Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01011388.1 Kokia drynarioides strain JFW-HI SEQ_126370, 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: 405849
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Warning! 179 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:557 original size:17 final size:18
Alignment explanation
Indices: 535--570 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
525 TAAACGAGTT
535 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
552 AATTAGGGTATAAATTGG
1 AATTAGGATATAAATTGG
570 A
1 A
571 TAGAAATACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:3016 original size:21 final size:20
Alignment explanation
Indices: 2979--3017 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
2969 TTTTCTCTTG
2979 ATTTCTATGCTTGGATGTTC
1 ATTTCTATGCTTGGATGTTC
2999 ATTTCTTATGTCTT-GATGT
1 ATTTC-TATG-CTTGGATGT
3018 GTCTTCAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.29
21 9 0.53
22 3 0.18
ACGTcount: A:0.15, C:0.13, G:0.18, T:0.54
Consensus pattern (20 bp):
ATTTCTATGCTTGGATGTTC
Found at i:5361 original size:25 final size:26
Alignment explanation
Indices: 5333--5382 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
5323 AGAACCAAAA
* *
5333 AATTAAATTAACTC-AATTATTAAAC
1 AATTAAATAAACCCAAATTATTAAAC
5358 AATTAAATAAACCCAAATTATTAAA
1 AATTAAATAAACCCAAATTATTAAA
5383 TATAATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (26 bp):
AATTAAATAAACCCAAATTATTAAAC
Found at i:20625 original size:15 final size:14
Alignment explanation
Indices: 20600--20635 Score: 63
Period size: 15 Copynumber: 2.5 Consensus size: 14
20590 AAAGTTTTCA
20600 TTTATTTATTTATT
1 TTTATTTATTTATT
20614 TTTATGTTATTTATT
1 TTTAT-TTATTTATT
20629 TTTATTT
1 TTTATTT
20636 TTCAAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (14 bp):
TTTATTTATTTATT
Found at i:22261 original size:15 final size:17
Alignment explanation
Indices: 22241--22278 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
22231 GAAGTAGACA
22241 ATCCTGA-AA-AAGAAG
1 ATCCTGACAAGAAGAAG
22256 ATCCTGACGAAGAAGAAG
1 ATCCTGAC-AAGAAGAAG
22274 ATCCT
1 ATCCT
22279 AACGAAGGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 7 0.35
17 2 0.10
18 11 0.55
ACGTcount: A:0.45, C:0.18, G:0.21, T:0.16
Consensus pattern (17 bp):
ATCCTGACAAGAAGAAG
Found at i:22273 original size:18 final size:18
Alignment explanation
Indices: 22250--22285 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
22240 AATCCTGAAA
*
22250 AAGAAGATCCTGACGAAG
1 AAGAAGATCCTAACGAAG
22268 AAGAAGATCCTAACGAAG
1 AAGAAGATCCTAACGAAG
22286 GTCTTGTAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.47, C:0.17, G:0.25, T:0.11
Consensus pattern (18 bp):
AAGAAGATCCTAACGAAG
Found at i:34550 original size:13 final size:13
Alignment explanation
Indices: 34532--34556 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34522 ATTAAGTTAG
34532 TTTAGATTAATAC
1 TTTAGATTAATAC
34545 TTTAGATTAATA
1 TTTAGATTAATA
34557 TTCTTCACAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (13 bp):
TTTAGATTAATAC
Found at i:34790 original size:27 final size:27
Alignment explanation
Indices: 34759--34811 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
34749 TCTGACATCG
*
34759 TAGATAGTCCGATAGGACGTTAAACAC
1 TAGATAGTACGATAGGACGTTAAACAC
* *
34786 TAGATAGTATGATGGGACGTTAAACA
1 TAGATAGTACGATAGGACGTTAAACA
34812 TGGGTAGTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.38, C:0.13, G:0.25, T:0.25
Consensus pattern (27 bp):
TAGATAGTACGATAGGACGTTAAACAC
Found at i:38170 original size:18 final size:18
Alignment explanation
Indices: 38149--38208 Score: 54
Period size: 18 Copynumber: 3.5 Consensus size: 18
38139 AACTTAACTC
38149 ATATTTTAAATAAATTTA
1 ATATTTTAAATAAATTTA
*** *
38167 ATATTTTTGTTAAA-TTC
1 ATATTTTAAATAAATTTA
*
38184 AT-TTTTCAA-AAATTTA
1 ATATTTTAAATAAATTTA
38200 ATATTTTAA
1 ATATTTTAA
38209 TTCTGCCATA
Statistics
Matches: 31, Mismatches: 9, Indels: 5
0.69 0.20 0.11
Matches are distributed among these distances:
15 3 0.10
16 8 0.26
17 9 0.29
18 11 0.35
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (18 bp):
ATATTTTAAATAAATTTA
Found at i:39035 original size:10 final size:10
Alignment explanation
Indices: 39003--39036 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
38993 TTTTTAATTT
*
39003 AAATTTTTAA
1 AAATTTTAAA
*
39013 AATTTTTAAA
1 AAATTTTAAA
39023 AAATTTTAAA
1 AAATTTTAAA
39033 AAAT
1 AAAT
39037 AAATTATATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
AAATTTTAAA
Found at i:39123 original size:17 final size:17
Alignment explanation
Indices: 39086--39126 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
39076 TTTAATCATT
39086 TAAAATTA-TAAATACA
1 TAAAATTATTAAATACA
39102 T-AAATTATTAAAATA-A
1 TAAAATTATT-AAATACA
39118 TAAAATTAT
1 TAAAATTAT
39127 ATTTTTACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 6 0.27
16 4 0.18
17 12 0.55
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (17 bp):
TAAAATTATTAAATACA
Found at i:41618 original size:157 final size:159
Alignment explanation
Indices: 41328--41628 Score: 432
Period size: 157 Copynumber: 1.9 Consensus size: 159
41318 TGTACCATCC
* *
41328 TTTTTTGGCTTCTAGTTCTTTTACTCGTACCAAGCTGAGACAAAAAAATCACAACCTCAAATTAG
1 TTTTTTGGCTTCTAGTTCTTGTACTCGTACCAAGATGAGACAAAAAAATCACAACCTCAAATTAG
* * *
41393 ATTTAAATATTGTCTAACTTGACAGTAAAAGGGTGTTTACGGTATACCTATGATCTAGTTGTGTT
66 ATTTAAATATTGTCTAACTTGACAGTAAAAGAGTGTTTACGGTATACCTATGATCCAATTGTGTT
41458 AGGTTGAATGCATGGTCTTCTATTGTTCT
131 AGGTTGAATGCATGGTCTTCTATTGTTCT
* *
41487 TTTTTTGGCTTCTAGTTCTTGTACTCGTACCAGGATGAGATAAAAAAAT-ACAACCAT-AAATTA
1 TTTTTTGGCTTCTAGTTCTTGTACTCGTACCAAGATGAGACAAAAAAATCACAACC-TCAAATTA
* * * * *
41550 TATTTAAATATT-T-TGGAGTTGACAGTGAAAA-AGTGTTTACGGTATACTTGTGATCCAATTGT
65 GATTTAAATATTGTCT-AACTTGACAGT-AAAAGAGTGTTTACGGTATACCTATGATCCAATTGT
41612 GTTAGGTTGAATGCATG
128 GTTAGGTTGAATGCATG
41629 ATATTTTGTT
Statistics
Matches: 127, Mismatches: 12, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
156 1 0.01
157 53 0.42
158 27 0.21
159 46 0.36
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.38
Consensus pattern (159 bp):
TTTTTTGGCTTCTAGTTCTTGTACTCGTACCAAGATGAGACAAAAAAATCACAACCTCAAATTAG
ATTTAAATATTGTCTAACTTGACAGTAAAAGAGTGTTTACGGTATACCTATGATCCAATTGTGTT
AGGTTGAATGCATGGTCTTCTATTGTTCT
Found at i:42580 original size:30 final size:31
Alignment explanation
Indices: 42540--42601 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
42530 ACATAAATAA
*
42540 AGCATAAGTAA-AAAATGATGAAAAATAAAT
1 AGCATAAGTAATAAAATAATGAAAAATAAAT
* * *
42570 AGCATCAGTAATAAATTAATGCAAAATAAAT
1 AGCATAAGTAATAAAATAATGAAAAATAAAT
42601 A
1 A
42602 ACATTATTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 10 0.37
31 17 0.63
ACGTcount: A:0.60, C:0.06, G:0.11, T:0.23
Consensus pattern (31 bp):
AGCATAAGTAATAAAATAATGAAAAATAAAT
Found at i:44021 original size:24 final size:24
Alignment explanation
Indices: 43994--44054 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
43984 TTGCCAGCAA
* **
43994 CTTCAACACCTTCCCCATTTAAAC
1 CTTCAACACCCTCCCCACCTAAAC
44018 CTTCAACACCCTCCCCACCTAAAC
1 CTTCAACACCCTCCCCACCTAAAC
*
44042 CTTCAGCACCCTC
1 CTTCAACACCCTC
44055 ACCCTCACCA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.26, C:0.49, G:0.02, T:0.23
Consensus pattern (24 bp):
CTTCAACACCCTCCCCACCTAAAC
Found at i:51452 original size:122 final size:122
Alignment explanation
Indices: 51299--51540 Score: 304
Period size: 122 Copynumber: 2.0 Consensus size: 122
51289 ACCTATTGTG
* * * * *
51299 TCAACAGGGTTCTCAAAAGAGCACTCGACTATAAAATCGACTAATATGTTCCCCTTTATTGTCAC
1 TCAACAGGCTTCTCAAAAGAGCACTAGACTATAAAATAGACCAATATGTTCCCCTTTATTATCAC
*
51364 TCTCGAGGCAAACTCCATGCCAAATTTGGCCAACTCGATGCTCCACTTTGTCACCGA
66 TCTCGAGGCAAACTCCATGCCAAATTCGGCCAACTCGATGCTCCACTTTGTCACCGA
* * * * **
51421 TCAACAGGCTTCTCAAAAGAGCACTATACTATAAAATAGGCCAATATTTTCCCCTTTGTTATCGT
1 TCAACAGGCTTCTCAAAAGAGCACTAGACTATAAAATAGACCAATATGTTCCCCTTTATTATCAC
* * ** ** * *
51486 TCTTGGGGTGAACTTTATGTCGAATTCGGCCAACTCGATGCTCCACTTTGTCACC
66 TCTCGAGGCAAACTCCATGCCAAATTCGGCCAACTCGATGCTCCACTTTGTCACC
51541 CTTACTGATG
Statistics
Matches: 100, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
122 100 1.00
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (122 bp):
TCAACAGGCTTCTCAAAAGAGCACTAGACTATAAAATAGACCAATATGTTCCCCTTTATTATCAC
TCTCGAGGCAAACTCCATGCCAAATTCGGCCAACTCGATGCTCCACTTTGTCACCGA
Found at i:60839 original size:79 final size:80
Alignment explanation
Indices: 60723--60877 Score: 213
Period size: 79 Copynumber: 1.9 Consensus size: 80
60713 TCGATACGAA
* * * * *
60723 CCATATTACTCACTCACGATGTTGCTCACACAAGCTGTCAATAATCTACAACGTATGCAGGATCT
1 CCATATTACTCAATCACGATGCTGCTCACACAAGCTGTCAAGAATCCACAACGTACGCAGGATCT
60788 CAGCCATCGTAAGGT
66 CAGCCATCGTAAGGT
* * * *
60803 CCATATTAC-CAATCACGATGCTGCTTACCCTAGCTGTCAAGAATCCACAACGTACGTAGGATCT
1 CCATATTACTCAATCACGATGCTGCTCACACAAGCTGTCAAGAATCCACAACGTACGCAGGATCT
*
60867 TAGCCATCGTA
66 CAGCCATCGTA
60878 GGGGTTCGTA
Statistics
Matches: 65, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
79 56 0.86
80 9 0.14
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (80 bp):
CCATATTACTCAATCACGATGCTGCTCACACAAGCTGTCAAGAATCCACAACGTACGCAGGATCT
CAGCCATCGTAAGGT
Found at i:68673 original size:25 final size:25
Alignment explanation
Indices: 68645--68787 Score: 117
Period size: 25 Copynumber: 5.6 Consensus size: 25
68635 TAATCACCAT
*
68645 CTCATAGCCTGCTAAAAGTCACTGG
1 CTCAAAGCCTGCTAAAAGTCACTGG
* *
68670 CTCAGAGCCTGCTAAACATTCACTGG
1 CTCAAAGCCTGCTAAA-AGTCACTGG
* * * *
68696 -TCCGATGCTTGCTAAAAGTCATTGG
1 CT-CAAAGCCTGCTAAAAGTCACTGG
* * * *
68721 CTCAAAGCCTTCTAAGCATTCACCGG
1 CTCAAAGCCTGCTAA-AAGTCACTGG
* * *
68747 CTCGAAGCCTACTAAAAGTCACCGG
1 CTCAAAGCCTGCTAAAAGTCACTGG
*
68772 CTCAAAGCTTGCTAAA
1 CTCAAAGCCTGCTAAA
68788 CATTCACCAG
Statistics
Matches: 91, Mismatches: 23, Indels: 8
0.75 0.19 0.07
Matches are distributed among these distances:
25 53 0.58
26 38 0.42
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.24
Consensus pattern (25 bp):
CTCAAAGCCTGCTAAAAGTCACTGG
Found at i:68709 original size:51 final size:51
Alignment explanation
Indices: 68650--68813 Score: 204
Period size: 51 Copynumber: 3.2 Consensus size: 51
68640 ACCATCTCAT
* *
68650 AGCCTGCTAAAAGTCACTGGCTCAGAGCCTGCTAAACATTCACTGG-TCCGA
1 AGCCTGCTAAAAGTCACTGGCTCAAAGCCTGCTAAACATTCACCGGCT-CGA
* * * * *
68701 TGCTTGCTAAAAGTCATTGGCTCAAAGCCTTCTAAGCATTCACCGGCTCGA
1 AGCCTGCTAAAAGTCACTGGCTCAAAGCCTGCTAAACATTCACCGGCTCGA
* * * *
68752 AGCCTACTAAAAGTCACCGGCTCAAAGCTTGCTAAACATTCACCAGCTCGA
1 AGCCTGCTAAAAGTCACTGGCTCAAAGCCTGCTAAACATTCACCGGCTCGA
*
68803 AGTCTGCTAAA
1 AGCCTGCTAAA
68814 CATTTATCTC
Statistics
Matches: 94, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
51 93 0.99
52 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (51 bp):
AGCCTGCTAAAAGTCACTGGCTCAAAGCCTGCTAAACATTCACCGGCTCGA
Found at i:68800 original size:26 final size:26
Alignment explanation
Indices: 68645--68817 Score: 106
Period size: 26 Copynumber: 6.8 Consensus size: 26
68635 TAATCACCAT
* * * *
68645 CTCATAGCCTGCTAAA-AGTCACTGG
1 CTCAAAGCTTGCTAAACATTCACCGG
* * *
68670 CTCAGAGCCTGCTAAACATTCACTGG
1 CTCAAAGCTTGCTAAACATTCACCGG
* * * **
68696 -TCCGATGCTTGCTAAA-AGTCATTGG
1 CT-CAAAGCTTGCTAAACATTCACCGG
*
68721 CTCAAAGCCTT-CTAAGCATTCACCGG
1 CTCAAAG-CTTGCTAAACATTCACCGG
* * * *
68747 CTCGAAGCCTACTAAA-AGTCACCGG
1 CTCAAAGCTTGCTAAACATTCACCGG
*
68772 CTCAAAGCTTGCTAAACATTCACCAG
1 CTCAAAGCTTGCTAAACATTCACCGG
*
68798 CTCGAAG-TCTGCTAAACATT
1 CTCAAAGCT-TGCTAAACATT
68818 TATCTCACTT
Statistics
Matches: 116, Mismatches: 24, Indels: 15
0.75 0.15 0.10
Matches are distributed among these distances:
25 54 0.47
26 62 0.53
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (26 bp):
CTCAAAGCTTGCTAAACATTCACCGG
Found at i:75896 original size:24 final size:24
Alignment explanation
Indices: 75861--75926 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 24
75851 CTAGACAAAA
* *
75861 TTAGCTCATACGAGCCCAGATAGG
1 TTAGCTCTTACGAGCCCAGATAAG
**
75885 TTAGCTCTTACGAGCGTAGATAAG
1 TTAGCTCTTACGAGCCCAGATAAG
75909 TTAGCTCATT-CGAGCCCA
1 TTAGCTC-TTACGAGCCCA
75927 AACAGAGTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
24 33 0.94
25 2 0.06
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (24 bp):
TTAGCTCTTACGAGCCCAGATAAG
Found at i:79179 original size:26 final size:26
Alignment explanation
Indices: 79126--79344 Score: 241
Period size: 26 Copynumber: 8.6 Consensus size: 26
79116 ATCAAGTTAT
*
79126 AGCCTGCTAAA-AATCACCAGCTCAA
1 AGCCTGCTAAACATTCACCAGCTCAA
* * *
79151 AGCCTACTAAACATTCACCGGCTCGA
1 AGCCTGCTAAACATTCACCAGCTCAA
* * *
79177 AGCATGCTAAA-AGTCACTAGCTCAA
1 AGCCTGCTAAACATTCACCAGCTCAA
79202 AGCCTGCTAAACATTCACC-GACTCAA
1 AGCCTGCTAAACATTCACCAG-CTCAA
* *
79228 AGCCTGCTAAA-AATCACTAGCTCAA
1 AGCCTGCTAAACATTCACCAGCTCAA
* * * * *
79253 AACCTACTAAA-AGTCACCGGCTCGA
1 AGCCTGCTAAACATTCACCAGCTCAA
* *
79278 AGCCTGCTAAACATTCACAAGCTCGA
1 AGCCTGCTAAACATTCACCAGCTCAA
79304 AGCCTGCTAAACATTCACCAGCTCAA
1 AGCCTGCTAAACATTCACCAGCTCAA
*
79330 AGCTTGCTAAACATT
1 AGCCTGCTAAACATT
79345 TATCTCACAT
Statistics
Matches: 160, Mismatches: 29, Indels: 9
0.81 0.15 0.05
Matches are distributed among these distances:
25 69 0.43
26 91 0.57
ACGTcount: A:0.36, C:0.31, G:0.14, T:0.20
Consensus pattern (26 bp):
AGCCTGCTAAACATTCACCAGCTCAA
Found at i:79185 original size:51 final size:51
Alignment explanation
Indices: 79126--79340 Score: 279
Period size: 51 Copynumber: 4.2 Consensus size: 51
79116 ATCAAGTTAT
* *
79126 AGCCTGCTAAAAATCACCAGCTCAAAGCCTACTAAACATTCACCGGCTCGA
1 AGCCTGCTAAAAATCACTAGCTCAAAGCCTACTAAACATTCACCGGCTCAA
* * * *
79177 AGCATGCTAAAAGTCACTAGCTCAAAGCCTGCTAAACATTCACCGACTCAA
1 AGCCTGCTAAAAATCACTAGCTCAAAGCCTACTAAACATTCACCGGCTCAA
* * *
79228 AGCCTGCTAAAAATCACTAGCTCAAAACCTACTAAA-AGTCACCGGCTCGA
1 AGCCTGCTAAAAATCACTAGCTCAAAGCCTACTAAACATTCACCGGCTCAA
* * * * *
79278 AGCCTGCTAAACATTCACAAGCTCGAAGCCTGCTAAACATTCACCAGCTCAA
1 AGCCTGCTAAA-AATCACTAGCTCAAAGCCTACTAAACATTCACCGGCTCAA
*
79330 AGCTTGCTAAA
1 AGCCTGCTAAA
79341 CATTTATCTC
Statistics
Matches: 140, Mismatches: 22, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
50 22 0.16
51 97 0.69
52 21 0.15
ACGTcount: A:0.36, C:0.31, G:0.14, T:0.19
Consensus pattern (51 bp):
AGCCTGCTAAAAATCACTAGCTCAAAGCCTACTAAACATTCACCGGCTCAA
Found at i:79267 original size:76 final size:77
Alignment explanation
Indices: 79126--79330 Score: 254
Period size: 76 Copynumber: 2.7 Consensus size: 77
79116 ATCAAGTTAT
* * * * * *
79126 AGCCTGCTAAA-AATCACCAGCTCAAAGCCTACTAAACATTCACCGGCTCGAAGCATGCTAAAAG
1 AGCCTGCTAAACATTCACCAGCTCAAAGCCTGCTAAACATTCACCAGCTCAAAACATACTAAAAG
*
79190 TCACTAGCTCAA
66 TCACCAGCTCAA
* * *
79202 AGCCTGCTAAACATTCACC-GACTCAAAGCCTGCTAAA-AATCACTAGCTCAAAACCTACTAAAA
1 AGCCTGCTAAACATTCACCAG-CTCAAAGCCTGCTAAACATTCACCAGCTCAAAACATACTAAAA
* *
79265 GTCACCGGCTCGA
65 GTCACCAGCTCAA
* *
79278 AGCCTGCTAAACATTCACAAGCTCGAAGCCTGCTAAACATTCACCAGCTCAAA
1 AGCCTGCTAAACATTCACCAGCTCAAAGCCTGCTAAACATTCACCAGCTCAAA
79331 GCTTGCTAAA
Statistics
Matches: 109, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
76 74 0.68
77 35 0.32
ACGTcount: A:0.37, C:0.31, G:0.14, T:0.19
Consensus pattern (77 bp):
AGCCTGCTAAACATTCACCAGCTCAAAGCCTGCTAAACATTCACCAGCTCAAAACATACTAAAAG
TCACCAGCTCAA
Found at i:79301 original size:102 final size:102
Alignment explanation
Indices: 79126--79340 Score: 326
Period size: 102 Copynumber: 2.1 Consensus size: 102
79116 ATCAAGTTAT
* *
79126 AGCCTGCTAAAAATCACCAGCTCAAAGCCTACTAAACATTCACCGGCTCGAAGCATGCTAAAAGT
1 AGCCTGCTAAAAATCACCAGCTCAAAACCTACTAAACAGTCACCGGCTCGAAGCATGCTAAAAGT
*
79191 CACTAGCTCAAAGCCTGCTAAACATTCACC-GACTCAA
66 CACAAGCTCAAAGCCTGCTAAACATTCACCAG-CTCAA
* * *
79228 AGCCTGCTAAAAATCACTAGCTCAAAACCTACTAAA-AGTCACCGGCTCGAAGCCTGCTAAACAT
1 AGCCTGCTAAAAATCACCAGCTCAAAACCTACTAAACAGTCACCGGCTCGAAGCATGCTAAA-AG
*
79292 TCACAAGCTCGAAGCCTGCTAAACATTCACCAGCTCAA
65 TCACAAGCTCAAAGCCTGCTAAACATTCACCAGCTCAA
*
79330 AGCTTGCTAAA
1 AGCCTGCTAAA
79341 CATTTATCTC
Statistics
Matches: 103, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
101 23 0.22
102 79 0.77
103 1 0.01
ACGTcount: A:0.36, C:0.31, G:0.14, T:0.19
Consensus pattern (102 bp):
AGCCTGCTAAAAATCACCAGCTCAAAACCTACTAAACAGTCACCGGCTCGAAGCATGCTAAAAGT
CACAAGCTCAAAGCCTGCTAAACATTCACCAGCTCAA
Found at i:82413 original size:30 final size:29
Alignment explanation
Indices: 82379--82443 Score: 69
Period size: 30 Copynumber: 2.2 Consensus size: 29
82369 TTAGCGAAGG
*
82379 TAAAA-TTGCATTTTATCCCCTTAAAAATAA
1 TAAAATTTG-ATTTAAT-CCCTTAAAAATAA
* *
82409 TAAAAATTTGATTTAATCCTTTAAAAATTA
1 T-AAAATTTGATTTAATCCCTTAAAAATAA
82439 TAAAA
1 TAAAA
82444 ACATAGATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
29 4 0.13
30 13 0.43
31 10 0.33
32 3 0.10
ACGTcount: A:0.48, C:0.11, G:0.03, T:0.38
Consensus pattern (29 bp):
TAAAATTTGATTTAATCCCTTAAAAATAA
Found at i:91723 original size:68 final size:68
Alignment explanation
Indices: 91560--91723 Score: 220
Period size: 68 Copynumber: 2.4 Consensus size: 68
91550 TCAAAGGTTG
* * * * * *
91560 CGATATTAAATCAACGAGCGTGAATAATGTCAACTGTAAAAGTAGGTCATTGAGCTGTTTGGAGA
1 CGATATTAAATCAACGAGCCTTAATAATGTCAACTGTAAAAGTAGATCAGTAAGCTATTTGGAGA
91625 CTA
66 CTA
* * *
91628 CGATATTAAATCAACGAGCCTTGATAATGTCAACTGTGAACGTAGATCAGTAAGCTATTTGGAGA
1 CGATATTAAATCAACGAGCCTTAATAATGTCAACTGTAAAAGTAGATCAGTAAGCTATTTGGAGA
91693 CTA
66 CTA
* * *
91696 CGATATTAAATCAGCAAGCTTTAATAAT
1 CGATATTAAATCAACGAGCCTTAATAAT
91724 TTTAGCTATG
Statistics
Matches: 83, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
68 83 1.00
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.29
Consensus pattern (68 bp):
CGATATTAAATCAACGAGCCTTAATAATGTCAACTGTAAAAGTAGATCAGTAAGCTATTTGGAGA
CTA
Found at i:94383 original size:29 final size:28
Alignment explanation
Indices: 94350--94530 Score: 96
Period size: 29 Copynumber: 6.2 Consensus size: 28
94340 AAAAAACACG
94350 ATTTTTGAATGCTCGGCGGTAAAATGGTA
1 ATTTTTGAATGCTCGG-GGTAAAATGGTA
* * **
94379 ATTTTGGACACTACGGGGGGCT-AAATGGTA
1 ATTTTTGA-A-TGCTCGGGG-TAAAATGGTA
* ** * *
94409 ATTTTTGGACACTCAAGGGTAAAATGATA
1 ATTTTTGAATGCTC-GGGGTAAAATGGTA
* * *
94438 ATTTTTGGATGTTTAGGGGTAAAATGGTA
1 ATTTTTGAATG-CTCGGGGTAAAATGGTA
* * * * *
94467 ATTTTGGAAAGTTTGGGGTCAAAATTGTA
1 ATTTTTGAATGCTCGGGGT-AAAATGGTA
* *
94496 ATTTTTGGACAT-TTAGGGGTAAAATGGTA
1 ATTTTT-GA-ATGCTCGGGGTAAAATGGTA
94525 ATTTTT
1 ATTTTT
94531 AAGAGTTTGA
Statistics
Matches: 117, Mismatches: 26, Indels: 18
0.73 0.16 0.11
Matches are distributed among these distances:
28 10 0.09
29 74 0.63
30 27 0.23
31 6 0.05
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (28 bp):
ATTTTTGAATGCTCGGGGTAAAATGGTA
Found at i:94491 original size:58 final size:57
Alignment explanation
Indices: 94436--94631 Score: 225
Period size: 59 Copynumber: 3.4 Consensus size: 57
94426 GGTAAAATGA
*
94436 TAATTTTTGGATGTTTAGGGGTAAAATGGTAATTTTGGAAAGTTTGGGGTCAAAATTG
1 TAATTTTTGGAAGTTTAGGGGTAAAATGGTAATTTT-GAAAGTTTGGGGTCAAAATTG
* *
94494 TAATTTTTGGACA-TTTAGGGGTAAAATGGTAATTTTTAAGAGTTTGAGGGTAAAAATTG
1 TAATTTTTGGA-AGTTTAGGGGTAAAATGGTAATTTTGAA-AGTTTG-GGGTCAAAATTG
* * * * * *
94553 GATTTTTTAGAAGTTTGGGGGTAAAAAT-GTAATTTTTGAGAAGTTCGGGGTCAAAAATG
1 TAATTTTTGGAAGTTTAGGGGT-AAAATGGTAA-TTTTGA-AAGTTTGGGGTCAAAATTG
*
94612 TAATTTTTGGAAGTTAAGGG
1 TAATTTTTGGAAGTTTAGGG
94632 TGAAAATATG
Statistics
Matches: 115, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
57 2 0.02
58 41 0.36
59 56 0.49
60 15 0.13
61 1 0.01
ACGTcount: A:0.32, C:0.02, G:0.28, T:0.38
Consensus pattern (57 bp):
TAATTTTTGGAAGTTTAGGGGTAAAATGGTAATTTTGAAAGTTTGGGGTCAAAATTG
Found at i:94624 original size:29 final size:28
Alignment explanation
Indices: 94401--94638 Score: 162
Period size: 29 Copynumber: 8.1 Consensus size: 28
94391 ACGGGGGGCT
* * *
94401 AAATGGTAATTTTTGGACACTCAAGGGT-A
1 AAAT-GTAATTTTTGGA-AGTTAGGGGTAA
*
94430 AAATGATAATTTTTGGATGTTTAGGGGT-A
1 AAATG-TAATTTTTGGAAG-TTAGGGGTAA
*
94459 AAATGGTAA-TTTTGGAAAGTTTGGGGTCAA
1 AAAT-GTAATTTTTGG-AAGTTAGGGGT-AA
* *
94489 AATTGTAATTTTTGGACATTTAGGGGT-A
1 AAATGTAATTTTTGGA-AGTTAGGGGTAA
* *
94517 AAATGGTAATTTTT-AAGAGTTTGAGGGTAA
1 AAAT-GTAATTTTTGGA-AGTTAG-GGGTAA
* * * *
94547 AAATTGGATTTTTTAGAAGTTTGGGGGTAA
1 AAA-TGTAATTTTTGGAAG-TTAGGGGTAA
*
94577 AAATGTAATTTTTGAGAAGTTCGGGGTCAA
1 AAATGTAATTTTTG-GAAGTTAGGGGT-AA
* *
94607 AAATGTAATTTTTGGAAGTTAAGGGTGA
1 AAATGTAATTTTTGGAAGTTAGGGGTAA
94635 AAAT
1 AAAT
94639 ATGATTGTTG
Statistics
Matches: 168, Mismatches: 25, Indels: 33
0.74 0.11 0.15
Matches are distributed among these distances:
28 28 0.17
29 74 0.44
30 61 0.36
31 5 0.03
ACGTcount: A:0.34, C:0.03, G:0.27, T:0.37
Consensus pattern (28 bp):
AAATGTAATTTTTGGAAGTTAGGGGTAA
Found at i:96406 original size:17 final size:17
Alignment explanation
Indices: 96386--96421 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
96376 TTTAATTAAT
*
96386 TTTAATTTTAAAATAAA
1 TTTAAATTTAAAATAAA
*
96403 TTTAAATTTAAAGTAAA
1 TTTAAATTTAAAATAAA
96420 TT
1 TT
96422 CAAACTTATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:97372 original size:123 final size:122
Alignment explanation
Indices: 97087--97372 Score: 315
Period size: 123 Copynumber: 2.3 Consensus size: 122
97077 AGGAAGACAA
* * * * * *** *
97087 ATTTGGTCCACTTCTCAGTATCTCTTCAGAAAGTTGACCATTTTAATGCTTCGACCTGCTTCTCA
1 ATTTGGTCTACTTCTTAGTATCTCATCAGGAAGATGACTGCTTTAATACTTCGACCTGCTTCTCA
* * *
97152 GTATCTCATCAGGAAGCTAGGTTCGAAGTTTCGCTCATATTTAGCCTTGTTTCATTG
66 GTATCTCATCAGAAAGCTAGGTTCGAAGTTTCGCTCATATTGAGCCTGGTTTCATTG
** * * * * * * * *
97209 ATTCAGTATACTTCTCT-GCATCTCATCAGGAAGGTAACTGCTTTATTACTTTGACCTGTTTTTC
1 ATTTGGTCTACTTCT-TAGTATCTCATCAGGAAGATGACTGCTTTAATACTTCGACCTGCTTCTC
* *
97273 AGTATCTCATCAGAAAGCTGGGGTTCTAAGTTTCGCTCACT-TTGAGCCTGGTTTCATTG
65 AGTATCTCATCAGAAAGCT-AGGTTCGAAGTTTCGCTCA-TATTGAGCCTGGTTTCATTG
97332 ATTTGGTCTACTTCTTAGTATCTCATCAGGAAGATGACTGC
1 ATTTGGTCTACTTCTTAGTATCTCATCAGGAAGATGACTGC
97373 CTCGTTGTTT
Statistics
Matches: 131, Mismatches: 29, Indels: 7
0.78 0.17 0.04
Matches are distributed among these distances:
122 64 0.49
123 66 0.50
124 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.38
Consensus pattern (122 bp):
ATTTGGTCTACTTCTTAGTATCTCATCAGGAAGATGACTGCTTTAATACTTCGACCTGCTTCTCA
GTATCTCATCAGAAAGCTAGGTTCGAAGTTTCGCTCATATTGAGCCTGGTTTCATTG
Found at i:97385 original size:123 final size:122
Alignment explanation
Indices: 97139--97408 Score: 303
Period size: 123 Copynumber: 2.2 Consensus size: 122
97129 TTAATGCTTC
* * *
97139 GACCTGCTTCTCAGTATCTCATCAGGAAGCTAGGTTCGAAGTTTCGCTCATATTTAGCCTTGTTT
1 GACCTGCTTCTCAGTATCTCATCAGAAAGCTAGGTTCGAAGTTTCGCTCATATTGAGCCTGGTTT
* * *
97204 CATTGATTCAGTATACTTCTCTGCATCTCATCAGGAAGGTAACTGCTTTATTACTTT
66 CATTGATTCAGTATACTTCTCTGCATCTCATCAGGAAGATAACTGCCTCATTACTTT
* * * *
97261 GACCTGTTTTTCAGTATCTCATCAGAAAGCTGGGGTTCTAAGTTTCGCTCACT-TTGAGCCTGGT
1 GACCTGCTTCTCAGTATCTCATCAGAAAGCT-AGGTTCGAAGTTTCGCTCA-TATTGAGCCTGGT
** * * * * **
97325 TTCATTGATTTGGTCTACTTCT-TAGTATCTCATCAGGAAGATGACTGCCTCGTTGTTTT
64 TTCATTGATTCAGTATACTTCTCT-GCATCTCATCAGGAAGATAACTGCCTCATTACTTT
* *
97384 GATCC-ACTTCTCTGTATCTCATCAG
1 GA-CCTGCTTCTCAGTATCTCATCAG
97409 GAAGTCAGAT
Statistics
Matches: 122, Mismatches: 22, Indels: 7
0.81 0.15 0.05
Matches are distributed among these distances:
122 29 0.24
123 90 0.74
124 3 0.02
ACGTcount: A:0.20, C:0.22, G:0.19, T:0.39
Consensus pattern (122 bp):
GACCTGCTTCTCAGTATCTCATCAGAAAGCTAGGTTCGAAGTTTCGCTCATATTGAGCCTGGTTT
CATTGATTCAGTATACTTCTCTGCATCTCATCAGGAAGATAACTGCCTCATTACTTT
Found at i:97514 original size:331 final size:331
Alignment explanation
Indices: 96894--97565 Score: 872
Period size: 331 Copynumber: 2.0 Consensus size: 331
96884 TTCACTTTTT
* * * *
96894 TGCATCTCGTTAGGAAGGTGACCACTTTATTACTTCGACCTGCTTCTCAGTACCTCATCAGGAAG
1 TGCATCTCATCAGGAAGGTAACCACTTTATTACTTCGACCTGCTTCTCAGTACCTCATCAGAAAG
* * *
96959 CTGGGGTTCGAAGTTTTGCTCACATTGAGCTTTGTTTCATTGATTTGGTATACTTCTCTGTATCT
66 CTGGGGTTCGAAGTTTCGCTCACATTGAGCCTGGTTTCATTGATTTGGTATACTTCTCTGTATCT
*
97024 CATCAGGAAGATGATCACATCACTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGACAAAT
131 CATCAGGAAGATGATCACATCACTTGTTTCAATCCACTTCTCTGTATCTCATCAGGAAGACAAAT
* * ** *
97089 TTGGTCCACTTCTCAGTATCTCTTCAGAAAGTTGACCATTTTAATGCTTCGACCTGCTTCTCAGT
196 CTGGTCCACTTCTCAGTATCTCATCAGAAAGACGACCACTTTAATGCTTCGACCTGCTTCTCAGT
* * * *
97154 ATCTCATCAGGAAGCTAGGTTCGAAGTTTCGCTCATATTTAGCCTTGTTTCATT-GATTCAGTAT
261 ATCTCATCAGGAAGCTAGGTTCAAAGTTTCGCTCACATTAAGCCTTGTTTCATTGGATT-AGTAC
97218 ACTTCTC
325 ACTTCTC
** * * * *
97225 TGCATCTCATCAGGAAGGTAACTGCTTTATTACTTTGACCTGTTTTTCAGTATCTCATCAGAAAG
1 TGCATCTCATCAGGAAGGTAACCACTTTATTACTTCGACCTGCTTCTCAGTACCTCATCAGAAAG
* * *
97290 CTGGGGTTCTAAGTTTCGCTCACTTTGAGCCTGGTTTCATTGATTTGGTCTACTTCT-TAGTATC
66 CTGGGGTTCGAAGTTTCGCTCACATTGAGCCTGGTTTCATTGATTTGGTATACTTCTCT-GTATC
* ** *
97354 TCATCAGGAAGATGACTGC-C-TC-GTTGTTTTGATCCACTTCTCTGTATCTCATCAGGAAGTCA
130 TCATCAGGAAGATGA-T-CACATCACTTGTTTCAATCCACTTCTCTGTATCTCATCAGGAAGACA
* * * *
97416 GATCTGGTTCACTTCTCTA-TATCTCATCA-AGAAGACGACCGCTTTATTGCTTCGACCTGCTTC
193 AATCTGGTCCACTTCTC-AGTATCTCATCAGA-AAGACGACCACTTTAATGCTTCGACCTGCTTC
* * * *
97479 TCAGTATCTCATCAGGAAGCTGGGGTTCAAAGTTTCGCTCGCATTAAGCTTTGTTTCATTGGGTT
256 TCAGTATCTCATCAGGAAGCT-AGGTTCAAAGTTTCGCTCACATTAAGCCTTGTTTCATTGGATT
*
97544 GGTACACTTCTC
320 AGTACACTTCTC
*
97556 TGTATCTCAT
1 TGCATCTCAT
97566 TATGAAGATG
Statistics
Matches: 294, Mismatches: 40, Indels: 14
0.84 0.11 0.04
Matches are distributed among these distances:
329 1 0.00
330 107 0.36
331 180 0.61
332 5 0.02
333 1 0.00
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.37
Consensus pattern (331 bp):
TGCATCTCATCAGGAAGGTAACCACTTTATTACTTCGACCTGCTTCTCAGTACCTCATCAGAAAG
CTGGGGTTCGAAGTTTCGCTCACATTGAGCCTGGTTTCATTGATTTGGTATACTTCTCTGTATCT
CATCAGGAAGATGATCACATCACTTGTTTCAATCCACTTCTCTGTATCTCATCAGGAAGACAAAT
CTGGTCCACTTCTCAGTATCTCATCAGAAAGACGACCACTTTAATGCTTCGACCTGCTTCTCAGT
ATCTCATCAGGAAGCTAGGTTCAAAGTTTCGCTCACATTAAGCCTTGTTTCATTGGATTAGTACA
CTTCTC
Found at i:97825 original size:210 final size:209
Alignment explanation
Indices: 97261--98091 Score: 1033
Period size: 209 Copynumber: 4.0 Consensus size: 209
97251 TTATTACTTT
* * * * * * * *
97261 GACCTGTTTTTCAGTATCTCATCAGAAAGCTGGGGTTCTAAGTTTCGCTCACTTTGAGCCTGGTT
1 GACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGTTTCGCTCACATTAAGCTTTGTT
* * * * * ** **
97326 TCATTGATTTGGTCTACTTCTTAGTATCTCATCAGGAAGATGACTGCCTC-GTTGTTTTGATCCA
66 TCATTGAGTTGGTATACTTCTCAGTATCTCATCAGGAAGATGACCGCCTCACTTGTTTCAATCTG
* * * *
97390 CTTCTCTGTATCTCATCAGGAAGTC-AGATCTGGTTCACTTCTCTATATCTCATCAAGAAGAC-G
131 CTTCTCTGTATCTCATCAAGAAGACGA-ATTTGGTCCACTTCTCTATATCTCATCAAGAAG-CTG
** *
97453 ACCGCTTTATTGCTTC
194 ACCATTTTATTGATTC
* *
97469 GACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCAAAGTTTCGCTCGCATTAAGCTTTGTT
1 GACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGTTTCGCTCACATTAAGCTTTGTT
* * * * * *
97534 TCATTGGGTTGGTACACTTCTCTGTATCTCATTATGAAGATGACCACCTCACTTGTTTCAATCTG
66 TCATTGAGTTGGTATACTTCTCAGTATCTCATCAGGAAGATGACCGCCTCACTTGTTTCAATCTG
* * * *
97599 ATTCTCTGTATCTCATCAAGAAGACGAATTTAGTCCACTTCTC-AGTACCTCATCAGGAAGCTGA
131 CTTCTCTGTATCTCATCAAGAAGACGAATTTGGTCCACTTCTCTA-TATCTCATCAAGAAGCTGA
*
97663 CAATTTTATTGATTC
195 CCATTTTATTGATTC
* * * * *
97678 GACCTACTTCTCAGTACCTCATTAGGAAGCTGAGGTTCGAAGTTTCGCTCACATCAAGCTTTGGT
1 GACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGTTTCGCTCACATTAAGCTTT-GT
* * **
97743 TTCATTGATTTGGTTTACTTCTCAGTATCTCATCAGGAAGATGACCGTATCACTTGTTTCAATCT
65 TTCATTGAGTTGGTATACTTCTCAGTATCTCATCAGGAAGATGACCGCCTCACTTGTTTCAATCT
* * *
97808 GCTTCTCTGTATCTCATCAGGAAGACAAATTTGGTTCACTTCTCTATATCTCATCAAGAAGCTGA
130 GCTTCTCTGTATCTCATCAAGAAGACGAATTTGGTCCACTTCTCTATATCTCATCAAGAAGCTGA
*
97873 CCATTTTATTGTTTC
195 CCATTTTATTGATTC
* * * *
97888 GACCTGCTTCTCAATATCTCATCAGGAAGCTGGGGTTCGAAGTTTCACTCACATTGAGCTTTATT
1 GACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGTTTCGCTCACATTAAGCTTTGTT
* * *
97953 TCATTGAGTTGGTATACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCACTTGTTTCAATCAG
66 TCATTGAGTTGGTATACTTCTCAGTATCTCATCAGGAAGATGACCGCCTCACTTGTTTCAATCTG
* * * *
98018 CTTCTTTGTATCTCATCAAGAAGACGAATTTGGTCTACTTCTC-AGTATCTCATCAGGAAGTTGA
131 CTTCTCTGTATCTCATCAAGAAGACGAATTTGGTCCACTTCTCTA-TATCTCATCAAGAAGCTGA
98082 CCATTTTATT
195 CCATTTTATT
98092 ACTTTGGATA
Statistics
Matches: 532, Mismatches: 84, Indels: 13
0.85 0.13 0.02
Matches are distributed among these distances:
208 99 0.19
209 251 0.47
210 181 0.34
211 1 0.00
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.37
Consensus pattern (209 bp):
GACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGTTTCGCTCACATTAAGCTTTGTT
TCATTGAGTTGGTATACTTCTCAGTATCTCATCAGGAAGATGACCGCCTCACTTGTTTCAATCTG
CTTCTCTGTATCTCATCAAGAAGACGAATTTGGTCCACTTCTCTATATCTCATCAAGAAGCTGAC
CATTTTATTGATTC
Found at i:97862 original size:419 final size:417
Alignment explanation
Indices: 97271--98091 Score: 1203
Period size: 419 Copynumber: 2.0 Consensus size: 417
97261 GACCTGTTTT
* * * * **
97271 TCAGTATCTCATCAGAAAGCTGGGGTTCTAAGTTTCGCTCACTTTGAGCCTGGTTTCATTGATTT
1 TCAGTACCTCATCAGAAAGCTGAGGTTCGAAGTTTCGCTCACATCAAGCCTGGTTTCATTGATTT
* * * * **
97336 GGTCTACTTCTTAGTATCTCATCAGGAAGATGACTGCCTCGTTGTTTTGATCCACTTCTCTGTAT
66 GGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCCTTGTTTCAATCCACTTCTCTGTAT
* * *
97401 CTCATCAGGAAGTCAGATCTGGTTCACTTCTCTATATCTCATCAAGAAGAC-GACCGCTTTATTG
131 CTCATCAGGAAGACAAATCTGGTTCACTTCTCTATATCTCATCAAGAAG-CTGACCACTTTATTG
* * *
97465 CTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCAAAGTTTCGCTCGCATTAAGCTT
195 CTTCGACCTGCTTCTCAATATCTCATCAGGAAGCTGGGGTTCAAAGTTTCACTCACATTAAGCTT
* * * *
97530 TGTTTCATTGGGTTGGTACACTTCTCTGTATCTCATTATGAAGATGACCACCTCACTTGTTTCAA
260 TATTTCATTGAGTTGGTACACTTCTCTGTATCTCATCAGGAAGATGACCACCTCACTTGTTTCAA
*
97595 TCTGATTCTCTGTATCTCATCAAGAAGACGAATTTAGTCCACTTCTCAGTACCTCATCAGGAAGC
325 TCAGATTCTCTGTATCTCATCAAGAAGACGAATTTAGTCCACTTCTCAGTACCTCATCAGGAAGC
97660 TGACAATTTTATTGATTCGACCTACTTC
390 TGACAATTTTATTGATTCGACCTACTTC
* * *
97688 TCAGTACCTCATTAGGAAGCTGAGGTTCGAAGTTTCGCTCACATCAAGCTTTGGTTTCATTGATT
1 TCAGTACCTCATCAGAAAGCTGAGGTTCGAAGTTTCGCTCACATCAAGC-CTGGTTTCATTGATT
* * **
97753 TGGTTTACTTCTCAGTATCTCATCAGGAAGATGACCGTATCACTTGTTTCAATCTGCTTCTCTGT
65 TGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATC-CTTGTTTCAATCCACTTCTCTGT
* *
97818 ATCTCATCAGGAAGACAAATTTGGTTCACTTCTCTATATCTCATCAAGAAGCTGACCATTTTATT
129 ATCTCATCAGGAAGACAAATCTGGTTCACTTCTCTATATCTCATCAAGAAGCTGACCACTTTATT
* * *
97883 GTTTCGACCTGCTTCTCAATATCTCATCAGGAAGCTGGGGTTCGAAGTTTCACTCACATTGAGCT
194 GCTTCGACCTGCTTCTCAATATCTCATCAGGAAGCTGGGGTTCAAAGTTTCACTCACATTAAGCT
* * *
97948 TTATTTCATTGAGTTGGTATACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCACTTGTTTCA
259 TTATTTCATTGAGTTGGTACACTTCTCTGTATCTCATCAGGAAGATGACCACCTCACTTGTTTCA
* * * * *
98013 ATCAGCTTCTTTGTATCTCATCAAGAAGACGAATTTGGTCTACTTCTCAGTATCTCATCAGGAAG
324 ATCAGATTCTCTGTATCTCATCAAGAAGACGAATTTAGTCCACTTCTCAGTACCTCATCAGGAAG
* *
98078 TTGACCATTTTATT
389 CTGACAATTTTATT
98092 ACTTTGGATA
Statistics
Matches: 356, Mismatches: 45, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
417 41 0.12
418 51 0.14
419 264 0.74
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.37
Consensus pattern (417 bp):
TCAGTACCTCATCAGAAAGCTGAGGTTCGAAGTTTCGCTCACATCAAGCCTGGTTTCATTGATTT
GGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCCTTGTTTCAATCCACTTCTCTGTAT
CTCATCAGGAAGACAAATCTGGTTCACTTCTCTATATCTCATCAAGAAGCTGACCACTTTATTGC
TTCGACCTGCTTCTCAATATCTCATCAGGAAGCTGGGGTTCAAAGTTTCACTCACATTAAGCTTT
ATTTCATTGAGTTGGTACACTTCTCTGTATCTCATCAGGAAGATGACCACCTCACTTGTTTCAAT
CAGATTCTCTGTATCTCATCAAGAAGACGAATTTAGTCCACTTCTCAGTACCTCATCAGGAAGCT
GACAATTTTATTGATTCGACCTACTTC
Found at i:97915 original size:85 final size:86
Alignment explanation
Indices: 97750--97916 Score: 221
Period size: 86 Copynumber: 2.0 Consensus size: 86
97740 GGTTTCATTG
* * * *
97750 ATTTGGTTTACTTCTCAGTATCTCATCAGGAAGATGACCGTATCACTTGTTTCAATCTGCTTCTC
1 ATTTGGTTCACTTCTCAGTATCTCATCAAGAAGATGACCATATCACTTGTTTCAACCTGCTTCTC
**
97815 TGTATCTCATCAGGAAGACAA
66 AATATCTCATCAGGAAGACAA
* * * *
97836 ATTTGGTTCACTTCTCTA-TATCTCATCAAGAAGCTGACCATTTTA-TTGTTTCGACCTGCTTCT
1 ATTTGGTTCACTTCTC-AGTATCTCATCAAGAAGATGACCATATCACTTGTTTCAACCTGCTTCT
97899 CAATATCTCATCAGGAAG
65 CAATATCTCATCAGGAAG
97917 CTGGGGTTCG
Statistics
Matches: 70, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
85 32 0.46
86 37 0.53
87 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (86 bp):
ATTTGGTTCACTTCTCAGTATCTCATCAAGAAGATGACCATATCACTTGTTTCAACCTGCTTCTC
AATATCTCATCAGGAAGACAA
Found at i:98316 original size:41 final size:42
Alignment explanation
Indices: 98252--98334 Score: 123
Period size: 41 Copynumber: 2.0 Consensus size: 42
98242 GCAAGAGATC
* * *
98252 GGAATCTTCATTCTGCCCCTCTTGA-TTAAGGGTAAAAGACT
1 GGAATCTTCAATCTACCCCTCTTGACTAAAGGGTAAAAGACT
*
98293 GGAATCTTCAATCTACCCTTCTTGACTAAAGGGTAAAAGACT
1 GGAATCTTCAATCTACCCCTCTTGACTAAAGGGTAAAAGACT
98335 AAATGATGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 22 0.59
42 15 0.41
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (42 bp):
GGAATCTTCAATCTACCCCTCTTGACTAAAGGGTAAAAGACT
Found at i:99618 original size:6 final size:6
Alignment explanation
Indices: 99609--99686 Score: 58
Period size: 6 Copynumber: 13.7 Consensus size: 6
99599 CGACCTCTCC
* * *
99609 TTTTCT TTTTC- TTTT-T TTCTCT TTTTGT TTTTC- TTCT-T TTTTCT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
* **
99653 TTTGCT TTTTCT ACTTCT TTTTCT TCTTT-T TTTT
1 TTTTCT TTTTCT TTTTCT TTTTCT T-TTTCT TTTT
99687 TTTGTCCACA
Statistics
Matches: 55, Mismatches: 12, Indels: 11
0.71 0.15 0.14
Matches are distributed among these distances:
5 16 0.29
6 36 0.65
7 3 0.05
ACGTcount: A:0.01, C:0.17, G:0.03, T:0.79
Consensus pattern (6 bp):
TTTTCT
Found at i:99634 original size:22 final size:23
Alignment explanation
Indices: 99604--99689 Score: 86
Period size: 22 Copynumber: 3.7 Consensus size: 23
99594 CACCTCGACC
*
99604 TCTCCTTTTCTTTTTCTT-TTTT
1 TCTCTTTTTCTTTTTCTTCTTTT
*
99626 TCTCTTTTTGTTTTTCTTCTTTT
1 TCTCTTTTTCTTTTTCTTCTTTT
*
99649 T-TCTTTTGCTTTTTCTACTTCTTTT
1 TCTCTTTTTC-TTTT-T-CTTCTTTT
*
99674 TCTTCTTTTTTTTTTT
1 TC-TCTTTTTCTTTTT
99690 GTCCACAAAG
Statistics
Matches: 52, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
22 22 0.42
23 9 0.17
24 1 0.02
25 10 0.19
26 4 0.08
27 6 0.12
ACGTcount: A:0.01, C:0.19, G:0.02, T:0.78
Consensus pattern (23 bp):
TCTCTTTTTCTTTTTCTTCTTTT
Found at i:99640 original size:17 final size:16
Alignment explanation
Indices: 99614--99689 Score: 77
Period size: 16 Copynumber: 4.7 Consensus size: 16
99604 TCTCCTTTTC
99614 TTTTTCTTTTT-TTCT
1 TTTTTCTTTTTCTTCT
*
99629 CTTTTTGTTTTTCTTCT
1 -TTTTTCTTTTTCTTCT
*
99646 TTTTTCTTTTGCTT-T
1 TTTTTCTTTTTCTTCT
99661 TTCTACTTCTTTTTCTTCT
1 TT-T--TTCTTTTTCTTCT
99680 TTTTT-TTTTT
1 TTTTTCTTTTT
99690 GTCCACAAAG
Statistics
Matches: 51, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
15 8 0.16
16 25 0.49
17 4 0.08
18 11 0.22
19 3 0.06
ACGTcount: A:0.01, C:0.16, G:0.03, T:0.80
Consensus pattern (16 bp):
TTTTTCTTTTTCTTCT
Found at i:100870 original size:28 final size:29
Alignment explanation
Indices: 100818--100957 Score: 144
Period size: 29 Copynumber: 4.9 Consensus size: 29
100808 AAATGAGATT
* * *
100818 TTTTTGAAAGTGTGGGGGTAAAAATGTAA
1 TTTTTGGAAGTTTGAGGGTAAAAATGTAA
* **
100847 TTTTTGGGAGTTTGAGGGT-AAAATGGGA
1 TTTTTGGAAGTTTGAGGGTAAAAATGTAA
100875 TTTTTGGAAGTTT-AGGGATAAAAATGTAA
1 TTTTTGGAAGTTTGAGGG-TAAAAATGTAA
*
100904 TTTTTGAGAAGTTTG-TGGTCAAAAATGT-A
1 TTTTTG-GAAGTTTGAGGGT-AAAAATGTAA
* *
100933 TTTTTGGAAGTTTAAGGGTGAAAAT
1 TTTTTGGAAGTTTGAGGGTAAAAAT
100958 ATGATTTCTG
Statistics
Matches: 92, Mismatches: 13, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
27 4 0.04
28 32 0.35
29 39 0.42
30 17 0.18
ACGTcount: A:0.32, C:0.01, G:0.29, T:0.38
Consensus pattern (29 bp):
TTTTTGGAAGTTTGAGGGTAAAAATGTAA
Found at i:100942 original size:58 final size:57
Alignment explanation
Indices: 100818--100946 Score: 154
Period size: 57 Copynumber: 2.2 Consensus size: 57
100808 AAATGAGATT
* * * * *
100818 TTTTTGAAAGTGTGGGGGTAAAAATGTAATTTTTGGGAGTTTGAGGGTAAAATGGGA
1 TTTTTGGAAGTTTAGGGATAAAAATGTAATTTTTGGAAGTTTGAGGGTAAAATGGGA
* *
100875 TTTTTGGAAGTTTAGGGATAAAAATGTAATTTTTGAGAAGTTTG-TGGTCAAAAAT-GTA
1 TTTTTGGAAGTTTAGGGATAAAAATGTAATTTTTG-GAAGTTTGAGGGT--AAAATGGGA
100933 TTTTTGGAAGTTTA
1 TTTTTGGAAGTTTA
100947 AGGGTGAAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
57 34 0.55
58 23 0.37
59 5 0.08
ACGTcount: A:0.31, C:0.01, G:0.29, T:0.40
Consensus pattern (57 bp):
TTTTTGGAAGTTTAGGGATAAAAATGTAATTTTTGGAAGTTTGAGGGTAAAATGGGA
Found at i:100964 original size:29 final size:27
Alignment explanation
Indices: 100833--100979 Score: 104
Period size: 29 Copynumber: 5.1 Consensus size: 27
100823 GAAAGTGTGG
*
100833 GGGTAAAA-ATGTAATTTTTGGGAGTTTGA
1 GGGTAAAATATG--ATTTTTGGAAGTTT-A
**
100862 GGGTAAAATGGGATTTTTGGAAGTTTA
1 GGGTAAAATATGATTTTTGGAAGTTTA
100889 GGGATAAAA-ATGTAATTTTTGAGAAGTTT-
1 GGG-TAAAATATG--ATTTTTG-GAAGTTTA
100918 GTGGTCAAAA-ATGTATTTTTGGAAGTTTAA
1 G-GGT-AAAATATG-ATTTTTGGAAGTTT-A
* *
100948 GGGTGAAAATATGATTTCTGGATAGTTCA
1 GGGT-AAAATATGATTTTTGGA-AGTTTA
100977 GGG
1 GGG
100980 ACCTTCTTCG
Statistics
Matches: 98, Mismatches: 9, Indels: 22
0.76 0.07 0.17
Matches are distributed among these distances:
27 5 0.05
28 25 0.26
29 43 0.44
30 25 0.26
ACGTcount: A:0.32, C:0.02, G:0.29, T:0.37
Consensus pattern (27 bp):
GGGTAAAATATGATTTTTGGAAGTTTA
Found at i:102545 original size:17 final size:17
Alignment explanation
Indices: 102525--102622 Score: 124
Period size: 17 Copynumber: 5.7 Consensus size: 17
102515 TTTAATTAAT
*
102525 TTTAATTTTAAAATAAA
1 TTTAAATTTAAAATAAA
*
102542 TTTAAATTTAAAGTAAA
1 TTTAAATTTAAAATAAA
* * *
102559 TTTAAACTTAAGATAAG
1 TTTAAATTTAAAATAAA
102576 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
* *
102593 TTCAAACTTAAAATAAA
1 TTTAAATTTAAAATAAA
102610 TTTAAAATTTAAA
1 TTT-AAATTTAAA
102623 GTTTAGGCTC
Statistics
Matches: 67, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
17 59 0.88
18 8 0.12
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:102547 original size:6 final size:6
Alignment explanation
Indices: 102520--102627 Score: 57
Period size: 6 Copynumber: 18.5 Consensus size: 6
102510 GGACTTTTAA
* * * * *
102520 TTAATT TTAATT TTAAA- ATAAAT TTAAAT TTAAA- GTAAAT TTAAAC
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
* * * * *
102566 TTAAGA- -TAAGT TTAAAT TTAAA- ATAAAT TCAAAC TTAAA- ATAAAT
1 TTAA-AT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
102611 TTAAAAT TTAAAGT TTA
1 TT-AAAT TTAAA-T TTA
102628 GGCTCAATCA
Statistics
Matches: 78, Mismatches: 15, Indels: 17
0.71 0.14 0.15
Matches are distributed among these distances:
5 19 0.24
6 48 0.62
7 11 0.14
ACGTcount: A:0.52, C:0.03, G:0.04, T:0.42
Consensus pattern (6 bp):
TTAAAT
Found at i:102563 original size:34 final size:34
Alignment explanation
Indices: 102532--102624 Score: 141
Period size: 34 Copynumber: 2.7 Consensus size: 34
102522 AATTTTAATT
102532 TTAAAATAAATTTAAATTTAAAGTAAATTTAAAC
1 TTAAAATAAATTTAAATTTAAAGTAAATTTAAAC
* * * *
102566 TTAAGATAAGTTTAAATTTAAAATAAATTCAAAC
1 TTAAAATAAATTTAAATTTAAAGTAAATTTAAAC
102600 TTAAAATAAATTTAAAATTTAAAGT
1 TTAAAATAAATTT-AAATTTAAAGT
102625 TTAGGCTCAA
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
34 41 0.80
35 10 0.20
ACGTcount: A:0.55, C:0.03, G:0.04, T:0.38
Consensus pattern (34 bp):
TTAAAATAAATTTAAATTTAAAGTAAATTTAAAC
Found at i:107003 original size:211 final size:211
Alignment explanation
Indices: 106639--107045 Score: 715
Period size: 211 Copynumber: 1.9 Consensus size: 211
106629 TTTCAACTGC
*
106639 TTCTTCCTCATAAGATAAGTTAGGTTAAATTTCCACTTCTTTCACCGAAGTAATATGGGATGGGT
1 TTCTTCCTCATAAGATAAGTTAGGTTAAATTTCCACTTCTTTCACCGAAATAATATGGGATGGGT
*
106704 CCAATCGATAGTTTCTGAGCATAGACACATGAAACACATCGTGTACTTTCTGTAATCCCTTTGGT
66 CCAATCGATAGTTTCTGAGCATAGACACATGAAACACATCGTGTACTTTCTGTAATCCCTATGGT
106769 AACGCCAACCGATATGCGACAGGTCCTACTCTTTCAATAATCTCGTATGGACCTATGAAACGAGG
131 AACGCCAACCGATATGCGACAGGTCCTACTCTTTCAATAATCTCGTATGGACCTATGAAACGAGG
106834 GCACAATTTCAACCAG
196 GCACAATTTCAACCAG
**
106850 TTCTTCCTCATAAGATAAGTTAGGTTAAATTTCCACTTCTTTCATTGAAATAATATGGGATGGGT
1 TTCTTCCTCATAAGATAAGTTAGGTTAAATTTCCACTTCTTTCACCGAAATAATATGGGATGGGT
* * * * *
106915 TCGATTGGTAGTTTCTGAGCATAGACACATGAAACACATCGTGTATTTTCTGTAATCCCTATGGT
66 CCAATCGATAGTTTCTGAGCATAGACACATGAAACACATCGTGTACTTTCTGTAATCCCTATGGT
* *
106980 AACGCCAACCTATATGTGACAGGTCCTACTCTTTCAATAATCTCGTATGGACCTATGAAACGAGG
131 AACGCCAACCGATATGCGACAGGTCCTACTCTTTCAATAATCTCGTATGGACCTATGAAACGAGG
107045 G
196 G
107046 TTAAGTTTTC
Statistics
Matches: 185, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
211 185 1.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (211 bp):
TTCTTCCTCATAAGATAAGTTAGGTTAAATTTCCACTTCTTTCACCGAAATAATATGGGATGGGT
CCAATCGATAGTTTCTGAGCATAGACACATGAAACACATCGTGTACTTTCTGTAATCCCTATGGT
AACGCCAACCGATATGCGACAGGTCCTACTCTTTCAATAATCTCGTATGGACCTATGAAACGAGG
GCACAATTTCAACCAG
Found at i:112851 original size:11 final size:11
Alignment explanation
Indices: 112820--112845 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
112810 AAAACCAAAG
112820 AAAGAAAAGAA
1 AAAGAAAAGAA
112831 AAAGAAAAGAA
1 AAAGAAAAGAA
112842 AAAG
1 AAAG
112846 TCAAGATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (11 bp):
AAAGAAAAGAA
Found at i:113744 original size:11 final size:11
Alignment explanation
Indices: 113718--113787 Score: 52
Period size: 12 Copynumber: 5.8 Consensus size: 11
113708 TATTTCACCC
*
113718 AAAAAAGAGAA
1 AAAAAAAAGAA
113729 GAAAATAAAAGAA
1 -AAAA-AAAAGAA
113742 AAATAAAAA-AA
1 AAA-AAAAAGAA
*
113753 AGGAAAAAAGAA
1 A-AAAAAAAGAA
113765 GAAAGAAAAAGAA
1 -AAA-AAAAAGAA
113778 AAAGAAAAAG
1 AAA-AAAAAG
113788 GAGAGGTCGA
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
11 8 0.16
12 25 0.51
13 16 0.33
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:113758 original size:26 final size:27
Alignment explanation
Indices: 113729--113786 Score: 70
Period size: 26 Copynumber: 2.2 Consensus size: 27
113719 AAAAAGAGAA
113729 GAAAATAA-AAGAAA-AATAAA-AAAAAG
1 GAAAA-AAGAAGAAAGAA-AAAGAAAAAG
113755 GAAAAAAGAAGAAAGAAAAAGAAAAA-
1 GAAAAAAGAAGAAAGAAAAAGAAAAAG
113781 GAAAAA
1 GAAAAA
113787 GGAGAGGTCG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
25 2 0.07
26 20 0.69
27 7 0.24
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (27 bp):
GAAAAAAGAAGAAAGAAAAAGAAAAAG
Found at i:113775 original size:6 final size:6
Alignment explanation
Indices: 113735--113787 Score: 56
Period size: 6 Copynumber: 8.8 Consensus size: 6
113725 AGAAGAAAAT
* *
113735 AAAAGA AAAA-T AAAA-A AAAGGAA AAAAGA AGAAAGA AAAAGA AAAAGA
1 AAAAGA AAAAGA AAAAGA AAAAG-A AAAAGA A-AAAGA AAAAGA AAAAGA
113783 AAAAG
1 AAAAG
113788 GAGAGGTCGA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 7 0.17
6 22 0.55
7 11 0.28
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (6 bp):
AAAAGA
Found at i:115052 original size:95 final size:94
Alignment explanation
Indices: 114923--115146 Score: 313
Period size: 94 Copynumber: 2.4 Consensus size: 94
114913 TTGGTACATC
* * * * *
114923 TTTATCTCCCTGAATTTGCAGTGGAGCAAAATGAAGCTACACCAAATCCTATCTTCCTAAAGTAG
1 TTTATCTCCCTGAAGTTGTAGTGGAGCAAGATGAAGCCACAACAAATCCTATCTTCCTAAAGT-G
*
114988 CAGTGAAGCGAATTAAAGTAGTAACAAATA
65 CAGTGAAGCGAATTAAAGCAGTAACAAATA
* * * *
115018 TTTATCTCCCTGAAGTTATAGCGGAGCAAGATGAAGCCACAACAAATCCTATCTTCCTGAAGTTC
1 TTTATCTCCCTGAAGTTGTAGTGGAGCAAGATGAAGCCACAACAAATCCTATCTTCCTAAAGTGC
* *
115083 AGTGAAGCGGATTAAAGCAGTAGCAAATA
66 AGTGAAGCGAATTAAAGCAGTAACAAATA
* *
115112 TTTATCTCCCTAAAGTTGTAATGGAGCAAGATGAA
1 TTTATCTCCCTGAAGTTGTAGTGGAGCAAGATGAA
115147 TCTATAACAC
Statistics
Matches: 113, Mismatches: 16, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
94 58 0.51
95 55 0.49
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (94 bp):
TTTATCTCCCTGAAGTTGTAGTGGAGCAAGATGAAGCCACAACAAATCCTATCTTCCTAAAGTGC
AGTGAAGCGAATTAAAGCAGTAACAAATA
Found at i:115330 original size:95 final size:95
Alignment explanation
Indices: 114923--115337 Score: 334
Period size: 95 Copynumber: 4.3 Consensus size: 95
114913 TTGGTACATC
* * * * * * * *
114923 TTTATCTCCCTGAATTTGCAGTGGAGCAAAATGAAGCTACACCAAATCCTATCTTCCTAAAGTAG
1 TTTATCTCCCTAAAGTTACAGTGGAGCAAGATGAAACCACACCAAATCCTATCTTCCTGAAGTTG
* ** *
114988 CAGTGAAGCGAATTAAAGTAGTAACAAATA
66 CAGTGAAGCGGATTAAAACAGTAGCAAATA
* * * * *
115018 TTTATCTCCCTGAAGTTATAGCGGAGCAAGATGAAGCCACAACAAATCCTATCTTCCTGAAGTT-
1 TTTATCTCCCTAAAGTTACAGTGGAGCAAGATGAAACCACACCAAATCCTATCTTCCTGAAGTTG
*
115082 CAGTGAAGCGGATTAAAGCAGTAGCAAATA
66 CAGTGAAGCGGATTAAAACAGTAGCAAATA
** * ** * *
115112 TTTATCTCCCTAAAGTTGTAATGGAGCAAGATGAATCTATAACACCAAATCATAT-ATCCTTGAA
1 TTTATCTCCCTAAAGTTACAGTGGAGCAAGATGAA---ACCACACCAAATCCTATCTTCC-TGAA
* *** * * * *
115176 GTTACAAG-G-TTTGGATTAAAACTAACATTGGCAGATC
62 GTTGC-AGTGAAGCGGATT--AA--AACAGTAGCAAATA
* * * *
115213 TTTATCTCCCTGAAGTTGCAGTAGAGCAACATGAAACCACACCAAATCCTATCTTCCTGAAGTTG
1 TTTATCTCCCTAAAGTTACAGTGGAGCAAGATGAAACCACACCAAATCCTATCTTCCTGAAGTTG
* * *
115278 CAGTAAAGCGGATTAAAACAGTAGCAAGTT
66 CAGTGAAGCGGATTAAAACAGTAGCAAATA
* * *
115308 TTTATCTCTCAAAAGTTACAGTAGAGCAAG
1 TTTATCTCCCTAAAGTTACAGTGGAGCAAG
115338 GCAAAGCTAC
Statistics
Matches: 253, Mismatches: 54, Indels: 26
0.76 0.16 0.08
Matches are distributed among these distances:
94 58 0.23
95 89 0.35
96 3 0.01
97 28 0.11
98 24 0.09
99 12 0.05
101 39 0.15
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (95 bp):
TTTATCTCCCTAAAGTTACAGTGGAGCAAGATGAAACCACACCAAATCCTATCTTCCTGAAGTTG
CAGTGAAGCGGATTAAAACAGTAGCAAATA
Found at i:115396 original size:39 final size:39
Alignment explanation
Indices: 115349--115566 Score: 163
Period size: 39 Copynumber: 5.4 Consensus size: 39
115339 CAAAGCTACT
115349 ATCCAATCTCTTACCCTGACCATGGGGCAGATTGAAGCC
1 ATCCAATCTCTTACCCTGACCATGGGGCAGATTGAAGCC
* * *
115388 ATTCAATCTTTTACCCT-AGCCA-GAGGGCAGATTAAAGACACC
1 ATCCAATCTCTTACCCTGA-CCATG-GGGCAGATTGAAG---CC
* * * * * * *
115430 ATCGAATATCTTACCCCGACTATGGGACAAATTGAAGTC
1 ATCCAATCTCTTACCCTGACCATGGGGCAGATTGAAGCC
* * *
115469 ATCCAATATTTTACCCTAACCA-GAGGGCAGATTGAAGACAC
1 ATCCAATCTCTTACCCTGACCATG-GGGCAGATTGAAG-C-C
* * * * *
115510 TATCCAATCTCTTACCCCGGCCATGGAGCAAATTGAAGTC
1 -ATCCAATCTCTTACCCTGACCATGGGGCAGATTGAAGCC
*
115550 ATCCAATCTTTTACCCT
1 ATCCAATCTCTTACCCT
115567 AACTAGAGGG
Statistics
Matches: 136, Mismatches: 31, Indels: 24
0.71 0.16 0.13
Matches are distributed among these distances:
38 3 0.02
39 74 0.54
40 1 0.01
41 1 0.01
42 54 0.40
43 3 0.02
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.25
Consensus pattern (39 bp):
ATCCAATCTCTTACCCTGACCATGGGGCAGATTGAAGCC
Found at i:115492 original size:81 final size:81
Alignment explanation
Indices: 115353--115606 Score: 339
Period size: 81 Copynumber: 3.1 Consensus size: 81
115343 GCTACTATCC
* * * * * *
115353 AATCTCTTACCCTGACCATGGGGCAGATTGAAGCCATTCAATCTTTTACCCTAGCCAGAGGGCAG
1 AATCTCTTACCCCGACCATGGGACAAATTGAAGTCATCCAATCTTTTACCCTAACCAGAGGGCAG
*
115418 ATTAAAGACACCATCG
66 ATTGAAGACACCATCG
* * *
115434 AATATCTTACCCCGACTATGGGACAAATTGAAGTCATCCAATATTTTACCCTAACCAGAGGGCAG
1 AATCTCTTACCCCGACCATGGGACAAATTGAAGTCATCCAATCTTTTACCCTAACCAGAGGGCAG
* *
115499 ATTGAAGACACTATCC
66 ATTGAAGACACCATCG
* * *
115515 AATCTCTTACCCCGGCCAT-GGAGCAAATTGAAGTCATCCAATCTTTTACCCTAACTAGAGGGTA
1 AATCTCTTACCCCGACCATGGGA-CAAATTGAAGTCATCCAATCTTTTACCCTAACCAGAGGGCA
* *
115579 GATTGAAGTCACCGTCG
65 GATTGAAGACACCATCG
115596 AATCTCTTACC
1 AATCTCTTACC
115607 ATAACCATGT
Statistics
Matches: 150, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
80 3 0.02
81 147 0.98
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (81 bp):
AATCTCTTACCCCGACCATGGGACAAATTGAAGTCATCCAATCTTTTACCCTAACCAGAGGGCAG
ATTGAAGACACCATCG
Found at i:117526 original size:27 final size:26
Alignment explanation
Indices: 117392--117552 Score: 121
Period size: 25 Copynumber: 6.0 Consensus size: 26
117382 TAATAACTAC
* *
117392 TCTGATTCTGGCTCGAAAAGAGCGATAT
1 TCTGATT-TGGCTCG-TAAGAGCAATAT
* * ** *
117420 TCTGATTCTGACTCGGT-GGAAAAATTT
1 TCTGATT-TGGCTC-GTAAGAGCAATAT
*
117447 TCTGAACTTTGGCTCGTAAAAGCAATAT
1 TCTG-A-TTTGGCTCGTAAGAGCAATAT
**
117475 TCT-ATTTGGCTCGTAAGAGTGATAT
1 TCTGATTTGGCTCGTAAGAGCAATAT
*
117500 TCTGATTCTGGCTCGTAAGTGCAATAT
1 TCTGATT-TGGCTCGTAAGAGCAATAT
* *
117527 TTTG-TTTGGCTCGAAAGAGCAATAT
1 TCTGATTTGGCTCGTAAGAGCAATAT
117552 T
1 T
117553 TTGACTAGCT
Statistics
Matches: 105, Mismatches: 22, Indels: 15
0.74 0.15 0.11
Matches are distributed among these distances:
25 39 0.37
26 6 0.06
27 30 0.29
28 27 0.26
29 3 0.03
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (26 bp):
TCTGATTTGGCTCGTAAGAGCAATAT
Found at i:117563 original size:25 final size:25
Alignment explanation
Indices: 117510--117564 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
117500 TCTGATTCTG
* * ** *
117510 GCTCGTAAGTGCAATATTTTGTTTG
1 GCTCGAAAGAGCAATATTTTGACTA
117535 GCTCGAAAGAGCAATATTTTGACTA
1 GCTCGAAAGAGCAATATTTTGACTA
117560 GCTCG
1 GCTCG
117565 TACGAGGGAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (25 bp):
GCTCGAAAGAGCAATATTTTGACTA
Found at i:118953 original size:42 final size:41
Alignment explanation
Indices: 118884--119769 Score: 497
Period size: 39 Copynumber: 22.0 Consensus size: 41
118874 TGGGTGTTAC
*
118884 AACAAGGGGCAGATTGAAG---CCATCCAATCTTTTACCCT
1 AACAAGAGGCAGATTGAAGACACCATCCAATCTTTTACCCT
* *
118922 AACAAGCAGGTAGATTGAAGACACCATCCAATCTCTTACCCT
1 AACAAG-AGGCAGATTGAAGACACCATCCAATCTTTTACCCT
* * * *
118964 GACCATAG-GGTAGATTGAAG---TCATCTAATCTTTTACCCT
1 -AACA-AGAGGCAGATTGAAGACACCATCCAATCTTTTACCCT
* * *
119003 AACAAGAGGGCAGATTGAAGACACCATCTAATCTCTTACCCC
1 AACAAGA-GGCAGATTGAAGACACCATCCAATCTTTTACCCT
* *
119045 AACTATTG-GGCA-ATTTGAAG---TCATCCAATCTTTTACCCT
1 AAC-A-AGAGGCAGA-TTGAAGACACCATCCAATCTTTTACCCT
* * * * *
119084 AACCAGAGGCAGATTGGAGATACCATCCAATCTCTTACCCC
1 AACAAGAGGCAGATTGAAGACACCATCCAATCTTTTACCCT
* * *
119125 AACCATGGGGCAGATTGAAG---CCATCCATTCTTTTACCCT
1 AA-CAAGAGGCAGATTGAAGACACCATCCAATCTTTTACCCT
* * * * * *
119164 AACTAGAGGGTAAATTGAAGACACCATCCAATCTCTTATCTCG
1 AACAAGA-GGCAGATTGAAGACACCATCCAATCTTTTA-CCCT
* * * *
119207 ACCATG-GGATAGATTGAAG-CA--ATTCAATCTTTTACCCT
1 AACAAGAGG-CAGATTGAAGACACCATCCAATCTTTTACCCT
* * * * * * *
119245 AACCAGAGGGTAGATTAAAGACATCATCCAACCTCTTACCCCG
1 AACAAGA-GGCAGATTGAAGACACCATCCAATCTTTTA-CCCT
* * * * *
119288 ATCATGGGGCAGAGTGAAG---CCATACAATCTTTTACCCT
1 AACAAGAGGCAGATTGAAGACACCATCCAATCTTTTACCCT
** * * *
119326 AATTAG-GGCAGATTGAAGACACCATTCAATATTTTACCCC
1 AACAAGAGGCAGATTGAAGACACCATCCAATCTTTTACCCT
* * *
119366 AACCATGGGGCAGATTGAAG---TCATCCAATCTTTTACCCT
1 AA-CAAGAGGCAGATTGAAGACACCATCCAATCTTTTACCCT
* * *
119405 AACCAA-AGGGCAGATTGAAGACAACATCCAATCTCTTACCCCG
1 AA-CAAGA-GGCAGATTGAAGACACCATCCAATCTTTTA-CCCT
* * * * *
119448 ACCATGAGGCAGATTGAAG---TCTTCCAATCTTTTTCCCT
1 AACAAGAGGCAGATTGAAGACACCATCCAATCTTTTACCCT
* * * *
119486 AACTGAAG-GGCAAATTGAAGACACCATCTAATCTCTTACCCCG
1 AAC--AAGAGGCAGATTGAAGACACCATCCAATCTTTTA-CCCT
* * * * *
119529 ACCATGGGGCAAATTGAAG---CCATTCAATCTTTTACCCT
1 AACAAGAGGCAGATTGAAGACACCATCCAATCTTTTACCCT
* *
119567 AACCAGAGGGCAGATTGAAGACACCATCCAATCTCTTACCCTT
1 AACAAGA-GGCAGATTGAAGACACCATCCAATCTTTTACCC-T
* * *
119610 ACCATAG-GGTAGATTGAAG---TCATCCAATCTTTTACCCT
1 AACA-AGAGGCAGATTGAAGACACCATCCAATCTTTTACCCT
* * * *
119648 AACTAGAGGGCAAATTGAAGACACCATCCAATCTCTTACCTT
1 AACAAGA-GGCAGATTGAAGACACCATCCAATCTTTTACCCT
* *
119690 AACCATG-GGCCAGATTGAAG---CCGTCCAATCTTTTACCCT
1 AA-CAAGAGG-CAGATTGAAGACACCATCCAATCTTTTACCCT
* * * *
119729 AACCAGAGGGCAGATTGGAGATACCATCCAATCTCTTACCC
1 AACAAGA-GGCAGATTGAAGACACCATCCAATCTTTTACCC
119770 CGACTATAGG
Statistics
Matches: 641, Mismatches: 139, Indels: 132
0.70 0.15 0.14
Matches are distributed among these distances:
37 16 0.02
38 46 0.07
39 246 0.38
40 26 0.04
41 28 0.04
42 244 0.38
43 30 0.05
44 5 0.01
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (41 bp):
AACAAGAGGCAGATTGAAGACACCATCCAATCTTTTACCCT
Found at i:119029 original size:81 final size:81
Alignment explanation
Indices: 118890--119925 Score: 1175
Period size: 81 Copynumber: 12.9 Consensus size: 81
118880 TTACAACAAG
* *
118890 GGGCAGATTGAAGCCATCCAATCTTTTACCCTAACAAGCA-GGTAGATTGAAGACACCATCCAAT
1 GGGCAGATTGAAGCCATCCAATCTTTTACCCTAACCAG-AGGGCAGATTGAAGACACCATCCAAT
*
118954 CTCTTACCCTGACCATA
65 CTCTTACCCCGACCATA
* * * * *
118971 GGGTAGATTGAAGTCATCTAATCTTTTACCCTAACAAGAGGGCAGATTGAAGACACCATCTAATC
1 GGGCAGATTGAAGCCATCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAGACACCATCCAATC
* * *
119036 TCTTACCCCAACTATT
66 TCTTACCCCGACCATA
* * *
119052 GGGCA-ATTTGAAGTCATCCAATCTTTTACCCTAACCAGA-GGCAGATTGGAGATACCATCCAAT
1 GGGCAGA-TTGAAGCCATCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAGACACCATCCAAT
* *
119115 CTCTTACCCCAACCATG
65 CTCTTACCCCGACCATA
* * * *
119132 GGGCAGATTGAAGCCATCCATTCTTTTACCCTAACTAGAGGGTAAATTGAAGACACCATCCAATC
1 GGGCAGATTGAAGCCATCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAGACACCATCCAATC
* *
119197 TCTTATCTCGACCAT-
66 TCTTACCCCGACCATA
* * * * * * *
119212 GGGATAGATTGAAGCAATTCAATCTTTTACCCTAACCAGAGGGTAGATTAAAGACATCATCCAAC
1 GGG-CAGATTGAAGCCATCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAGACACCATCCAAT
* *
119277 CTCTTACCCCGATCATG
65 CTCTTACCCCGACCATA
* * ** * *
119294 GGGCAGAGTGAAGCCATACAATCTTTTACCCTAA--TTAGGGCAGATTGAAGACACCATTCAATA
1 GGGCAGATTGAAGCCATCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAGACACCATCCAATC
* * *
119357 TTTTACCCCAACCATG
66 TCTTACCCCGACCATA
* * *
119373 GGGCAGATTGAAGTCATCCAATCTTTTACCCTAACCAAAGGGCAGATTGAAGACAACATCCAATC
1 GGGCAGATTGAAGCCATCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAGACACCATCCAATC
119438 TCTTACCCCGACCAT-
66 TCTTACCCCGACCATA
* * * * * *
119453 GAGGCAGATTGAAGTCTTCCAATCTTTTTCCCTAA-CTGAAGGGCAAATTGAAGACACCATCTAA
1 G-GGCAGATTGAAGCCATCCAATCTTTTACCCTAACCAG-AGGGCAGATTGAAGACACCATCCAA
*
119517 TCTCTTACCCCGACCATG
64 TCTCTTACCCCGACCATA
* *
119535 GGGCAAATTGAAGCCATTCAATCTTTTACCCTAACCAGAGGGCAGATTGAAGACACCATCCAATC
1 GGGCAGATTGAAGCCATCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAGACACCATCCAATC
**
119600 TCTTACCCTTACCATA
66 TCTTACCCCGACCATA
* * * *
119616 GGGTAGATTGAAGTCATCCAATCTTTTACCCTAACTAGAGGGCAAATTGAAGACACCATCCAATC
1 GGGCAGATTGAAGCCATCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAGACACCATCCAATC
***
119681 TCTTACCTTAACCAT-
66 TCTTACCCCGACCATA
* * *
119696 GGGCCAGATTGAAGCCGTCCAATCTTTTACCCTAACCAGAGGGCAGATTGGAGATACCATCCAAT
1 GGG-CAGATTGAAGCCATCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAGACACCATCCAAT
*
119761 CTCTTACCCCGACTATA
65 CTCTTACCCCGACCATA
* * ** * * * * * *
119778 GGGCAAATTAAAGCCATATAATTTTTTACCCTAACTAGAGGGCAGATTGGATACAACATCTAATC
1 GGGCAGATTGAAGCCATCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAGACACCATCCAATC
**
119843 TCTTACCTTGACCATA
66 TCTTACCCCGACCATA
* * * *
119859 GGGTAAATTGAAGCCATCCAA-----T-CCCTAACCAGAAGGCAAATTGAAGACACCATCCAATC
1 GGGCAGATTGAAGCCATCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAGACACCATCCAATC
*
119918 TTTTACCC
66 TCTTACCC
119926 TTAAATCAAG
Statistics
Matches: 813, Mismatches: 128, Indels: 34
0.83 0.13 0.03
Matches are distributed among these distances:
75 36 0.04
76 1 0.00
79 65 0.08
80 80 0.10
81 622 0.77
82 9 0.01
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.25
Consensus pattern (81 bp):
GGGCAGATTGAAGCCATCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAGACACCATCCAATC
TCTTACCCCGACCATA
Found at i:121649 original size:18 final size:17
Alignment explanation
Indices: 121617--121650 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
121607 CTAATTTTCC
121617 TTTTAATTTTTTTTAAT
1 TTTTAATTTTTTTTAAT
*
121634 TTTTCATTTTTCTTTAA
1 TTTTAATTTTT-TTTAA
121651 CTTACATTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTAATTTTTTTTAAT
Found at i:121667 original size:18 final size:18
Alignment explanation
Indices: 121623--121669 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
121613 TTCCTTTTAA
* *
121623 TTTTTTTTAATTTTTCAT
1 TTTTTTTTAATCTTACAT
*
121641 TTTTCTTTAA-CTTACAT
1 TTTTTTTTAATCTTACAT
121658 TGTTTTTTTAAT
1 T-TTTTTTTAAT
121670 TTCTTTCATT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 6 0.26
18 17 0.74
ACGTcount: A:0.19, C:0.09, G:0.02, T:0.70
Consensus pattern (18 bp):
TTTTTTTTAATCTTACAT
Found at i:128079 original size:2 final size:2
Alignment explanation
Indices: 128067--128096 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
128057 TTTAATACAG
*
128067 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
128097 TAATTTGTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:133850 original size:20 final size:18
Alignment explanation
Indices: 133803--133851 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
133793 CAAGATAAAA
133803 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
133820 ATT-AATATAATCACTTTAAT
1 ATTAAAT-TAAT-A-TTTAAT
133840 ATTAAATTAATA
1 ATTAAATTAATA
133852 AAACACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
16 3 0.11
17 6 0.22
19 2 0.07
20 13 0.48
21 3 0.11
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:135245 original size:4 final size:4
Alignment explanation
Indices: 135236--135265 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
135226 TAAAATTAAC
135236 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
135266 GTTCAAATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:136758 original size:21 final size:20
Alignment explanation
Indices: 136720--136758 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
136710 TACCTATGAT
*
136720 AATTTTACCGATACAAGTTA
1 AATTTTACCGAAACAAGTTA
*
136740 AATTTCTACCGAAATAAGT
1 AATTT-TACCGAAACAAGT
136759 CGTGCTTCTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.33
Consensus pattern (20 bp):
AATTTTACCGAAACAAGTTA
Found at i:140028 original size:11 final size:12
Alignment explanation
Indices: 140003--140035 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
139993 TAATCATGTT
140003 AAAACAAGTTGA
1 AAAACAAGTTGA
*
140015 AAAACAA-TTTA
1 AAAACAAGTTGA
140026 AAAACAAGTT
1 AAAACAAGTT
140036 TTAATCCACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.61, C:0.09, G:0.09, T:0.21
Consensus pattern (12 bp):
AAAACAAGTTGA
Found at i:141821 original size:21 final size:22
Alignment explanation
Indices: 141774--141850 Score: 88
Period size: 21 Copynumber: 3.6 Consensus size: 22
141764 AATAGTGTAG
*
141774 ACTTCTATCGATACAAGTGA-T
1 ACTTCTACCGATACAAGTGACT
*
141795 AGTTCTACCGATACAAGTGACT
1 ACTTCTACCGATACAAGTGACT
* * *
141817 -TTTCTACCGAAACAAGT-CCT
1 ACTTCTACCGATACAAGTGACT
141837 ACTTCTACCGATAC
1 ACTTCTACCGATAC
141851 TAAAAACTCC
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
20 2 0.04
21 44 0.94
22 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.30
Consensus pattern (22 bp):
ACTTCTACCGATACAAGTGACT
Found at i:142345 original size:3 final size:3
Alignment explanation
Indices: 142330--142365 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
142320 ACTTCTGAGA
* *
142330 GAT GAT TAT GAT GAT GAT GAT GAT GAT GAT AAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
142366 CCGATCTTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.36, C:0.00, G:0.28, T:0.36
Consensus pattern (3 bp):
GAT
Found at i:142913 original size:193 final size:195
Alignment explanation
Indices: 142572--142990 Score: 480
Period size: 193 Copynumber: 2.2 Consensus size: 195
142562 TACCAGTACC
* ** * *
142572 CGATGCTT-CTCACACGAGCTATCGAGGACTCACAACATATG-TAGTACAC-CAGTCATCGATAC
1 CGATG-TTGCTCACACGAGCTGTCGAGGACTCGTAACAAATGCGA-TAC-CTCAGTCATCGATAC
* * * * * ** *
142634 GATGTCTGTCTGTAAACTGTCCCCTAACGATGTTGCTCACACGAGCTGTTGAGAAAATGCACTTA
63 GATATCTGTCTATAAACTCTCCACTAACGATGCTGCTCACACGAGCTGTCAAGAAAATACACTTA
* * *
142699 TGCATAAATCCCAGCCATCGTAAGGTC-TGTAATCCA-T-TTAGGATTTCATATCTC-T-TTTTT
128 TGCATAAATCCCAGCCATCGT-AGGGCATGTAATCCATTCTTA-GA-TTCATATCTCATCTTCTC
142759 GACTCA
190 GACTCA
* * *
142765 CGATGTTGCTC-CACGAGCTTTCGGGGACTCGTAACAAATGCGATACCTCAGTCATCGATACGGT
1 CGATGTTGCTCACACGAGCTGTCGAGGACTCGTAACAAATGCGATACCTCAGTCATCGATACGAT
*
142829 ATCTGTGC-ATATAACTCTCCACTAACGATGCTGCTCACACGAGCTGTCAAGAATATACACTTAT
66 ATCTGT-CTATA-AACTCTCCACTAACGATGCTGCTCACACGAGCTGTCAAGAAAATACACTTAT
* * * *
142893 GCATAAATCTCAGTCATCGTAGGGCATGTAATCCATTCTTAGATTCATTTCTCATCTTCTCGATT
129 GCATAAATCCCAGCCATCGTAGGGCATGTAATCCATTCTTAGATTCATATCTCATCTTCTCGACT
142958 CA
194 CA
142960 CGATGTTGCTCACACGAGCTGTCGAGGACTC
1 CGATGTTGCTCACACGAGCTGTCGAGGACTC
142991 ACAACATATG
Statistics
Matches: 190, Mismatches: 25, Indels: 19
0.81 0.11 0.08
Matches are distributed among these distances:
191 1 0.01
192 55 0.29
193 91 0.48
194 4 0.02
195 22 0.12
196 17 0.09
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (195 bp):
CGATGTTGCTCACACGAGCTGTCGAGGACTCGTAACAAATGCGATACCTCAGTCATCGATACGAT
ATCTGTCTATAAACTCTCCACTAACGATGCTGCTCACACGAGCTGTCAAGAAAATACACTTATGC
ATAAATCCCAGCCATCGTAGGGCATGTAATCCATTCTTAGATTCATATCTCATCTTCTCGACTCA
Found at i:146994 original size:21 final size:21
Alignment explanation
Indices: 146970--147019 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
146960 GAGTTTATTG
146970 TATCGGTAAAAGTAATAATTA
1 TATCGGTAAAAGTAATAATTA
* * * *
146991 TATCGGTAATAGTTATACTTG
1 TATCGGTAAAAGTAATAATTA
147012 TATCGGTA
1 TATCGGTA
147020 GAACCTTCCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.36, C:0.08, G:0.18, T:0.38
Consensus pattern (21 bp):
TATCGGTAAAAGTAATAATTA
Found at i:150338 original size:23 final size:21
Alignment explanation
Indices: 150305--150349 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 21
150295 GAAGCAACAT
* *
150305 AAAAAAACATCCACAACTAAA
1 AAAAAAACATCAACAAATAAA
150326 AAAAAAAGTCATCAACAAATAAA
1 AAAAAAA--CATCAACAAATAAA
150349 A
1 A
150350 TTGTGCAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
23 13 0.65
ACGTcount: A:0.69, C:0.18, G:0.02, T:0.11
Consensus pattern (21 bp):
AAAAAAACATCAACAAATAAA
Found at i:161414 original size:21 final size:22
Alignment explanation
Indices: 161388--161433 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
161378 ATTTTATGAT
*
161388 TTTAAA-TATTATTTGATAAA-A
1 TTTAAAGTATT-TTTCATAAATA
161409 TTTAAAGTATTTTTCATAAATA
1 TTTAAAGTATTTTTCATAAATA
161431 TTT
1 TTT
161434 TTAAAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.52
Consensus pattern (22 bp):
TTTAAAGTATTTTTCATAAATA
Found at i:162123 original size:14 final size:16
Alignment explanation
Indices: 162106--162145 Score: 50
Period size: 14 Copynumber: 2.6 Consensus size: 16
162096 ATTTTTTAAT
162106 TTAAATTTTAAA-TC-
1 TTAAATTTTAAATTCA
162120 TT-AATTATTAAATTCA
1 TTAAATT-TTAAATTCA
162136 TTAAATTTTA
1 TTAAATTTTA
162146 CTATTTTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 4 0.18
14 7 0.32
15 2 0.09
16 5 0.23
17 4 0.18
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (16 bp):
TTAAATTTTAAATTCA
Found at i:164061 original size:11 final size:11
Alignment explanation
Indices: 164043--164079 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
164033 TACAATATCT
164043 AAACAATAACA
1 AAACAATAACA
*
164054 AAATAATAACA
1 AAACAATAACA
164065 AAACAATAA-A
1 AAACAATAACA
164075 AAACA
1 AAACA
164080 GCAAGAAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 6 0.25
11 18 0.75
ACGTcount: A:0.76, C:0.14, G:0.00, T:0.11
Consensus pattern (11 bp):
AAACAATAACA
Found at i:164969 original size:24 final size:23
Alignment explanation
Indices: 164931--164980 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
164921 TTAATATAGG
* *
164931 AAATATTAATTTTAAATATTTCT
1 AAATATTAATATTAAATATTTAT
*
164954 AAATAATTAATATTAATTATTTAT
1 AAAT-ATTAATATTAAATATTTAT
164978 AAA
1 AAA
164981 ATTTAATTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 4 0.17
24 19 0.83
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
AAATATTAATATTAAATATTTAT
Found at i:165548 original size:3 final size:3
Alignment explanation
Indices: 165540--165581 Score: 59
Period size: 3 Copynumber: 14.0 Consensus size: 3
165530 TGTTTAATTC
*
165540 TCA TCA TCA TCA CCA TCAA T-A TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TC-A TCA TCA TCA TCA TCA TCA TCA TCA
165582 CTTTCTCCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 31 0.89
4 2 0.06
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.31
Consensus pattern (3 bp):
TCA
Found at i:167943 original size:52 final size:52
Alignment explanation
Indices: 167828--168065 Score: 320
Period size: 52 Copynumber: 4.6 Consensus size: 52
167818 TGCATATTTG
* * * * * *
167828 ATACTCATGATGACACAAAGTCATTGGACCT-TTAATTCGTAGAGGGA-TCAT
1 ATACTCACGATGACACATAGTCATCGAACCTCATAATTCGTA-AAGGATTCAT
*
167879 ATACTCACGATGACACATAGTCATCAGAA-CTCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATC-GAACCTCATAATTCGTAAAGGATTCAT
* * *
167931 ATACTCAAGATGACACGTAGTCATCGAACCTCATAATTCATAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGAACCTCATAATTCGTAAAGGATTCAT
*
167983 ATACTCACGATGACACGTAGTCATCGAACCTCATAATTCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGAACCTCATAATTCGTAAAGGATTCAT
* *
168035 ATACTCACGATGACATATAGTCATCGGACCT
1 ATACTCACGATGACACATAGTCATCGAACCT
168066 TTTTATTTAC
Statistics
Matches: 167, Mismatches: 16, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
51 31 0.19
52 136 0.81
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.27
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCGAACCTCATAATTCGTAAAGGATTCAT
Found at i:173285 original size:46 final size:45
Alignment explanation
Indices: 173219--173308 Score: 171
Period size: 46 Copynumber: 2.0 Consensus size: 45
173209 AATTAAACTT
173219 AAAAAAAAAAAAAAATGAATTTGGGTTACCTCCCAAAAAGCGCTNA
1 AAAAAAAAAAAAAAATGAATTTGGGTTACCTCCCAAAAAGCGCT-A
173265 AAAAAAAAAAAAAAATGAATTTGGGTTACCTCCCAAAAAGCGCT
1 AAAAAAAAAAAAAAATGAATTTGGGTTACCTCCCAAAAAGCGCT
173309 TTTGTTTAAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.52, C:0.16, G:0.13, T:0.18
Consensus pattern (45 bp):
AAAAAAAAAAAAAAATGAATTTGGGTTACCTCCCAAAAAGCGCTA
Found at i:182964 original size:12 final size:12
Alignment explanation
Indices: 182949--182984 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
182939 CTTCTCTTTA
182949 TTCTCTTCTTCC
1 TTCTCTTCTTCC
182961 TTCTCTTCTT-C
1 TTCTCTTCTTCC
182972 TTC-CTT-TTCC
1 TTCTCTTCTTCC
182982 TTC
1 TTC
182985 AGACGGTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 2 0.09
10 7 0.30
11 4 0.17
12 10 0.43
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (12 bp):
TTCTCTTCTTCC
Found at i:183374 original size:12 final size:12
Alignment explanation
Indices: 183357--183384 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
183347 TGCGACAATA
183357 GCCTCGTTCTAG
1 GCCTCGTTCTAG
183369 GCCTCGTTCTAG
1 GCCTCGTTCTAG
183381 GCCT
1 GCCT
183385 AGATCATCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.36, G:0.25, T:0.32
Consensus pattern (12 bp):
GCCTCGTTCTAG
Found at i:192742 original size:17 final size:20
Alignment explanation
Indices: 192720--192758 Score: 57
Period size: 17 Copynumber: 2.1 Consensus size: 20
192710 GGCAACCCGA
192720 TTATTTTA-TTT-AT-TTAT
1 TTATTTTACTTTCATGTTAT
192737 TTATTTTACTTTCATGTTAT
1 TTATTTTACTTTCATGTTAT
192757 TT
1 TT
192759 TAATAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.42
18 3 0.16
19 2 0.11
20 6 0.32
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.72
Consensus pattern (20 bp):
TTATTTTACTTTCATGTTAT
Found at i:193264 original size:14 final size:15
Alignment explanation
Indices: 193230--193281 Score: 63
Period size: 14 Copynumber: 3.5 Consensus size: 15
193220 TTTCGTTTAG
193230 TTTTATATTT-TATTT
1 TTTTAT-TTTGTATTT
*
193245 TATTATTTTGT-TTT
1 TTTTATTTTGTATTT
193259 TTTTATTTTGTATTGT
1 TTTTATTTTGTATT-T
193275 TTTTATT
1 TTTTATT
193282 CCTATTTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
14 16 0.50
15 8 0.25
16 8 0.25
ACGTcount: A:0.15, C:0.00, G:0.06, T:0.79
Consensus pattern (15 bp):
TTTTATTTTGTATTT
Found at i:197398 original size:18 final size:18
Alignment explanation
Indices: 197375--197418 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
197365 TATTTCCATC
*
197375 AATGTGAA-ATTAATTTGA
1 AATGTGAACATT-ATTTAA
197393 AATGTGAACATTATTTAA
1 AATGTGAACATTATTTAA
*
197411 AATTTGAA
1 AATGTGAA
197419 TATCTTTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 20 0.87
19 3 0.13
ACGTcount: A:0.45, C:0.02, G:0.14, T:0.39
Consensus pattern (18 bp):
AATGTGAACATTATTTAA
Found at i:198839 original size:18 final size:18
Alignment explanation
Indices: 198798--198840 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
198788 TATTTCCCAC
198798 AAAAAAATGATAAAAAAA
1 AAAAAAATGATAAAAAAA
**
198816 GCAAAAATGA-AAAAAAA
1 AAAAAAATGATAAAAAAA
198833 TAAAAAAA
1 -AAAAAAA
198841 AATTCTGTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.81, C:0.02, G:0.07, T:0.09
Consensus pattern (18 bp):
AAAAAAATGATAAAAAAA
Found at i:199357 original size:13 final size:13
Alignment explanation
Indices: 199325--199350 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
199315 CGGTGAGGTT
199325 TCATTTTATTTGA
1 TCATTTTATTTGA
199338 TCATTTTATTTGA
1 TCATTTTATTTGA
199351 GTTTTTTTTT
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:0.23, C:0.08, G:0.08, T:0.62
Consensus pattern (13 bp):
TCATTTTATTTGA
Found at i:212437 original size:126 final size:126
Alignment explanation
Indices: 212212--212443 Score: 374
Period size: 126 Copynumber: 1.8 Consensus size: 126
212202 TTATTAAGAC
* * *
212212 AGTGTTAAGGCCAGTGTGAACTTAATGAATAGCTAGGATACAAATGATATGTCATTAGGGTTTCT
1 AGTGTTAAGGCCAGAGTGAACTTAATGAATAGCTAGGATACAAATGACATGTCATTAGGGTTTAT
* **
212277 ATTCAGCAGGTACTTTGTATCGATGTTAGCTATGTGCCATTAACACTAATGATATGTCATT
66 ATTCAGCAAGTACTACGTATCGATGTTAGCTATGTGCCATTAACACTAATGATATGTCATT
* *
212338 AGTGTTAAGGCTAGAGTGAACTTAGTGAATAGCTAGGATACAAATGACATGTCATTAGGGTTTAT
1 AGTGTTAAGGCCAGAGTGAACTTAATGAATAGCTAGGATACAAATGACATGTCATTAGGGTTTAT
* *
212403 ATTCAGCAAGTACTACGTATCGATGTTGGCTATGTGTCATT
66 ATTCAGCAAGTACTACGTATCGATGTTAGCTATGTGCCATT
212444 TATATTCAAC
Statistics
Matches: 96, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
126 96 1.00
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.34
Consensus pattern (126 bp):
AGTGTTAAGGCCAGAGTGAACTTAATGAATAGCTAGGATACAAATGACATGTCATTAGGGTTTAT
ATTCAGCAAGTACTACGTATCGATGTTAGCTATGTGCCATTAACACTAATGATATGTCATT
Found at i:220980 original size:22 final size:24
Alignment explanation
Indices: 220936--220980 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
220926 TCTTATTCTC
220936 TTTTTTTTTTTAAGAAATAAAAAG
1 TTTTTTTTTTTAAGAAATAAAAAG
220960 TTTTTTTTTATT-A-AAATAAAA
1 TTTTTTTTT-TTAAGAAATAAAA
220981 TAACTATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 8 0.40
24 10 0.50
25 2 0.10
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.53
Consensus pattern (24 bp):
TTTTTTTTTTTAAGAAATAAAAAG
Found at i:221185 original size:32 final size:31
Alignment explanation
Indices: 221144--221203 Score: 93
Period size: 32 Copynumber: 1.9 Consensus size: 31
221134 TTACTTTACG
* *
221144 TAAAAAAATCCAAACTTTTATTTTAAAATAGT
1 TAAAAAAATCAAAAC-TTTATTTAAAAATAGT
221176 TAAAAAAATCAAAACTTTATTTAAAAAT
1 TAAAAAAATCAAAACTTTATTTAAAAAT
221204 TTAAACTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 12 0.46
32 14 0.54
ACGTcount: A:0.55, C:0.08, G:0.02, T:0.35
Consensus pattern (31 bp):
TAAAAAAATCAAAACTTTATTTAAAAATAGT
Found at i:222417 original size:42 final size:42
Alignment explanation
Indices: 222326--222506 Score: 197
Period size: 42 Copynumber: 4.3 Consensus size: 42
222316 ATACAATGAA
* * * *
222326 AAAAATAAATGGACCT-CACGCCTAGGCCTTTGAATGCAATG
1 AAAAGTAAATGGGCCTCCACACCTAGGCCTTTAAATGCAATG
*
222367 AAAAGTAAATGGGCCTCCACACCTAGG-CTTCTAAATACAAT-
1 AAAAGTAAATGGGCCTCCACACCTAGGCCTT-TAAATGCAATG
* * * * ** *
222408 AAAAGGTAAATGGACCTCTACACTTGGGTTTTTAAGTGCAATG
1 AAAA-GTAAATGGGCCTCCACACCTAGGCCTTTAAATGCAATG
* *
222451 AAAACTAAATGGGCCTCCACACCTAGGTCTTTAAATGCAATG
1 AAAAGTAAATGGGCCTCCACACCTAGGCCTTTAAATGCAATG
222493 AAAAGTAAATGGGC
1 AAAAGTAAATGGGC
222507 TTAAATGCAA
Statistics
Matches: 115, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
41 21 0.18
42 88 0.77
43 6 0.05
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (42 bp):
AAAAGTAAATGGGCCTCCACACCTAGGCCTTTAAATGCAATG
Found at i:222510 original size:26 final size:26
Alignment explanation
Indices: 222481--222530 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
222471 ACCTAGGTCT
222481 TTAAATGCAATGAAAAGTAAATGGGC
1 TTAAATGCAATGAAAAGTAAATGGGC
222507 TTAAATGCAATGAAAAGTAAATGG
1 TTAAATGCAATGAAAAGTAAATGG
222531 ACCTCCACAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.48, C:0.06, G:0.22, T:0.24
Consensus pattern (26 bp):
TTAAATGCAATGAAAAGTAAATGGGC
Found at i:222529 original size:68 final size:68
Alignment explanation
Indices: 222439--222574 Score: 209
Period size: 68 Copynumber: 2.0 Consensus size: 68
222429 ACTTGGGTTT
* * * ** *
222439 TTAAGTGCAATGAAAACTAAATGGGCCTCCACACCTAGGTCTTTAAATGCAATGAAAAGTAAATG
1 TTAAATGCAATGAAAACTAAATGGACCTCCACACCTAGGCCCCTAAATGCAATGAAAAGCAAATG
222504 GGC
66 GGC
*
222507 TTAAATGCAATGAAAAGTAAATGGACCTCCACACCTAGGCCCCTAAATGCAATGAAAAGCAAATG
1 TTAAATGCAATGAAAACTAAATGGACCTCCACACCTAGGCCCCTAAATGCAATGAAAAGCAAATG
222572 GGC
66 GGC
222575 CTCCACACTT
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
68 61 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.21
Consensus pattern (68 bp):
TTAAATGCAATGAAAACTAAATGGACCTCCACACCTAGGCCCCTAAATGCAATGAAAAGCAAATG
GGC
Found at i:222554 original size:42 final size:42
Alignment explanation
Indices: 222508--223066 Score: 764
Period size: 42 Copynumber: 13.3 Consensus size: 42
222498 TAAATGGGCT
* *
222508 TAAATGCAATGAAAAGTAAATGGACCTCCACACCTAGGCCCC
1 TAAATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTC
* * * *
222550 TAAATGCAATGAAAAGCAAATGGGCCTCCACACTTGTGCCTC
1 TAAATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTC
* *
222592 TAAATGCAATGAAAAGTAAATAGACCTCCACACCTTGGCCTC
1 TAAATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTC
*
222634 TAAATGCAATGAAAAGTAAAT-GAGCCTCCACACCTGGACCTC
1 TAAATGCAATGAAAAGTAAATGGA-CCTCCACACCTGGGCCTC
* * *
222676 TAAATGCAATGAAAAGTAAATGGGCCTCTACACCTAGGCCTC
1 TAAATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTC
* *
222718 TAAATGTAATGAAAAGTAAATGGACCTTCACACCTGGGCCTC
1 TAAATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTC
* * *
222760 TAAATGCAATGATAAGTAAAAGGACCTCCACACTTGGGCCTC
1 TAAATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTC
* * *
222802 TAAATGCAATGAAAAGTAAATGAACCTCTACACTTGGGCCTC
1 TAAATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTC
* * * *
222844 TAAATGCAATGAAAACTAAACGGACCTCTACACTTGGGCCTC
1 TAAATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTC
* * *
222886 TAAATGCTATGAAGAGTAAAT-GAGCCTCCACACTTGGGCCTC
1 TAAATGCAATGAAAAGTAAATGGA-CCTCCACACCTGGGCCTC
* *** *
222928 TAAATGTAATGAAAAGTAAATGGGTATCCACACCTAGGCCTC
1 TAAATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTC
*
222970 TAAATGCAATGAAAAGTAAAT-GAGCCTCCACACCTAGGCCTC
1 TAAATGCAATGAAAAGTAAATGGA-CCTCCACACCTGGGCCTC
*
223012 TAAATGCAATGAAAAGTAAATGGACCTCCACACCTGTGCCTC
1 TAAATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTC
223054 TAAATGCAATGAA
1 TAAATGCAATGAA
223067 TGCTTTCCTT
Statistics
Matches: 457, Mismatches: 54, Indels: 12
0.87 0.10 0.02
Matches are distributed among these distances:
41 5 0.01
42 448 0.98
43 4 0.01
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.21
Consensus pattern (42 bp):
TAAATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTC
Found at i:223481 original size:10 final size:10
Alignment explanation
Indices: 223468--223511 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
223458 TTGCTCTCTC
*
223468 TTTTTTTTTA
1 TTTTTTCTTA
*
223478 TTTTTTCTTC
1 TTTTTTCTTA
*
223488 TTTTTTCGTA
1 TTTTTTCTTA
223498 TTTTTTCTTGA
1 TTTTTTCTT-A
223509 TTT
1 TTT
223512 AAACAAAATC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
10 24 0.86
11 4 0.14
ACGTcount: A:0.07, C:0.09, G:0.05, T:0.80
Consensus pattern (10 bp):
TTTTTTCTTA
Found at i:223491 original size:20 final size:20
Alignment explanation
Indices: 223466--223506 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
223456 TCTTGCTCTC
**
223466 TCTTTTTTTTTATTTTTTCT
1 TCTTTTTTCGTATTTTTTCT
223486 TCTTTTTTCGTATTTTTTCT
1 TCTTTTTTCGTATTTTTTCT
223506 T
1 T
223507 GATTTAAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.05, C:0.12, G:0.02, T:0.80
Consensus pattern (20 bp):
TCTTTTTTCGTATTTTTTCT
Found at i:234573 original size:20 final size:21
Alignment explanation
Indices: 234550--234588 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
234540 ATGACATTAG
*
234550 ACAATTAAATAAAT-TAATGC
1 ACAAATAAATAAATCTAATGC
234570 ACAAATAAATAAATCTAAT
1 ACAAATAAATAAATCTAAT
234589 ATGCATAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.59, C:0.10, G:0.03, T:0.28
Consensus pattern (21 bp):
ACAAATAAATAAATCTAATGC
Found at i:235450 original size:239 final size:238
Alignment explanation
Indices: 235021--235499 Score: 789
Period size: 239 Copynumber: 2.0 Consensus size: 238
235011 AAAAAATACC
* *
235021 TCCACTTTACTTATAATTTAACTAAGACGTGTTCACCAAACTTATCTAATTTAAAACTTAAATTA
1 TCCAATTTACTTATAACTTAACTAAGACGTGTTCACCAAACTTATCTAATTTAAAACTTAAATTA
* * *
235086 GAGATTTTTACTTTTAACGAGAACCCTAAAGGATACCTAAATAATTCTAATAAAATATCTTCAAT
66 GAGATTTTTACTTCTAACGAGAACACTAAAGGATACCTAAATAATTCTAATAAAATACCTTCAAT
*
235151 TCTTAAAATTAATTCTATTTTAGAATCCTAAAAAAACCTAAAAAAATTACTAACGAATTAAGAGA
131 TCTTAAAATTAATTCTATTATAGAATCCTAAAAAAACCT-AAAAAATTACTAACGAATTAAGAGA
* * *
235216 AATATTAAAATTCATCTACAACTTATTCGATCTTTTATCATTAT
195 AATATTAAAATTCATCTAAAACTTATTCAATCTATTATCATTAT
* * *
235260 TCCAATTTACTTGTAACTTGACTAAGACGTGTTCACCAAACTTATCTAATTTAAAGCTTAAATTA
1 TCCAATTTACTTATAACTTAACTAAGACGTGTTCACCAAACTTATCTAATTTAAAACTTAAATTA
*
235325 GAGATTTTTACTTCTAACGAGAACACTAAAGGATACCTAAATAATTCTAGTAAAATACCTTCAAT
66 GAGATTTTTACTTCTAACGAGAACACTAAAGGATACCTAAATAATTCTAATAAAATACCTTCAAT
*
235390 TCTTAAAATTAATTCTATTATAGAATCCTAAAAAAAAACCT-AAAAATTACTAATGAATTAAGAG
131 TCTTAAAATTAATTCTATTATAGAATCCT--AAAAAAACCTAAAAAATTACTAACGAATTAAGAG
*
235454 GAATATTAAAATTCATCTAAAACTTATTCAATCTATTATCATTAT
194 AAATATTAAAATTCATCTAAAACTTATTCAATCTATTATCATTAT
235499 T
1 T
235500 ATTATTTTAG
Statistics
Matches: 223, Mismatches: 15, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
239 213 0.96
241 10 0.04
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.36
Consensus pattern (238 bp):
TCCAATTTACTTATAACTTAACTAAGACGTGTTCACCAAACTTATCTAATTTAAAACTTAAATTA
GAGATTTTTACTTCTAACGAGAACACTAAAGGATACCTAAATAATTCTAATAAAATACCTTCAAT
TCTTAAAATTAATTCTATTATAGAATCCTAAAAAAACCTAAAAAATTACTAACGAATTAAGAGAA
ATATTAAAATTCATCTAAAACTTATTCAATCTATTATCATTAT
Found at i:236770 original size:19 final size:20
Alignment explanation
Indices: 236747--236790 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
236737 AAATAGTTAA
* *
236747 AAAAAATCAAAATTTTGTTT
1 AAAAATTCAAAATTTTCTTT
*
236767 AAAAATTTAAAATTTTCTTT
1 AAAAATTCAAAATTTTCTTT
236787 AAAA
1 AAAA
236791 TGACTAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (20 bp):
AAAAATTCAAAATTTTCTTT
Found at i:236927 original size:150 final size:147
Alignment explanation
Indices: 236527--237050 Score: 559
Period size: 150 Copynumber: 3.5 Consensus size: 147
236517 TCAAAAGTTT
* * * * *
236527 TTTTTTTATTAAAACAAAATCACTACTTTACTTCAAAATCAAAATTTTTATTTCGAAATAGCTAA
1 TTTTTTT-TT-AAAGAAAATCACTATTTTACTTAAAAATCAAAACTTTTATTTCGAAATAGTTAA
* * * *** *
236592 AACAATTCAAAGCTTTGTTTAAAAATTTTAAACTTTT-TATATAAATTTTTAAAAAAACATATTT
64 AA-AAATCAAAAC-TTGTTTAAAAA-TTTAAACTTTTCTTTA-AAATAACT-AAAAAACA-A-AT
* *
236656 TTTTATTATTTTAAAATCTAAACTTTC
122 TTTTATT-TTTAAAAATATAAACTTTC
* * * *
236683 TATCTTTTTAATGAAAATCATTATTTTACTTAAAAAATTC-AAACTTTTATTTCGAAATAGTTAA
1 TTTTTTTTTAAAGAAAATCACTATTTTACTT-AAAAA-TCAAAACTTTTATTTCGAAATAGTT-A
* * * *
236747 AAAAAATCAAAATTTTGTTTAAAAATTTAAAATTTTCTTTAAAATGACTAAAAAACAGATTTTTA
63 AAAAAATCAAAA-CTTGTTTAAAAATTTAAACTTTTCTTTAAAATAACTAAAAAACAAATTTTTA
*
236812 TTTTTAAAAATGTAAACTTTGTC
127 TTTTTAAAAATATAAAC-TT-TC
* *
236835 TTTTTTTTTAAAGAAAATCACTATTTTACTTAAAAATCCAAACTTTTATTTGGAAATTA-TTAAA
1 TTTTTTTTTAAAGAAAATCACTATTTTACTTAAAAATCAAAACTTTTATTTCGAAA-TAGTTAAA
* *
236899 AAAATCAATAACTTGTTTAAAAATTTAAACTTTTCTTTAAAACAACTAGAAAACAAATTTTTATT
65 AAAATCAA-AACTTGTTTAAAAATTTAAACTTTTCTTTAAAATAACTAAAAAACAAATTTTTATT
* *
236964 TTTGAAAATATAAACATTC
129 TTTAAAAATATAAACTTTC
* * * * *
236983 TCTTTTTCTAAAGAAAATTACTATTTTGCTTAAAAATCAAAACTTTTATTTCGAAATTGTTAAAA
1 TTTTTTTTTAAAGAAAATCACTATTTTACTTAAAAATCAAAACTTTTATTTCGAAATAGTTAAAA
237048 AAA
66 AAA
237051 AAGACCAAAA
Statistics
Matches: 315, Mismatches: 42, Indels: 30
0.81 0.11 0.08
Matches are distributed among these distances:
147 1 0.00
148 61 0.19
149 1 0.00
150 87 0.28
151 35 0.11
152 31 0.10
153 8 0.03
154 33 0.10
155 47 0.15
156 11 0.03
ACGTcount: A:0.43, C:0.10, G:0.04, T:0.43
Consensus pattern (147 bp):
TTTTTTTTTAAAGAAAATCACTATTTTACTTAAAAATCAAAACTTTTATTTCGAAATAGTTAAAA
AAATCAAAACTTGTTTAAAAATTTAAACTTTTCTTTAAAATAACTAAAAAACAAATTTTTATTTT
TAAAAATATAAACTTTC
Found at i:237465 original size:3 final size:3
Alignment explanation
Indices: 237457--237486 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
237447 AAACCTTAAA
*
237457 AAT AAT AAT GAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
237487 GATGATGATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:237511 original size:6 final size:6
Alignment explanation
Indices: 237461--237513 Score: 52
Period size: 6 Copynumber: 8.8 Consensus size: 6
237451 CTTAAAAATA
* * * * * *
237461 ATAATG ATAATA ATAATA ATAATA ATGATG ATGATG ATGATG ATAATG
1 ATAATG ATAATG ATAATG ATAATG ATAATG ATAATG ATAATG ATAATG
237509 ATAAT
1 ATAAT
237514 TTGGGCTTCC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.15, T:0.34
Consensus pattern (6 bp):
ATAATG
Found at i:237969 original size:13 final size:14
Alignment explanation
Indices: 237940--237969 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
237930 CTTTTAAAAA
237940 TAAATATTTTTTAC
1 TAAATATTTTTTAC
237954 TAAATATTTTTT-C
1 TAAATATTTTTTAC
237967 TAA
1 TAA
237970 GAGATAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.57
Consensus pattern (14 bp):
TAAATATTTTTTAC
Found at i:245019 original size:12 final size:12
Alignment explanation
Indices: 245002--245027 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
244992 AGTAAAATGA
245002 AATAATAATAGT
1 AATAATAATAGT
245014 AATAATAATAGT
1 AATAATAATAGT
245026 AA
1 AA
245028 AGAAAAACGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (12 bp):
AATAATAATAGT
Found at i:246754 original size:13 final size:13
Alignment explanation
Indices: 246738--246763 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
246728 CTAAAACCCT
246738 AAATTAAAATAAG
1 AAATTAAAATAAG
246751 AAATTAAAATAAG
1 AAATTAAAATAAG
246764 GGAAAGGTGT
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:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (13 bp):
AAATTAAAATAAG
Found at i:248840 original size:12 final size:12
Alignment explanation
Indices: 248825--248865 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
248815 TTGAGAGCAT
*
248825 AAAATAAAAGAT
1 AAAATAAAAGAA
*
248837 AAAATAAAATAA
1 AAAATAAAAGAA
248849 AAAATAAAAGAA
1 AAAATAAAAGAA
248861 AAAAT
1 AAAAT
248866 TTGAGATGCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (12 bp):
AAAATAAAAGAA
Found at i:248845 original size:17 final size:17
Alignment explanation
Indices: 248823--248862 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
248813 ATTTGAGAGC
*
248823 ATAAAATAAAAGATAAA
1 ATAAAATAAAAAATAAA
248840 ATAAAATAAAAAATAAA
1 ATAAAATAAAAAATAAA
*
248857 AGAAAA
1 ATAAAA
248863 AATTTGAGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (17 bp):
ATAAAATAAAAAATAAA
Found at i:254920 original size:18 final size:18
Alignment explanation
Indices: 254897--254931 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
254887 GAGTTGTCAA
254897 GATTAATGTCAGTGCAAG
1 GATTAATGTCAGTGCAAG
*
254915 GATTAATGTTAGTGCAA
1 GATTAATGTCAGTGCAA
254932 TTAAGTCGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.09, G:0.26, T:0.31
Consensus pattern (18 bp):
GATTAATGTCAGTGCAAG
Found at i:256852 original size:17 final size:17
Alignment explanation
Indices: 256832--256869 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
256822 AAATACGCTA
256832 ACAAATAAAATGCAAAG
1 ACAAATAAAATGCAAAG
* *
256849 ACAAGTAAAATGCAATG
1 ACAAATAAAATGCAAAG
256866 ACAA
1 ACAA
256870 TTATATGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.61, C:0.13, G:0.13, T:0.13
Consensus pattern (17 bp):
ACAAATAAAATGCAAAG
Found at i:272777 original size:18 final size:19
Alignment explanation
Indices: 272747--272783 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
272737 TGGTACGAAA
*
272747 TTATTTTATAATTTTTAAT
1 TTATTTTATAATTGTTAAT
272766 TTATTTTA-AATTGTTAAT
1 TTATTTTATAATTGTTAAT
272784 ATTTTAGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (19 bp):
TTATTTTATAATTGTTAAT
Found at i:280970 original size:16 final size:16
Alignment explanation
Indices: 280949--280979 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
280939 TTTTCTTCAT
*
280949 TTTATTTTGACTAAAA
1 TTTATTTTAACTAAAA
280965 TTTATTTTAACTAAA
1 TTTATTTTAACTAAA
280980 TGTGAAATTT
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:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (16 bp):
TTTATTTTAACTAAAA
Found at i:284930 original size:20 final size:20
Alignment explanation
Indices: 284868--284934 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
284858 TAAATAAAAA
*
284868 TGTATGCACTTCAGTGCCCC
1 TGTATGCACTTCGGTGCCCC
*
284888 TGAATGCACTTCGGTGCCCC
1 TGTATGCACTTCGGTGCCCC
**
284908 TGTATGCACTTCGGTGCTTC
1 TGTATGCACTTCGGTGCCCC
284928 TGTATGC
1 TGTATGC
284935 TTAAGTTCAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.13, C:0.30, G:0.24, T:0.33
Consensus pattern (20 bp):
TGTATGCACTTCGGTGCCCC
Found at i:289901 original size:26 final size:25
Alignment explanation
Indices: 289872--289928 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
289862 GTATAAAATA
*
289872 TTAAGAATTTAAAATAAATTAAAAAG
1 TTAAGAAATT-AAATAAATTAAAAAG
* *
289898 TTAATAAATTGAATAAATTAAAAA-
1 TTAAGAAATTAAATAAATTAAAAAG
289922 TT-AGAAA
1 TTAAGAAA
289929 AAAAATTTCT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 4 0.15
24 2 0.07
25 13 0.48
26 8 0.30
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (25 bp):
TTAAGAAATTAAATAAATTAAAAAG
Found at i:289914 original size:9 final size:8
Alignment explanation
Indices: 289884--289924 Score: 50
Period size: 9 Copynumber: 5.1 Consensus size: 8
289874 AAGAATTTAA
289884 AATAAATT
1 AATAAATT
289892 AA-AAAGTT
1 AATAAA-TT
289900 AATAAATT
1 AATAAATT
289908 GAATAAATT
1 -AATAAATT
289917 AA-AAATT
1 AATAAATT
289924 A
1 A
289925 GAAAAAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
7 9 0.30
8 10 0.33
9 11 0.37
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (8 bp):
AATAAATT
Found at i:291883 original size:44 final size:44
Alignment explanation
Indices: 291795--291883 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 44
291785 CACTACCTTA
* * * * **
291795 GCATCATTTGTCGGATCTGGCTCAACCTCAATCTATTTTGATAC
1 GCATCATTTGTAGGATATGCCTCAACCTCAATCCATTTCAATAC
*
291839 GCATCATTTGTAGGATATGCCTCGACCTCAATCCATTTCAATAC
1 GCATCATTTGTAGGATATGCCTCAACCTCAATCCATTTCAATAC
291883 G
1 G
291884 TAGTCGACCG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.34
Consensus pattern (44 bp):
GCATCATTTGTAGGATATGCCTCAACCTCAATCCATTTCAATAC
Found at i:302180 original size:37 final size:36
Alignment explanation
Indices: 302112--302192 Score: 101
Period size: 37 Copynumber: 2.2 Consensus size: 36
302102 AAACTATTCC
*
302112 AAAAATAATATTATTTTAATAGTTTAATATTAAATT
1 AAAATTAATATTATTTTAATAGTTTAATATTAAATT
* * *
302148 AAATTTAATATTTATTTTAATAGTATT-TTATTAATTT
1 AAAATTAATA-TTATTTTAATAGT-TTAATATTAAATT
302185 AAAATTAA
1 AAAATTAA
302193 AATGATTATT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
36 8 0.21
37 28 0.74
38 2 0.05
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (36 bp):
AAAATTAATATTATTTTAATAGTTTAATATTAAATT
Found at i:304609 original size:16 final size:16
Alignment explanation
Indices: 304588--304618 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
304578 TTGTGGATCC
304588 CATTTTACCTTTATTA
1 CATTTTACCTTTATTA
*
304604 CATTTTATCTTTATT
1 CATTTTACCTTTATT
304619 TTCACATTAT
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:0.23, C:0.16, G:0.00, T:0.61
Consensus pattern (16 bp):
CATTTTACCTTTATTA
Found at i:308975 original size:18 final size:19
Alignment explanation
Indices: 308943--308981 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
308933 CATCAGTCTG
*
308943 TTTTCCTTCTTCTTC-TCT
1 TTTTCCTTCTCCTTCTTCT
*
308961 TTTTCCTTGTCCTTCTTCT
1 TTTTCCTTCTCCTTCTTCT
308980 TT
1 TT
308982 GGTTCTTCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.00, C:0.31, G:0.03, T:0.67
Consensus pattern (19 bp):
TTTTCCTTCTCCTTCTTCT
Found at i:320260 original size:19 final size:19
Alignment explanation
Indices: 320236--320272 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
320226 AGCCAAACCA
*
320236 TGTGACAGGGCAAAGGCCG
1 TGTGACAAGGCAAAGGCCG
*
320255 TGTGACAAGGCGAAGGCC
1 TGTGACAAGGCAAAGGCC
320273 ATGTTGTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.27, C:0.22, G:0.41, T:0.11
Consensus pattern (19 bp):
TGTGACAAGGCAAAGGCCG
Found at i:324253 original size:21 final size:20
Alignment explanation
Indices: 324229--324278 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 20
324219 GTACATACTA
324229 TCACTATTCATGACATGATCC
1 TCACTATTCATGACATGA-CC
* *
324250 TCACTGTTCATGACTTGACC
1 TCACTATTCATGACATGACC
*
324270 CCACTATTC
1 TCACTATTC
324279 CTAGGACTGA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 9 0.36
21 16 0.64
ACGTcount: A:0.24, C:0.32, G:0.10, T:0.34
Consensus pattern (20 bp):
TCACTATTCATGACATGACC
Found at i:325304 original size:31 final size:31
Alignment explanation
Indices: 325269--325335 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
325259 CGGTGAGTAA
*
325269 CTAAAATGATAAAAGTAT-GAACTGATAGTGT
1 CTAAAATGATAAAAGTATAGAAC-GATAGTGC
* *
325300 CTAAAATGATAAATGTATATAACGATAGTGC
1 CTAAAATGATAAAAGTATAGAACGATAGTGC
325331 CTAAA
1 CTAAA
325336 TAGCAATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
31 29 0.91
32 3 0.09
ACGTcount: A:0.46, C:0.09, G:0.16, T:0.28
Consensus pattern (31 bp):
CTAAAATGATAAAAGTATAGAACGATAGTGC
Found at i:331799 original size:17 final size:18
Alignment explanation
Indices: 331779--331817 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
331769 CTACTTCTTG
331779 TTTAGATTAATT-AGAGT
1 TTTAGATTAATTAAGAGT
* *
331796 TTTAGTTTACTTAAGAGT
1 TTTAGATTAATTAAGAGT
331814 TTTA
1 TTTA
331818 TTTATATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.31, C:0.03, G:0.15, T:0.51
Consensus pattern (18 bp):
TTTAGATTAATTAAGAGT
Done.