Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 113 of 208
Found at i:37028138 original size:19 final size:19
Alignment explanation
Indices: 37027971--37028141 Score: 65
Period size: 20 Copynumber: 8.9 Consensus size: 19
37027961 ATAAATGACA
* *
37027971 TTTTTATAGTTTTATAAAT
1 TTTTTATAATTTTATAAGT
*
37027990 ATTTTTATAA-TTTATTAGAGC
1 -TTTTTATAATTTTA-TA-AGT
* *
37028011 TTTTTGTACTTTTAT-AG-
1 TTTTTATAATTTTATAAGT
* *
37028028 TATTTATAAGTTTT-TATGAT
1 TTTTTATAA-TTTTATAAG-T
*
37028048 TTTATATAATTTTTATAAG-
1 TTTTTATAA-TTTTATAAGT
* *
37028067 --TTTAT-ATTTTTTAAAT
1 TTTTTATAATTTTATAAGT
*
37028083 ATTTTTAATATATTTTATTA--
1 -TTTTT-ATA-ATTTTATAAGT
*
37028103 TTTTCATAATTTATTATAAGT
1 TTTTTATAA-TT-TTATAAGT
37028124 TTTTTATAATTTTATAAG
1 TTTTTATAATTTTATAAG
37028142 CTTTATGTTT
Statistics
Matches: 111, Mismatches: 21, Indels: 39
0.65 0.12 0.23
Matches are distributed among these distances:
15 7 0.06
16 1 0.01
17 12 0.11
18 12 0.11
19 23 0.21
20 33 0.30
21 16 0.14
22 7 0.06
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.61
Consensus pattern (19 bp):
TTTTTATAATTTTATAAGT
Found at i:37028182 original size:19 final size:18
Alignment explanation
Indices: 37028020--37028186 Score: 96
Period size: 19 Copynumber: 9.0 Consensus size: 18
37028010 CTTTTTGTAC
37028020 TTTTAT-AGTATTTATAAGT
1 TTTTATAAGT-TTTATAA-T
* *
37028039 TTTTATGATTTTATATAAT
1 TTTTATAAGTTT-TATAAT
*
37028058 TTTTATAAG-TTTATATT
1 TTTTATAAGTTTTATAAT
* *
37028075 TTTTAAATATTTTTA-ATAT
1 TTTTATA-AGTTTTATA-AT
*
37028094 ATTTTATTA-TTTTCATAAT
1 -TTTTATAAGTTTT-ATAAT
37028113 TTATTATAAGTTTTTTATAA-
1 TT-TTATAAG--TTTTATAAT
* *
37028133 TTTTATAAGCTTTAT-GT
1 TTTTATAAGTTTTATAAT
*
37028150 TTGTTATAACTTTTATAAT
1 TT-TTATAAGTTTTATAAT
37028169 TTTATATAAGTTTT-TAAT
1 TTT-TATAAGTTTTATAAT
37028187 ATGAACCTTA
Statistics
Matches: 116, Mismatches: 16, Indels: 33
0.70 0.10 0.20
Matches are distributed among these distances:
17 18 0.16
18 26 0.22
19 49 0.42
20 15 0.13
21 4 0.03
22 4 0.03
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (18 bp):
TTTTATAAGTTTTATAAT
Found at i:37028371 original size:19 final size:18
Alignment explanation
Indices: 37028347--37028539 Score: 108
Period size: 19 Copynumber: 10.3 Consensus size: 18
37028337 TTTTTTATAC
37028347 TTTTATAATATTTATAAGT
1 TTTTATAATATTTATAA-T
*
37028366 TTTTATGAT-TTTATATAT
1 TTTTATAATATTTATA-AT
*
37028384 CTTTTATAA-GTTTAT-AT
1 -TTTTATAATATTTATAAT
*
37028401 TTTTA-AATATTTTTAATAT
1 TTTTATAATATTTAT-A-AT
* *
37028420 GTTTTATTATTTTTATAAT
1 -TTTTATAATATTTATAAT
* *
37028439 TTATTAGAATTTATTATAAGT
1 TT-TTATAATAT-TTATAA-T
*
37028460 TTTTATAATATTTATAAG
1 TTTTATAATATTTATAAT
* *
37028478 TTTTATATTTTTTATAAAT
1 TTTTATAATATTTAT-AAT
* *
37028497 TTATATAAGTTTTTA-ATAT
1 TTTTATAA-TATTTATA-AT
* * *
37028516 TTTTATGATTTTTATGAT
1 TTTTATAATATTTATAAT
37028534 TTTTAT
1 TTTTAT
37028540 TAGAAAATAA
Statistics
Matches: 138, Mismatches: 20, Indels: 33
0.72 0.10 0.17
Matches are distributed among these distances:
15 2 0.01
16 9 0.07
17 2 0.01
18 37 0.27
19 54 0.39
20 25 0.18
21 9 0.07
ACGTcount: A:0.32, C:0.01, G:0.05, T:0.62
Consensus pattern (18 bp):
TTTTATAATATTTATAAT
Found at i:37028465 original size:10 final size:9
Alignment explanation
Indices: 37028338--37028539 Score: 137
Period size: 9 Copynumber: 21.8 Consensus size: 9
37028328 AATAGAGATT
37028338 TTTTTAT-A
1 TTTTTATAA
*
37028346 CTTTTATAA
1 TTTTTATAA
*
37028355 TATTTATAA
1 TTTTTATAA
*
37028364 GTTTTTATGA
1 -TTTTTATAA
37028374 -TTTTATATA
1 TTTTTATA-A
37028383 TCTTTTATAA
1 T-TTTTATAA
*
37028393 -GTTTAT-A
1 TTTTTATAA
*
37028400 TTTTTAAATA
1 TTTTTATA-A
37028410 TTTTTA-ATA
1 TTTTTATA-A
*
37028419 TGTTTTATTA
1 T-TTTTATAA
37028429 TTTTTATAA
1 TTTTTATAA
*
37028438 TTTATTAGAA
1 TTT-TTATAA
37028448 TTTATTATAA
1 TTT-TTATAA
37028458 GTTTTTATAA
1 -TTTTTATAA
*
37028468 TATTTATAA
1 TTTTTATAA
* *
37028477 GTTTTATAT
1 TTTTTATAA
37028486 TTTTTATAAA
1 TTTTTAT-AA
*
37028496 TTTATATAA
1 TTTTTATAA
37028505 GTTTTTA-ATA
1 -TTTTTATA-A
*
37028515 TTTTTATGA
1 TTTTTATAA
*
37028524 TTTTTATGA
1 TTTTTATAA
37028533 TTTTTAT
1 TTTTTAT
37028540 TAGAAAATAA
Statistics
Matches: 156, Mismatches: 22, Indels: 31
0.75 0.11 0.15
Matches are distributed among these distances:
7 1 0.01
8 21 0.13
9 69 0.44
10 55 0.35
11 10 0.06
ACGTcount: A:0.32, C:0.01, G:0.05, T:0.62
Consensus pattern (9 bp):
TTTTTATAA
Found at i:37028538 original size:47 final size:47
Alignment explanation
Indices: 37028338--37028539 Score: 147
Period size: 47 Copynumber: 4.3 Consensus size: 47
37028328 AATAGAGATT
* *
37028338 TTTTTATACTTTTAT-AATAT-TTATAAGTTTTT-ATGA-TTTTATATA
1 TTTTTATATTTTTATAAATTTATTATAAGTTTTTAAT-ATTTTTATA-A
** * *
37028383 TCTTTTATAAGTTTAT--ATTT-TTA-AATATTTTTAATATGTTTTATTA
1 T-TTTTATATTTTTATAAATTTATTATAA-GTTTTTAATAT-TTTTATAA
* *
37028429 TTTTTATAATTTATTA-GAATTTATTATAAGTTTTT-ATAATATTTATAA
1 TTTTTAT-ATTT-TTATAAATTTATTATAAGTTTTTAAT-ATTTTTATAA
* *
37028477 GTTTTATATTTTTTATAAATTTA-TATAAGTTTTTAATATTTTTATGA
1 TTTTTATA-TTTTTATAAATTTATTATAAGTTTTTAATATTTTTATAA
37028524 TTTTTATGATTTTTAT
1 TTTTTAT-ATTTTTAT
37028540 TAGAAAATAA
Statistics
Matches: 126, Mismatches: 15, Indels: 30
0.74 0.09 0.18
Matches are distributed among these distances:
44 2 0.02
45 19 0.15
46 18 0.14
47 45 0.36
48 30 0.24
49 10 0.08
50 2 0.02
ACGTcount: A:0.32, C:0.01, G:0.05, T:0.62
Consensus pattern (47 bp):
TTTTTATATTTTTATAAATTTATTATAAGTTTTTAATATTTTTATAA
Found at i:37028863 original size:26 final size:24
Alignment explanation
Indices: 37028810--37028855 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
37028800 TTGAAATTAA
*
37028810 AAAATATATAATTTAAAAAAAACT
1 AAAATATATAAATTAAAAAAAACT
*
37028834 AAAATATATAAATTAATAAAAA
1 AAAATATATAAATTAAAAAAAA
37028856 GTATAAAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (24 bp):
AAAATATATAAATTAAAAAAAACT
Found at i:37028980 original size:15 final size:16
Alignment explanation
Indices: 37028962--37028996 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
37028952 TATTATATCT
*
37028962 TTTTATATTTTATA-A
1 TTTTATAATTTATATA
37028977 TTTTATAATTTATATA
1 TTTTATAATTTATATA
37028993 TTTT
1 TTTT
37028997 TCAAAATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTATAATTTATATA
Found at i:37028997 original size:17 final size:17
Alignment explanation
Indices: 37028904--37028997 Score: 66
Period size: 20 Copynumber: 5.2 Consensus size: 17
37028894 AATGGTTGTA
37028904 TTTAGTAATTATATATATT
1 TTTA-TAATT-TATATATT
*
37028923 TATTATAAATTTTTATATTT
1 T-TTAT-AATTTATATA-TT
* *
37028943 GTTTCAAAATATTATATCTT
1 -TTT-ATAAT-TTATATATT
*
37028963 TTTAT-ATTT-TATAAT
1 TTTATAATTTATATATT
37028978 TTTATAATTTATATATT
1 TTTATAATTTATATATT
37028995 TTT
1 TTT
37028998 CAAAATAACA
Statistics
Matches: 59, Mismatches: 8, Indels: 18
0.69 0.09 0.21
Matches are distributed among these distances:
15 9 0.15
16 6 0.10
17 10 0.17
18 1 0.02
19 10 0.17
20 16 0.27
21 7 0.12
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (17 bp):
TTTATAATTTATATATT
Found at i:37054897 original size:14 final size:14
Alignment explanation
Indices: 37054880--37054917 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
37054870 TATTATTTTG
37054880 TTTATTTTTTGGAT
1 TTTATTTTTTGGAT
*
37054894 TTTA-TTTTTGTAT
1 TTTATTTTTTGGAT
37054907 TTTATATTTTT
1 TTTAT-TTTTT
37054918 AACATTGGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 12 0.57
14 4 0.19
15 5 0.24
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (14 bp):
TTTATTTTTTGGAT
Found at i:37055312 original size:44 final size:44
Alignment explanation
Indices: 37055281--37055403 Score: 151
Period size: 44 Copynumber: 2.8 Consensus size: 44
37055271 TCATTGTTTT
37055281 AATCCGCTCCACTACAACTTCAGGGAGATAGGATTAGTAACTTC
1 AATCCGCTCCACTACAACTTCAGGGAGATAGGATTAGTAACTTC
* * *
37055325 AATCTGCTCCACTACAACTTCAGGGAGATAAGATTGGTATA-TTC
1 AATCCGCTCCACTACAACTTCAGGGAGATAGGATTAGTA-ACTTC
** * *
37055369 AA-CCTATTCCACTGCAACTTCAGGGAGATAAGATT
1 AATCC-GCTCCACTACAACTTCAGGGAGATAGGATT
37055404 TGATATGCTC
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
43 1 0.01
44 68 0.97
45 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.27
Consensus pattern (44 bp):
AATCCGCTCCACTACAACTTCAGGGAGATAGGATTAGTAACTTC
Found at i:37055438 original size:41 final size:41
Alignment explanation
Indices: 37055379--37055531 Score: 130
Period size: 41 Copynumber: 3.5 Consensus size: 41
37055369 AACCTATTCC
*
37055379 ACTGCAACTTCAGGGAGATAAGATTTGATATGCTCTGCTCT
1 ACTGCAACTTCAGAGAGATAAGATTTGATATGCTCTGCTCT
* *
37055420 ACTGCAACTTCAGAGAGATAA-ATCTATAATTTATAGCTTCAATATGTTCT
1 ACTGCAACTTCAGAGAGATAAGAT-T-TGA--TAT-GC-TC----TGCTCT
* * *
37055470 ACTGCAACTTTA-AGGAAATAAGATTTGATATGATCTGCTCT
1 ACTGCAACTTCAGA-GAGATAAGATTTGATATGCTCTGCTCT
*
37055511 ACTTCAACTTCAGAGAGATAA
1 ACTGCAACTTCAGAGAGATAA
37055532 TATCTGTAAT
Statistics
Matches: 88, Mismatches: 11, Indels: 26
0.70 0.09 0.21
Matches are distributed among these distances:
40 2 0.02
41 42 0.48
42 3 0.03
44 3 0.03
45 4 0.05
46 3 0.03
47 3 0.03
49 3 0.03
50 23 0.26
51 2 0.02
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (41 bp):
ACTGCAACTTCAGAGAGATAAGATTTGATATGCTCTGCTCT
Found at i:37055494 original size:91 final size:92
Alignment explanation
Indices: 37055379--37055683 Score: 393
Period size: 95 Copynumber: 3.3 Consensus size: 92
37055369 AACCTATTCC
* *
37055379 ACTGCAACTTCAGGGAGATAAGATTTGATATGCTCTGCTCTACTGCAACTTCAGAGAGATAA-AT
1 ACTGCAACTTCAAGGAAATAAGATTTGATATGCTCTGCTCTACTGCAACTTCAGAGAGATAAGAT
*
37055443 CTATAATTTATAGCTTCAATATGTTCT
66 CTGTAATTTATAGCTTCAATATGTTCT
* * * *
37055470 ACTGCAACTTTAAGGAAATAAGATTTGATATGATCTGCTCTACTTCAACTTCAGAGAGATAATAT
1 ACTGCAACTTCAAGGAAATAAGATTTGATATGCTCTGCTCTACTGCAACTTCAGAGAGATAAGAT
* *
37055535 CTGTAATTTATTGCTTCAATATGTTCC
66 CTGTAATTTATAGCTTCAATATGTTCT
* * * *
37055562 ACTGAAACTTCAGGGAAATAAGATTTG-TAACTTCAGTCTGCTCTACTGCAACTTCAGGGAGATA
1 ACTGCAACTTCAAGGAAATAAGATTTGAT-A-TGC--TCTGCTCTACTGCAACTTCAGAGAGATA
*
37055626 AGA-CTTGTAATTTATAGCTTCAATCTGTTCCT
62 AGATC-TGTAATTTATAGCTTCAATATGTT-CT
*
37055658 -CTGCAACTTCAAGGAAATGAGATTTG
1 ACTGCAACTTCAAGGAAATAAGATTTG
37055684 CTATCTTCAG
Statistics
Matches: 185, Mismatches: 22, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
91 58 0.31
92 51 0.28
93 1 0.01
94 1 0.01
95 73 0.39
96 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (92 bp):
ACTGCAACTTCAAGGAAATAAGATTTGATATGCTCTGCTCTACTGCAACTTCAGAGAGATAAGAT
CTGTAATTTATAGCTTCAATATGTTCT
Found at i:37055591 original size:51 final size:50
Alignment explanation
Indices: 37055515--37055818 Score: 182
Period size: 51 Copynumber: 6.4 Consensus size: 50
37055505 TGCTCTACTT
* * * * *
37055515 CAACTTCAGAGAGATAATATCTGTAATTTATTGCTTCAATATGTTCCACTG
1 CAACTTCAGGGAAATAAGATTTGTAATTTA-TGCTTCAATCTGTTCCACTG
* * * *
37055566 AAACTTCAGGGAAATAAGATTTGT-A---A--CTTCAGTCTGCTCTACTG
1 CAACTTCAGGGAAATAAGATTTGTAATTTATGCTTCAATCTGTTCCACTG
* * *
37055610 CAACTTCAGGGAGATAAGACTTGTAATTTATAGCTTCAATCTGTTCCTCTG
1 CAACTTCAGGGAAATAAGATTTGTAATTTAT-GCTTCAATCTGTTCCACTG
* * * * * *
37055661 CAACTTCAAGGAAATGAGATTTG----CTAT-CTTCAGTCTGCTCCACTA
1 CAACTTCAGGGAAATAAGATTTGTAATTTATGCTTCAATCTGTTCCACTG
* * *
37055706 CAACTTCAGGGAGATAA-AGTTTG--A--TATG-----ATCTGCTCTACTG
1 CAACTTCAGGGAAATAAGA-TTTGTAATTTATGCTTCAATCTGTTCCACTG
* * * * *
37055747 CAACTTCAGAGAGATAAGATCTATAATTTATAGCTTCAATCTGTTCCACTA
1 CAACTTCAGGGAAATAAGATTTGTAATTTAT-GCTTCAATCTGTTCCACTG
*
37055798 CAACTTTAGGGAAATAAGATT
1 CAACTTCAGGGAAATAAGATT
37055819 CACTATCTTC
Statistics
Matches: 191, Mismatches: 41, Indels: 42
0.70 0.15 0.15
Matches are distributed among these distances:
41 28 0.15
42 1 0.01
43 1 0.01
44 36 0.19
45 39 0.20
46 1 0.01
47 4 0.02
48 1 0.01
50 1 0.01
51 79 0.41
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (50 bp):
CAACTTCAGGGAAATAAGATTTGTAATTTATGCTTCAATCTGTTCCACTG
Found at i:37055761 original size:137 final size:137
Alignment explanation
Indices: 37055598--37055859 Score: 418
Period size: 137 Copynumber: 1.9 Consensus size: 137
37055588 GTAACTTCAG
* * * *
37055598 TCTGCTCTACTGCAACTTCAGGGAGATAAGA-CTTGTAATTTATAGCTTCAATCTGTTCCTCTGC
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGATC-TATAATTTATAGCTTCAATCTGTTCCACTAC
* **
37055662 AACTTCAAGGAAATGAGATTTGCTATCTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAAGTT
65 AACTTCAAGGAAATAAGATTCACTATCTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAAGTT
37055727 TGATATGA
130 TGATATGA
37055735 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATAATTTATAGCTTCAATCTGTTCCACTACA
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATAATTTATAGCTTCAATCTGTTCCACTACA
* * *
37055800 ACTTTAGGGAAATAAGATTCACTATCTTCAGTCTGCTCCGCTACAACTTCAGGGAGATAA
66 ACTTCAAGGAAATAAGATTCACTATCTTCAGTCTGCTCCACTACAACTTCAGGGAGATAA
37055860 GGCTGGTGGC
Statistics
Matches: 114, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
137 113 0.99
138 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (137 bp):
TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATAATTTATAGCTTCAATCTGTTCCACTACA
ACTTCAAGGAAATAAGATTCACTATCTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAAGTTT
GATATGA
Found at i:37056031 original size:44 final size:44
Alignment explanation
Indices: 37055983--37056146 Score: 159
Period size: 44 Copynumber: 3.5 Consensus size: 44
37055973 GTTTGTTCCG
*
37055983 CTGCAACTTCAGGAAGATAAGACTGGTGGCTTCAATCTGCTCTA
1 CTGCAACTTCAGGAAGATAAGACTGGTGGCTTCAATCTGCTCCA
* * * * *
37056027 CTGCAACTTTAGGAAGATAAGATCTGCCATAACTTGTAGCTTTAATTTGTTCCA
1 CTGCAACTTCAGGAAGATAAGA-CTG---------GTGGCTTCAATCTGCTCCA
*
37056081 CTGCAACTTCAAGG-AGATAAGACTAGTGGCTTCAATCTGCTCCA
1 CTGCAACTTC-AGGAAGATAAGACTGGTGGCTTCAATCTGCTCCA
37056125 CTGCAACTTCAGGAAGATAAGA
1 CTGCAACTTCAGGAAGATAAGA
37056147 TACGCCATAA
Statistics
Matches: 96, Mismatches: 12, Indels: 24
0.73 0.09 0.18
Matches are distributed among these distances:
43 3 0.03
44 54 0.56
45 3 0.03
53 2 0.02
54 31 0.32
55 3 0.03
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.28
Consensus pattern (44 bp):
CTGCAACTTCAGGAAGATAAGACTGGTGGCTTCAATCTGCTCCA
Found at i:37056090 original size:98 final size:98
Alignment explanation
Indices: 37055974--37056181 Score: 348
Period size: 98 Copynumber: 2.1 Consensus size: 98
37055964 CTTTCTTCAG
* * * *
37055974 TTTGTTCCGCTGCAACTTC-AGGAAGATAAGACTGGTGGCTTCAATCTGCTCTACTGCAACTTTA
1 TTTGTTCCACTGCAACTTCAAGG-AGATAAGACTAGTGGCTTCAATCTGCTCCACTGCAACTTCA
37056038 GGAAGATAAGAT-CTGCCATAACTTGTAGCTTTAA
65 GGAAGATAAGATAC-GCCATAACTTGTAGCTTTAA
37056072 TTTGTTCCACTGCAACTTCAAGGAGATAAGACTAGTGGCTTCAATCTGCTCCACTGCAACTTCAG
1 TTTGTTCCACTGCAACTTCAAGGAGATAAGACTAGTGGCTTCAATCTGCTCCACTGCAACTTCAG
37056137 GAAGATAAGATACGCCATAACTTGTAGCTTTAA
66 GAAGATAAGATACGCCATAACTTGTAGCTTTAA
37056170 TTTGTTCCACTG
1 TTTGTTCCACTG
37056182 TAACACTAGG
Statistics
Matches: 104, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
98 100 0.96
99 4 0.04
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (98 bp):
TTTGTTCCACTGCAACTTCAAGGAGATAAGACTAGTGGCTTCAATCTGCTCCACTGCAACTTCAG
GAAGATAAGATACGCCATAACTTGTAGCTTTAA
Found at i:37056101 original size:143 final size:141
Alignment explanation
Indices: 37055559--37056146 Score: 543
Period size: 143 Copynumber: 4.2 Consensus size: 141
37055549 TTCAATATGT
* * * ** * *
37055559 TCCACTGAAACTTCAGGGAA-ATAAGATTTGTAACTTCAGTCTGCTCTACTGCAACTTCAGGGAG
1 TCCACTGCAACTTCA-GGAAGATAAGACTGGTGGCTTCAATCTGCTCTACTGCAACTTCAGGAAG
* * * *
37055623 ATAAGA-CTTG-TAATTTATAGCTTCAATCTGTTCCTCTGCAACTTCAAGGAAATGAGATTTGCT
65 ATAAGATC-TGATAACTTATAGCTTCAATCTGTTCCACTGCAACTTCAAGGAAATAAGATTCGCT
37055686 ATCTTCAGTCTGC
129 ATCTTCAGTCTGC
* * * * * *
37055699 TCCACTACAACTTCAGGGAGATAA-A--GTTTGATAT-GATCTGCTCTACTGCAACTTCA-GAGA
1 TCCACTGCAACTTCAGGAAGATAAGACTGGTGGCT-TCAATCTGCTCTACTGCAACTTCAGGA-A
* * * * *
37055759 GATAAGATCT-ATAATTTATAGCTTCAATCTGTTCCACTACAACTTTAGGGAAATAAGATTCACT
64 GATAAGATCTGATAACTTATAGCTTCAATCTGTTCCACTGCAACTTCAAGGAAATAAGATTCGCT
37055823 ATCTTCAGTCTGC
129 ATCTTCAGTCTGC
* * * * * * *
37055836 TCCGCTACAACTTCAGGGAGATAAGGCTGGTGGCTTCAATTTGCT-TCACTCCAACTTCAGGAAA
1 TCCACTGCAACTTCAGGAAGATAAGACTGGTGGCTTCAATCTGCTCT-ACTGCAACTTCAGGAAG
* * * * * * * *
37055900 ATAAGATCCGCCATAACTTGTAGCTTTAATCTATTCTACTGTAA-TGCCAGGGAAATAAGATTCG
65 ATAAGATCTG--ATAACTTATAGCTTCAATCTGTTCCACTGCAACT-TCAAGGAAATAAGATTCG
* * *
37055964 CTTTCTTCAGTTTGT
127 CTATCTTCAGTCTGC
* *
37055979 TCCGCTGCAACTTCAGGAAGATAAGACTGGTGGCTTCAATCTGCTCTACTGCAACTTTAGGAAGA
1 TCCACTGCAACTTCAGGAAGATAAGACTGGTGGCTTCAATCTGCTCTACTGCAACTTCAGGAAGA
* * * * * *
37056044 TAAGATCTGCCATAACTTGTAGCTTTAATTTGTTCCACTGCAACTTCAAGGAGATAAGACTAG-T
66 TAAGATCTG--ATAACTTATAGCTTCAATCTGTTCCACTGCAACTTCAAGGAAATAAGATTCGCT
** *
37056108 GGCTTCAATCTGC
129 ATCTTCAGTCTGC
37056121 TCCACTGCAACTTCAGGAAGATAAGA
1 TCCACTGCAACTTCAGGAAGATAAGA
37056147 TACGCCATAA
Statistics
Matches: 367, Mismatches: 64, Indels: 32
0.79 0.14 0.07
Matches are distributed among these distances:
136 1 0.00
137 113 0.31
138 2 0.01
139 6 0.02
140 47 0.13
141 2 0.01
142 35 0.10
143 159 0.43
144 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.31
Consensus pattern (141 bp):
TCCACTGCAACTTCAGGAAGATAAGACTGGTGGCTTCAATCTGCTCTACTGCAACTTCAGGAAGA
TAAGATCTGATAACTTATAGCTTCAATCTGTTCCACTGCAACTTCAAGGAAATAAGATTCGCTAT
CTTCAGTCTGC
Found at i:37056195 original size:241 final size:241
Alignment explanation
Indices: 37055843--37056297 Score: 658
Period size: 241 Copynumber: 1.9 Consensus size: 241
37055833 TGCTCCGCTA
* * * * * *
37055843 CAACTTCAGGGAGATAAGGCTGGTGGCTTCAATTTGCTTCACTCCAACTTCAGGAAAATAAGATC
1 CAACTTCAAGGAGATAAGACTAGTGGCTTCAATCTGCTCCACTCCAACTTCAGGAAAATAAGATA
* ** *
37055908 CGCCATAACTTGTAGCTTTAATCTATTCTACTGTAATGCCAGGGAAATAAGATTCGCTTTCTTCA
66 CGCCATAACTTGTAGCTTTAATCTATTCCACTGTAACACCAGGGAAATAAGATTCGCTGTCTTCA
* ** * * * * * * *
37055973 GTTTGTTCCGCTGCAACTTCAGGAAGATAAGACTGGTGGCTTCAATCTGCTCTACTGCAACTTTA
131 GTCTACTCCGCTACAACTTCAGGAAGATAAGACTGCTGCCTTCAATCTGCCCCACTCCAACTTCA
*
37056038 GGAAGATAAGATCTGCCATAACTTGTAGCTTTAATTTGTTCCACTG
196 GGAAGATAAGATCCGCCATAACTTGTAGCTTTAATTTGTTCCACTG
* *
37056084 CAACTTCAAGGAGATAAGACTAGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATA
1 CAACTTCAAGGAGATAAGACTAGTGGCTTCAATCTGCTCCACTCCAACTTCAGGAAAATAAGATA
* * *
37056149 CGCCATAACTTGTAGCTTTAATTTGTTCCACTGTAACACTAGGGAAATAAGATTCGCTGTCTTCA
66 CGCCATAACTTGTAGCTTTAATCTATTCCACTGTAACACCAGGGAAATAAGATTCGCTGTCTTCA
* *
37056214 GTCTACTCCGCTACAACTTCAGGGAGATAAGGCTGCTGCCTTCAATCTGCCCCACTCCAACTTCA
131 GTCTACTCCGCTACAACTTCAGGAAGATAAGACTGCTGCCTTCAATCTGCCCCACTCCAACTTCA
37056279 GGAAGATAAGATCCGCCAT
196 GGAAGATAAGATCCGCCAT
37056298 GATGACTTCA
Statistics
Matches: 186, Mismatches: 28, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
241 186 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.29
Consensus pattern (241 bp):
CAACTTCAAGGAGATAAGACTAGTGGCTTCAATCTGCTCCACTCCAACTTCAGGAAAATAAGATA
CGCCATAACTTGTAGCTTTAATCTATTCCACTGTAACACCAGGGAAATAAGATTCGCTGTCTTCA
GTCTACTCCGCTACAACTTCAGGAAGATAAGACTGCTGCCTTCAATCTGCCCCACTCCAACTTCA
GGAAGATAAGATCCGCCATAACTTGTAGCTTTAATTTGTTCCACTG
Found at i:37056199 original size:98 final size:98
Alignment explanation
Indices: 37055974--37056244 Score: 332
Period size: 98 Copynumber: 2.8 Consensus size: 98
37055964 CTTTCTTCAG
* * * * *
37055974 TTTGTTCCGCTGCAACTTC-AGGAAGATAAGACTGGTGGCTTCAATCTGCTCTACTGCAACTTTA
1 TTTGTTCCACTGCAACCTCAAGGAA-ATAAGACTAGTGGCTTCAATCTGCTCCACTGCAACTTCA
37056038 GGAAGATAAGATCTGCCATAACTTGTAGCTTTAA
65 GGAAGATAAGATCTGCCATAACTTGTAGCTTTAA
* *
37056072 TTTGTTCCACTGCAACTTCAAGGAGATAAGACTAGTGGCTTCAATCTGCTCCACTGCAACTTCAG
1 TTTGTTCCACTGCAACCTCAAGGAAATAAGACTAGTGGCTTCAATCTGCTCCACTGCAACTTCAG
37056137 GAAGATAAGATAC-GCCATAACTTGTAGCTTTAA
66 GAAGATAAGAT-CTGCCATAACTTGTAGCTTTAA
* * * * * * * * *
37056170 TTTGTTCCACTGTAACACT-AGGGAAATAAGATTCGCTGTCTTCAGTCTACTCCGCTACAACTTC
1 TTTGTTCCACTGCAAC-CTCAAGGAAATAAGACTAG-TGGCTTCAATCTGCTCCACTGCAACTTC
*
37056234 AGGGAGATAAG
64 AGGAAGATAAG
37056245 GCTGCTGCCT
Statistics
Matches: 152, Mismatches: 17, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
98 113 0.74
99 39 0.26
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.30
Consensus pattern (98 bp):
TTTGTTCCACTGCAACCTCAAGGAAATAAGACTAGTGGCTTCAATCTGCTCCACTGCAACTTCAG
GAAGATAAGATCTGCCATAACTTGTAGCTTTAA
Found at i:37062924 original size:41 final size:41
Alignment explanation
Indices: 37062815--37062926 Score: 152
Period size: 41 Copynumber: 2.7 Consensus size: 41
37062805 ACCGGCTTTT
* * * * *
37062815 AGCCTGCTAGACCTATAGTCTGAAATGTATCACTGGCATTA
1 AGCCTGCTAGACGTAAAGTCTGAATTATATCACTGGCATCA
* *
37062856 AGTCTGCTAGACGTAAAGTCTGAATTATTTCACTGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAATTATATCACTGGCATCA
*
37062897 AGCCTGCTAGACGTAAAGTCTGTATTATAT
1 AGCCTGCTAGACGTAAAGTCTGAATTATAT
37062927 TCGATCACTT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 61 1.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCTGAATTATATCACTGGCATCA
Found at i:37072629 original size:23 final size:24
Alignment explanation
Indices: 37072576--37072639 Score: 62
Period size: 23 Copynumber: 2.7 Consensus size: 24
37072566 ATTTTTTAAA
*
37072576 AATATTTATATTTATATTAATATT
1 AATATTAATATTTATATTAATATT
*
37072600 AAT-TTAATATTTA-A-TAATTTT
1 AATATTAATATTTATATTAATATT
*
37072621 ATATATTAATTTTTTATAT
1 A-ATATTAA-TATTTATAT
37072640 AGCCATTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
21 7 0.22
22 3 0.09
23 13 0.41
24 8 0.25
25 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
AATATTAATATTTATATTAATATT
Found at i:37073070 original size:4 final size:4
Alignment explanation
Indices: 37073061--37073120 Score: 52
Period size: 4 Copynumber: 14.8 Consensus size: 4
37073051 TTCCCTATCT
* **
37073061 TTTC TTTC TTTC TTTC TTTC TTT- TTCC CAT- TTTC TTTC TTTC TTATTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC -T-TTC
37073109 TTTC TTTTC TTT
1 TTTC -TTTC TTT
37073121 TATTTTCTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
3 3 0.07
4 33 0.73
5 6 0.13
6 3 0.07
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.73
Consensus pattern (4 bp):
TTTC
Found at i:37073111 original size:10 final size:9
Alignment explanation
Indices: 37073058--37073130 Score: 55
Period size: 10 Copynumber: 8.1 Consensus size: 9
37073048 ATTTTCCCTA
37073058 TCTTTTCTT
1 TCTTTTCTT
37073067 TC-TTTCTT
1 TCTTTTCTT
37073075 TC-TTTCTT
1 TCTTTTCTT
**
37073083 T-TTCCCATT
1 TCTTTTC-TT
37073092 T-TCTTTCTT
1 TCT-TTTCTT
37073101 TCTTATTCTT
1 TCTT-TTCTT
37073111 TCTTTTCTTT
1 TCTTTTC-TT
*
37073121 TATTTTCTT
1 TCTTTTCTT
37073130 T
1 T
37073131 TCAATCTTGT
Statistics
Matches: 53, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
8 17 0.32
9 16 0.30
10 20 0.38
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.74
Consensus pattern (9 bp):
TCTTTTCTT
Found at i:37073112 original size:18 final size:18
Alignment explanation
Indices: 37073066--37073120 Score: 56
Period size: 22 Copynumber: 2.8 Consensus size: 18
37073056 TATCTTTTCT
*
37073066 TTCTTTCTTTCTTTCTTT
1 TTCTTTCTTTCTTTCTTA
37073084 TTCCCATTTTCTTTCTTTCTTA
1 TT--C--TTTCTTTCTTTCTTA
37073106 TTCTTTCTTTTCTTT
1 TTCTTTC-TTTCTTT
37073121 TATTTTCTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
18 6 0.19
19 7 0.23
20 2 0.06
22 16 0.52
ACGTcount: A:0.04, C:0.24, G:0.00, T:0.73
Consensus pattern (18 bp):
TTCTTTCTTTCTTTCTTA
Found at i:37073119 original size:15 final size:14
Alignment explanation
Indices: 37073058--37073132 Score: 66
Period size: 15 Copynumber: 5.1 Consensus size: 14
37073048 ATTTTCCCTA
37073058 TCTTTTCTTTC-TT
1 TCTTTTCTTTCTTT
37073071 TC-TTTCTTTCTTTT
1 TCTTTTCTTTC-TTT
37073085 TCCCATTTTCTTTC-TT
1 T--C-TTTTCTTTCTTT
37073101 TCTTATTCTTTCTTT
1 TCTT-TTCTTTCTTT
*
37073116 TCTTTTATTTTCTTT
1 TCTTTT-CTTTCTTT
37073131 TC
1 TC
37073133 AATCTTGTCG
Statistics
Matches: 52, Mismatches: 1, Indels: 16
0.75 0.01 0.23
Matches are distributed among these distances:
12 8 0.15
13 4 0.08
14 13 0.25
15 15 0.29
16 4 0.08
18 8 0.15
ACGTcount: A:0.04, C:0.23, G:0.00, T:0.73
Consensus pattern (14 bp):
TCTTTTCTTTCTTT
Found at i:37073616 original size:13 final size:14
Alignment explanation
Indices: 37073599--37073642 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
37073589 TATTTCAGTT
37073599 TAATTTTAATAATA
1 TAATTTTAATAATA
*
37073613 -AATTTTAAAAATAA
1 TAATTTTAATAAT-A
37073627 TAATTTTAAATAATA
1 TAATTTT-AATAATA
37073642 T
1 T
37073643 TCTTCATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
13 11 0.44
14 1 0.04
15 8 0.32
16 5 0.20
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TAATTTTAATAATA
Found at i:37073627 original size:16 final size:16
Alignment explanation
Indices: 37073605--37073641 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
37073595 AGTTTAATTT
37073605 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
37073622 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
37073637 TAATA
1 TAATA
37073642 TTCTTCATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:37073685 original size:14 final size:15
Alignment explanation
Indices: 37073661--37073730 Score: 56
Period size: 15 Copynumber: 4.6 Consensus size: 15
37073651 TATTATTGAA
37073661 AAATA-TTTAAT-AT
1 AAATATTTTAATAAT
*
37073674 TAATATTTTAATAAT
1 AAATATTTTAATAAT
37073689 AAATATTTATTACA-ATAT
1 AAATA-TT-TTA-ATA-AT
*
37073707 AAATATATTAATAAT
1 AAATATTTTAATAAT
*
37073722 AAATGTTTT
1 AAATATTTT
37073731 GTAGTATAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
13 4 0.09
14 6 0.13
15 16 0.36
16 6 0.13
17 5 0.11
18 8 0.18
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (15 bp):
AAATATTTTAATAAT
Found at i:37078611 original size:43 final size:43
Alignment explanation
Indices: 37078533--37078665 Score: 151
Period size: 43 Copynumber: 3.1 Consensus size: 43
37078523 AGCATGTTAT
* * * * *
37078533 GGCGTTTGTAGCTAGAAGCGTCGCAAAAGATCATGTTCTTTAGC
1 GGCGTTTGTAG-TAAAAGCGCCACTAAAGAACATGTTCTTTAGC
37078577 GGCGTTTGTAGTAAAAGCGCCACTAAAGAACATGTTCTTTAGC
1 GGCGTTTGTAGTAAAAGCGCCACTAAAGAACATGTTCTTTAGC
** ** * *
37078620 GGCGTTT-TTTTCTAAGCGCCTCTAAAGAACATGTTCTTTAGT
1 GGCGTTTGTAGTAAAAGCGCCACTAAAGAACATGTTCTTTAGC
37078662 GGCG
1 GGCG
37078666 CTTTTTCTTT
Statistics
Matches: 78, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
42 33 0.42
43 34 0.44
44 11 0.14
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (43 bp):
GGCGTTTGTAGTAAAAGCGCCACTAAAGAACATGTTCTTTAGC
Found at i:37078688 original size:43 final size:42
Alignment explanation
Indices: 37078558--37078690 Score: 151
Period size: 43 Copynumber: 3.1 Consensus size: 42
37078548 AAGCGTCGCA
* ** **
37078558 AAAGATCATGTTCTTTAGCGGCGTTTGTAGTAAAAGCGCCACT
1 AAAGAACATGTTCTTTAGCGGCGTTT-TTTTCTAAGCGCCACT
*
37078601 AAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAGCGCCTCT
1 AAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAGCGCCACT
* * *
37078643 AAAGAACATGTTCTTTAGTGGCGCTTTTTCTT-TGAGCGCCGCT
1 AAAGAACATGTTCTTTAGCGGCG-TTTTT-TTCTAAGCGCCACT
37078686 AAAGA
1 AAAGA
37078691 TTATATTAAA
Statistics
Matches: 79, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
42 33 0.42
43 44 0.56
44 2 0.03
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.34
Consensus pattern (42 bp):
AAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAGCGCCACT
Found at i:37082442 original size:28 final size:28
Alignment explanation
Indices: 37082402--37082457 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
37082392 ATGTGATAGT
37082402 CATGTGATTTTAGCGAATATAATCTTCA
1 CATGTGATTTTAGCGAATATAATCTTCA
37082430 CATGTGATTTTAGCGAATATAATCTTCA
1 CATGTGATTTTAGCGAATATAATCTTCA
37082458 ATCTTTAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (28 bp):
CATGTGATTTTAGCGAATATAATCTTCA
Found at i:37084580 original size:9 final size:9
Alignment explanation
Indices: 37084554--37084833 Score: 308
Period size: 9 Copynumber: 30.8 Consensus size: 9
37084544 ATTTGCACGG
37084554 GTAAGTTAT
1 GTAAGTTAT
* *
37084563 TTAATTTAT
1 GTAAGTTAT
37084572 GTAAGTTAT
1 GTAAGTTAT
37084581 GTAAGTTAT
1 GTAAGTTAT
37084590 GTAAGTTAT
1 GTAAGTTAT
* *
37084599 TTAATTTAT
1 GTAAGTTAT
*
37084608 GTAGGTTAT
1 GTAAGTTAT
* *
37084617 GTAAGTCCAC
1 GTAAGT-TAT
* *
37084627 GGAATTTAT
1 GTAAGTTAT
37084636 GTAAGTTAT
1 GTAAGTTAT
37084645 GTAAGTTAT
1 GTAAGTTAT
*
37084654 CTAAGTTAT
1 GTAAGTTAT
* *
37084663 TTAATTTAT
1 GTAAGTTAT
37084672 GTAAGTTAT
1 GTAAGTTAT
37084681 GTAAGTTAT
1 GTAAGTTAT
* *
37084690 TTAATTTAT
1 GTAAGTTAT
*
37084699 GTAGGTTAT
1 GTAAGTTAT
37084708 GTAAGTTAT
1 GTAAGTTAT
* *
37084717 TTAATTTAT
1 GTAAGTTAT
*
37084726 GCAAGTTTAT
1 GTAAG-TTAT
37084736 GTAAGTTAT
1 GTAAGTTAT
37084745 GTAAGTTAT
1 GTAAGTTAT
* *
37084754 TTAATTTAT
1 GTAAGTTAT
*
37084763 GCAAGTTTAT
1 GTAAG-TTAT
37084773 GTAAGTTAT
1 GTAAGTTAT
37084782 GTAAGTTAT
1 GTAAGTTAT
* *
37084791 TTAATTTAT
1 GTAAGTTAT
37084800 GTAAGTTAT
1 GTAAGTTAT
37084809 GTAAGTTAT
1 GTAAGTTAT
* *
37084818 TTAATTTAT
1 GTAAGTTAT
37084827 GTAAGTT
1 GTAAGTT
37084834 TCTATATATG
Statistics
Matches: 219, Mismatches: 49, Indels: 6
0.80 0.18 0.02
Matches are distributed among these distances:
9 198 0.90
10 21 0.10
ACGTcount: A:0.32, C:0.02, G:0.17, T:0.49
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:37084875 original size:8 final size:8
Alignment explanation
Indices: 37084862--37084905 Score: 52
Period size: 8 Copynumber: 5.0 Consensus size: 8
37084852 TTGTATGTTA
37084862 GTTATTAT
1 GTTATTAT
37084870 GTTATTAT
1 GTTATTAT
37084878 GTTATTATAT
1 GTTA-T-TAT
37084888 AAGTTATTAT
1 --GTTATTAT
37084898 GTTATTAT
1 GTTATTAT
37084906 ATAAAGTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
8 20 0.62
9 1 0.03
10 6 0.19
11 1 0.03
12 4 0.12
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (8 bp):
GTTATTAT
Found at i:37084880 original size:20 final size:20
Alignment explanation
Indices: 37084855--37084937 Score: 91
Period size: 20 Copynumber: 4.2 Consensus size: 20
37084845 TTATATATTG
*
37084855 TATGTTAGTTAT-TATGTTAT
1 TATGTTA-TTATATAAGTTAT
37084875 TATGTTATTATATAAGTTAT
1 TATGTTATTATATAAGTTAT
37084895 TATGTTATTATATAAAG-TAT
1 TATGTTATTATAT-AAGTTAT
* *
37084915 TATGTAATT-TATTATGTTAT
1 TATGTTATTATA-TAAGTTAT
37084935 TAT
1 TAT
37084938 ATGTAAGTTA
Statistics
Matches: 56, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
19 8 0.14
20 45 0.80
21 3 0.05
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.57
Consensus pattern (20 bp):
TATGTTATTATATAAGTTAT
Found at i:37084951 original size:9 final size:9
Alignment explanation
Indices: 37084937--37084999 Score: 63
Period size: 9 Copynumber: 6.7 Consensus size: 9
37084927 TATGTTATTA
37084937 TATGTAAGT
1 TATGTAAGT
37084946 TATGTAAGT
1 TATGTAAGT
* *
37084955 TATTTAATT
1 TATGTAAGT
37084964 TATGTAAGT
1 TATGTAAGT
*
37084973 TATGCAAGCT
1 TATGTAAG-T
*
37084983 TATATACAAGT
1 TATGT--AAGT
37084994 TATGTA
1 TATGTA
37085000 TTATAACATA
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
9 31 0.72
10 4 0.09
11 5 0.12
12 3 0.07
ACGTcount: A:0.35, C:0.05, G:0.16, T:0.44
Consensus pattern (9 bp):
TATGTAAGT
Found at i:37084976 original size:27 final size:27
Alignment explanation
Indices: 37084554--37084985 Score: 286
Period size: 27 Copynumber: 15.7 Consensus size: 27
37084544 ATTTGCACGG
* * * *
37084554 GTAAGTTATTTAATTTATGTAAGTTAT
1 GTAAGTTATGTAAGTTATTTAATTTAT
37084581 GTAAGTTATGTAAGTTATTTAATTTAT
1 GTAAGTTATGTAAGTTATTTAATTTAT
* * ***
37084608 GTAGGTTATGTAAGTCCACGGAATTTAT
1 GTAAGTTATGTAAGT-TATTTAATTTAT
* *
37084636 GTAAGTTATGTAAGTTATCTAAGTTAT
1 GTAAGTTATGTAAGTTATTTAATTTAT
* * * *
37084663 TTAATTTATGTAAGTTATGTAAGTTAT
1 GTAAGTTATGTAAGTTATTTAATTTAT
* * * * *
37084690 TTAATTTATGTAGGTTATGTAAGTTAT
1 GTAAGTTATGTAAGTTATTTAATTTAT
* * * * *
37084717 TTAATTTATGCAAGTTTATGTAAGTTAT
1 GTAAGTTATGTAAG-TTATTTAATTTAT
* * **
37084745 GTAAGTTATTTAATTTATGCAAGTTTAT
1 GTAAGTTATGTAAGTTATTTAA-TTTAT
37084773 GTAAGTTATGTAAGTTATTTAATTTAT
1 GTAAGTTATGTAAGTTATTTAATTTAT
37084800 GTAAGTTATGTAAGTTATTTAATTTAT
1 GTAAGTTATGTAAGTTATTTAATTTAT
* * *
37084827 GTAAGTTTCTATATATGTT-TATATATTGTAT
1 GTAAG--T-TATGTAAGTTATTTA-ATT-TAT
* * **
37084858 GTTAGTTAT-TATGTTATTATGTTATTAT
1 GTAAGTTATGTAAGTTATT-TAAT-TTAT
* *
37084886 ATAAGTTAT-TATGTTATTATATAAAGTATTAT
1 GTAAGTTATGTAAGTTA-T-T-T-AA-T-TTAT
* *
37084918 GTAATTTAT-TATGTTA-TT-A--TAT
1 GTAAGTTATGTAAGTTATTTAATTTAT
37084940 GTAAGTTATGTAAGTTATTTAATTTAT
1 GTAAGTTATGTAAGTTATTTAATTTAT
*
37084967 GTAAGTTATGCAAGCTTAT
1 GTAAGTTATGTAAG-TTAT
37084986 ATACAAGTTA
Statistics
Matches: 336, Mismatches: 48, Indels: 41
0.79 0.11 0.10
Matches are distributed among these distances:
22 11 0.03
23 6 0.02
24 2 0.01
25 1 0.00
26 1 0.00
27 172 0.51
28 93 0.28
29 9 0.03
30 14 0.04
31 7 0.02
32 20 0.06
ACGTcount: A:0.32, C:0.02, G:0.15, T:0.50
Consensus pattern (27 bp):
GTAAGTTATGTAAGTTATTTAATTTAT
Found at i:37085030 original size:113 final size:107
Alignment explanation
Indices: 37084912--37085111 Score: 301
Period size: 107 Copynumber: 1.8 Consensus size: 107
37084902 TTATATAAAG
*
37084912 TATTATGTAATTTATTATGTTATTATATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATG
1 TATTATGTAATTTATTATGTTATTATATATAAGTTATGTAA---A-TT-A-TTATGTAAGTTATG
* *
37084977 CAAGCTTATATACAAGTTATGTATTATAACATAAAGTATTATGTAATT
60 CAAGCTTAAATACAACTTATGTATTATAACATAAAGTATTATGTAATT
*
37085025 TATTATGTTATTTATTATGTTATTATATATAAGTTATGTAAATTATTATGTAAGTTATGCAAGCT
1 TATTATGTAATTTATTATGTTATTATATATAAGTTATGTAAATTATTATGTAAGTTATGCAAGCT
*
37085090 TAAATATAACTTATGTATTATA
66 TAAATACAACTTATGTATTATA
37085112 TAAGTTTTGT
Statistics
Matches: 82, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
107 39 0.48
108 1 0.01
109 2 0.02
110 1 0.01
113 39 0.48
ACGTcount: A:0.36, C:0.04, G:0.12, T:0.48
Consensus pattern (107 bp):
TATTATGTAATTTATTATGTTATTATATATAAGTTATGTAAATTATTATGTAAGTTATGCAAGCT
TAAATACAACTTATGTATTATAACATAAAGTATTATGTAATT
Found at i:37085045 original size:12 final size:12
Alignment explanation
Indices: 37085013--37085048 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
37085003 TAACATAAAG
*
37085013 TATTATGTAATT
1 TATTATGTTATT
37085025 TATTATGTTATT
1 TATTATGTTATT
37085037 TATTATGTTATT
1 TATTATGTTATT
37085049 ATATATAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (12 bp):
TATTATGTTATT
Found at i:37085251 original size:16 final size:16
Alignment explanation
Indices: 37085228--37085265 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
37085218 GAAAACGAAG
*
37085228 TAAA-TTTAAAACTAA
1 TAAATTTTAAAACAAA
*
37085243 TAAATTTTAATACAAA
1 TAAATTTTAAAACAAA
37085259 TAAATTT
1 TAAATTT
37085266 AGAAAACTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (16 bp):
TAAATTTTAAAACAAA
Found at i:37085280 original size:13 final size:13
Alignment explanation
Indices: 37085262--37085289 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
37085252 ATACAAATAA
37085262 ATTTAGAAAACTT
1 ATTTAGAAAACTT
37085275 ATTTAGAAAACTT
1 ATTTAGAAAACTT
37085288 AT
1 AT
37085290 AAATTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.39
Consensus pattern (13 bp):
ATTTAGAAAACTT
Found at i:37085297 original size:17 final size:17
Alignment explanation
Indices: 37085258--37085307 Score: 72
Period size: 17 Copynumber: 3.2 Consensus size: 17
37085248 TTTAATACAA
37085258 ATAAATTTAGAAAAC-T
1 ATAAATTTAGAAAACTT
37085274 -T--ATTTAGAAAACTT
1 ATAAATTTAGAAAACTT
37085288 ATAAATTTAGAAAACTT
1 ATAAATTTAGAAAACTT
37085305 ATA
1 ATA
37085308 TAGATATTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
13 11 0.37
14 1 0.03
15 2 0.07
17 16 0.53
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.36
Consensus pattern (17 bp):
ATAAATTTAGAAAACTT
Found at i:37085328 original size:62 final size:60
Alignment explanation
Indices: 37085199--37085354 Score: 151
Period size: 62 Copynumber: 2.6 Consensus size: 60
37085189 ATTTCTCCCA
* ** * *
37085199 AATTTAGAACACTTATTTAGAAAACGAAGTAAATTTAAAACTAATAAATTTTAATACAAAT
1 AATTTAGAAAACTTATTTAGAAAACTTA-TAAATTTAAAACTAATAAATATTAAAACAAAT
*
37085260 AAATTTAGAAAACTTATTTAGAAAACTTATAAATTTAGAAAACTTATATAGATATTAAAAC-AAT
1 -AATTTAGAAAACTTATTTAGAAAACTTATAAATTT--AAAAC-TA-ATAAATATTAAAACAAAT
* *
37085324 -ATTT--ACAA-TTATTTAGAAAACTTACAAATTT
1 AATTTAGAAAACTTATTTAGAAAACTTATAAATTT
37085355 TATAGTAATA
Statistics
Matches: 82, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
59 22 0.27
60 3 0.04
61 7 0.09
62 29 0.35
63 5 0.06
64 5 0.06
65 11 0.13
ACGTcount: A:0.51, C:0.08, G:0.06, T:0.35
Consensus pattern (60 bp):
AATTTAGAAAACTTATTTAGAAAACTTATAAATTTAAAACTAATAAATATTAAAACAAAT
Found at i:37086346 original size:27 final size:29
Alignment explanation
Indices: 37086292--37086346 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 29
37086282 TAATTATCAC
*
37086292 AACAATAAACTTAATAATAATTGATAAAGT
1 AACAATAAACTTAATAATAAAT-ATAAAGT
*
37086322 AACAATCAACTTAAT-ATAAAT-TAAA
1 AACAATAAACTTAATAATAAATATAAA
37086347 TCAGAAACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 4 0.17
29 5 0.22
30 14 0.61
ACGTcount: A:0.58, C:0.09, G:0.04, T:0.29
Consensus pattern (29 bp):
AACAATAAACTTAATAATAAATATAAAGT
Found at i:37088773 original size:36 final size:35
Alignment explanation
Indices: 37088733--37088800 Score: 91
Period size: 36 Copynumber: 1.9 Consensus size: 35
37088723 ACATTAACTA
* *
37088733 TAAACCCCTAAACCCATAACCCCCAACCTTTAACCC
1 TAAACCCATAAACCCATAA-CCCCAACCCTTAACCC
* *
37088769 TAAACCCATGAACCCTTAACCCCAACCCTTAA
1 TAAACCCATAAACCCATAACCCCAACCCTTAA
37088801 ACCATAATCC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 12 0.43
36 16 0.57
ACGTcount: A:0.37, C:0.44, G:0.01, T:0.18
Consensus pattern (35 bp):
TAAACCCATAAACCCATAACCCCAACCCTTAACCC
Found at i:37088774 original size:14 final size:14
Alignment explanation
Indices: 37088738--37088807 Score: 54
Period size: 14 Copynumber: 5.0 Consensus size: 14
37088728 AACTATAAAC
37088738 CCCTAAACCCATAA
1 CCCTAAACCCATAA
** **
37088752 CCCCCAACCTTTAA
1 CCCTAAACCCATAA
37088766 CCCTAAACCCATGAA
1 CCCTAAACCCAT-AA
* *
37088781 CCCTTAACCC-CAA
1 CCCTAAACCCATAA
37088794 CCCTTAAA-CCATAA
1 CCC-TAAACCCATAA
37088808 TCCATAAGCC
Statistics
Matches: 41, Mismatches: 12, Indels: 6
0.69 0.20 0.10
Matches are distributed among these distances:
13 7 0.17
14 23 0.56
15 11 0.27
ACGTcount: A:0.37, C:0.44, G:0.01, T:0.17
Consensus pattern (14 bp):
CCCTAAACCCATAA
Found at i:37088795 original size:28 final size:28
Alignment explanation
Indices: 37088738--37088807 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 28
37088728 AACTATAAAC
**
37088738 CCCTAAACCCATAACCCCCAACCTTTAA
1 CCCTAAACCCATAACCCCCAACCTCCAA
**
37088766 CCCTAAACCCATGAACCCTTAACC-CCAA
1 CCCTAAACCCAT-AACCCCCAACCTCCAA
37088794 CCCTTAAA-CCATAA
1 CCC-TAAACCCATAA
37088808 TCCATAAGCC
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
27 2 0.06
28 21 0.58
29 13 0.36
ACGTcount: A:0.37, C:0.44, G:0.01, T:0.17
Consensus pattern (28 bp):
CCCTAAACCCATAACCCCCAACCTCCAA
Found at i:37088988 original size:15 final size:15
Alignment explanation
Indices: 37088968--37089030 Score: 69
Period size: 15 Copynumber: 4.4 Consensus size: 15
37088958 ATTAACTATA
*
37088968 AACCCCTAAACCCCT
1 AACCCCTAAACCCTT
* *
37088983 AACCCC--AGCCTTT
1 AACCCCTAAACCCTT
*
37088996 AA-CCCTTAACCCTT
1 AACCCCTAAACCCTT
37089010 AACCCCTAAACCCTT
1 AACCCCTAAACCCTT
37089025 AACCCC
1 AACCCC
37089031 AATCCTTAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
12 3 0.08
13 6 0.15
14 7 0.18
15 23 0.59
ACGTcount: A:0.30, C:0.49, G:0.02, T:0.19
Consensus pattern (15 bp):
AACCCCTAAACCCTT
Found at i:37089002 original size:8 final size:7
Alignment explanation
Indices: 37088994--37089029 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
37088984 ACCCCAGCCT
37088994 TTAACCC
1 TTAACCC
37089001 TTAACCC
1 TTAACCC
37089008 TTAACCCC
1 TTAA-CCC
*
37089016 TAAACCC
1 TTAACCC
37089023 TTAACCC
1 TTAACCC
37089030 CAATCCTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 20 0.77
8 6 0.23
ACGTcount: A:0.31, C:0.44, G:0.00, T:0.25
Consensus pattern (7 bp):
TTAACCC
Found at i:37089056 original size:42 final size:42
Alignment explanation
Indices: 37088960--37089060 Score: 114
Period size: 42 Copynumber: 2.4 Consensus size: 42
37088950 CATAAAACAT
* * *
37088960 TAACTATAAACCCCTAAACCCCTAACCCCAGCCTTTAACCCT
1 TAACCATAAACCCCTAAACCCCTAACCCCAGCCTTTAAACCA
* * * *
37089002 TAACCCTTAACCCCTAAACCCTTAACCCCAATCC-TTAAACCA
1 TAACCATAAACCCCTAAACCCCTAACCCC-AGCCTTTAAACCA
*
37089044 TATCCATAAACCCCTAA
1 TAACCATAAACCCCTAA
37089061 CCCATATCCA
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
42 45 0.94
43 3 0.06
ACGTcount: A:0.36, C:0.42, G:0.01, T:0.22
Consensus pattern (42 bp):
TAACCATAAACCCCTAAACCCCTAACCCCAGCCTTTAAACCA
Found at i:37089114 original size:233 final size:232
Alignment explanation
Indices: 37088694--37089114 Score: 591
Period size: 233 Copynumber: 1.8 Consensus size: 232
37088684 ACCCTTAACC
* *
37088694 CATATCCCCTGAGCATATTGAATCATAAAACATTAACTATAAACCCCTAAACCCATAACCCCCAA
1 CATATCCCCTAAACATATTGAATCATAAAACATTAACTATAAACCCCTAAACCCATAACCCCCAA
* * * *
37088759 CCTTTAACCCTAAACCCATGAACCCTTAACCCCAACCCTTAAACCATAATCCATAAGCCTCTAAC
66 CCCTTAACCCTAAACCCATAAACCCTTAACCCCAACCCTTAAACCATAATCCATAAACCCCTAAC
* * * *
37088824 CCATATCCCTTAAACCTTGAATCGTAGAACATAAATATATAAACTATAAACCCCTAAATCCAAAA
131 CCATATCCATTAAACCGTAAATC-TAGAACAGAAATATATAAACTATAAACCCCTAAATCCAAAA
37088889 CTTATAAATCATAAACCCCTAACTCGTAACCTTTAATT
195 CTTATAAATCATAAACCCCTAACTCGTAACCTTTAATT
*
37088927 CATATCCCCTAAACATATTGAATCATAAAACATTAACTATAAACCCCTAAACCCCTAACCCCAGC
1 CATATCCCCTAAACATATTGAATCATAAAACATTAACTATAAACCCCTAAACCCATAA-CCC--C
* * *
37088992 CTTTAACCCTTAACCCTTAACCCCTAAACCCTTAACCCCAATCCTTAAACCAT-ATCCATAAACC
63 C---AACCCTTAACCCTAAACCCATAAACCCTTAACCCCAACCCTTAAACCATAATCCATAAACC
* * *
37089056 CCTAACCCATATCCATTAAACCGTAAAT-TA-AA-GGACATATATAAATTATAAA-CCCTAAA
125 CCTAACCCATATCCATTAAACCGTAAATCTAGAACAGAAATATATAAACTATAAACCCCTAAA
37089115 CCCTAAACCC
Statistics
Matches: 165, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
233 62 0.38
234 19 0.12
235 2 0.01
236 4 0.02
238 34 0.21
239 44 0.27
ACGTcount: A:0.41, C:0.32, G:0.03, T:0.24
Consensus pattern (232 bp):
CATATCCCCTAAACATATTGAATCATAAAACATTAACTATAAACCCCTAAACCCATAACCCCCAA
CCCTTAACCCTAAACCCATAAACCCTTAACCCCAACCCTTAAACCATAATCCATAAACCCCTAAC
CCATATCCATTAAACCGTAAATCTAGAACAGAAATATATAAACTATAAACCCCTAAATCCAAAAC
TTATAAATCATAAACCCCTAACTCGTAACCTTTAATT
Found at i:37089864 original size:114 final size:113
Alignment explanation
Indices: 37089721--37090023 Score: 313
Period size: 114 Copynumber: 2.6 Consensus size: 113
37089711 ATTTTTAGAC
* * *
37089721 AAGCGCCACTAAAGTCTCTAAAACCTAAATTGAAAACGACATCGTTTTCTTAACAGTTTTGCGGC
1 AAGCGCCACTAAAGTCTCCAAAACCTAAA-TGAAAACGGCAACGTTTTCTTAACAGTTTTGCGGC
* **
37089786 ACTTCTGATAAAGCGCCACTAAAGCTTCGCTACTA-CGGCGTTTTTCGA-A
65 ACTTATGATAAAGCGCCACTAAAGCTTAACTA-TAGCGGCGTTTTTC-ATA
* * * ** * * * *
37089835 AATCGCCACTAATGTCTCGAAAAGATAAATGAAAAAGGGCAACGTTTTCTTAATAGTCTTGCAGC
1 AAGCGCCACTAAAGTCTCCAAAACCTAAATG-AAAACGGCAACGTTTTCTTAACAGTTTTGCGGC
* * ** *
37089900 GCTTATGATAAAGCGCCGCTAATTCTTAACTATAGCGGCGTTTTTCATT
65 ACTTATGATAAAGCGCCACTAAAGCTTAACTATAGCGGCGTTTTTCATA
* * *
37089949 AAGCGCCACTAAAGTCCCCAAAACCTAAACTGAAAACGGTAGCGTTTTTCTTAACAGTTTTTGCG
1 AAGCGCCACTAAAGTCTCCAAAACCTAAA-TGAAAACGGCAACG-TTTTCTTAACAG-TTTTGCG
*
37090014 GCATTTATGA
63 GCACTTATGA
37090024 CCAAACACTG
Statistics
Matches: 150, Mismatches: 33, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
113 5 0.03
114 119 0.79
115 13 0.09
116 13 0.09
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.29
Consensus pattern (113 bp):
AAGCGCCACTAAAGTCTCCAAAACCTAAATGAAAACGGCAACGTTTTCTTAACAGTTTTGCGGCA
CTTATGATAAAGCGCCACTAAAGCTTAACTATAGCGGCGTTTTTCATA
Found at i:37090609 original size:21 final size:21
Alignment explanation
Indices: 37090585--37090632 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
37090575 ATTTTCTTGT
*
37090585 TGCCTCTGCTGCCCTTGCTGC
1 TGCCTCTGCTGCCCTCGCTGC
* *
37090606 TGCCTCTGCTTCCCTCGCTGT
1 TGCCTCTGCTGCCCTCGCTGC
37090627 TGCCTC
1 TGCCTC
37090633 CCCTTTAAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.00, C:0.44, G:0.21, T:0.35
Consensus pattern (21 bp):
TGCCTCTGCTGCCCTCGCTGC
Found at i:37096178 original size:26 final size:26
Alignment explanation
Indices: 37096149--37096206 Score: 84
Period size: 25 Copynumber: 2.3 Consensus size: 26
37096139 ACAGACGGAT
37096149 GGGAAAAAAACTAAGTTAGGG-ATTTA
1 GGGAAAAAAACTAAGTT-GGGTATTTA
*
37096175 GGG-AAAAAACTAAGTTGGGTATTTG
1 GGGAAAAAAACTAAGTTGGGTATTTA
37096200 GGGAAAA
1 GGGAAAA
37096207 CGATTTAGGG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 3 0.10
25 20 0.69
26 6 0.21
ACGTcount: A:0.43, C:0.03, G:0.31, T:0.22
Consensus pattern (26 bp):
GGGAAAAAAACTAAGTTGGGTATTTA
Found at i:37098242 original size:17 final size:17
Alignment explanation
Indices: 37098220--37098252 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
37098210 TGCCATGGAG
37098220 TCTTTCATCCATGGTCT
1 TCTTTCATCCATGGTCT
37098237 TCTTTCATCCATGGTC
1 TCTTTCATCCATGGTC
37098253 GTACACATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.30, G:0.12, T:0.45
Consensus pattern (17 bp):
TCTTTCATCCATGGTCT
Found at i:37104159 original size:3 final size:3
Alignment explanation
Indices: 37104151--37104210 Score: 54
Period size: 3 Copynumber: 20.7 Consensus size: 3
37104141 ATAATCAAAT
* * *
37104151 ATA ATA ATA ACA ATA ATAA ATA GTA A-A ATA ATA AT- ATC A-A ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
37104194 ATA ATA ATA AAA ATA AT
1 ATA ATA ATA ATA ATA AT
37104211 TAAGTGATTA
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
2 5 0.11
3 38 0.83
4 3 0.07
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:37105251 original size:17 final size:17
Alignment explanation
Indices: 37105231--37105284 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
37105221 TTGATTAGGC
37105231 TTTGGGCTAGGCTAGTG
1 TTTGGGCTAGGCTAGTG
* **
37105248 TTTGGG-TTGTTTAG-G
1 TTTGGGCTAGGCTAGTG
37105263 TATTGGGCTAGGCTAGTG
1 T-TTGGGCTAGGCTAGTG
37105281 TTTG
1 TTTG
37105285 ATTCGGGTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
15 2 0.07
16 10 0.36
17 14 0.50
18 2 0.07
ACGTcount: A:0.11, C:0.07, G:0.39, T:0.43
Consensus pattern (17 bp):
TTTGGGCTAGGCTAGTG
Found at i:37105269 original size:33 final size:34
Alignment explanation
Indices: 37105208--37105284 Score: 108
Period size: 33 Copynumber: 2.4 Consensus size: 34
37105198 TAATGTTTTG
37105208 GGCTAG-G-TTGGGTTTGATTAGGCTTTGGGCTA
1 GGCTAGTGTTTGGGTTTGATTAGGCTTTGGGCTA
*
37105240 GGCTAGTGTTTGGG-TTGTTTAGG-TATTGGGCTA
1 GGCTAGTGTTTGGGTTTGATTAGGCT-TTGGGCTA
37105273 GGCTAGTGTTTG
1 GGCTAGTGTTTG
37105285 ATTCGGGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
32 7 0.17
33 29 0.71
34 5 0.12
ACGTcount: A:0.12, C:0.08, G:0.40, T:0.40
Consensus pattern (34 bp):
GGCTAGTGTTTGGGTTTGATTAGGCTTTGGGCTA
Found at i:37105835 original size:44 final size:43
Alignment explanation
Indices: 37105793--37106072 Score: 377
Period size: 44 Copynumber: 6.4 Consensus size: 43
37105783 CTGCTCCACT
*
37105793 ACTGCT-T-AGGGAGACAGGA-TCTACAATCTTCAACCTATTCC
1 ACTGCTGTCAGGGAGATAGGACT-TACAATCTTCAACCTATTCC
* *
37105834 ACTGCTGTTCAGGGAGATAGGACATACAATCTTCCACCTATTCC
1 ACTGCTG-TCAGGGAGATAGGACTTACAATCTTCAACCTATTCC
* *
37105878 ACTGTTGTTCAGGGAGATAGGACTTACAATCTTCCACCTATTCC
1 ACTGCTG-TCAGGGAGATAGGACTTACAATCTTCAACCTATTCC
*
37105922 ACTGCTAGTCAGGGAGATAGGACTTGCAATCTTCAACCTATTCC
1 ACTGCT-GTCAGGGAGATAGGACTTACAATCTTCAACCTATTCC
* * *
37105966 ACTGCTGGTCAGGGAGATAGGACTTGCAATCCTCAACATATTCC
1 ACTGCT-GTCAGGGAGATAGGACTTACAATCTTCAACCTATTCC
* *
37106010 ACTGCTGGTCAGGGAGATAGGACTTGCAATCTTCAACCTATTGC
1 ACTGCT-GTCAGGGAGATAGGACTTACAATCTTCAACCTATTCC
37106054 ACTGCTGGTCAGGGAGATA
1 ACTGCT-GTCAGGGAGATA
37106073 AGGCTTTGTG
Statistics
Matches: 220, Mismatches: 14, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
41 6 0.03
43 1 0.00
44 212 0.96
45 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (43 bp):
ACTGCTGTCAGGGAGATAGGACTTACAATCTTCAACCTATTCC
Found at i:37107364 original size:8 final size:7
Alignment explanation
Indices: 37107345--37107381 Score: 65
Period size: 7 Copynumber: 5.1 Consensus size: 7
37107335 TAGCCTCTCA
37107345 ATTTTTC
1 ATTTTTC
37107352 ATTTTTC
1 ATTTTTC
37107359 ATTTTTC
1 ATTTTTC
37107366 ATTTTTTC
1 A-TTTTTC
37107374 ATTTTTC
1 ATTTTTC
37107381 A
1 A
37107382 CATTTTTCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 22 0.76
8 7 0.24
ACGTcount: A:0.16, C:0.14, G:0.00, T:0.70
Consensus pattern (7 bp):
ATTTTTC
Found at i:37107387 original size:15 final size:14
Alignment explanation
Indices: 37107345--37107381 Score: 65
Period size: 15 Copynumber: 2.6 Consensus size: 14
37107335 TAGCCTCTCA
37107345 ATTTTTCATTTTTC
1 ATTTTTCATTTTTC
37107359 ATTTTTCATTTTTTC
1 ATTTTTCA-TTTTTC
37107374 ATTTTTCA
1 ATTTTTCA
37107382 CATTTTTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 8 0.36
15 14 0.64
ACGTcount: A:0.16, C:0.14, G:0.00, T:0.70
Consensus pattern (14 bp):
ATTTTTCATTTTTC
Found at i:37113035 original size:3 final size:3
Alignment explanation
Indices: 37113027--37113089 Score: 51
Period size: 3 Copynumber: 21.7 Consensus size: 3
37113017 ATAATCAAAT
** * *
37113027 ATA ATA ATA GCA ATA ATAA ATA GTA A-A ATA ATA ATA AT- ATC A-A
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
37113070 ATA ATA ATA ATA AAA ATA AT
1 ATA ATA ATA ATA ATA ATA AT
37113090 TAAGTGATTA
Statistics
Matches: 47, Mismatches: 9, Indels: 8
0.73 0.14 0.12
Matches are distributed among these distances:
2 5 0.11
3 39 0.83
4 3 0.06
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:37113041 original size:24 final size:24
Alignment explanation
Indices: 37113014--37113087 Score: 59
Period size: 22 Copynumber: 3.2 Consensus size: 24
37113004 TATATAGGTA
*
37113014 AATATAATCAAATATAATAATAGC
1 AATATAATCAAATATAATAATAAC
*
37113038 -A-ATAAT-AAATAGTAA-AATAAT
1 AATATAATCAAATA-TAATAATAAC
*
37113059 AATA-ATATCAAATAATAATAATAAA
1 AATATA-ATCAAAT-ATAATAATAAC
37113084 AATA
1 AATA
37113088 ATTAAGTGAT
Statistics
Matches: 40, Mismatches: 3, Indels: 13
0.71 0.05 0.23
Matches are distributed among these distances:
21 9 0.22
22 10 0.25
23 4 0.10
24 7 0.17
25 10 0.25
ACGTcount: A:0.65, C:0.04, G:0.03, T:0.28
Consensus pattern (24 bp):
AATATAATCAAATATAATAATAAC
Found at i:37113056 original size:21 final size:21
Alignment explanation
Indices: 37113017--37113089 Score: 58
Period size: 21 Copynumber: 3.2 Consensus size: 21
37113007 ATAGGTAAAT
*
37113017 ATAATCAAATATAATAATAGCA
1 ATAAT-AAATATAATAATAACA
*
37113039 ATAATAAATAGTAA-AATAATA
1 ATAATAAATA-TAATAATAACA
*
37113060 ATAATATCAAATAATAATAATAAAA
1 AT-A-AT-AAAT-ATAATAATAACA
37113085 ATAAT
1 ATAAT
37113090 TAAGTGATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
21 12 0.29
22 9 0.21
23 4 0.10
24 8 0.19
25 9 0.21
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.29
Consensus pattern (21 bp):
ATAATAAATATAATAATAACA
Found at i:37113063 original size:30 final size:31
Alignment explanation
Indices: 37113023--37113089 Score: 86
Period size: 30 Copynumber: 2.2 Consensus size: 31
37113013 AAATATAATC
*
37113023 AAAT-ATAATAATAGC-AATAATAAATAGT-A
1 AAATAATAATAATAGCAAATAAT-AATAATAA
*
37113052 AAATAATAATAATATCAAATAATAATAATAA
1 AAATAATAATAATAGCAAATAATAATAATAA
37113083 AAATAAT
1 AAATAAT
37113090 TAAGTGATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 4 0.12
30 15 0.45
31 14 0.42
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (31 bp):
AAATAATAATAATAGCAAATAATAATAATAA
Found at i:37117733 original size:3 final size:3
Alignment explanation
Indices: 37117725--37117752 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
37117715 AAGTAAAAAT
37117725 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
37117753 GTAAAACTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:37121781 original size:17 final size:17
Alignment explanation
Indices: 37121759--37121798 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
37121749 AGGCAAATCA
37121759 TATTATTTTGAA-GGTGT
1 TATTATTTT-AAGGGTGT
37121776 TATTATTTTAAGGGTGT
1 TATTATTTTAAGGGTGT
*
37121793 TTTTAT
1 TATTAT
37121799 CATTATAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 2 0.10
17 19 0.90
ACGTcount: A:0.23, C:0.00, G:0.20, T:0.57
Consensus pattern (17 bp):
TATTATTTTAAGGGTGT
Found at i:37122616 original size:83 final size:82
Alignment explanation
Indices: 37122519--37122725 Score: 240
Period size: 83 Copynumber: 2.5 Consensus size: 82
37122509 GCTTACATAA
*
37122519 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAGCCGCT-AAAGATCATGTT
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAGCCGCTAAAAG-TAATGTT
* *
37122583 CTTTAGCGGCGCTTCAG-AG
65 CTATAGCGGCGCTT--GTAC
* * * * *
37122602 GAAAACGCCTCTAAAGATCATGTTCTTTAGCGGCGCTTCGGAGGAAAACGCCTCTAAAAGTAATG
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT---AGAAAAAAGCCGCTAAAAGTAATG
*
37122667 TTCTATAGCGGCGCTTGTTC
63 TTCTATAGCGGCGCTTGTAC
*
37122687 AAAAACGCCGCTAAAAAT-AGTGTTCTTTAGCGGCGCTTA
1 AAAAACGCCGCTAAAGATCA-TGTTCTTTAGCGGCGCTTA
37122726 TTTCACAAAC
Statistics
Matches: 106, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
82 1 0.01
83 36 0.34
84 2 0.02
85 33 0.31
86 30 0.28
87 4 0.04
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.26
Consensus pattern (82 bp):
AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAGCCGCTAAAAGTAATGTTC
TATAGCGGCGCTTGTAC
Found at i:37122630 original size:43 final size:42
Alignment explanation
Indices: 37122520--37122725 Score: 242
Period size: 43 Copynumber: 4.9 Consensus size: 42
37122510 CTTACATAAA
37122520 AAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGA--
1 AAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAGG
*
37122560 AAAAAGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTCAGAGG
1 AAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT-AGAGG
* *
37122603 AAAACGCCTCTAAAGATCATGTTCTTTAGCGGCGCTTCGGAGG
1 AAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT-AGAGG
* * * ***
37122646 AAAACGCCTCTAAA-AGTAATGTTCTATAGCGGCGCTT-GTTCA
1 AAAACGCCGCTAAAGA-TCATGTTCTTTAGCGGCGCTTAG-AGG
*
37122688 AAAACGCCGCTAAAAAT-AGTGTTCTTTAGCGGCGCTTA
1 AAAACGCCGCTAAAGATCA-TGTTCTTTAGCGGCGCTTA
37122726 TTTCACAAAC
Statistics
Matches: 147, Mismatches: 11, Indels: 13
0.86 0.06 0.08
Matches are distributed among these distances:
40 36 0.24
41 5 0.03
42 32 0.22
43 74 0.50
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.26
Consensus pattern (42 bp):
AAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAGG
Found at i:37123172 original size:12 final size:12
Alignment explanation
Indices: 37123146--37123205 Score: 54
Period size: 12 Copynumber: 5.2 Consensus size: 12
37123136 TTTTGAACCT
* *
37123146 CTGCTTCTATTG
1 CTGCTTCTCTCG
*
37123158 CTGTTTCTCTCG
1 CTGCTTCTCTCG
37123170 CTGCTTCTCTCG
1 CTGCTTCTCTCG
**
37123182 CTGCGGC-CT--
1 CTGCTTCTCTCG
37123191 CTGCTTCTCTCG
1 CTGCTTCTCTCG
37123203 CTG
1 CTG
37123206 TAGCCTTTGC
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
9 5 0.14
10 2 0.05
11 2 0.05
12 28 0.76
ACGTcount: A:0.02, C:0.37, G:0.20, T:0.42
Consensus pattern (12 bp):
CTGCTTCTCTCG
Found at i:37123196 original size:21 final size:21
Alignment explanation
Indices: 37123170--37123259 Score: 108
Period size: 21 Copynumber: 4.3 Consensus size: 21
37123160 GTTTCTCTCG
*
37123170 CTGCTTCTCTCGCTGCGGCCT
1 CTGCTTCTCTCGCTGCAGCCT
*
37123191 CTGCTTCTCTCGCTGTAGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* **
37123212 TTGCTTCTCTCGCTATAGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* * *
37123233 CTGCTTCCCTCGCTGCCGCAT
1 CTGCTTCTCTCGCTGCAGCCT
37123254 CTGCTT
1 CTGCTT
37123260 TAAGTTGCTG
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 59 1.00
ACGTcount: A:0.04, C:0.40, G:0.19, T:0.37
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGCAGCCT
Found at i:37128968 original size:55 final size:54
Alignment explanation
Indices: 37128873--37129022 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
37128863 CTACTTTGTT
* ** * *
37128873 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
37128927 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
37128982 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
37129023 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:37128985 original size:27 final size:27
Alignment explanation
Indices: 37128845--37129022 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
37128835 TAAATTGTAC
37128845 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
37128872 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
37128898 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
37128926 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
37128954 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
37128981 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
37129008 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
37129023 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:37128986 original size:82 final size:81
Alignment explanation
Indices: 37128846--37129001 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
37128836 AAATTGTACA
* * * *
37128846 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
37128911 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
37128927 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
37128990 TGTGCGAGTTGA
63 TGTGCGAATTGA
37129002 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:37136971 original size:55 final size:54
Alignment explanation
Indices: 37136876--37137025 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
37136866 CTACTTTGTT
* ** * *
37136876 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
37136930 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
37136985 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
37137026 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:37136988 original size:27 final size:27
Alignment explanation
Indices: 37136848--37137025 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
37136838 TAAATTGTAC
37136848 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
37136875 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
37136901 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
37136929 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
37136957 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
37136984 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
37137011 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
37137026 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:37136989 original size:82 final size:81
Alignment explanation
Indices: 37136849--37137004 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
37136839 AAATTGTACA
* * * *
37136849 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
37136914 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
37136930 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
37136993 TGTGCGAGTTGA
63 TGTGCGAATTGA
37137005 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:37139941 original size:9 final size:9
Alignment explanation
Indices: 37139927--37140177 Score: 140
Period size: 9 Copynumber: 29.8 Consensus size: 9
37139917 AAGTTATTTA
37139927 TTATGTAAG
1 TTATGTAAG
*
37139936 TTATGTAAC
1 TTATGTAAG
*
37139945 TTGTGTAAG
1 TTATGTAAG
37139954 TTATGTAAG
1 TTATGTAAG
* *
37139963 CTGTGTAAG
1 TTATGTAAG
*
37139972 TTGTGT-A-
1 TTATGTAAG
* *
37139979 TTATGAAAC
1 TTATGTAAG
37139988 TTATGTAAG
1 TTATGTAAG
*
37139997 TTGTGT-A-
1 TTATGTAAG
37140004 TTATGTAAG
1 TTATGTAAG
*
37140013 TTATGTCAG
1 TTATGTAAG
*
37140022 TTGTGT-A-
1 TTATGTAAG
* *
37140029 TTATGAAAC
1 TTATGTAAG
37140038 TTATGTAAG
1 TTATGTAAG
*
37140047 TTATGT--C
1 TTATGTAAG
37140054 TTATGTAAG
1 TTATGTAAG
* * *
37140063 TGACGTAAA
1 TTATGTAAG
*
37140072 ATATGT-A-
1 TTATGTAAG
37140079 TTATGTAAG
1 TTATGTAAG
*
37140088 TTATGTCAG
1 TTATGTAAG
* *
37140097 GTGTGT-A-
1 TTATGTAAG
*
37140104 TTATGTAAA
1 TTATGTAAG
37140113 TTATGT-A-
1 TTATGTAAG
37140120 TTATGTAAG
1 TTATGTAAG
*
37140129 TTATGTAAT
1 TTATGTAAG
*
37140138 TTGTGT-A-
1 TTATGTAAG
* *
37140145 TTATGTGAC
1 TTATGTAAG
* *
37140154 TTATTTAAT
1 TTATGTAAG
37140163 TTATGTAAG
1 TTATGTAAG
37140172 -TATGTA
1 TTATGTA
37140178 TTATTCACTA
Statistics
Matches: 185, Mismatches: 41, Indels: 33
0.71 0.16 0.13
Matches are distributed among these distances:
7 39 0.21
8 20 0.11
9 126 0.68
ACGTcount: A:0.30, C:0.04, G:0.21, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:37139994 original size:25 final size:25
Alignment explanation
Indices: 37139916--37140119 Score: 176
Period size: 25 Copynumber: 8.1 Consensus size: 25
37139906 GATTTAGGAA
* * *
37139916 TAAGTTATTTATTATGTAAGTTATG
1 TAAGTTGTGTATTATGAAAGTTATG
* * * *
37139941 TAACTTGTGTAAGTTATGTAAGCTGTG
1 TAAGTTGTGT-A-TTATGAAAGTTATG
*
37139968 TAAGTTGTGTATTATGAAACTTATG
1 TAAGTTGTGTATTATGAAAGTTATG
*
37139993 TAAGTTGTGTATTATGTAAGTTATG
1 TAAGTTGTGTATTATGAAAGTTATG
* *
37140018 TCAGTTGTGTATTATGAAACTTATG
1 TAAGTTGTGTATTATGAAAGTTATG
* * * * *
37140043 TAAGTTATGTCTTATGTAAGTGACG
1 TAAGTTGTGTATTATGAAAGTTATG
** * *
37140068 TAAAATATGTATTATGTAAGTTATG
1 TAAGTTGTGTATTATGAAAGTTATG
* *
37140093 TCAGGTGTGTATTATGTAAA-TTATG
1 TAAGTTGTGTATTATG-AAAGTTATG
37140118 TA
1 TA
37140120 TTATGTAAGT
Statistics
Matches: 143, Mismatches: 33, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
25 118 0.83
26 4 0.03
27 21 0.15
ACGTcount: A:0.30, C:0.04, G:0.21, T:0.45
Consensus pattern (25 bp):
TAAGTTGTGTATTATGAAAGTTATG
Found at i:37140017 original size:34 final size:35
Alignment explanation
Indices: 37139930--37140017 Score: 92
Period size: 34 Copynumber: 2.5 Consensus size: 35
37139920 TTATTTATTA
* * *
37139930 TGTAAGTTATGTAACTTGTGTAAGTTATGTAAGCTG
1 TGTAAGTTATGTAA-TTATGAAACTTATGTAAGCTG
* *
37139966 TGTAAGTTGTGT-ATTATGAAACTTATGTAAGTTG
1 TGTAAGTTATGTAATTATGAAACTTATGTAAGCTG
37140000 TGT-A-TTATGTAAGTTATG
1 TGTAAGTTATGTAA-TTATG
37140018 TCAGTTGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
32 5 0.11
33 2 0.05
34 25 0.57
35 1 0.02
36 11 0.25
ACGTcount: A:0.28, C:0.03, G:0.24, T:0.44
Consensus pattern (35 bp):
TGTAAGTTATGTAATTATGAAACTTATGTAAGCTG
Found at i:37140029 original size:50 final size:50
Alignment explanation
Indices: 37139916--37140119 Score: 210
Period size: 50 Copynumber: 4.0 Consensus size: 50
37139906 GATTTAGGAA
* * * * * * *
37139916 TAAGTTATTTATTATGTAAGTTATGTAACTTGTGTAAGTTATGTAAGCTGTG
1 TAAGTTGTGTATTATGAAACTTATGTAAGTTGTGT-A-TTATGTAAGTTATG
37139968 TAAGTTGTGTATTATGAAACTTATGTAAGTTGTGTATTATGTAAGTTATG
1 TAAGTTGTGTATTATGAAACTTATGTAAGTTGTGTATTATGTAAGTTATG
* * * * *
37140018 TCAGTTGTGTATTATGAAACTTATGTAAGTTATGTCTTATGTAAGTGACG
1 TAAGTTGTGTATTATGAAACTTATGTAAGTTGTGTATTATGTAAGTTATG
** * * * * * *
37140068 TAAAATATGTATTATGTAAGTTATGTCAGGTGTGTATTATGTAAATTATG
1 TAAGTTGTGTATTATGAAACTTATGTAAGTTGTGTATTATGTAAGTTATG
37140118 TA
1 TA
37140120 TTATGTAAGT
Statistics
Matches: 127, Mismatches: 25, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
50 96 0.76
51 1 0.01
52 30 0.24
ACGTcount: A:0.30, C:0.04, G:0.21, T:0.45
Consensus pattern (50 bp):
TAAGTTGTGTATTATGAAACTTATGTAAGTTGTGTATTATGTAAGTTATG
Found at i:37140033 original size:41 final size:41
Alignment explanation
Indices: 37139988--37140176 Score: 155
Period size: 41 Copynumber: 4.8 Consensus size: 41
37139978 ATTATGAAAC
* *
37139988 TTATGTAAGTTGTGTATTATGTAAGTTATGTCAGTTGTGTA
1 TTATGTAAATTATGTATTATGTAAGTTATGTCAGTTGTGTA
* *
37140029 TTATG--AA--A---CTTATGTAAGTTATGTC--TTATGTAA
1 TTATGTAAATTATGTATTATGTAAGTTATGTCAGTTGTGT-A
* * * *
37140062 GTGACGTAAAATATGTATTATGTAAGTTATGTCAGGTGTGTA
1 -TTATGTAAATTATGTATTATGTAAGTTATGTCAGTTGTGTA
* *
37140104 TTATGTAAATTATGTATTATGTAAGTTATGTAATTTGTGTA
1 TTATGTAAATTATGTATTATGTAAGTTATGTCAGTTGTGTA
* * *
37140145 TTATGTGACTTATTTAATTTATGTAAG-TATGT
1 TTATGTAAATTATGT-A-TTATGTAAGTTATGT
37140177 ATTATTCACT
Statistics
Matches: 117, Mismatches: 18, Indels: 25
0.73 0.11 0.16
Matches are distributed among these distances:
32 5 0.04
33 1 0.01
34 19 0.16
36 2 0.02
38 1 0.01
39 1 0.01
41 68 0.58
42 7 0.06
43 13 0.11
ACGTcount: A:0.30, C:0.03, G:0.20, T:0.47
Consensus pattern (41 bp):
TTATGTAAATTATGTATTATGTAAGTTATGTCAGTTGTGTA
Found at i:37140056 original size:16 final size:16
Alignment explanation
Indices: 37139987--37140063 Score: 68
Period size: 16 Copynumber: 4.7 Consensus size: 16
37139977 TATTATGAAA
*
37139987 CTTATGTAAGTTGTGT
1 CTTATGTAAGTTATGT
*
37140003 ATTATGTAAGTTATGT
1 CTTATGTAAGTTATGT
* *
37140019 CAGTTGTGT-A-TTATGAAA
1 C--TTATGTAAGTTATG--T
37140037 CTTATGTAAGTTATGT
1 CTTATGTAAGTTATGT
37140053 CTTATGTAAGT
1 CTTATGTAAGT
37140064 GACGTAAAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
16 35 0.73
17 2 0.04
18 11 0.23
ACGTcount: A:0.27, C:0.05, G:0.21, T:0.47
Consensus pattern (16 bp):
CTTATGTAAGTTATGT
Found at i:37140132 original size:25 final size:25
Alignment explanation
Indices: 37140104--37140169 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
37140094 CAGGTGTGTA
* *
37140104 TTATGTAAATTATGTATTATGTAAG
1 TTATGTAATTTATGTATTATGTAAC
* *
37140129 TTATGTAATTTGTGTATTATGTGAC
1 TTATGTAATTTATGTATTATGTAAC
*
37140154 TTATTTAATTTATGTA
1 TTATGTAATTTATGTA
37140170 AGTATGTATT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.30, C:0.02, G:0.15, T:0.53
Consensus pattern (25 bp):
TTATGTAATTTATGTATTATGTAAC
Found at i:37140309 original size:24 final size:26
Alignment explanation
Indices: 37140266--37140320 Score: 78
Period size: 24 Copynumber: 2.2 Consensus size: 26
37140256 TTATGTACGG
*
37140266 TATGTGTTATTATGTAAGTTATTTAT
1 TATGTGTTATTATGTAAGTTATGTAT
*
37140292 TATGT-TTGTTATGT-AGTTATGTAT
1 TATGTGTTATTATGTAAGTTATGTAT
37140316 TATGT
1 TATGT
37140321 AAGATATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 14 0.52
25 8 0.30
26 5 0.19
ACGTcount: A:0.24, C:0.00, G:0.18, T:0.58
Consensus pattern (26 bp):
TATGTGTTATTATGTAAGTTATGTAT
Found at i:37140310 original size:94 final size:93
Alignment explanation
Indices: 37140112--37140322 Score: 211
Period size: 94 Copynumber: 2.3 Consensus size: 93
37140102 TATTATGTAA
* *
37140112 ATTATGTA-TTATGTAAGTTATGTAATTTGTGTATTATGTGACTTATTTAATTTATGTAAGTATG
1 ATTATGTAGTTATGTAAGTTATGTAATTTGTGTATCATGTAACTTATTTAATTTATGTAAGTATG
*
37140176 TATTATTCACTAATTTATTATGTAGGAT
66 TATTATTCACTAAGTTATTATGTAGGAT
* ** *
37140204 ATTATCTAAGTTATGTAAGTT-T-TTTTTTGGTGTATCATGTAACTTATTTAATTTATGTACGGT
1 ATTATGT-AGTTATGTAAGTTATGTAATTT-GTGTATCATGTAACTTATTTAATTTATGTA-AGT
* * **
37140267 ATGTGTTATT-ATGTAAGTTATTTAT-TATGTTT
63 ATGTATTATTCA-CTAAGTTA-TTATGTA-GGAT
*
37140299 GTTATGTAGTTATGT-A-TTATGTAA
1 ATTATGTAGTTATGTAAGTTATGTAA
37140323 GATATATAAG
Statistics
Matches: 95, Mismatches: 15, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
92 12 0.13
93 33 0.35
94 39 0.41
95 11 0.12
ACGTcount: A:0.28, C:0.03, G:0.16, T:0.53
Consensus pattern (93 bp):
ATTATGTAGTTATGTAAGTTATGTAATTTGTGTATCATGTAACTTATTTAATTTATGTAAGTATG
TATTATTCACTAAGTTATTATGTAGGAT
Found at i:37140513 original size:15 final size:15
Alignment explanation
Indices: 37140493--37140525 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
37140483 ATAAAATTTT
*
37140493 ATAAATTTAATAGTA
1 ATAAATTTAATACTA
37140508 ATAAATTTAATACTA
1 ATAAATTTAATACTA
37140523 ATA
1 ATA
37140526 TAGAAACCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (15 bp):
ATAAATTTAATACTA
Found at i:37140661 original size:177 final size:177
Alignment explanation
Indices: 37140383--37140768 Score: 729
Period size: 177 Copynumber: 2.2 Consensus size: 177
37140373 AATAAATTTA
*
37140383 ATATTAAAACAATATTTATAATTATTTTG-AAACTTTTAAATTTTATAGGTTATATTAAAACAAT
1 ATATTAAAACAATATTTATAATTATTTAGAAAACTTTTAAATTTTATAGGTTATATTAAAACAAT
*
37140447 ATTTATAATACTAATATAGATATTAAAACATTATTTATAAAATTTTATAAATTTAATAGTAATAA
66 ATTTATAATACTAATATAGATATTAAAACAATATTTATAAAATTTTATAAATTTAATAGTAATAA
*
37140512 ATTTAATACTAATATAGAAACCTTATAAATTTAGAACACTTATATAG
131 ATTTAATACTAATATAGAAACCTTATAAATTTAGAAAACTTATATAG
37140559 ATATTAAAACAATATTTATAATTATTTAGAAAACTTTTAAATTTTATAGGTTATATTAAAACAAT
1 ATATTAAAACAATATTTATAATTATTTAGAAAACTTTTAAATTTTATAGGTTATATTAAAACAAT
37140624 ATTTATAATACTAATATAGATATTAAAACAATATTTATAAAATTTTATAAATTTAATAGTAATAA
66 ATTTATAATACTAATATAGATATTAAAACAATATTTATAAAATTTTATAAATTTAATAGTAATAA
37140689 ATTTAATACTAATATAGAAACCTTATAAATTTAGAAAACTTATATAG
131 ATTTAATACTAATATAGAAACCTTATAAATTTAGAAAACTTATATAG
*
37140736 ATATTAAAACAATATTTATCATTATTTAGAAAA
1 ATATTAAAACAATATTTATAATTATTTAGAAAA
37140769 TGTTATCATT
Statistics
Matches: 205, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
176 28 0.14
177 177 0.86
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.41
Consensus pattern (177 bp):
ATATTAAAACAATATTTATAATTATTTAGAAAACTTTTAAATTTTATAGGTTATATTAAAACAAT
ATTTATAATACTAATATAGATATTAAAACAATATTTATAAAATTTTATAAATTTAATAGTAATAA
ATTTAATACTAATATAGAAACCTTATAAATTTAGAAAACTTATATAG
Found at i:37140690 original size:15 final size:15
Alignment explanation
Indices: 37140670--37140702 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
37140660 ATAAAATTTT
*
37140670 ATAAATTTAATAGTA
1 ATAAATTTAATACTA
37140685 ATAAATTTAATACTA
1 ATAAATTTAATACTA
37140700 ATA
1 ATA
37140703 TAGAAACCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (15 bp):
ATAAATTTAATACTA
Found at i:37142768 original size:24 final size:23
Alignment explanation
Indices: 37142725--37142777 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
37142715 TAGGGGAATA
*
37142725 GGAATTGGGGGGAAATGAAATCGG
1 GGAATTGGGGGGAAACGAAAT-GG
37142749 GGAATT-GGGGGAATACGAAATGG
1 GGAATTGGGGGGAA-ACGAAATGG
*
37142772 GAAATT
1 GGAATT
37142778 AGGGAATGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 14 0.54
24 12 0.46
ACGTcount: A:0.36, C:0.04, G:0.42, T:0.19
Consensus pattern (23 bp):
GGAATTGGGGGGAAACGAAATGG
Found at i:37143345 original size:22 final size:22
Alignment explanation
Indices: 37143311--37143363 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
37143301 ATAGGCCCCT
37143311 AACTTT-AACCCGTAACCTTTA
1 AACTTTAAACCCGTAACCTTTA
37143332 AACTTTAAACCCGTAACCTTTA
1 AACTTTAAACCCGTAACCTTTA
37143354 AACTTTAAAC
1 AACTTTAAAC
37143364 TCTTAAACCC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 6 0.19
22 25 0.81
ACGTcount: A:0.38, C:0.26, G:0.04, T:0.32
Consensus pattern (22 bp):
AACTTTAAACCCGTAACCTTTA
Found at i:37143369 original size:15 final size:14
Alignment explanation
Indices: 37143324--37143400 Score: 55
Period size: 15 Copynumber: 5.3 Consensus size: 14
37143314 TTTAACCCGT
37143324 AACCTTTAAACTTTA
1 AACC-TTAAACTTTA
* *
37143339 AACCCGTAACCTTTA
1 AA-CCTTAAACTTTA
*
37143354 AACTTTAAACTCTTA
1 AACCTTAAACT-TTA
* **
37143369 AACCCTAAACTACA
1 AACCTTAAACTTTA
* *
37143383 AACCTTACACTCTA
1 AACCTTAAACTTTA
37143397 AACC
1 AACC
37143401 CGTAACCTTA
Statistics
Matches: 47, Mismatches: 13, Indels: 5
0.72 0.20 0.08
Matches are distributed among these distances:
14 21 0.45
15 24 0.51
16 2 0.04
ACGTcount: A:0.40, C:0.30, G:0.01, T:0.29
Consensus pattern (14 bp):
AACCTTAAACTTTA
Found at i:37143385 original size:29 final size:30
Alignment explanation
Indices: 37143327--37143405 Score: 92
Period size: 29 Copynumber: 2.7 Consensus size: 30
37143317 AACCCGTAAC
* **
37143327 CTTTAAACT-TTAAACCCGTAACCTTTAAA
1 CTTTAAACTCTTAAACCCGTAAACTACAAA
37143356 CTTTAAACTCTTAAACCC-TAAACTACAAA
1 CTTTAAACTCTTAAACCCGTAAACTACAAA
* *
37143385 CCTTACACTC-TAAACCCGTAA
1 CTTTAAACTCTTAAACCCGTAA
37143406 CCTTACACTC
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
28 7 0.16
29 28 0.65
30 8 0.19
ACGTcount: A:0.39, C:0.29, G:0.03, T:0.29
Consensus pattern (30 bp):
CTTTAAACTCTTAAACCCGTAAACTACAAA
Found at i:37144280 original size:77 final size:76
Alignment explanation
Indices: 37144172--37144313 Score: 171
Period size: 77 Copynumber: 1.9 Consensus size: 76
37144162 CTAGTAAGCA
** *
37144172 CCACTAATATAAGTATACATCAAAATTAAAACTACGCGTTTTAG-TTAAGATATTTTTGCGGCGT
1 CCACTAATATAAGTATACATCAAAACCAAAACGACGCGTTTT-GCTTAAGATA-TTTTGCGGCGT
37144236 TTCAACGTCAGCG
64 TTCAACGTCAGCG
* * ** *
37144249 CCACTAAT-TGAAGTATACATCGAGACCAAAACGGTGCGTTTTGCTTCAGATATTTTGCGGCGTT
1 CCACTAATAT-AAGTATACATCAAAACCAAAACGACGCGTTTTGCTTAAGATATTTTGCGGCGTT
37144313 T
65 T
37144314 TCCTATACGC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
76 15 0.27
77 40 0.73
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.32
Consensus pattern (76 bp):
CCACTAATATAAGTATACATCAAAACCAAAACGACGCGTTTTGCTTAAGATATTTTGCGGCGTTT
CAACGTCAGCG
Found at i:37144438 original size:266 final size:266
Alignment explanation
Indices: 37143958--37144763 Score: 1314
Period size: 259 Copynumber: 3.1 Consensus size: 266
37143948 TTATTTTGCT
* * *
37143958 TTTTTACGGCGTTTTAACGTCAGCGCCACTAATTGAAGTATACATCGAGACCAAAACGATGCGTT
1 TTTTTGCGGCGTTTCAACGTCAGCGCCACTAATTGAAGTATACATCGAGACCAAAACGGTGCGTT
37144023 TTGGTTCAGATATTTTGCGGCGTTTTCCTATAAGCGCCACTAAATGTAACATAGCTTAAGA-CAA
66 TTGGTTCAGATATTTTGCGGCGTTTTCCTATAAGCGCCACTAAATGTAACATAGCTTAAGACCAA
* * * *
37144087 GACACTGCGTTTTGTTAAGATACGTTGCGACGC-TT-GATCCAAAGCGCCGCTAAAGCTATTCTT
131 -ACACTGCGTTTTGTTAAGATACTTTGCGGCGCTTTGGCT-C-AAGCGCCGCTAATGCTATTCTT
37144150 TAACGGCGTTTTCTAGTAAGCACCACTAATATAAGTATACATCAAAATTAAAACTACGCGTTTTA
193 TAACGGCGTTTTCTAGTAAGCACCACTAATATAAGTATACATCAAAATTAAAACTACGCGTTTTA
37144215 GTTAAGATA
258 GTTAAGATA
37144224 TTTTTGCGGCGTTTCAACGTCAGCGCCACTAATTGAAGTATACATCGAGACCAAAACGGTGCGTT
1 TTTTTGCGGCGTTTCAACGTCAGCGCCACTAATTGAAGTATACATCGAGACCAAAACGGTGCGTT
* *
37144289 TTGCTTCAGATATTTTGCGGCGTTTTCCTATACGCGCCACTAAATGTAACATAGCTTAAGACCAA
66 TTGGTTCAGATATTTTGCGGCGTTTTCCTATAAGCGCCACTAAATGTAACATAGCTTAAGACCAA
* *
37144354 ACACTGCGTTTTGTTAAGATACTTTGCGGTGCTTTGGCTCAAGCGCCGCTAATGATATTCTTTAA
131 ACACTGCGTTTTGTTAAGATACTTTGCGGCGCTTTGGCTCAAGCGCCGCTAATGCTATTCTTTAA
37144419 CGGCGTTTTCTAGTAAGCACCAC-----TAA-TATA-ATCAAAATTAAAACTACGCGTTTTAGTT
196 CGGCGTTTTCTAGTAAGCACCACTAATATAAGTATACATCAAAATTAAAACTACGCGTTTTAGTT
37144477 AAGATA
261 AAGATA
*
37144483 TTTTTGCGGCGTTTTAACGTCAGCGCCACTAATTGAAGTATACATCGAGACCAAAACGGTGCGTT
1 TTTTTGCGGCGTTTCAACGTCAGCGCCACTAATTGAAGTATACATCGAGACCAAAACGGTGCGTT
* *
37144548 TTGGTTCAGATTTTTTACGGCGTTTTCCTATAAGCGCCACTAAATGTAACATAGCTTAAGACCAA
66 TTGGTTCAGATATTTTGCGGCGTTTTCCTATAAGCGCCACTAAATGTAACATAGCTTAAGACCAA
*
37144613 ACACTGCGTTTTGTTAAGATA-TGTTGCGGCGCTTTGGCTCAAGCACCGCTAAAT-CTATTCTTT
131 ACACTGCGTTTTGTTAAGATACT-TTGCGGCGCTTTGGCTCAAGCGCCGCT-AATGCTATTCTTT
*
37144676 AACGGCGTTTTCTAGTAAGCGCCACTAATATAAGTATACATCAAAATTAAAACTACGCGTTTTAG
194 AACGGCGTTTTCTAGTAAGCACCACTAATATAAGTATACATCAAAATTAAAACTACGCGTTTTAG
*
37144741 TAAAGATA
259 TTAAGATA
37144749 -TTTTGCGGCGCTTTC
1 TTTTTGCGGCG-TTTC
37144764 TACGAAACGC
Statistics
Matches: 505, Mismatches: 22, Indels: 26
0.91 0.04 0.05
Matches are distributed among these distances:
258 1 0.00
259 237 0.47
260 7 0.01
261 3 0.01
264 3 0.01
265 14 0.03
266 232 0.46
267 6 0.01
268 2 0.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (266 bp):
TTTTTGCGGCGTTTCAACGTCAGCGCCACTAATTGAAGTATACATCGAGACCAAAACGGTGCGTT
TTGGTTCAGATATTTTGCGGCGTTTTCCTATAAGCGCCACTAAATGTAACATAGCTTAAGACCAA
ACACTGCGTTTTGTTAAGATACTTTGCGGCGCTTTGGCTCAAGCGCCGCTAATGCTATTCTTTAA
CGGCGTTTTCTAGTAAGCACCACTAATATAAGTATACATCAAAATTAAAACTACGCGTTTTAGTT
AAGATA
Found at i:37144888 original size:116 final size:113
Alignment explanation
Indices: 37144732--37144972 Score: 261
Period size: 113 Copynumber: 2.1 Consensus size: 113
37144722 TTAAAACTAC
* * * * *
37144732 GCGTTTTAGTAAAGATATTTTGCGGCGCTTTCTACGAAACGCCGCTAATACGGTGCCTTAGCGGC
1 GCGTTTTGGTTAAGATATTTTGCGGCGCTATCTACAAAACGCCGCTAAGAC---GCCTTAGCGGC
* *
37144797 G-CATATCACAAAGTGCCACTAAATCTAGGATACATCAATACCAAAAACGAT
63 GTCATATCA-AAAGCGCCACTAAATCTAGGATACATCAACACCAAAAACGAT
* * * *
37144848 GTGTTTTGGTTAAGATATTTTGCGGCGCATATC-GCAAAACGCCGCTAAGACGCTTTTGCGGCGT
1 GCGTTTTGGTTAAGATATTTTGCGGCGC-TATCTACAAAACGCCGCTAAGACGCCTTAGCGGCGT
** * * * * *
37144912 TTTTTGAGAAGCGCCACTAATTCTAGGATACATCAACACTAAAAACGAT
65 CATATCAAAAGCGCCACTAAATCTAGGATACATCAACACCAAAAACGAT
37144961 GCGTTTTGGTTA
1 GCGTTTTGGTTA
37144973 GGAGAAATTA
Statistics
Matches: 104, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
113 58 0.56
114 3 0.03
116 40 0.38
117 3 0.03
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (113 bp):
GCGTTTTGGTTAAGATATTTTGCGGCGCTATCTACAAAACGCCGCTAAGACGCCTTAGCGGCGTC
ATATCAAAAGCGCCACTAAATCTAGGATACATCAACACCAAAAACGAT
Found at i:37145057 original size:114 final size:113
Alignment explanation
Indices: 37144811--37145121 Score: 340
Period size: 113 Copynumber: 2.8 Consensus size: 113
37144801 ATCACAAAGT
* * * * *
37144811 GCCACTAAATCTAGGATACATCAATACCAAAAACGATGTGTTTTGGTTAAGATATTTTGCGGCGC
1 GCCACTAATTCTAGGATACATCAACA-CAAAAACGATGCGTTTTGGTTAGGAGATTTTGCGGCGC
* * * * * *
37144876 -ATATCGCAAAACGCCGCTAAGACGCTTTTGCGGCGTTTTTTGAGAAGC
65 GTTGTTGTAAAACGCCGCTAAGACACTTTAGCGGCGTTTTTTGAGAAGC
** *
37144924 GCCACTAATTCTAGGATACATCAACACTAAAAACGATGCGTTTTGGTTAGGAGAAATTACGGCGC
1 GCCACTAATTCTAGGATACATCAACAC-AAAAACGATGCGTTTTGGTTAGGAGATTTTGCGGCGC
*
37144989 GTTGTTGTAAAACGCCGCTAAGACACTTTAGCGGCGTGTTTTT-TGAAGC
65 GTTGTTGTAAAACGCCGCTAAGACACTTTAGCGGCGT-TTTTTGAGAAGC
* * * * * * * * **
37145038 GCCACTAATTCTTGCATACATAAAGACGAAAACGTTGCATTTTGGATAGGAGATTTTGCGGCATG
1 GCCACTAATTCTAGGATACATCAACACAAAAACGATGCGTTTTGGTTAGGAGATTTTGCGGCGCG
*
37145103 TGGTTGT-AAACGCCGCTAA
66 TTGTTGTAAAACGCCGCTAA
37145122 TGATGTTCTT
Statistics
Matches: 166, Mismatches: 29, Indels: 7
0.82 0.14 0.03
Matches are distributed among these distances:
112 13 0.08
113 90 0.54
114 58 0.35
115 5 0.03
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.28
Consensus pattern (113 bp):
GCCACTAATTCTAGGATACATCAACACAAAAACGATGCGTTTTGGTTAGGAGATTTTGCGGCGCG
TTGTTGTAAAACGCCGCTAAGACACTTTAGCGGCGTTTTTTGAGAAGC
Found at i:37146492 original size:20 final size:21
Alignment explanation
Indices: 37146469--37146522 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
37146459 TTATTGATAA
37146469 ATATTATATATTA-TAAATAT
1 ATATTATATATTATTAAATAT
* * *
37146489 ATATTAAATTATTATTACATGT
1 ATATTATA-TATTATTAAATAT
37146511 ATTATTATATAT
1 A-TATTATATAT
37146523 CAACATTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
20 7 0.26
21 5 0.19
22 9 0.33
23 6 0.22
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (21 bp):
ATATTATATATTATTAAATAT
Found at i:37148013 original size:21 final size:22
Alignment explanation
Indices: 37147989--37148033 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
37147979 TTTGTTACTG
*
37147989 TTTTGTTGTT-GTTTGCTACCA
1 TTTTGATGTTAGTTTGCTACCA
*
37148010 TTTTGATGTTATTTTGCTACCA
1 TTTTGATGTTAGTTTGCTACCA
37148032 TT
1 TT
37148034 CTGCTATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.13, C:0.13, G:0.16, T:0.58
Consensus pattern (22 bp):
TTTTGATGTTAGTTTGCTACCA
Found at i:37148043 original size:22 final size:22
Alignment explanation
Indices: 37148000--37148043 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
37147990 TTTGTTGTTG
* *
37148000 TTTGCTACCATTTTGATGTTAT
1 TTTGCTACCATTCTGATATTAT
*
37148022 TTTGCTACCATTCTGCTATTAT
1 TTTGCTACCATTCTGATATTAT
37148044 ATTAATACTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.18, C:0.18, G:0.11, T:0.52
Consensus pattern (22 bp):
TTTGCTACCATTCTGATATTAT
Found at i:37148261 original size:15 final size:16
Alignment explanation
Indices: 37148241--37148274 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
37148231 TCGATGTATT
37148241 ATATTTTTA-AAAAAA
1 ATATTTTTATAAAAAA
*
37148256 ATATTTTTATATAAAA
1 ATATTTTTATAAAAAA
37148272 ATA
1 ATA
37148275 ATATAACAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATATTTTTATAAAAAA
Found at i:37148766 original size:24 final size:21
Alignment explanation
Indices: 37148724--37148771 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 21
37148714 TAATTAGCAC
*
37148724 AAATATATTTTTAAAATTATA
1 AAATATATTTTTAAAATTAAA
37148745 AAATATATTATTTAATAGATTAAA
1 AAATATATT-TTTAA-A-ATTAAA
37148769 AAA
1 AAA
37148772 AAATATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 9 0.39
22 5 0.22
23 1 0.04
24 8 0.35
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (21 bp):
AAATATATTTTTAAAATTAAA
Found at i:37149141 original size:3 final size:3
Alignment explanation
Indices: 37149133--37149181 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
37149123 TCTTGTAAAT
37149133 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
37149181 T
1 T
37149182 CTTTTGGCCA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:37151843 original size:13 final size:13
Alignment explanation
Indices: 37151825--37151859 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
37151815 TAAGTTATTA
37151825 TATATTAATATAT
1 TATATTAATATAT
* *
37151838 TATATTCATATTT
1 TATATTAATATAT
37151851 TATATTAAT
1 TATATTAAT
37151860 CTGTGTTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (13 bp):
TATATTAATATAT
Found at i:37154133 original size:40 final size:41
Alignment explanation
Indices: 37154087--37154174 Score: 115
Period size: 40 Copynumber: 2.2 Consensus size: 41
37154077 ATTTTATCTA
* *
37154087 AATTTTTGTAAATATTTTGTAGTGTGAATTATAAGTTTTAT
1 AATTTTTGTAAATATTTTGTAGTATGAATTATAAGTCTTAT
* * * *
37154128 -ATTTTTGTGAATCTTTTGTATTATTAATTATAAGTCTTAT
1 AATTTTTGTAAATATTTTGTAGTATGAATTATAAGTCTTAT
37154168 AATTTTT
1 AATTTTT
37154175 TTTTTCCATT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
40 34 0.85
41 6 0.15
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (41 bp):
AATTTTTGTAAATATTTTGTAGTATGAATTATAAGTCTTAT
Found at i:37154250 original size:36 final size:34
Alignment explanation
Indices: 37154158--37154290 Score: 106
Period size: 36 Copynumber: 3.8 Consensus size: 34
37154148 TTATTAATTA
* * **
37154158 TAAGTCTTATAATTTTTTTTTTCCATTTTTTAGTTT
1 TAAGTCTTATTA-TTTTTGTTT-CATTTTAGAGTTT
****
37154194 TAAGTCTTATTAGCAGTGTTTC-TGCTGTTAGAGTTT
1 TAAGTCTTATTATTTTTGTTTCAT--T-TTAGAGTTT
**
37154230 TAAGTCTTATTATTTTTGTTTCATTTTTTAGTTT
1 TAAGTCTTATTATTTTTGTTTCATTTTAGAGTTT
* *
37154264 TAAGCCTTATCATTTTTGTTTCATTTT
1 TAAGTCTTATTATTTTTGTTTCATTTT
37154291 GGTGAATATT
Statistics
Matches: 77, Mismatches: 16, Indels: 10
0.75 0.16 0.10
Matches are distributed among these distances:
33 1 0.01
34 33 0.43
35 6 0.08
36 36 0.47
37 1 0.01
ACGTcount: A:0.19, C:0.10, G:0.11, T:0.60
Consensus pattern (34 bp):
TAAGTCTTATTATTTTTGTTTCATTTTAGAGTTT
Found at i:37154273 original size:34 final size:34
Alignment explanation
Indices: 37154225--37154290 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
37154215 CTGCTGTTAG
* *
37154225 AGTTTTAAGTCTTATTATTTTTGTTTCATTTTTT
1 AGTTTTAAGCCTTATCATTTTTGTTTCATTTTTT
37154259 AGTTTTAAGCCTTATCATTTTTGTTTCATTTT
1 AGTTTTAAGCCTTATCATTTTTGTTTCATTTT
37154291 GGTGAATATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.18, C:0.09, G:0.09, T:0.64
Consensus pattern (34 bp):
AGTTTTAAGCCTTATCATTTTTGTTTCATTTTTT
Found at i:37157823 original size:19 final size:20
Alignment explanation
Indices: 37157799--37157839 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
37157789 AAATTTAGGC
37157799 AAATATT-AA-ATGAAAATTG
1 AAATATTCAATATG-AAATTG
37157818 AAATATTCAATATGAAATTG
1 AAATATTCAATATGAAATTG
37157838 AA
1 AA
37157840 TTGTGTTGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 10 0.50
21 3 0.15
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.32
Consensus pattern (20 bp):
AAATATTCAATATGAAATTG
Found at i:37160104 original size:20 final size:21
Alignment explanation
Indices: 37160079--37160118 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
37160069 TTTTCAATGA
37160079 ATTTTTATTTATA-AAATTAG
1 ATTTTTATTTATATAAATTAG
*
37160099 ATTTTTATTTTTATAAATTA
1 ATTTTTATTTATATAAATTA
37160119 AATAAAACAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (21 bp):
ATTTTTATTTATATAAATTAG
Found at i:37165057 original size:28 final size:28
Alignment explanation
Indices: 37165012--37165074 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
37165002 TTATCAAGAT
37165012 CAGTAAGGGTATCCGCCAAAAGAATGAC
1 CAGTAAGGGTATCCGCCAAAAGAATGAC
* * * *
37165040 CAGTAAGGGTGTCTGCCAAAAGTATGAT
1 CAGTAAGGGTATCCGCCAAAAGAATGAC
37165068 CAGTAAG
1 CAGTAAG
37165075 TGATATCTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.37, C:0.17, G:0.27, T:0.19
Consensus pattern (28 bp):
CAGTAAGGGTATCCGCCAAAAGAATGAC
Found at i:37168218 original size:14 final size:14
Alignment explanation
Indices: 37168199--37168226 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
37168189 GTTTAAAGAT
37168199 GATTAAAAACTAAG
1 GATTAAAAACTAAG
37168213 GATTAAAAACTAAG
1 GATTAAAAACTAAG
37168227 TAAAAAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.14, T:0.21
Consensus pattern (14 bp):
GATTAAAAACTAAG
Found at i:37170983 original size:70 final size:71
Alignment explanation
Indices: 37170848--37170987 Score: 241
Period size: 70 Copynumber: 2.0 Consensus size: 71
37170838 AATACTCGTG
37170848 AATATTGTAATATTATATAAAGTGAAATTTTTTATATGAAATTATTATTTTTTCATTATTATTTA
1 AATATTGTAATATTATATAAAGTGAAATTTTTTATATGAAATTATTATTTTTTCATTATTATTTA
37170913 TATGAA
66 TATGAA
37170919 AATATTGTAATATT-TGATAAAGTG-AA-TTTTTATATGAAATTATTATTATTTTCATTATTATT
1 AATATTGTAATATTAT-ATAAAGTGAAATTTTTTATATGAAATTATTATT-TTTTCATTATTATT
37170981 TATATGA
64 TATATGA
37170988 TTTTTTTATT
Statistics
Matches: 67, Mismatches: 0, Indels: 5
0.93 0.00 0.07
Matches are distributed among these distances:
69 21 0.31
70 24 0.36
71 22 0.33
ACGTcount: A:0.39, C:0.01, G:0.08, T:0.52
Consensus pattern (71 bp):
AATATTGTAATATTATATAAAGTGAAATTTTTTATATGAAATTATTATTTTTTCATTATTATTTA
TATGAA
Found at i:37171060 original size:89 final size:89
Alignment explanation
Indices: 37170906--37171249 Score: 584
Period size: 89 Copynumber: 3.9 Consensus size: 89
37170896 TTTTTCATTA
* * *
37170906 TTATTTATATGAAAATATTGTAATATTTGATAAAG-T-GAATTTTTATATGAAATTATTATTATT
1 TTATTTTTATGAAAATAATGTAATATTTGATAAAGTTAAAATTTTTATATGAAATTATTATTATT
37170969 TTCATTATTATTTATATGATTTTT
66 TTCATTATTATTTATATGATTTTT
*
37170993 TTATTTTTATGAAAATAATGTAATATTTGATAAAGTTAAAATTTTTATATGCAATTATTATTATT
1 TTATTTTTATGAAAATAATGTAATATTTGATAAAGTTAAAATTTTTATATGAAATTATTATTATT
37171058 TTCATTATTATTTATATGATTTTT
66 TTCATTATTATTTATATGATTTTT
**
37171082 TTATTTTTATGAAAATAAAATAATATTTGATAAAGTTAAAATTTTTATATGAAATTATTATTATT
1 TTATTTTTATGAAAATAATGTAATATTTGATAAAGTTAAAATTTTTATATGAAATTATTATTATT
*
37171147 TTTATTATTATTTATATGATTTTTT
66 TTCATTATTATTTATATGA-TTTTT
* *
37171172 TTATTTTTATGAAAATAATGTAATATTTGATAAAGTTAAAATTTTTATATGAAATTTTTATTTTT
1 TTATTTTTATGAAAATAATGTAATATTTGATAAAGTTAAAATTTTTATATGAAATTATTATTATT
37171237 TTCATTATTATTT
66 TTCATTATTATTT
37171250 TTTATATAAA
Statistics
Matches: 241, Mismatches: 13, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
87 33 0.14
88 1 0.00
89 129 0.54
90 78 0.32
ACGTcount: A:0.37, C:0.01, G:0.07, T:0.56
Consensus pattern (89 bp):
TTATTTTTATGAAAATAATGTAATATTTGATAAAGTTAAAATTTTTATATGAAATTATTATTATT
TTCATTATTATTTATATGATTTTT
Found at i:37171153 original size:9 final size:9
Alignment explanation
Indices: 37171139--37171181 Score: 50
Period size: 9 Copynumber: 4.4 Consensus size: 9
37171129 TATGAAATTA
37171139 TTATTATTT
1 TTATTATTT
37171148 TTATTATTAT
1 TTATTATT-T
37171158 TTATATGATTT
1 TTAT-T-ATTT
*
37171169 TTTTTATTT
1 TTATTATTT
37171178 TTAT
1 TTAT
37171182 GAAAATAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
9 15 0.52
10 6 0.21
11 5 0.17
12 3 0.10
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (9 bp):
TTATTATTT
Found at i:37171153 original size:12 final size:12
Alignment explanation
Indices: 37171136--37171181 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
37171126 TTATATGAAA
37171136 TTATTATTATTT
1 TTATTATTATTT
37171148 TTATTATTATTT
1 TTATTATTATTT
* * *
37171160 ATATGATTTTTT
1 TTATTATTATTT
*
37171172 TTATTTTTAT
1 TTATTATTAT
37171182 GAAAATAATG
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (12 bp):
TTATTATTATTT
Found at i:37171217 original size:179 final size:176
Alignment explanation
Indices: 37170906--37171249 Score: 580
Period size: 179 Copynumber: 1.9 Consensus size: 176
37170896 TTTTTCATTA
*** *
37170906 TTATTTATATGAAAATATTGTAATATTTGATAAAGTGAATTTTTATATGAAATTATTATTATTTT
1 TTATTTATATGAAAATAAAATAATATTTGATAAAGTAAATTTTTATATGAAATTATTATTATTTT
37170971 CATTATTATTTATATGATTTTTTTATTTTTATGAAAATAATGTAATATTTGATAAAGTTAAAATT
66 CATTATTATTTATATGATTTTTTTATTTTTATGAAAATAATGTAATATTTGATAAAGTTAAAATT
*
37171036 TTTATATGCAATTATTATTATTTTCATTATTATTTATATGATTTTT
131 TTTATATGAAATTATTATTATTTTCATTATTATTTATATGATTTTT
*
37171082 TTATTTTTATGAAAATAAAATAATATTTGATAAAGTTAAAATTTTTATATGAAATTATTATTATT
1 TTATTTATATGAAAATAAAATAATATTTGATAAAG-T-AAATTTTTATATGAAATTATTATTATT
*
37171147 TTTATTATTATTTATATGATTTTTTTTATTTTTATGAAAATAATGTAATATTTGATAAAGTTAAA
64 TTCATTATTATTTATATGA-TTTTTTTATTTTTATGAAAATAATGTAATATTTGATAAAGTTAAA
* *
37171212 ATTTTTATATGAAATTTTTATTTTTTTCATTATTATTT
128 ATTTTTATATGAAATTATTATTATTTTCATTATTATTT
37171250 TTTATATAAA
Statistics
Matches: 156, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
176 31 0.20
177 1 0.01
178 44 0.28
179 80 0.51
ACGTcount: A:0.37, C:0.01, G:0.07, T:0.56
Consensus pattern (176 bp):
TTATTTATATGAAAATAAAATAATATTTGATAAAGTAAATTTTTATATGAAATTATTATTATTTT
CATTATTATTTATATGATTTTTTTATTTTTATGAAAATAATGTAATATTTGATAAAGTTAAAATT
TTTATATGAAATTATTATTATTTTCATTATTATTTATATGATTTTT
Found at i:37171857 original size:78 final size:78
Alignment explanation
Indices: 37171764--37171920 Score: 314
Period size: 78 Copynumber: 2.0 Consensus size: 78
37171754 ATACCGAGAT
37171764 AGTAGATAGAGTGATGAACTTTCTGACGATCCCCGAGCTTGAAGCTTGATCTTTAAGTCTATAAA
1 AGTAGATAGAGTGATGAACTTTCTGACGATCCCCGAGCTTGAAGCTTGATCTTTAAGTCTATAAA
37171829 ACAGAAAGACATA
66 ACAGAAAGACATA
37171842 AGTAGATAGAGTGATGAACTTTCTGACGATCCCCGAGCTTGAAGCTTGATCTTTAAGTCTATAAA
1 AGTAGATAGAGTGATGAACTTTCTGACGATCCCCGAGCTTGAAGCTTGATCTTTAAGTCTATAAA
37171907 ACAGAAAGACATA
66 ACAGAAAGACATA
37171920 A
1 A
37171921 ACAAATAAAG
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 79 1.00
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (78 bp):
AGTAGATAGAGTGATGAACTTTCTGACGATCCCCGAGCTTGAAGCTTGATCTTTAAGTCTATAAA
ACAGAAAGACATA
Found at i:37172738 original size:41 final size:41
Alignment explanation
Indices: 37172701--37172876 Score: 212
Period size: 41 Copynumber: 4.3 Consensus size: 41
37172691 ACCGGCAATT
* * *
37172701 AGCCTGCTAGACGTAAAGTCCAAAATATTTCAACGGCATTA
1 AGCCTGCTAGACGTAAAGTCCGAAATATTTCACCGGCATCA
* *
37172742 AGCCTGCTTGACGTAAA-TCTGAAATATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCCGAAATATTTCACCGGCATCA
* * * *
37172782 AGCCTGCTAGACATAAAGTTTC-AAATATTTCATCGACATCA
1 AGCCTGCTAGACGTAAAG-TCCGAAATATTTCACCGGCATCA
* * * *
37172823 AGCTTGCTAAACCTAAAGTCTGAAATATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCCGAAATATTTCACCGGCATCA
37172864 AGCCTGCTAGACG
1 AGCCTGCTAGACG
37172877 AGTCTGAATT
Statistics
Matches: 111, Mismatches: 21, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
40 35 0.32
41 75 0.68
42 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCCGAAATATTTCACCGGCATCA
Found at i:37172799 original size:81 final size:82
Alignment explanation
Indices: 37172701--37172875 Score: 246
Period size: 81 Copynumber: 2.1 Consensus size: 82
37172691 ACCGGCAATT
* * * ** *
37172701 AGCCTGCTAGACGTAAAG-TCCAAAATATTTCAACGGCATTAAGCCTGCTTGACGTAAA-TCTGA
1 AGCCTGCTAGACATAAAGTTCC-AAATATTTCAACGACATCAAGCCTGCTAAACCTAAAGTCTGA
37172764 AATATTTCACCGGCATCA
65 AATATTTCACCGGCATCA
* * *
37172782 AGCCTGCTAGACATAAAGTTTCAAATATTTCATCGACATCAAGCTTGCTAAACCTAAAGTCTGAA
1 AGCCTGCTAGACATAAAGTTCCAAATATTTCAACGACATCAAGCCTGCTAAACCTAAAGTCTGAA
37172847 ATATTTCACCGGCATCA
66 ATATTTCACCGGCATCA
37172864 AGCCTGCTAGAC
1 AGCCTGCTAGAC
37172876 GAGTCTGAAT
Statistics
Matches: 83, Mismatches: 9, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
81 46 0.55
82 37 0.45
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (82 bp):
AGCCTGCTAGACATAAAGTTCCAAATATTTCAACGACATCAAGCCTGCTAAACCTAAAGTCTGAA
ATATTTCACCGGCATCA
Found at i:37176187 original size:41 final size:41
Alignment explanation
Indices: 37176132--37176271 Score: 219
Period size: 41 Copynumber: 3.4 Consensus size: 41
37176122 CTATATGATT
*
37176132 GGCACTAAGTGTGCGAAATTAAATAATGATGTTGAATAACG
1 GGCACTAAGTGTGCGAAACTAAATAATGATGTTGAATAACG
*
37176173 GGCACTAAGTGTGCGAAACTAAGTAATGATGTTGAATAACG
1 GGCACTAAGTGTGCGAAACTAAATAATGATGTTGAATAACG
* * *
37176214 AGCACTAAGTGTGCGAAACCAAATAATTATGTT-AATAACG
1 GGCACTAAGTGTGCGAAACTAAATAATGATGTTGAATAACG
*
37176254 GGAACTAAGTGTGCGAAA
1 GGCACTAAGTGTGCGAAA
37176272 TCGAGATCAA
Statistics
Matches: 91, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
40 23 0.25
41 68 0.75
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.24
Consensus pattern (41 bp):
GGCACTAAGTGTGCGAAACTAAATAATGATGTTGAATAACG
Found at i:37181334 original size:41 final size:41
Alignment explanation
Indices: 37181285--37181423 Score: 226
Period size: 41 Copynumber: 3.4 Consensus size: 41
37181275 TATATGATTG
*
37181285 GCACTAAGTGTGCGAAATTAAATAATGATGTTGAATAACGA
1 GCACTAAGTGTGCGAAACTAAATAATGATGTTGAATAACGA
*
37181326 GCACTAAGTGTGCGAAACTAAGTAATGATGTTGAATAACGA
1 GCACTAAGTGTGCGAAACTAAATAATGATGTTGAATAACGA
* * *
37181367 GCACTAAGTGTGCGAAACCAAATAATTATGTT-AATAACGG
1 GCACTAAGTGTGCGAAACTAAATAATGATGTTGAATAACGA
37181407 GCACTAAGTGTGCGAAA
1 GCACTAAGTGTGCGAAA
37181424 TCGAGATCAA
Statistics
Matches: 92, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
40 24 0.26
41 68 0.74
ACGTcount: A:0.40, C:0.13, G:0.23, T:0.24
Consensus pattern (41 bp):
GCACTAAGTGTGCGAAACTAAATAATGATGTTGAATAACGA
Done.