCCTTTATATAGGGGCTGA
ATTCTAAAGGTCATAAATAACTAAAGAATAAAATAATAATAAACTAAACATGTCTTAACCCTAAT
TCCTAATAAAATAATAATAACTAAAAATAATATTTTAACCCAACCTTAATTCCTAATAAAATAAT
AAATCTAATCCTAAAAGATAATGAATCATCATATATTAAATTATATTACAAATAATCAATAAAAA
TATTGAAAATTCGTAATATTTACAAAATAACGTATTAATCCCGTATAGGATTTCCTGCATGCACC
GTCTTCAGTAAAATGACCATATCTTGAGTTCCCGATATCGGATTGATGCGATTCAAGAACCGTTA
GAAAGATAAGAGACAGACGGTCGTATCTCCAGAAGACATGCCGACCAAATAAGATCAGAATCCCA
TTCAAAAAGTCATCTCAAGTGCGCTGCTGTTCTGATCTTCTTTTCCAAAGCTTGGACGAGTGGAT
CATTTGGAAGAGTTATTACTTCTTCCTTTGATGTGAACCTTGTGATGCATGTATC
Found at i:64775 original size:20 final size:20
Alignment explanation
Indices: 64737--64774 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
64727 TGCTTCACTT
64737 TTCTTTTGCTTTTGATTTTC
1 TTCTTTTGCTTTTGATTTTC
*
64757 TTCTTTTTCTTTT-ATTTT
1 TTCTTTTGCTTTTGATTTT
64775 TTTTTGTACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.05, C:0.13, G:0.05, T:0.76
Consensus pattern (20 bp):
TTCTTTTGCTTTTGATTTTC
Found at i:65270 original size:35 final size:37
Alignment explanation
Indices: 65224--65303 Score: 128
Period size: 35 Copynumber: 2.2 Consensus size: 37
65214 TTTGAGAATT
*
65224 TGGTGATGATATAGGCGTGAT-ATGG-TGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGAAGATGGACTA
*
65259 TGGTGATGATATAGGCGTGATAATGGAAGATGGATTA
1 TGGTGATGATATAGGCGTGATAATGGAAGATGGACTA
65296 TGGTGATG
1 TGGTGATG
65304 GAAATAGTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
35 21 0.51
36 4 0.10
37 16 0.39
ACGTcount: A:0.28, C:0.04, G:0.38, T:0.31
Consensus pattern (37 bp):
TGGTGATGATATAGGCGTGATAATGGAAGATGGACTA
Found at i:84282 original size:22 final size:22
Alignment explanation
Indices: 84240--84283 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
84230 AAAACACCTT
* *
84240 AAAGAAGAACATTGAAGCAATG
1 AAAGAACAACATTAAAGCAATG
84262 AAAGAACAAC-TTAAAGACAATG
1 AAAGAACAACATTAAAG-CAATG
84284 CAACTGAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.57, C:0.11, G:0.18, T:0.14
Consensus pattern (22 bp):
AAAGAACAACATTAAAGCAATG
Found at i:85467 original size:27 final size:28
Alignment explanation
Indices: 85437--85489 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
85427 TTTGTTTTTC
* *
85437 TTCTTTTTGAATGC-TGAATTTCTTTAT
1 TTCTTTTGGAATGCTTCAATTTCTTTAT
*
85464 TTCTTTTGGAGTGCTTCAATTTCTTT
1 TTCTTTTGGAATGCTTCAATTTCTTT
85490 TCTGATTTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 12 0.55
28 10 0.45
ACGTcount: A:0.15, C:0.13, G:0.13, T:0.58
Consensus pattern (28 bp):
TTCTTTTGGAATGCTTCAATTTCTTTAT
Found at i:92182 original size:33 final size:33
Alignment explanation
Indices: 92103--92182 Score: 90
Period size: 35 Copynumber: 2.3 Consensus size: 33
92093 ATACAATCTG
* *
92103 TCCATCACCATTATCACGCCTATATCATCACCATAT
1 TCCATCACCA-TATCACGCCAATAACATCACC--AT
92139 TCCATCACCATATCACGCCAATAACATCATCC-T
1 TCCATCACCATATCACGCCAATAACATCA-CCAT
*
92172 TCCATTACCAT
1 TCCATCACCAT
92183 TTCATAACCA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
33 11 0.28
35 17 0.43
36 12 0.30
ACGTcount: A:0.31, C:0.38, G:0.03, T:0.29
Consensus pattern (33 bp):
TCCATCACCATATCACGCCAATAACATCACCAT
Found at i:96333 original size:33 final size:33
Alignment explanation
Indices: 96291--96359 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
96281 GTTGATGAAT
*
96291 GAAGGATGAT-TTAATGGTGATGAAATGGTAATG
1 GAAGGATGATGTTAATGGCG-TGAAATGGTAATG
* * *
96324 GAAGGATGATGTTATTGGCGTGATATGGTGATG
1 GAAGGATGATGTTAATGGCGTGAAATGGTAATG
96357 GAA
1 GAA
96360 TATGGTGATG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 24 0.77
34 7 0.23
ACGTcount: A:0.32, C:0.01, G:0.36, T:0.30
Consensus pattern (33 bp):
GAAGGATGATGTTAATGGCGTGAAATGGTAATG
Found at i:105338 original size:30 final size:31
Alignment explanation
Indices: 105298--105357 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
105288 ACATGCTGCC
**
105298 ATGATATCTAAATGAAATGCAAACATAATAA
1 ATGATATCTAAAACAAATGCAAACATAATAA
* *
105329 ATGA-ATCTAAAACATATGTAAACATAATA
1 ATGATATCTAAAACAAATGCAAACATAATA
105358 TAAAGCTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.55, C:0.10, G:0.08, T:0.27
Consensus pattern (31 bp):
ATGATATCTAAAACAAATGCAAACATAATAA
Found at i:112103 original size:40 final size:40
Alignment explanation
Indices: 112048--112128 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
112038 TAAACGTATG
* *
112048 TGATGTAAGGTAATTCTACCTTCTCGTTTGATTGTGGATC
1 TGATGTAAGGTAATTCTACCTTCTCATTTGATTATGGATC
112088 TGATGTAAGGTAATTCTACCTTCTCATTTGATTATGGATC
1 TGATGTAAGGTAATTCTACCTTCTCATTTGATTATGGATC
112128 T
1 T
112129 AGGAAGGAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.22, C:0.15, G:0.20, T:0.43
Consensus pattern (40 bp):
TGATGTAAGGTAATTCTACCTTCTCATTTGATTATGGATC
Found at i:116938 original size:23 final size:24
Alignment explanation
Indices: 116896--116948 Score: 81
Period size: 23 Copynumber: 2.2 Consensus size: 24
116886 TTTCTTTCTT
116896 TTTCTTCTTTTCGAGTGCTTTCAA
1 TTTCTTCTTTTCGAGTGCTTTCAA
* *
116920 TTTCTTCTTTT-GAGTGCTTTTAT
1 TTTCTTCTTTTCGAGTGCTTTCAA
116943 TTTCTT
1 TTTCTT
116949 TTCTGATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 16 0.59
24 11 0.41
ACGTcount: A:0.09, C:0.17, G:0.11, T:0.62
Consensus pattern (24 bp):
TTTCTTCTTTTCGAGTGCTTTCAA
Found at i:118184 original size:33 final size:33
Alignment explanation
Indices: 118142--118210 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
118132 GTTGATGAAT
*
118142 GAAGGATGAT-TTAATGGTGATGAAATGGTAATG
1 GAAGGATGATGTTAATGGCG-TGAAATGGTAATG
* * *
118175 GAAGGATGATGTTATTGGCGTGATATGGTGATG
1 GAAGGATGATGTTAATGGCGTGAAATGGTAATG
118208 GAA
1 GAA
118211 TACGGTGATG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 24 0.77
34 7 0.23
ACGTcount: A:0.32, C:0.01, G:0.36, T:0.30
Consensus pattern (33 bp):
GAAGGATGATGTTAATGGCGTGAAATGGTAATG
Found at i:123862 original size:33 final size:33
Alignment explanation
Indices: 123820--123888 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
123810 GTTGATGAAT
*
123820 GAAGGATGAT-TTAATGGTGATGAAATGGTAATG
1 GAAGGATGATGTTAATGGCG-TGAAATGGTAATG
* * *
123853 GAAGGATGATGTTATTGGCGTGATATGGTGATG
1 GAAGGATGATGTTAATGGCGTGAAATGGTAATG
123886 GAA
1 GAA
123889 TATGGTGATG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 24 0.77
34 7 0.23
ACGTcount: A:0.32, C:0.01, G:0.36, T:0.30
Consensus pattern (33 bp):
GAAGGATGATGTTAATGGCGTGAAATGGTAATG
Found at i:128786 original size:21 final size:21
Alignment explanation
Indices: 128762--128802 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
128752 AAATTTTGGC
128762 TTTTTTGGCTCTT-TTTTTTTG
1 TTTTTTGGC-CTTATTTTTTTG
*
128783 TTTTTTTGCCTTATTTTTTT
1 TTTTTTGGCCTTATTTTTTT
128803 TTTGCCTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.02, C:0.10, G:0.10, T:0.78
Consensus pattern (21 bp):
TTTTTTGGCCTTATTTTTTTG
Found at i:128804 original size:16 final size:15
Alignment explanation
Indices: 128777--128822 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 15
128767 TGGCTCTTTT
128777 TTTTTGTTTTTTTGCC
1 TTTTT-TTTTTTTGCC
128793 TTATTTTTTTTTTGCC
1 TT-TTTTTTTTTTGCC
128809 TTTTTTGTTTTTTG
1 TTTTTT-TTTTTTG
128823 TTTTTTTGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.14
16 21 0.75
17 3 0.11
ACGTcount: A:0.02, C:0.09, G:0.11, T:0.78
Consensus pattern (15 bp):
TTTTTTTTTTTTGCC
Found at i:128828 original size:16 final size:16
Alignment explanation
Indices: 128775--128830 Score: 62
Period size: 16 Copynumber: 3.5 Consensus size: 16
128765 TTTGGCTCTT
128775 TTTTTTTGTTTTTTTGCC
1 TTTTTTTG-TTTTTTG-C
*
128793 TTATTTT-TTTTTTGC
1 TTTTTTTGTTTTTTGC
*
128808 CTTTTTTGTTTTTTG-
1 TTTTTTTGTTTTTTGC
128823 TTTTTTTG
1 TTTTTTTG
128831 AAAAAAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
15 13 0.39
16 14 0.42
18 6 0.18
ACGTcount: A:0.02, C:0.07, G:0.11, T:0.80
Consensus pattern (16 bp):
TTTTTTTGTTTTTTGC
Found at i:129714 original size:33 final size:33
Alignment explanation
Indices: 129672--129740 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
129662 GTTGATGAAT
129672 GAAGGATGAT-TTAATGGTGATGAAATGGTAATG
1 GAAGGATGATGTTAATGGTG-TGAAATGGTAATG
* * *
129705 GAAGGATGATGTTATTGGTGTGATATGGTGATG
1 GAAGGATGATGTTAATGGTGTGAAATGGTAATG
129738 GAA
1 GAA
129741 TATGGTGATG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
33 24 0.75
34 8 0.25
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (33 bp):
GAAGGATGATGTTAATGGTGTGAAATGGTAATG
Found at i:134183 original size:33 final size:33
Alignment explanation
Indices: 134141--134209 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
134131 GTTGATGAAT
*
134141 GAAGGATGAT-TTAATGGTGATGAAATGGTAATG
1 GAAGGATGATGTTAATGGCG-TGAAATGGTAATG
* * *
134174 GAAGGATGATGTTATTGGCGTGATATGGTGATG
1 GAAGGATGATGTTAATGGCGTGAAATGGTAATG
134207 GAA
1 GAA
134210 TATGGTGATA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 24 0.77
34 7 0.23
ACGTcount: A:0.32, C:0.01, G:0.36, T:0.30
Consensus pattern (33 bp):
GAAGGATGATGTTAATGGCGTGAAATGGTAATG
Found at i:136526 original size:19 final size:20
Alignment explanation
Indices: 136485--136535 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
136475 GAAACCCCTT
*
136485 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTTAA
136505 TGAAAATACATGA-TTTTAA
1 TGAAAATACATGATTTTTAA
*
136524 TGAAGATACATG
1 TGAAAATACATG
136536 CTCTTGGCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.43, C:0.06, G:0.16, T:0.35
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Found at i:137281 original size:20 final size:21
Alignment explanation
Indices: 137243--137282 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
137233 GATCATCTAG
* *
137243 AAGCTAAGATAACATGCATAT
1 AAGCTAAGATAAAAGGCATAT
137264 AAGCT-AGATAAAAGGCATA
1 AAGCTAAGATAAAAGGCATA
137283 GGACGTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.50, C:0.12, G:0.17, T:0.20
Consensus pattern (21 bp):
AAGCTAAGATAAAAGGCATAT
Found at i:139902 original size:10 final size:10
Alignment explanation
Indices: 139874--139956 Score: 51
Period size: 11 Copynumber: 7.9 Consensus size: 10
139864 CTTGGCTTGC
139874 TTTCTTTTTT
1 TTTCTTTTTT
**
139884 TTGAATTTTTT
1 TT-TCTTTTTT
139895 TTTCTTTTCTT
1 TTTCTTTT-TT
*
139906 TTTCTTTCTT
1 TTTCTTTTTT
*
139916 TTTCTGAATTTT
1 TTTCT--TTTTT
*
139928 CTTCTTCTTTT
1 TTTCTT-TTTT
* *
139939 TGTC-TTTTC
1 TTTCTTTTTT
139948 TTTCTTTTT
1 TTTCTTTTT
139957 GTACTCCAAT
Statistics
Matches: 54, Mismatches: 13, Indels: 12
0.68 0.16 0.15
Matches are distributed among these distances:
9 6 0.11
10 18 0.33
11 23 0.43
12 7 0.13
ACGTcount: A:0.05, C:0.14, G:0.04, T:0.77
Consensus pattern (10 bp):
TTTCTTTTTT
Found at i:139907 original size:11 final size:11
Alignment explanation
Indices: 139889--139920 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
139879 TTTTTTTGAA
139889 TTTT-TTTTTC
1 TTTTCTTTTTC
139899 TTTTCTTTTTC
1 TTTTCTTTTTC
139910 -TTTCTTTTTC
1 TTTTCTTTTTC
139920 T
1 T
139921 GAATTTTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 14 0.70
11 6 0.30
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:139929 original size:19 final size:19
Alignment explanation
Indices: 139905--139956 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
139895 TTTCTTTTCT
139905 TTTTCTTTCTTTTTCTGAA
1 TTTTCTTTCTTTTTCTGAA
* **
139924 TTTTC-TTCTTCTTTTTGTC
1 TTTTCTTTCTT-TTTCTGAA
139943 TTTTCTTTCTTTTT
1 TTTTCTTTCTTTTT
139957 GTACTCCAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 5 0.18
19 18 0.64
20 5 0.18
ACGTcount: A:0.04, C:0.17, G:0.04, T:0.75
Consensus pattern (19 bp):
TTTTCTTTCTTTTTCTGAA
Found at i:140718 original size:19 final size:20
Alignment explanation
Indices: 140677--140727 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
140667 GAAACCCCTT
*
140677 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTTAA
140697 TGAAAATACATGA-TTTTAA
1 TGAAAATACATGATTTTTAA
*
140716 TGAAGATACATG
1 TGAAAATACATG
140728 CTCTTGGCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.43, C:0.06, G:0.16, T:0.35
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Found at i:147361 original size:225 final size:222
Alignment explanation
Indices: 146960--147365 Score: 566
Period size: 225 Copynumber: 1.8 Consensus size: 222
146950 ATTTTAGATT
* *
146960 TAGGAAGGAAGCAAACAACATGCACAAGTGAATGGCTCAAAGAGATGGTTAAGATGGTAAACGTA
1 TAGGAAGGAAGCAAACAACATGCACAAGTGAATGGCTCAAACAGATGGATAAGATGGTAAACGTA
* *
147025 TGGGTGAAATAGGTAGCCTATTTAAATAATAAATGATGGAAGCGGAAGATGGTTGATATGACTAT
66 TGGGTGAAATAGGTAGCCTATTTAAATAATAAATGATGGAAGCGGAAGATGATTGAAATGACTAT
* *
147090 AGTTATTGCGATGAAACAAAGGGATGGTAGTGAGGATAGTATCTTGAAGAAGTGATTTAAGGTAA
131 AGTTATGGCGATGAAACAAAAGGATGGTAGTGAGGATAGTATCTTGAAGAAGTGATTTAAGGTAA
147155 TTCTACCTTCTCGTTTGATTATGGATC
196 TTCTACCTTCTCGTTTGATTATGGATC
* * * *
147182 TAGGAAGGAATCAAAACAACCTGCACAAGTGAATGGCTCAAGACAGAATGGATAAGGGTGGTAAG
1 TAGGAAGGAAGC-AAACAACATGCACAAGTGAATGGCTCAA-ACAG-ATGGATAA-GATGGTAAA
* ** * *
147247 TGTAT-GGTTTAATAGGTAGGCTATTT-AATAAATGAGA-GATGGAAGCGGAAGATGATTGAAAT
62 CGTATGGGTGAAATAGGTAGCCTATTTAAAT-AAT-AAATGATGGAAGCGGAAGATGATTGAAAT
** * *
147309 GGTTATGGTTATGGCGATGAAACAAAAGGATGGTTGTGAGGATAGTATCTTGAAGAA
125 GACTATAGTTATGGCGATGAAACAAAAGGATGGTAGTGAGGATAGTATCTTGAAGAA
147366 CGCTCAAAGA
Statistics
Matches: 159, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
222 11 0.07
223 27 0.17
224 6 0.04
225 102 0.64
226 13 0.08
ACGTcount: A:0.37, C:0.09, G:0.29, T:0.26
Consensus pattern (222 bp):
TAGGAAGGAAGCAAACAACATGCACAAGTGAATGGCTCAAACAGATGGATAAGATGGTAAACGTA
TGGGTGAAATAGGTAGCCTATTTAAATAATAAATGATGGAAGCGGAAGATGATTGAAATGACTAT
AGTTATGGCGATGAAACAAAAGGATGGTAGTGAGGATAGTATCTTGAAGAAGTGATTTAAGGTAA
TTCTACCTTCTCGTTTGATTATGGATC
Found at i:149766 original size:24 final size:21
Alignment explanation
Indices: 149731--149773 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
149721 GGCACATTCT
*
149731 TTTGAATTTCAAGAGGTACATCC
1 TTTGAATGTCAA-AGG-ACATCC
149754 TTTGAAATGTCAAAGGACAT
1 TTTG-AATGTCAAAGGACAT
149774 GTCTTGTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 7 0.39
24 7 0.39
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.33
Consensus pattern (21 bp):
TTTGAATGTCAAAGGACATCC
Found at i:151093 original size:22 final size:22
Alignment explanation
Indices: 151065--151107 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
151055 TTTCTTCCTT
*
151065 TTTGAGTTCTTTCAATTTCTTC
1 TTTGAGTGCTTTCAATTTCTTC
* *
151087 TTTGAGTGCTTTGATTTTCTT
1 TTTGAGTGCTTTCAATTTCTT
151108 TGCTGGATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.12, C:0.14, G:0.14, T:0.60
Consensus pattern (22 bp):
TTTGAGTGCTTTCAATTTCTTC
Found at i:153951 original size:19 final size:20
Alignment explanation
Indices: 153927--153978 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
153917 CGGCCAAGAG
* *
153927 CATGTATCTTCATT-TAAAT
1 CATGTATTTTCATTAAAAAT
153946 CATGTATTTTTCATTAAAAAT
1 CATGTA-TTTTCATTAAAAAT
153967 CATGTATTTTCA
1 CATGTATTTTCA
153979 AAGGGGTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 6 0.21
20 13 0.45
21 10 0.34
ACGTcount: A:0.33, C:0.13, G:0.06, T:0.48
Consensus pattern (20 bp):
CATGTATTTTCATTAAAAAT
Found at i:155844 original size:18 final size:17
Alignment explanation
Indices: 155816--155865 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
155806 TTGGAGTGCA
155816 AAAAG-AAAGAAAAAAG
1 AAAAGAAAAGAAAAAAG
155832 AGAAA-AAACAGAAAAGAAG
1 A-AAAGAAA-AGAAAA-AAG
155851 AAAAGAAAAGAAAAA
1 AAAAGAAAAGAAAAA
155866 TAAAAAAATC
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
16 1 0.03
17 6 0.21
18 15 0.52
19 7 0.24
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (17 bp):
AAAAGAAAAGAAAAAAG
Found at i:155873 original size:27 final size:27
Alignment explanation
Indices: 155815--155873 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
155805 ATTGGAGTGC
*
155815 AAAAAGAAAGAAAAAAGAGAAAAAACA
1 AAAAAGAAAGAAAAAAAAGAAAAAACA
*
155842 GAAAAG-AAGAAAAGAAAAGAAAAATA-A
1 AAAAAGAAAGAAAA-AAAAGAAAAA-ACA
155869 AAAAA
1 AAAAA
155874 TCAAAAAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
26 7 0.26
27 19 0.70
28 1 0.04
ACGTcount: A:0.81, C:0.02, G:0.15, T:0.02
Consensus pattern (27 bp):
AAAAAGAAAGAAAAAAAAGAAAAAACA
Found at i:155873 original size:35 final size:34
Alignment explanation
Indices: 155816--155883 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 34
155806 TTGGAGTGCA
155816 AAAAGAAAGAAAAAAGAGAAAAAACAGAAAAGAAG
1 AAAAGAAAGAAAAAAGAGAAAAAACA-AAAAGAAG
*
155851 AAAAGAAAAGAAAAATA-A-AAAAATCAAAAAGAA
1 AAAAG-AAAGAAAAA-AGAGAAAAAACAAAAAGAA
155884 AGCAAGCCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
34 7 0.23
35 12 0.40
36 10 0.33
37 1 0.03
ACGTcount: A:0.79, C:0.03, G:0.15, T:0.03
Consensus pattern (34 bp):
AAAAGAAAGAAAAAAGAGAAAAAACAAAAAGAAG
Found at i:160872 original size:35 final size:35
Alignment explanation
Indices: 160826--160895 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
160816 GGATGGTTGT
160826 TGATGTAAGGCTAACCAGGCTTCTTCAATAATGGA
1 TGATGTAAGGCTAACCAGGCTTCTTCAATAATGGA
*
160861 TGATGTAAGGCTAACCAGGCTTCTTCAATTATGGA
1 TGATGTAAGGCTAACCAGGCTTCTTCAATAATGGA
160896 GAAGTTGGCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (35 bp):
TGATGTAAGGCTAACCAGGCTTCTTCAATAATGGA
Found at i:161238 original size:35 final size:37
Alignment explanation
Indices: 161192--161271 Score: 128
Period size: 35 Copynumber: 2.2 Consensus size: 37
161182 TTTGAGAATT
*
161192 TGGTGATGATATAGGCGTGAT-ATGG-TGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGAAGATGGACTA
*
161227 TGGTGATGATATAGGCGTGATAATGGAAGATGGATTA
1 TGGTGATGATATAGGCGTGATAATGGAAGATGGACTA
161264 TGGTGATG
1 TGGTGATG
161272 GAAATAGTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
35 21 0.51
36 4 0.10
37 16 0.39
ACGTcount: A:0.28, C:0.04, G:0.38, T:0.31
Consensus pattern (37 bp):
TGGTGATGATATAGGCGTGATAATGGAAGATGGACTA
Found at i:163549 original size:19 final size:20
Alignment explanation
Indices: 163525--163575 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
163515 CGGCCAAGAG
* *
163525 CATGTATCTTCAT-TAAAAT
1 CATGTATTTTCATCAAAAAT
163544 CATGTATTTTCATCAAAAAT
1 CATGTATTTTCATCAAAAAT
163564 CATGTATTTTCA
1 CATGTATTTTCA
163576 AAGGAGTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.35, C:0.16, G:0.06, T:0.43
Consensus pattern (20 bp):
CATGTATTTTCATCAAAAAT
Found at i:164452 original size:14 final size:14
Alignment explanation
Indices: 164433--164459 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
164423 TTTGATGCTG
164433 AATCGGATCACATC
1 AATCGGATCACATC
164447 AATCGGATCACAT
1 AATCGGATCACAT
164460 TTATAACAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.26, G:0.15, T:0.22
Consensus pattern (14 bp):
AATCGGATCACATC
Found at i:167607 original size:15 final size:15
Alignment explanation
Indices: 167574--167611 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
167564 CACTTTTCTT
167574 TTTCTTTTGATTTTC
1 TTTCTTTTGATTTTC
**
167589 -TTCTTTTTCTTTTC
1 TTTCTTTTGATTTTC
167603 TTTCTTTTG
1 TTTCTTTTG
167612 CACTCCAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 2
0.79 0.12 0.08
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.03, C:0.16, G:0.05, T:0.76
Consensus pattern (15 bp):
TTTCTTTTGATTTTC
Found at i:169458 original size:19 final size:19
Alignment explanation
Indices: 169434--169476 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
169424 TTGATGGAGG
169434 AGAAGCCTTGGTAATTAGA
1 AGAAGCCTTGGTAATTAGA
*
169453 AGAAGCCTTTGTAATTAGA
1 AGAAGCCTTGGTAATTAGA
169472 AGAAG
1 AGAAG
169477 TTTGAATCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.40, C:0.09, G:0.26, T:0.26
Consensus pattern (19 bp):
AGAAGCCTTGGTAATTAGA
Found at i:170938 original size:33 final size:33
Alignment explanation
Indices: 170859--170938 Score: 90
Period size: 35 Copynumber: 2.3 Consensus size: 33
170849 ATACAATCTG
* *
170859 TCCATCACCATTATCACGCCTATATCATCACCATAT
1 TCCATCACCA-TATCACGCCAATAACATCACC--AT
170895 TCCATCACCATATCACGCCAATAACATCATCC-T
1 TCCATCACCATATCACGCCAATAACATCA-CCAT
*
170928 TCCATTACCAT
1 TCCATCACCAT
170939 TACATCACCA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
33 11 0.28
35 17 0.43
36 12 0.30
ACGTcount: A:0.31, C:0.38, G:0.03, T:0.29
Consensus pattern (33 bp):
TCCATCACCATATCACGCCAATAACATCACCAT
Found at i:175407 original size:33 final size:33
Alignment explanation
Indices: 175328--175407 Score: 90
Period size: 35 Copynumber: 2.3 Consensus size: 33
175318 ATACAATCTG
* *
175328 TCCATCACCATTATCACGCCTATATCATCACCATAT
1 TCCATCACCA-TATCACGCCAATAACATCACC--AT
175364 TCCATCACCATATCACGCCAATAACATCATCC-T
1 TCCATCACCATATCACGCCAATAACATCA-CCAT
*
175397 TCCATTACCAT
1 TCCATCACCAT
175408 TACATCACCA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
33 11 0.28
35 17 0.43
36 12 0.30
ACGTcount: A:0.31, C:0.38, G:0.03, T:0.29
Consensus pattern (33 bp):
TCCATCACCATATCACGCCAATAACATCACCAT
Found at i:179879 original size:33 final size:33
Alignment explanation
Indices: 179800--179879 Score: 90
Period size: 35 Copynumber: 2.3 Consensus size: 33
179790 ATACAATCTG
* *
179800 TCCATCACCATTATCACGCCTATATCATCACCATAT
1 TCCATCACCA-TATCACGCCAATAACATCACC--AT
179836 TCCATCACCATATCACGCCAATAACATCATCC-T
1 TCCATCACCATATCACGCCAATAACATCA-CCAT
*
179869 TCCATTACCAT
1 TCCATCACCAT
179880 TACATCACCA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
33 11 0.28
35 17 0.43
36 12 0.30
ACGTcount: A:0.31, C:0.38, G:0.03, T:0.29
Consensus pattern (33 bp):
TCCATCACCATATCACGCCAATAACATCACCAT
Found at i:191905 original size:33 final size:33
Alignment explanation
Indices: 191863--191931 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
191853 GTTGATGAAT
*
191863 GAAGGATGAT-TTAATGGTGATGAAATGGTAATG
1 GAAGGATGATGTTAATGGCG-TGAAATGGTAATG
* * *
191896 GAAGGATGATGTTATTGGCGTGATATGGTGATG
1 GAAGGATGATGTTAATGGCGTGAAATGGTAATG
191929 GAA
1 GAA
191932 TATGGTGATG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 24 0.77
34 7 0.23
ACGTcount: A:0.32, C:0.01, G:0.36, T:0.30
Consensus pattern (33 bp):
GAAGGATGATGTTAATGGCGTGAAATGGTAATG
Found at i:202963 original size:21 final size:21
Alignment explanation
Indices: 202939--202980 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
202929 TGATATGTAA
202939 CCATAGCATATATCTCAATGT
1 CCATAGCATATATCTCAATGT
202960 CCATAGCATATATCTCAATGT
1 CCATAGCATATATCTCAATGT
202981 TATTAATAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.24, G:0.10, T:0.33
Consensus pattern (21 bp):
CCATAGCATATATCTCAATGT
Found at i:228602 original size:13 final size:13
Alignment explanation
Indices: 228580--228609 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
228570 ACTAAACACC
228580 TTTC-ACATACCT
1 TTTCAACATACCT
228592 TTTCAACATACCT
1 TTTCAACATACCT
228605 TTTCA
1 TTTCA
228610 TCTTTGGCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.27, C:0.30, G:0.00, T:0.43
Consensus pattern (13 bp):
TTTCAACATACCT
Found at i:235516 original size:9 final size:9
Alignment explanation
Indices: 235502--235527 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
235492 TGATCTGCAT
235502 TTTCTTCAA
1 TTTCTTCAA
235511 TTTCTTCAA
1 TTTCTTCAA
235520 TTTCTTCA
1 TTTCTTCA
235528 TCTTGCATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.19, C:0.23, G:0.00, T:0.58
Consensus pattern (9 bp):
TTTCTTCAA
Found at i:238927 original size:12 final size:12
Alignment explanation
Indices: 238910--238934 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
238900 TTTGAAACAA
238910 GATGATGCTTTG
1 GATGATGCTTTG
238922 GATGATGCTTTG
1 GATGATGCTTTG
238934 G
1 G
238935 CCGAATGGTT
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:0.16, C:0.08, G:0.36, T:0.40
Consensus pattern (12 bp):
GATGATGCTTTG
Found at i:241733 original size:16 final size:16
Alignment explanation
Indices: 241702--241748 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 16
241692 TGGTAATGAA
241702 ATAAGAAAAGATGAAA-G
1 ATAA-AAAA-ATGAAATG
*
241719 AATAAAGAAATGAAATG
1 -ATAAAAAAATGAAATG
241736 ATAAAAAAATGAA
1 ATAAAAAAATGAA
241749 GATAACTTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 18 0.69
17 4 0.15
18 4 0.15
ACGTcount: A:0.68, C:0.00, G:0.17, T:0.15
Consensus pattern (16 bp):
ATAAAAAAATGAAATG
Found at i:242407 original size:35 final size:37
Alignment explanation
Indices: 242361--242431 Score: 119
Period size: 35 Copynumber: 2.0 Consensus size: 37
242351 TTAGAAGTTG
242361 GTGATAATATAGGCGTGAT-ATGGTGATGGA-ATATA
1 GTGATAATATAGGCGTGATAATGGTGATGGACATATA
*
242396 GTGATGATATAGGCGTGATAATGGTGATGGACATAT
1 GTGATAATATAGGCGTGATAATGGTGATGGACATAT
242432 TGTATCTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
35 18 0.55
36 11 0.33
37 4 0.12
ACGTcount: A:0.32, C:0.04, G:0.32, T:0.31
Consensus pattern (37 bp):
GTGATAATATAGGCGTGATAATGGTGATGGACATATA
Found at i:244926 original size:14 final size:13
Alignment explanation
Indices: 244907--244949 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
244897 TATTTTTTTC
**
244907 AAAAAAAAGGCAA
1 AAAAAAAAAACAA
244920 AAAAAAAAAACAA
1 AAAAAAAAAACAA
*
244933 AACAAAAAAACAA
1 AAAAAAAAAACAA
244946 AAAA
1 AAAA
244950 GCCAAAATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.86, C:0.09, G:0.05, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAACAA
Found at i:252782 original size:15 final size:15
Alignment explanation
Indices: 252747--252775 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
252737 GTGCTTCAAC
252747 TTCTTT-CTTTTCTT
1 TTCTTTGCTTTTCTT
252761 TTCTTTGCTTTTCTT
1 TTCTTTGCTTTTCTT
252776 CTTTTTGAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.00, C:0.21, G:0.03, T:0.76
Consensus pattern (15 bp):
TTCTTTGCTTTTCTT
Found at i:252824 original size:28 final size:27
Alignment explanation
Indices: 252770--252827 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 27
252760 TTTCTTTGCT
* * *
252770 TTTCTTCTTTTTGAGTGCTAGATTTTC
1 TTTCTTCTTTTGGAGTGCTACAATTTC
*
252797 TTTCTTTCTTTTGGAGTGCTTCAATTTC
1 TTTC-TTCTTTTGGAGTGCTACAATTTC
252825 TTT
1 TTT
252828 TATGATTTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 4 0.15
28 22 0.85
ACGTcount: A:0.10, C:0.16, G:0.14, T:0.60
Consensus pattern (27 bp):
TTTCTTCTTTTGGAGTGCTACAATTTC
Found at i:263742 original size:36 final size:36
Alignment explanation
Indices: 263669--263770 Score: 170
Period size: 36 Copynumber: 2.9 Consensus size: 36
263659 ATTTAGAAGT
*
263669 TGGTGATAATATAGGCGTGAT-ATGGTGATGGAATA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGAATA
* *
263704 TGGTGATGATATAGGCCTGATAATGGTGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGAATA
263740 TGGTGATGATATAGGCGTGATAATGGTGATG
1 TGGTGATGATATAGGCGTGATAATGGTGATG
263771 AACAATTGTA
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
35 19 0.31
36 43 0.69
ACGTcount: A:0.28, C:0.05, G:0.35, T:0.31
Consensus pattern (36 bp):
TGGTGATGATATAGGCGTGATAATGGTGATGGAATA
Found at i:268224 original size:36 final size:36
Alignment explanation
Indices: 268151--268266 Score: 189
Period size: 36 Copynumber: 3.2 Consensus size: 36
268141 ATTTAGAAGT
*
268151 TGGTGATAATATAGGCGTGAT-ATGGTGATGGAATA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGAATA
* *
268186 TGGTGATGATGTAGGCGTGATAATGGTGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGAATA
*
268222 TGGTGATGATATAGGCGTGATAATGGTGATGGAAGA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGAATA
268258 TGGTGATGA
1 TGGTGATGA
268267 ACAGATTGTA
Statistics
Matches: 74, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
35 19 0.26
36 55 0.74
ACGTcount: A:0.28, C:0.03, G:0.38, T:0.30
Consensus pattern (36 bp):
TGGTGATGATATAGGCGTGATAATGGTGATGGAATA
Found at i:280217 original size:14 final size:13
Alignment explanation
Indices: 280200--280249 Score: 52
Period size: 14 Copynumber: 3.9 Consensus size: 13
280190 GTGCAAAAAG
280200 AAAGAAAAAGACAA
1 AAAGAAAAAGA-AA
*
280214 AAAGAAGAAGAAA
1 AAAGAAAAAGAAA
280227 AGAAG-AAAAG--A
1 A-AAGAAAAAGAAA
280238 AAAGAAAAAGAA
1 AAAGAAAAAGAA
280250 TTCAAAAAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
10 3 0.10
11 7 0.23
13 7 0.23
14 13 0.43
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAGAAA
Found at i:280246 original size:19 final size:18
Alignment explanation
Indices: 280194--280249 Score: 71
Period size: 19 Copynumber: 3.1 Consensus size: 18
280184 ATTGGAGTGC
280194 AAAAAG-AAAGAAAAAGA
1 AAAAAGAAAAGAAAAAGA
280211 CAAAAAGAAGAAG-AAAAGA
1 -AAAAAGAA-AAGAAAAAGA
280230 AGAAAAGAAAAGAAAAAGA
1 A-AAAAGAAAAGAAAAAGA
280249 A
1 A
280250 TTCAAAAAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
18 10 0.29
19 21 0.62
20 3 0.09
ACGTcount: A:0.79, C:0.02, G:0.20, T:0.00
Consensus pattern (18 bp):
AAAAAGAAAAGAAAAAGA
Found at i:280247 original size:11 final size:11
Alignment explanation
Indices: 280194--280249 Score: 51
Period size: 11 Copynumber: 4.7 Consensus size: 11
280184 ATTGGAGTGC
280194 AAAAAG-AAAG
1 AAAAAGAAAAG
280204 AAAAAGACAAAAAG
1 AAAAAG---AAAAG
*
280218 AAGAAGAAAAG
1 AAAAAGAAAAG
280229 AAGAAAAGAAAAG
1 -A-AAAAGAAAAG
280242 AAAAAGAA
1 AAAAAGAA
280250 TTCAAAAAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
10 6 0.16
11 12 0.32
12 2 0.05
13 9 0.24
14 9 0.24
ACGTcount: A:0.79, C:0.02, G:0.20, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAG
Done.