Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 ID=Chr03-JGI_221_v2.0
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: 45765648
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 655849 characters in sequence are not A, C, G, or T
File 143 of 150
Found at i:43256393 original size:17 final size:18
Alignment explanation
Indices: 43256354--43256394 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
43256344 CCAAAATTAT
43256354 TATTTTAGAATATTTTTA
1 TATTTTAGAATATTTTTA
*
43256372 AATTTTA-AAT-TTCTTTA
1 TATTTTAGAATATT-TTTA
43256389 TATTTT
1 TATTTT
43256395 TTCAGATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 2 0.10
17 12 0.60
18 6 0.30
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (18 bp):
TATTTTAGAATATTTTTA
Found at i:43266701 original size:18 final size:18
Alignment explanation
Indices: 43266678--43266720 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
43266668 GAATATGTTT
43266678 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
*
43266696 TTAATTAAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
43266714 TTAATTA
1 TTAATTA
43266721 CACCTTAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:43267824 original size:28 final size:29
Alignment explanation
Indices: 43267788--43267853 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 29
43267778 AATTATGAAA
43267788 AAAACTTTTC-AAAATAAATAAAAAAACT-T
1 AAAA-TTTTCTAAAA-AAATAAAAAAACTAT
* * *
43267817 AAAATTTTCTTAAAAAATAAAATAATTAT
1 AAAATTTTCTAAAAAAATAAAAAAACTAT
43267846 AAAATTTT
1 AAAATTTT
43267854 TTATTATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 16 0.50
29 16 0.50
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (29 bp):
AAAATTTTCTAAAAAAATAAAAAAACTAT
Found at i:43268172 original size:9 final size:9
Alignment explanation
Indices: 43268155--43268208 Score: 60
Period size: 9 Copynumber: 6.2 Consensus size: 9
43268145 TAAAATTAAA
43268155 AATATTTTT
1 AATATTTTT
43268164 AATAATTTTT
1 AAT-ATTTTT
*
43268174 -ATACTTTT
1 AATATTTTT
43268182 --TATTTTT
1 AATATTTTT
43268189 AATATTTTT
1 AATATTTTT
*
43268198 AAAATTTTT
1 AATATTTTT
43268207 AA
1 AA
43268209 AATTAAAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
7 6 0.15
8 5 0.13
9 22 0.56
10 6 0.15
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (9 bp):
AATATTTTT
Found at i:43268195 original size:24 final size:25
Alignment explanation
Indices: 43268157--43268207 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
43268147 AAATTAAAAA
* *
43268157 TATTTTTAATAATTTTTATACTTTT
1 TATTTTTAATAATTTTTAAAATTTT
43268182 TATTTTTAAT-ATTTTTAAAATTTT
1 TATTTTTAATAATTTTTAAAATTTT
43268206 TA
1 TA
43268208 AAATTAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 14 0.58
25 10 0.42
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (25 bp):
TATTTTTAATAATTTTTAAAATTTT
Found at i:43269639 original size:17 final size:19
Alignment explanation
Indices: 43269599--43269633 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
43269589 AAAGTTTTAC
43269599 AAGATTGTTTGAATGGTAA
1 AAGATTGTTTGAATGGTAA
43269618 AAGATT-TTTG-ATGGTA
1 AAGATTGTTTGAATGGTA
43269634 CTAGATGATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 4 0.25
19 6 0.38
ACGTcount: A:0.34, C:0.00, G:0.26, T:0.40
Consensus pattern (19 bp):
AAGATTGTTTGAATGGTAA
Found at i:43276613 original size:2 final size:2
Alignment explanation
Indices: 43276608--43276648 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
43276598 TTGTATTTTT
*
43276608 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA GA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
43276649 TTTTGTATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:43278977 original size:2 final size:2
Alignment explanation
Indices: 43278970--43278998 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
43278960 ATTTAAGTTA
43278970 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
43278999 ACATAAGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:43279295 original size:15 final size:15
Alignment explanation
Indices: 43279275--43279321 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
43279265 TGGTTACTAG
*
43279275 TAATAATAAGGTTAA
1 TAATAATAAGGATAA
*
43279290 TAATAATAATGATAA
1 TAATAATAAGGATAA
* *
43279305 TAATAATGATGATAA
1 TAATAATAAGGATAA
43279320 TA
1 TA
43279322 TATTAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.55, C:0.00, G:0.11, T:0.34
Consensus pattern (15 bp):
TAATAATAAGGATAA
Found at i:43279304 original size:12 final size:12
Alignment explanation
Indices: 43279289--43279321 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
43279279 AATAAGGTTA
43279289 ATAATAATAATG
1 ATAATAATAATG
43279301 ATAATAATAATG
1 ATAATAATAATG
*
43279313 ATGATAATA
1 ATAATAATA
43279322 TATTAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (12 bp):
ATAATAATAATG
Found at i:43281165 original size:87 final size:87
Alignment explanation
Indices: 43281071--43281682 Score: 433
Period size: 87 Copynumber: 7.1 Consensus size: 87
43281061 TAATCTCAAG
* * * * *
43281071 GAGATAAGATCTGAAATTCTTCGGTCTGTTCCACTGTAACCTCAGGGAAATAAGACTTGACACGA
1 GAGATAAGATCTGAAATTCTTCAGTCTGCTCCACTGTAATCTCAGGGAGATAAGACTTGACGCGA
43281136 TCTACTCTGCTGTAACTTCAGA
66 TCTACTCTGCTGTAACTTCAGA
* * * * *
43281158 GAGATAAGATC-------CTTCAATCCGCTCCACTGTAATCTCAGGGAAATAGGATTACTAT-AT
1 GAGATAAGATCTGAAATTCTTCAGTCTGCTCCACTGTAATCTCAGGGAGATA--A-GACT-TGAC
** * * *
43281215 TTGATCTGCTCCGCTGTAA-TCTCAGG
62 GCGATCTACTCTGCTGTAACT-TCAGA
* * * *
43281241 GAGATAAGATCTG-CA--CTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGA
1 GAGATAAGATCTGAAATTCTTCAGTCTGCTCCACTGTAATCTCAGGGAGATAAGACTTGACGCGA
* *
43281303 TATACTCTACTGTAACTTCAGA
66 TCTACTCTGCTGTAACTTCAGA
** * * * * *
43281325 GAGATAAGATCCT-TTATT-TT-AATCCGCTCCACTGTAA-CTTCAGGGAGATAGGATTATGTCT
1 GAGATAAGAT-CTGAAATTCTTCAGTCTGCTCCACTGTAATC-TCAGGGAGATAAGACT-TGAC-
* * * * *
43281386 TCGATCTGCTCCGCTGTAACCTCAGG
62 GCGATCTACTCTGCTGTAACTTCAGA
* * * * **
43281412 GAGATAAGATCTGAAATTCTTCGGTCTGCTCCACTATAATCTCAAGGAGATAAGACCTGGTGCGA
1 GAGATAAGATCTGAAATTCTTCAGTCTGCTCCACTGTAATCTCAGGGAGATAAGACTTGACGCGA
*
43281477 TCTACTCTACTGTAACTTCAGA
66 TCTACTCTGCTGTAACTTCAGA
* * * * * * *
43281499 GAGATAAGATCCT--TATT-TT-AATCCGCTCCACTATAA-CTTCAGGGAGATAGGATTATGTCT
1 GAGATAAGAT-CTGAAATTCTTCAGTCTGCTCCACTGTAATC-TCAGGGAGATAAGACT-TGAC-
* * *
43281559 TCGATCTGCTCCGCTGTAA-TCTCA-A
62 GCGATCTACTCTGCTGTAACT-TCAGA
* * * *
43281584 GGAGATAAGATCTGAAAGTCTTCGGTCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGATGCG
1 -GAGATAAGATCTGAAATTCTTCAGTCTGCTCCACTGTAATCTCAGGGAGATAAGACTTGACGCG
*
43281649 ATCTACTCTACTGTAACTTCAGA
65 ATCTACTCTGCTGTAACTTCAGA
43281672 GAGATAAGATC
1 GAGATAAGATC
43281683 CTTTGTTTTA
Statistics
Matches: 406, Mismatches: 84, Indels: 70
0.73 0.15 0.12
Matches are distributed among these distances:
80 29 0.07
82 2 0.00
83 36 0.09
84 59 0.15
85 42 0.10
86 37 0.09
87 136 0.33
88 12 0.03
89 51 0.13
90 2 0.00
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (87 bp):
GAGATAAGATCTGAAATTCTTCAGTCTGCTCCACTGTAATCTCAGGGAGATAAGACTTGACGCGA
TCTACTCTGCTGTAACTTCAGA
Found at i:43281440 original size:46 final size:44
Alignment explanation
Indices: 43280999--43281770 Score: 400
Period size: 43 Copynumber: 18.0 Consensus size: 44
43280989 TAGGATAGTG
* * * * * *
43280999 TCTTTGATTTGCTCCGCTGTAATCTTAGGGAGATAA-ATCT-CT
1 TCTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAT
* * * * *
43281041 GGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAGATCTGAAAT
1 -TCTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTG--AT
* * *
43281088 TCTTCGGTCTGTTCCACTGTAACCTCAGGGAAATAAGA-CTTGA-
1 TCTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATC-TGAT
* * ** * *
43281131 -C-ACGATCTACTCTGCTGTAACTTCAGAGAGATAAGATC----
1 TCTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAT
* * * * *
43281169 -CTTCAATCCGCTCCACTGTAATCTCAGGGAAATAGGATTACT-AT
1 TCTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGA-T-CTGAT
* *
43281213 AT-TT-GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGCA-
1 -TCTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTG-AT
* * *
43281256 -CTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGA-
1 TCTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAT
* * * * * * *
43281298 --TGCGATATACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAT
1 TCTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGAT-C-TGAT
* * * *
43281342 T-TT-AATCCGCTCCACTGTAACTTCAGGGAGATAGGAT-T-AT
1 TCTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAT
*
43281382 GTCTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGAAAT
1 -TCTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTG--AT
* * * * *
43281429 TCTTCGGTCTGCTCCACTATAATCTCAAGGAGATAAGACCTG--
1 TCTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAT
* * * * * * *
43281471 -GTGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTAT
1 TCTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGAT-CTGAT
* * * * *
43281515 T-TT-AATCCGCTCCACTATAACTTCAGGGAGATAGGAT-T-AT
1 TCTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAT
* * * *
43281555 GTCTTCGATCTGCTCCGCTGTAATCTCAAGGAGATAAGATCTGAAAG
1 -TCTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTG--AT
* * *
43281602 TCTTCGGTCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGA-
1 TCTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAT
* * * * *
43281645 --TGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTG-T
1 TCTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGAT-C--TGAT
* * *
43281689 T-TT-AATCCGCTCCACTGTAACTTCAGGGAGAT--GAT-T-AT
1 TCTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAT
*
43281727 GTCTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGA
1 -TCTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGA
43281771 AAGTCTTCAT
Statistics
Matches: 553, Mismatches: 123, Indels: 104
0.71 0.16 0.13
Matches are distributed among these distances:
38 3 0.01
39 25 0.05
40 7 0.01
41 140 0.25
42 18 0.03
43 152 0.27
44 92 0.17
45 6 0.01
46 106 0.19
47 4 0.01
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (44 bp):
TCTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAT
Found at i:43281590 original size:173 final size:174
Alignment explanation
Indices: 43281009--43281778 Score: 1118
Period size: 173 Copynumber: 4.5 Consensus size: 174
43280999 TCTTTGATTT
* * * * * *
43281009 GCTCCGCTGTAATCTT-AGGGAGATA-AATCTCTGGCTTCAATCTGCTCCGCTGTAATCTCAAGG
1 GCTCCACTGTAA-CTTCAGGGAGATAGGAT-TATGTCTTCGATCTGCTCCGCTGTAATCTCAGGG
* * * * * **
43281072 AGATAAGATCTGAAATTCTTCGGTCTGTTCCACTGTAACCTCAGGGAAATAAGACTTGACACGAT
64 AGATAAGATCTGAAAGTCTTCGGTCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGAT
* *
43281137 CTACTCTGCTGTAACTTCAGAGAGATAAGATCC-----TTCAATCC
129 CTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCC
* * * *
43281178 GCTCCACTGTAA-TCTCAGGGAAATAGGATTACTATATTTGATCTGCTCCGCTGTAATCTCAGGG
1 GCTCCACTGTAACT-TCAGGGAGATAGGATTA-TGTCTTCGATCTGCTCCGCTGTAATCTCAGGG
* **
43281242 AGATAAGATCTG-CA--CTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGAT
64 AGATAAGATCTGAAAGTCTTCGGTCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGAT
*
43281304 ATACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCC
129 CTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCC
*
43281350 GCTCCACTGTAACTTCAGGGAGATAGGATTATGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAG
1 GCTCCACTGTAACTTCAGGGAGATAGGATTATGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAG
* * * *
43281415 ATAAGATCTGAAATTCTTCGGTCTGCTCCACTATAATCTCAAGGAGATAAGACCTGGTGCGATCT
66 ATAAGATCTGAAAGTCTTCGGTCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCT
43281480 ACTCTACTGTAACTTCAGAGAGATAAGATCC-TTATTTTAATCC
131 ACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCC
* *
43281523 GCTCCACTATAACTTCAGGGAGATAGGATTATGTCTTCGATCTGCTCCGCTGTAATCTCAAGGAG
1 GCTCCACTGTAACTTCAGGGAGATAGGATTATGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAG
43281588 ATAAGATCTGAAAGTCTTCGGTCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCT
66 ATAAGATCTGAAAGTCTTCGGTCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCT
*
43281653 ACTCTACTGTAACTTCAGAGAGATAAGATCCTTTGTTTTAATCC
131 ACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCC
*
43281697 GCTCCACTGTAACTTCAGGGAGAT--GATTATGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAG
1 GCTCCACTGTAACTTCAGGGAGATAGGATTATGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAG
43281760 ATAAGATCTGAAAGTCTTC
66 ATAAGATCTGAAAGTCTTC
43281779 ATTGATCTGT
Statistics
Matches: 542, Mismatches: 45, Indels: 25
0.89 0.07 0.04
Matches are distributed among these distances:
167 72 0.13
168 1 0.00
169 21 0.04
170 40 0.07
171 40 0.07
172 92 0.17
173 167 0.31
174 109 0.20
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (174 bp):
GCTCCACTGTAACTTCAGGGAGATAGGATTATGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAG
ATAAGATCTGAAAGTCTTCGGTCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCT
ACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCC
Found at i:43283908 original size:21 final size:20
Alignment explanation
Indices: 43283878--43283917 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
43283868 TGACCTCTCC
*
43283878 TTTTTCTTTTTCTTTTTCTT
1 TTTTTCTTTTTCATTTTCTT
43283898 TTTTTCATTTTTCATTTTCT
1 TTTTTC-TTTTTCATTTTCT
43283918 CCTATTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTTTCTTTTTCATTTTCTT
Found at i:43288312 original size:2 final size:2
Alignment explanation
Indices: 43288305--43288333 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
43288295 ATTTAAGTTA
43288305 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
43288334 ACATAAGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:43288630 original size:15 final size:15
Alignment explanation
Indices: 43288610--43288656 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
43288600 TGGTTACTAG
*
43288610 TAATAATAAGGTTAA
1 TAATAATAAGGATAA
*
43288625 TAATAATAATGATAA
1 TAATAATAAGGATAA
* *
43288640 TAATAATGATGATAA
1 TAATAATAAGGATAA
43288655 TA
1 TA
43288657 TATTAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.55, C:0.00, G:0.11, T:0.34
Consensus pattern (15 bp):
TAATAATAAGGATAA
Found at i:43288639 original size:12 final size:12
Alignment explanation
Indices: 43288624--43288656 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
43288614 AATAAGGTTA
43288624 ATAATAATAATG
1 ATAATAATAATG
43288636 ATAATAATAATG
1 ATAATAATAATG
*
43288648 ATGATAATA
1 ATAATAATA
43288657 TATTAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (12 bp):
ATAATAATAATG
Found at i:43293873 original size:38 final size:38
Alignment explanation
Indices: 43293778--43293879 Score: 105
Period size: 38 Copynumber: 2.7 Consensus size: 38
43293768 ATTGAATAAA
* * *
43293778 TCAACACTAGCAGTAATCATGCTTAACATGCATTCAGT
1 TCAACACTAGCAGTAAACATGATTTACATGCATTCAGT
** * * * *
43293816 TCATTACTAGCAATTAACATGATTTACGTGTATTCAGT
1 TCAACACTAGCAGTAAACATGATTTACATGCATTCAGT
* *
43293854 TCAACACAAGCAGTAAACATGTTTTA
1 TCAACACTAGCAGTAAACATGATTTA
43293880 ACAAGTATTC
Statistics
Matches: 49, Mismatches: 15, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
38 49 1.00
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.32
Consensus pattern (38 bp):
TCAACACTAGCAGTAAACATGATTTACATGCATTCAGT
Found at i:43296215 original size:5 final size:5
Alignment explanation
Indices: 43296205--43296239 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
43296195 TAGAATATGT
* *
43296205 TTTTA TTTTA TTGTA TTATA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
43296240 AAACAGATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (5 bp):
TTTTA
Found at i:43297887 original size:14 final size:14
Alignment explanation
Indices: 43297868--43297899 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
43297858 TCTTGCTTCA
43297868 GTTTTGCAAATTCT
1 GTTTTGCAAATTCT
*
43297882 GTTTTGCAACTTCT
1 GTTTTGCAAATTCT
43297896 GTTT
1 GTTT
43297900 CTTTTTGCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.53
Consensus pattern (14 bp):
GTTTTGCAAATTCT
Found at i:43312740 original size:15 final size:16
Alignment explanation
Indices: 43312712--43312741 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
43312702 TAAATTCATA
43312712 TAAGAATATTTATTAT
1 TAAGAATATTTATTAT
43312728 TAAGAAT-TTTATTA
1 TAAGAATATTTATTA
43312742 AATTATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (16 bp):
TAAGAATATTTATTAT
Found at i:43312761 original size:18 final size:17
Alignment explanation
Indices: 43312733--43312767 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
43312723 ATTATTAAGA
*
43312733 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
43312750 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
43312768 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:43312968 original size:39 final size:44
Alignment explanation
Indices: 43312914--43313019 Score: 123
Period size: 39 Copynumber: 2.5 Consensus size: 44
43312904 TTTTCTTATG
* *
43312914 CTATTACACCTCTATTCCATT-CA-A-CCAAACACAAGAA-TA-
1 CTATTACGCCTCTATTCCATTCCATAGCCAAACAAAAGAATTAC
*
43312953 CTATTATGCCTCTATTCCATTCCATTCAGCCAAACAAAAGAATTAC
1 CTATTACGCCTCTATTCCATTCCA-T-AGCCAAACAAAAGAATTAC
*
43312999 CTATTACGCCTCTATTTCATT
1 CTATTACGCCTCTATTCCATT
43313020 ACACCTCTAT
Statistics
Matches: 55, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
39 19 0.35
40 2 0.04
43 1 0.02
44 12 0.22
45 2 0.04
46 19 0.35
ACGTcount: A:0.34, C:0.29, G:0.05, T:0.32
Consensus pattern (44 bp):
CTATTACGCCTCTATTCCATTCCATAGCCAAACAAAAGAATTAC
Found at i:43312976 original size:44 final size:46
Alignment explanation
Indices: 43312927--43313019 Score: 136
Period size: 44 Copynumber: 2.1 Consensus size: 46
43312917 TTACACCTCT
* *
43312927 ATTCCATTCAACCAAACACAAGAA-TA-CTATTATGCCTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
* *
43312971 ATTCCATTCAGCCAAACAAAAGAATTACCTATTACGCCTCTATTTC
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
43313017 ATT
1 ATT
43313020 ACACCTCTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 22 0.51
45 2 0.05
46 19 0.44
ACGTcount: A:0.35, C:0.28, G:0.05, T:0.31
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
Found at i:43313026 original size:16 final size:16
Alignment explanation
Indices: 43313001--43313038 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
43312991 AGAATTACCT
* *
43313001 ATTACGCCTCTATTTC
1 ATTACACCTCTATTCC
43313017 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
43313033 ATTACA
1 ATTACA
43313039 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.26, C:0.32, G:0.03, T:0.39
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:43316950 original size:5 final size:5
Alignment explanation
Indices: 43316919--43317026 Score: 52
Period size: 5 Copynumber: 22.4 Consensus size: 5
43316909 TGATTGATTT
* * * * *
43316919 AATTT AATTA AAGTA AA-TA CAAATA AATTAA AATTG AATATA TATTA
1 AATTA AATTA AATTA AATTA -AATTA AATT-A AATTA AAT-TA AATTA
* * *
43316966 AA-T- AATTA AATT- CA-TA AATTT GATT- AATTA AATTA AATTA AATTA
1 AATTA AATTA AATTA AATTA AATTA AATTA AATTA AATTA AATTA AATTA
43317011 AATATA AA--A AATTA AA
1 AAT-TA AATTA AATTA AA
43317027 AGTGAAGGTA
Statistics
Matches: 79, Mismatches: 12, Indels: 24
0.69 0.10 0.21
Matches are distributed among these distances:
3 6 0.08
4 9 0.11
5 50 0.63
6 14 0.18
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (5 bp):
AATTA
Found at i:43316985 original size:32 final size:30
Alignment explanation
Indices: 43316942--43317012 Score: 76
Period size: 30 Copynumber: 2.3 Consensus size: 30
43316932 TAAATACAAA
43316942 TAAATTAAAA-TTGAATATATATTAAA-T-AAT
1 TAAATTAAAATTTG-AT-TA-ATTAAATTAAAT
43316972 TAAATTCATAAATTTGATTAATTAAATTAAAT
1 TAAATT-A-AAATTTGATTAATTAAATTAAAT
43317004 TAAATTAAA
1 TAAATTAAA
43317013 TATAAAAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
30 14 0.39
31 5 0.14
32 14 0.39
33 3 0.08
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (30 bp):
TAAATTAAAATTTGATTAATTAAATTAAAT
Found at i:43320059 original size:72 final size:72
Alignment explanation
Indices: 43319937--43320091 Score: 222
Period size: 72 Copynumber: 2.2 Consensus size: 72
43319927 AACGTGGTTC
* * *
43319937 CAACATCTCACATCACTCCGAAGTCTTAAAATTGATGATTGCCCAAAGCTGTCGTTTCTACCTGA
1 CAACACCTCACATCACTCCAAAGTCTTAAAATTGATGATTGCCCAAAGCTGTCGTTTCTACCCGA
43320002 A-GAGATG
66 AGGA-ATG
* * * * *
43320009 CAACACCTCACATCCCTTCAAAGTCTTGAAATTGATGATTGCCCAGAGCTGTCGTTTCTGCCCGA
1 CAACACCTCACATCACTCCAAAGTCTTAAAATTGATGATTGCCCAAAGCTGTCGTTTCTACCCGA
43320074 AGGAATG
66 AGGAATG
43320081 CAACACCTCAC
1 CAACACCTCAC
43320092 TGCACTCAAA
Statistics
Matches: 74, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
72 72 0.97
73 2 0.03
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (72 bp):
CAACACCTCACATCACTCCAAAGTCTTAAAATTGATGATTGCCCAAAGCTGTCGTTTCTACCCGA
AGGAATG
Found at i:43320115 original size:72 final size:72
Alignment explanation
Indices: 43319937--43320115 Score: 204
Period size: 72 Copynumber: 2.5 Consensus size: 72
43319927 AACGTGGTTC
* * * * *
43319937 CAACATCTCACATCACTCCGAAGTCTTAAAATTGATGATTGCCCAAAGCTGTCGTTTCTACCTGA
1 CAACACCTCACATCACTTCAAAGTATTAAAATTGATGATTGCCCAAAGCTGTCGTTTCTACCCGA
43320002 AGAGATG
66 AGAGATG
* * * * *
43320009 CAACACCTCACATCCCTTCAAAGTCTTGAAATTGATGATTGCCCAGAGCTGTCGTTTCTGCCCGA
1 CAACACCTCACATCACTTCAAAGTATTAAAATTGATGATTGCCCAAAGCTGTCGTTTCTACCCGA
43320074 AG-GAATG
66 AGAG-ATG
43320081 CAACACCTCAC-TGCAC-TCAAAAG-ATTAAAGATTGA
1 CAACACCTCACAT-CACTTC-AAAGTATTAAA-ATTGA
43320116 AGGGTGTCCA
Statistics
Matches: 92, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
71 8 0.09
72 84 0.91
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (72 bp):
CAACACCTCACATCACTTCAAAGTATTAAAATTGATGATTGCCCAAAGCTGTCGTTTCTACCCGA
AGAGATG
Found at i:43334855 original size:16 final size:15
Alignment explanation
Indices: 43334826--43334869 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
43334816 AAATTAGAGA
43334826 ATTCTATTAAATTTT
1 ATTCTATTAAATTTT
* *
43334841 ATTCTTATTATATTTA
1 ATTC-TATTAAATTTT
43334857 ATTTCTATTAAAT
1 A-TTCTATTAAAT
43334870 CCATTTATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
15 4 0.17
16 17 0.71
17 3 0.12
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (15 bp):
ATTCTATTAAATTTT
Found at i:43336258 original size:2 final size:2
Alignment explanation
Indices: 43336251--43336284 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
43336241 ACTTGTACTG
43336251 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
43336285 AACAGCCACC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:43347671 original size:2 final size:2
Alignment explanation
Indices: 43347664--43347707 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
43347654 ACTTGTACTG
43347664 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
43347705 AT A
1 AT A
43347708 AACAGCCACC
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:43347949 original size:21 final size:21
Alignment explanation
Indices: 43347924--43347988 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
43347914 ATCTTCAAGG
43347924 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
*
43347945 ATATGCAATTTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
* *
43347966 ATATACAATCTTATATATGAT
1 ATATGCAATCTTAGATATGAT
43347987 AT
1 AT
43347989 GCAATATTAG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.42
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:43348270 original size:23 final size:23
Alignment explanation
Indices: 43348226--43348270 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
43348216 TCTTATTTTG
* *
43348226 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
43348249 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
43348271 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:43360335 original size:20 final size:19
Alignment explanation
Indices: 43360287--43360341 Score: 58
Period size: 21 Copynumber: 2.8 Consensus size: 19
43360277 TTCATGTTTT
* *
43360287 TTTTTTAACT-TTGTTATA
1 TTTTTTAAATATTTTTATA
43360305 TTTTTTAAAATATTTTTATAA
1 TTTTTT-AAATATTTTTAT-A
43360326 TTTTTTAAATGATTTT
1 TTTTTTAAAT-ATTTT
43360342 GTGACGTGAC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 6 0.19
19 3 0.10
20 10 0.32
21 12 0.39
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (19 bp):
TTTTTTAAATATTTTTATA
Found at i:43368393 original size:20 final size:20
Alignment explanation
Indices: 43368368--43368407 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
43368358 AATATTTTCT
*
43368368 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
43368388 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
43368408 TCATTTTAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:43368410 original size:34 final size:35
Alignment explanation
Indices: 43368356--43368422 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
43368346 TAAACACCAG
* *
43368356 AAAATATTTTCTAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
43368391 AAAACATTTTCCAG-AAATCATTTTAGAGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
43368423 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.48, C:0.10, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:43370141 original size:13 final size:13
Alignment explanation
Indices: 43370123--43370150 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
43370113 TTGCATAAAA
43370123 TTCAAAATATCTT
1 TTCAAAATATCTT
43370136 TTCAAAATATCTT
1 TTCAAAATATCTT
43370149 TT
1 TT
43370151 GTTGTAGAAT
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:0.36, C:0.14, G:0.00, T:0.50
Consensus pattern (13 bp):
TTCAAAATATCTT
Found at i:43378527 original size:2 final size:2
Alignment explanation
Indices: 43378520--43378565 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
43378510 AAAGGTACAT
* *
43378520 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA CA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
43378562 TA TA
1 TA TA
43378566 AGAAAAATTC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:43380500 original size:28 final size:29
Alignment explanation
Indices: 43380442--43380500 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 29
43380432 GATCATAACA
* * *
43380442 ATTATAAATATTAAAATTGATATAAACTT
1 ATTATAAATAATAAAATTGATAAAAAATT
43380471 ATTA-AAATAATAAGAATT-ATAAAAAATT
1 ATTATAAATAATAA-AATTGATAAAAAATT
43380499 AT
1 AT
43380501 AAAGATTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
28 18 0.69
29 8 0.31
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (29 bp):
ATTATAAATAATAAAATTGATAAAAAATT
Found at i:43381126 original size:19 final size:19
Alignment explanation
Indices: 43381104--43381147 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
43381094 TTTTTATAGA
*
43381104 AATTTAAT-ATGTTTTTATT
1 AATTTAATAAT-TTTTTAAT
*
43381123 AATTTTATAATTTTTTAAT
1 AATTTAATAATTTTTTAAT
43381142 AATTTA
1 AATTTA
43381148 TTAGAATTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (19 bp):
AATTTAATAATTTTTTAAT
Found at i:43392744 original size:31 final size:31
Alignment explanation
Indices: 43392705--43392794 Score: 114
Period size: 31 Copynumber: 3.0 Consensus size: 31
43392695 AAAAAAACTT
43392705 AATA-TTTAGTGACTTAAATAAAAACTTTTG
1 AATAGTTTAGTGACTTAAATAAAAACTTTTG
*
43392735 AATAGTTTAGT-AGCTTAAATGAAAACTTTTG
1 AATAGTTTAGTGA-CTTAAATAAAAACTTTTG
* * *
43392766 AATAGTTCAGTGAC-TAAATTATAACTTTT
1 AATAGTTTAGTGACTTAAATAAAAACTTTT
43392795 TTTAGTTAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
30 18 0.34
31 34 0.64
32 1 0.02
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (31 bp):
AATAGTTTAGTGACTTAAATAAAAACTTTTG
Found at i:43396476 original size:11 final size:11
Alignment explanation
Indices: 43396440--43396501 Score: 72
Period size: 11 Copynumber: 5.5 Consensus size: 11
43396430 CATATATACA
43396440 AATTTTTATTT
1 AATTTTTATTT
*
43396451 ATATTTTTCTATT
1 A-ATTTTTAT-TT
43396464 AATTTTTATTT
1 AATTTTTATTT
*
43396475 AAATTTTATTT
1 AATTTTTATTT
*
43396486 AAATTTTATTT
1 AATTTTTATTT
43396497 -ATTTT
1 AATTTT
43396502 CCAATTTTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
10 4 0.09
11 24 0.53
12 14 0.31
13 3 0.07
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (11 bp):
AATTTTTATTT
Found at i:43398828 original size:21 final size:21
Alignment explanation
Indices: 43398804--43398843 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
43398794 AACTTTTTTT
*
43398804 TTATTTACCAATATATATATA
1 TTATTTACCAAAATATATATA
43398825 TTATTTACCAAAATATATA
1 TTATTTACCAAAATATATA
43398844 AAAAAACAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (21 bp):
TTATTTACCAAAATATATATA
Found at i:43398853 original size:17 final size:17
Alignment explanation
Indices: 43398833--43398884 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
43398823 TATTATTTAC
* *
43398833 CAAAATATATAAAAAAA
1 CAAAAAATAAAAAAAAA
43398850 CAAAAAATAAAAAAAAA
1 CAAAAAATAAAAAAAAA
*
43398867 TAAAAACA-AAAAAAAAA
1 CAAAAA-ATAAAAAAAAA
43398884 C
1 C
43398885 CTGGACTGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
17 29 0.97
18 1 0.03
ACGTcount: A:0.83, C:0.08, G:0.00, T:0.10
Consensus pattern (17 bp):
CAAAAAATAAAAAAAAA
Found at i:43398859 original size:15 final size:16
Alignment explanation
Indices: 43398841--43398882 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
43398831 ACCAAAATAT
*
43398841 ATAAAAAAACA-AAAA
1 ATAAAAAAAAATAAAA
43398856 ATAAAAAAAAATAAAA
1 ATAAAAAAAAATAAAA
*
43398872 ACAAAAAAAAA
1 ATAAAAAAAAA
43398883 ACCTGGACTG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.88, C:0.05, G:0.00, T:0.07
Consensus pattern (16 bp):
ATAAAAAAAAATAAAA
Found at i:43398951 original size:27 final size:27
Alignment explanation
Indices: 43398913--43398989 Score: 127
Period size: 27 Copynumber: 2.9 Consensus size: 27
43398903 TCCTTGGTGG
*
43398913 AGGGAACACTGTTGGCGGCACCAAACA
1 AGGGAACCCTGTTGGCGGCACCAAACA
43398940 AGGGAACCCTGTTGGCGGCACCAAACA
1 AGGGAACCCTGTTGGCGGCACCAAACA
**
43398967 AGGGTTCCCTGTTGGCGGCACCA
1 AGGGAACCCTGTTGGCGGCACCA
43398990 CCCGTTTTTA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.26, C:0.29, G:0.31, T:0.14
Consensus pattern (27 bp):
AGGGAACCCTGTTGGCGGCACCAAACA
Found at i:43399074 original size:19 final size:18
Alignment explanation
Indices: 43399034--43399084 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
43399024 AAAATATATA
**
43399034 TAATATTTTGGTATTTTT
1 TAATATTTTATTATTTTT
43399052 TAATATTTTATTATTTTT
1 TAATATTTTATTATTTTT
*
43399070 GTAATGTTTTATTAT
1 -TAATATTTTATTAT
43399085 GGGTTTTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 16 0.55
19 13 0.45
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (18 bp):
TAATATTTTATTATTTTT
Found at i:43399104 original size:17 final size:17
Alignment explanation
Indices: 43399082--43399115 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
43399072 AATGTTTTAT
43399082 TATGGGTTTTATAAAAA
1 TATGGGTTTTATAAAAA
43399099 TATGGGTTTTATAAAAA
1 TATGGGTTTTATAAAAA
43399116 AATAAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (17 bp):
TATGGGTTTTATAAAAA
Found at i:43399174 original size:28 final size:28
Alignment explanation
Indices: 43399125--43399193 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
43399115 AAATAAAAAA
43399125 TTACCAAAATAT-TATAACTTTTTTTAT
1 TTACCAAAATATATATAACTTTTTTTAT
* *
43399152 TTACCAAAAAATATATAATTTTTTTTAT
1 TTACCAAAATATATATAACTTTTTTTAT
*
43399180 TTATCAAAATATAT
1 TTACCAAAATATAT
43399194 CAAAAAAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 11 0.30
28 26 0.70
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.49
Consensus pattern (28 bp):
TTACCAAAATATATATAACTTTTTTTAT
Found at i:43399217 original size:19 final size:20
Alignment explanation
Indices: 43399195--43399239 Score: 67
Period size: 18 Copynumber: 2.4 Consensus size: 20
43399185 AAAATATATC
*
43399195 AAAAAAATTAAAA-AAACA-
1 AAAAAAAATAAAAGAAACAG
43399213 AAAAAAAATAAAAGAAACAG
1 AAAAAAAATAAAAGAAACAG
43399233 AAAAAAA
1 AAAAAAA
43399240 CACACTAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 12 0.50
19 5 0.21
20 7 0.29
ACGTcount: A:0.84, C:0.04, G:0.04, T:0.07
Consensus pattern (20 bp):
AAAAAAAATAAAAGAAACAG
Found at i:43399938 original size:27 final size:29
Alignment explanation
Indices: 43399908--43399976 Score: 108
Period size: 28 Copynumber: 2.5 Consensus size: 29
43399898 CTTTTTTTTG
43399908 ATATATTTTGGTAAAT-AAAAAAA-TTAT
1 ATATATTTTGGTAAATAAAAAAAAGTTAT
*
43399935 ATATTTTTTGGTAAATAAAAAAAAGTTAT
1 ATATATTTTGGTAAATAAAAAAAAGTTAT
43399964 A-ATATTTTGGTAA
1 ATATATTTTGGTAA
43399977 TTTTTTATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 15 0.39
28 18 0.47
29 5 0.13
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (29 bp):
ATATATTTTGGTAAATAAAAAAAAGTTAT
Found at i:43400024 original size:19 final size:18
Alignment explanation
Indices: 43400000--43400039 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
43399990 TATAAAACCC
43400000 ATAATAAAACATTACAAAA
1 ATAATAAAACATTA-AAAA
*
43400019 ATAATAAAATATTAAAAA
1 ATAATAAAACATTAAAAA
43400037 ATA
1 ATA
43400040 CCAAAATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (18 bp):
ATAATAAAACATTAAAAA
Found at i:43400038 original size:18 final size:19
Alignment explanation
Indices: 43400000--43400050 Score: 68
Period size: 18 Copynumber: 2.7 Consensus size: 19
43399990 TATAAAACCC
*
43400000 ATAATAAAACATTACAAAA
1 ATAATAAAATATTACAAAA
43400019 ATAATAAAATATTA-AAAA
1 ATAATAAAATATTACAAAA
**
43400037 ATACCAAAATATTA
1 ATAATAAAATATTA
43400051 TATATATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 16 0.55
19 13 0.45
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.25
Consensus pattern (19 bp):
ATAATAAAATATTACAAAA
Found at i:43400168 original size:27 final size:27
Alignment explanation
Indices: 43400095--43400171 Score: 127
Period size: 27 Copynumber: 2.9 Consensus size: 27
43400085 TAAAAACGGG
**
43400095 TGGTGCCGCCAACAGGGAACCCTTGTT
1 TGGTGCCGCCAACAGGGTTCCCTTGTT
43400122 TGGTGCCGCCAACAGGGTTCCCTTGTT
1 TGGTGCCGCCAACAGGGTTCCCTTGTT
*
43400149 TGGTGCCGCCAACAGTGTTCCCT
1 TGGTGCCGCCAACAGGGTTCCCT
43400172 CCACCAAGGA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.14, C:0.31, G:0.29, T:0.26
Consensus pattern (27 bp):
TGGTGCCGCCAACAGGGTTCCCTTGTT
Found at i:43400206 original size:1 final size:1
Alignment explanation
Indices: 43400200--43400242 Score: 50
Period size: 1 Copynumber: 43.0 Consensus size: 1
43400190 ATCAGTCTAG
* * * *
43400200 TTTTTTTTTTGTTTTTTATTTTTTTTGTTTTTTTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
43400243 GATATATTTT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.02, C:0.00, G:0.07, T:0.91
Consensus pattern (1 bp):
T
Found at i:43400216 original size:8 final size:8
Alignment explanation
Indices: 43400203--43400241 Score: 62
Period size: 8 Copynumber: 4.9 Consensus size: 8
43400193 AGTCTAGTTT
43400203 TTTTTTTG
1 TTTTTTTG
43400211 TTTTTTAT-
1 TTTTTT-TG
43400219 TTTTTTTG
1 TTTTTTTG
43400227 TTTTTTTG
1 TTTTTTTG
43400235 TTTTTTT
1 TTTTTTT
43400242 TGATATATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 1 0.03
8 27 0.93
9 1 0.03
ACGTcount: A:0.03, C:0.00, G:0.08, T:0.90
Consensus pattern (8 bp):
TTTTTTTG
Found at i:43400223 original size:16 final size:17
Alignment explanation
Indices: 43400202--43400243 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
43400192 CAGTCTAGTT
43400202 TTTTTTTTG-TTTTTTA
1 TTTTTTTTGTTTTTTTA
*
43400218 TTTTTTTTGTTTTTTTG
1 TTTTTTTTGTTTTTTTA
43400235 TTTTTTTTG
1 TTTTTTTTG
43400244 ATATATTTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 9 0.38
17 15 0.62
ACGTcount: A:0.02, C:0.00, G:0.10, T:0.88
Consensus pattern (17 bp):
TTTTTTTTGTTTTTTTA
Found at i:43400223 original size:17 final size:16
Alignment explanation
Indices: 43400200--43400243 Score: 70
Period size: 16 Copynumber: 2.7 Consensus size: 16
43400190 ATCAGTCTAG
43400200 TTTTTTTTTTGTTTTT
1 TTTTTTTTTTGTTTTT
*
43400216 TATTTTTTTTGTTTTT
1 TTTTTTTTTTGTTTTT
43400232 TTGTTTTTTTTG
1 TT-TTTTTTTTG
43400244 ATATATTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 16 0.64
17 9 0.36
ACGTcount: A:0.02, C:0.00, G:0.09, T:0.89
Consensus pattern (16 bp):
TTTTTTTTTTGTTTTT
Found at i:43400252 original size:27 final size:27
Alignment explanation
Indices: 43400199--43400253 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
43400189 AATCAGTCTA
* * *
43400199 GTTTTTTTTTTGTTTTTTATTTTTTTT
1 GTTTTTTTTTTGTTTTTGATATATTTT
43400226 GTTTTTTTGTTT-TTTTTGATATATTTT
1 GTTTTTTT-TTTGTTTTTGATATATTTT
43400253 G
1 G
43400254 GTAAATAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 21 0.88
28 3 0.12
ACGTcount: A:0.07, C:0.00, G:0.11, T:0.82
Consensus pattern (27 bp):
GTTTTTTTTTTGTTTTTGATATATTTT
Found at i:43400275 original size:28 final size:29
Alignment explanation
Indices: 43400244--43400312 Score: 97
Period size: 28 Copynumber: 2.4 Consensus size: 29
43400234 GTTTTTTTTG
*
43400244 ATATATTTTGGTAAAT-AAAAAAATTTAT
1 ATATATTTTGGTAAATAAAAAAAAGTTAT
*
43400272 ATATATTTTGATAAATAAAAAAAAGTTAT
1 ATATATTTTGGTAAATAAAAAAAAGTTAT
*
43400301 A-ACATTTTGGTA
1 ATATATTTTGGTA
43400313 TTTTTTTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
28 24 0.67
29 12 0.33
ACGTcount: A:0.49, C:0.01, G:0.09, T:0.41
Consensus pattern (29 bp):
ATATATTTTGGTAAATAAAAAAAAGTTAT
Found at i:43403721 original size:33 final size:33
Alignment explanation
Indices: 43403657--43403722 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
43403647 CAGACAATTT
* * *
43403657 AACAAAGATACCAGCATCTTAGTTTCGAGTAAC
1 AACAAAGATACCAACATCTGAGTTTCCAGTAAC
43403690 AACAAAGATACCAACATCCTGA-TTTCCAGTAAC
1 AACAAAGATACCAACAT-CTGAGTTTCCAGTAAC
43403723 CAAGGTATGG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 26 0.90
34 3 0.10
ACGTcount: A:0.41, C:0.24, G:0.12, T:0.23
Consensus pattern (33 bp):
AACAAAGATACCAACATCTGAGTTTCCAGTAAC
Found at i:43405012 original size:29 final size:29
Alignment explanation
Indices: 43404952--43405016 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
43404942 AAATTTTAAA
* ** * *
43404952 TTAATAATGATAAAATTTTGTTTTGATTCT
1 TTAA-AATGATAAAAATTTAATTTAATCCT
43404982 TTAAAATGATAAAAATTTAATTTAATCCT
1 TTAAAATGATAAAAATTTAATTTAATCCT
43405011 TTAAAA
1 TTAAAA
43405017 ATATTAAGAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 26 0.87
30 4 0.13
ACGTcount: A:0.43, C:0.05, G:0.06, T:0.46
Consensus pattern (29 bp):
TTAAAATGATAAAAATTTAATTTAATCCT
Found at i:43405898 original size:27 final size:28
Alignment explanation
Indices: 43405848--43405916 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
43405838 AAATAAAAAA
*
43405848 TTACCAAAATGT-TATAACTTTTTTTTAT
1 TTACCAAAATATATATAAC-TTTTTTTAT
43405876 TTACCAAAATATATATAA-TTTTTTTAT
1 TTACCAAAATATATATAACTTTTTTTAT
43405903 TTACCAAAATATAT
1 TTACCAAAATATAT
43405917 CAAAAAAACT
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 23 0.59
28 11 0.28
29 5 0.13
ACGTcount: A:0.39, C:0.10, G:0.01, T:0.49
Consensus pattern (28 bp):
TTACCAAAATATATATAACTTTTTTTAT
Found at i:43406024 original size:27 final size:27
Alignment explanation
Indices: 43405986--43406059 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
43405976 TGGGTGGAGG
* *
43405986 GAAGCAGATTGGCAGCACCAAACAAGA
1 GAAGCAGGTTGGCGGCACCAAACAAGA
** * *
43406013 GAAGCAGGTTGGCGGCACCAGTCGAGG
1 GAAGCAGGTTGGCGGCACCAAACAAGA
*
43406040 GAACCAGGTTGGCGGCACCA
1 GAAGCAGGTTGGCGGCACCA
43406060 GTCCTGCCAA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.31, C:0.24, G:0.35, T:0.09
Consensus pattern (27 bp):
GAAGCAGGTTGGCGGCACCAAACAAGA
Found at i:43406078 original size:27 final size:27
Alignment explanation
Indices: 43406021--43406084 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 27
43406011 GAGAAGCAGG
* ** *
43406021 TTGGCGGCACCAGTCGAGGGAACCAGG
1 TTGGCGGCACCAGTCCAGCCAACCAGA
* *
43406048 TTGGCGGCACCAGTCCTGCCAACTAGA
1 TTGGCGGCACCAGTCCAGCCAACCAGA
43406075 TTGGCGGCAC
1 TTGGCGGCAC
43406085 TACTCGTGTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.20, C:0.30, G:0.34, T:0.16
Consensus pattern (27 bp):
TTGGCGGCACCAGTCCAGCCAACCAGA
Found at i:43406442 original size:3 final size:3
Alignment explanation
Indices: 43406368--43406423 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
43406358 AATTATATAG
43406368 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
43406416 TAT TAT TA
1 TAT TAT TA
43406424 GTAAAAAACT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:43407253 original size:21 final size:21
Alignment explanation
Indices: 43407229--43407277 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
43407219 TCCCGATGTG
43407229 GACGATGTACCTGATGATATC
1 GACGATGTACCTGATGATATC
43407250 GACGATGTACCTGATGATATC
1 GACGATGTACCTGATGATATC
43407271 GACGATG
1 GACGATG
43407278 AAGACATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (21 bp):
GACGATGTACCTGATGATATC
Found at i:43411671 original size:17 final size:18
Alignment explanation
Indices: 43411633--43411674 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
43411623 TTTAGTGTGT
43411633 TTTTTTTCTGTTTTTTTA
1 TTTTTTTCTGTTTTTTTA
43411651 TTTTTTT-TG-TTTTTTA
1 TTTTTTTCTGTTTTTTTA
43411667 CTTTTTTT
1 -TTTTTTT
43411675 GATATATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.30
17 9 0.39
18 7 0.30
ACGTcount: A:0.05, C:0.05, G:0.05, T:0.86
Consensus pattern (18 bp):
TTTTTTTCTGTTTTTTTA
Found at i:43411708 original size:28 final size:29
Alignment explanation
Indices: 43411676--43411745 Score: 117
Period size: 28 Copynumber: 2.5 Consensus size: 29
43411666 ACTTTTTTTG
43411676 ATATATTTTGGTAAATAAAAAAAA-TTAT
1 ATATATTTTGGTAAATAAAAAAAAGTTAT
*
43411704 ATATATTTTGGTAGATAAAAAAAAGTTAT
1 ATATATTTTGGTAAATAAAAAAAAGTTAT
43411733 A-ATATTTTGGTAA
1 ATATATTTTGGTAA
43411746 TTTTTTATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 34 0.87
29 5 0.13
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (29 bp):
ATATATTTTGGTAAATAAAAAAAAGTTAT
Found at i:43411768 original size:13 final size:13
Alignment explanation
Indices: 43411750--43411774 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43411740 TGGTAATTTT
43411750 TTATTTTTTTATG
1 TTATTTTTTTATG
43411763 TTATTTTTTTAT
1 TTATTTTTTTAT
43411775 AAACCCATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.04, T:0.80
Consensus pattern (13 bp):
TTATTTTTTTATG
Found at i:43412634 original size:24 final size:24
Alignment explanation
Indices: 43412607--43412654 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
43412597 TTTTCCTTGC
*
43412607 TTTTTCTTCTTCTTCTTTCATTTTT
1 TTTTTC-TCTTCTCCTTTCATTTTT
*
43412632 TTTTTCTCTTCTCCTTTCCTTTT
1 TTTTTCTCTTCTCCTTTCATTTT
43412655 CTTTCCTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.02, C:0.25, G:0.00, T:0.73
Consensus pattern (24 bp):
TTTTTCTCTTCTCCTTTCATTTTT
Found at i:43412660 original size:10 final size:10
Alignment explanation
Indices: 43412645--43412745 Score: 70
Period size: 10 Copynumber: 10.5 Consensus size: 10
43412635 TTCTCTTCTC
43412645 CTTTCCTTTT
1 CTTTCCTTTT
*
43412655 CTTTCCTAATT
1 CTTTCCT-TTT
43412666 -TTT-C-TTT
1 CTTTCCTTTT
***
43412673 CTTTCCTCCC
1 CTTTCCTTTT
43412683 CTTTCCTTTT
1 CTTTCCTTTT
43412693 CTTTCCTTCTT
1 CTTTCCTT-TT
43412704 -TTT-C-TTT
1 CTTTCCTTTT
* *
43412711 CTTTCCTCTC
1 CTTTCCTTTT
43412721 CTTTCCTTTT
1 CTTTCCTTTT
* *
43412731 CCTTCTTTTT
1 CTTTCCTTTT
43412741 CTTTC
1 CTTTC
43412746 TTCCTTTCTT
Statistics
Matches: 68, Mismatches: 15, Indels: 16
0.69 0.15 0.16
Matches are distributed among these distances:
7 4 0.06
8 7 0.10
9 4 0.06
10 49 0.72
11 4 0.06
ACGTcount: A:0.02, C:0.34, G:0.00, T:0.64
Consensus pattern (10 bp):
CTTTCCTTTT
Found at i:43412673 original size:18 final size:18
Alignment explanation
Indices: 43412652--43412747 Score: 72
Period size: 18 Copynumber: 5.3 Consensus size: 18
43412642 CTCCTTTCCT
*
43412652 TTTCTTTCCTAATTTTTC
1 TTTCTTTCCTACTTTTTC
* * *
43412670 TTTCTTTCCTCCCCTTTCC
1 TTTCTTTCCT-ACTTTTTC
*
43412689 TTTTCTTTCCTTCTTTTTC
1 -TTTCTTTCCTACTTTTTC
*
43412708 TTTCTTTCCT-CTCCTTTC
1 TTTCTTTCCTACT-TTTTC
* *
43412726 -CT-TTTCCTTCTTTTTC
1 TTTCTTTCCTACTTTTTC
43412742 TTTCTT
1 TTTCTT
43412748 CCTTTCTTTC
Statistics
Matches: 61, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
16 10 0.16
17 6 0.10
18 26 0.43
19 9 0.15
20 10 0.16
ACGTcount: A:0.02, C:0.32, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTCTTTCCTACTTTTTC
Found at i:43412678 original size:76 final size:73
Alignment explanation
Indices: 43412588--43412766 Score: 170
Period size: 76 Copynumber: 2.4 Consensus size: 73
43412578 AATTACCTTA
* * * *
43412588 TTTTCTTTTTTTTCCTTGCTTTTTCTTCTTC-TTCTTTCATTTTT-TTT-TTCTCTTCTCCTTTC
1 TTTTC-TTTCTTTCCTTCCTTTTTCTTCTTCTTTCCTTC-TTTTTCTTTCTT-TCCTCTCCTTTC
*
43412650 CTTTTCTTTCCTAAT
63 CTTTTCCTT-C---T
* * *
43412665 TTTTCTTTCTTTCCTCCCCTTTCCTT-TTCTTTCCTTCTTTTTCTTTCTTTCCTCTCCTTTCCTT
1 TTTTCTTTCTTTCCTTCCTTTTTCTTCTTCTTTCCTTCTTTTTCTTTCTTTCCTCTCCTTTCCTT
43412729 TTCCTTCT
66 TTCCTTCT
*
43412737 TTTTCTTTC-TTCCTTTCTTTCTTCTTCTTC
1 TTTTCTTTCTTTCCTTCCTTT-TTCTTCTTC
43412767 CCCTCTCCTT
Statistics
Matches: 85, Mismatches: 12, Indels: 14
0.77 0.11 0.13
Matches are distributed among these distances:
71 8 0.09
72 14 0.16
73 3 0.04
75 9 0.11
76 44 0.52
77 7 0.08
ACGTcount: A:0.02, C:0.30, G:0.01, T:0.68
Consensus pattern (73 bp):
TTTTCTTTCTTTCCTTCCTTTTTCTTCTTCTTTCCTTCTTTTTCTTTCTTTCCTCTCCTTTCCTT
TTCCTTCT
Found at i:43412693 original size:38 final size:38
Alignment explanation
Indices: 43412644--43412731 Score: 149
Period size: 38 Copynumber: 2.3 Consensus size: 38
43412634 TTTCTCTTCT
43412644 CCTTTCCTTTTCTTTCCTAATTTTTCTTTCTTTCCTCC
1 CCTTTCCTTTTCTTTCCTAATTTTTCTTTCTTTCCTCC
** *
43412682 CCTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTCCTCT
1 CCTTTCCTTTTCTTTCCTAATTTTTCTTTCTTTCCTCC
43412720 CCTTTCCTTTTC
1 CCTTTCCTTTTC
43412732 CTTCTTTTTC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 47 1.00
ACGTcount: A:0.02, C:0.35, G:0.00, T:0.62
Consensus pattern (38 bp):
CCTTTCCTTTTCTTTCCTAATTTTTCTTTCTTTCCTCC
Found at i:43412706 original size:14 final size:14
Alignment explanation
Indices: 43412689--43412762 Score: 55
Period size: 14 Copynumber: 5.1 Consensus size: 14
43412679 TCCCCTTTCC
43412689 TTTTCTTTCCTTCT
1 TTTTCTTTCCTTCT
*
43412703 TTTTCTTTCTTTCCT
1 TTTTCTTTCCTT-CT
43412718 CTCCTTTCCTTTTCCTTCT
1 -T--TTT-C-TTTCCTTCT
43412737 TTTTCTTT-CTTC-
1 TTTTCTTTCCTTCT
*
43412749 CTTTCTTT-CTTCT
1 TTTTCTTTCCTTCT
43412762 T
1 T
43412763 CTTCCCCTCT
Statistics
Matches: 49, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
12 11 0.22
13 4 0.08
14 14 0.29
15 3 0.06
16 4 0.08
18 4 0.08
19 3 0.06
20 6 0.12
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTCTTTCCTTCT
Found at i:43412714 original size:28 final size:28
Alignment explanation
Indices: 43412683--43412762 Score: 85
Period size: 34 Copynumber: 2.8 Consensus size: 28
43412673 CTTTCCTCCC
43412683 CTTTCCTTTTCTTTCCTTCTTTTTCTTT
1 CTTTCCTTTTCTTTCCTTCTTTTTCTTT
43412711 CTTTCCTCTCCTTTCCTTTTCCTTCTTTTTCTTT
1 CTTT-C-CT--TTT-C-TTTCCTTCTTTTTCTTT
43412745 C-TTCC-TTTCTTT-CTTCTT
1 CTTTCCTTTTCTTTCCTTCTT
43412763 CTTCCCCTCT
Statistics
Matches: 46, Mismatches: 0, Indels: 15
0.75 0.00 0.25
Matches are distributed among these distances:
25 6 0.13
26 3 0.07
27 1 0.02
28 7 0.15
29 1 0.02
30 2 0.04
31 1 0.02
32 4 0.09
33 3 0.07
34 18 0.39
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (28 bp):
CTTTCCTTTTCTTTCCTTCTTTTTCTTT
Found at i:43412746 original size:10 final size:10
Alignment explanation
Indices: 43412588--43412765 Score: 58
Period size: 10 Copynumber: 16.7 Consensus size: 10
43412578 AATTACCTTA
43412588 TTTTCTTT-T
1 TTTTCTTTCT
*
43412597 TTTTCCTTGCT
1 TTTT-CTTTCT
43412608 TTTTC-TTCT
1 TTTTCTTTCT
*
43412617 TCTTCTTTCATT
1 TTTTCTTTC--T
*
43412629 TTTTTTTTCT
1 TTTTCTTTCT
* *
43412639 CTTCTCCTTTCC
1 -TT-TTCTTTCT
43412651 TTTTCTTTCCTAAT
1 TTTTCTTT-C---T
43412665 TTTTCTTTC-
1 TTTTCTTTCT
* ** *
43412674 TTTCCTCCCC
1 TTTTCTTTCT
*
43412684 TTTCCTTT-T
1 TTTTCTTTCT
* *
43412693 CTTTCCTTCT
1 TTTTCTTTCT
43412703 TTTTCTTTCT
1 TTTTCTTTCT
*
43412713 TTCCTCTCCTTTCC
1 TT--T-T-CTTTCT
*
43412727 TTTTCCTTCT
1 TTTTCTTTCT
43412737 TTTTCTTTCT
1 TTTTCTTTCT
43412747 TCCTTTCTTTCT
1 T--TTTCTTTCT
*
43412759 TCTTCTT
1 TTTTCTT
43412766 CCCCTCTCCT
Statistics
Matches: 124, Mismatches: 26, Indels: 37
0.66 0.14 0.20
Matches are distributed among these distances:
9 22 0.18
10 49 0.40
11 11 0.09
12 25 0.20
13 2 0.02
14 15 0.12
ACGTcount: A:0.02, C:0.30, G:0.01, T:0.68
Consensus pattern (10 bp):
TTTTCTTTCT
Found at i:43412746 original size:38 final size:38
Alignment explanation
Indices: 43412641--43412753 Score: 147
Period size: 38 Copynumber: 3.0 Consensus size: 38
43412631 TTTTTTCTCT
* **
43412641 TCTCCTTTCCTTTTCTTTCCTAATTTTTCTTTCTTTCC
1 TCTCCTTTCCTTTTCCTTCCTTTTTTTTCTTTCTTTCC
* * *
43412679 TCCCCTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTCC
1 TCTCCTTTCCTTTTCCTTCCTTTTTTTTCTTTCTTTCC
*
43412717 TCTCCTTTCCTTTTCCTT-CTTTTTCTTTCTTCCTTTC
1 TCTCCTTTCCTTTTCCTTCCTTTTT-TTTCTTTCTTTC
43412754 TTTCTTCTTC
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
37 5 0.07
38 62 0.93
ACGTcount: A:0.02, C:0.35, G:0.00, T:0.64
Consensus pattern (38 bp):
TCTCCTTTCCTTTTCCTTCCTTTTTTTTCTTTCTTTCC
Found at i:43412758 original size:22 final size:23
Alignment explanation
Indices: 43412723--43412765 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
43412713 TTCCTCTCCT
*
43412723 TTCCTTTTCCTTCTTTTTCTTTC
1 TTCCTTTTCCTTCTTCTTCTTTC
*
43412746 TTCC-TTTCTTTCTTCTTCTT
1 TTCCTTTTCCTTCTTCTTCTT
43412766 CCCCTCTCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (23 bp):
TTCCTTTTCCTTCTTCTTCTTTC
Found at i:43412763 original size:28 final size:30
Alignment explanation
Indices: 43412685--43412766 Score: 89
Period size: 28 Copynumber: 2.7 Consensus size: 30
43412675 TTCCTCCCCT
*
43412685 TTCCTTTTCTTTCCTTCTTTTTCTTTCTTTCC
1 TTCC-TTTCTTT-CTTCTTCTTCTTTCTTTCC
*
43412717 TCTCCTTTCCTTT-TCCTTCTT-TTTCTTT-C
1 T-TCCTTT-CTTTCTTCTTCTTCTTTCTTTCC
43412746 TTCCTTTCTTTCTTCTTCTTC
1 TTCCTTTCTTTCTTCTTCTTC
43412767 CCCTCTCCTT
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
27 4 0.09
28 13 0.30
29 2 0.05
30 7 0.16
31 6 0.14
32 4 0.09
33 7 0.16
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (30 bp):
TTCCTTTCTTTCTTCTTCTTCTTTCTTTCC
Found at i:43412776 original size:42 final size:40
Alignment explanation
Indices: 43412664--43412779 Score: 105
Period size: 42 Copynumber: 2.9 Consensus size: 40
43412654 TCTTTCCTAA
* *
43412664 TTTTTCTTTCTTTCCTCCCCTT-TCCT-T--TTCTTTCCTTC
1 TTTTTCTTTCTTTCCTCTCCTTCCCCTCTCCTTCTTT--TTC
* * *
43412702 TTTTTCTTTCTTTCCTCTCCTTTCCTTTTCCTTCTTTTTC
1 TTTTTCTTTCTTTCCTCTCCTTCCCCTCTCCTTCTTTTTC
* *
43412742 TTTCTTCCTTTCTTTCTTCTTCTTCCCCTCTCCTTCTT
1 TTT-TT-CTTTCTTTCCTCTCCTTCCCCTCTCCTTCTT
43412780 CCCCCCACCA
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
38 21 0.33
39 2 0.03
40 7 0.11
41 2 0.03
42 32 0.50
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (40 bp):
TTTTTCTTTCTTTCCTCTCCTTCCCCTCTCCTTCTTTTTC
Found at i:43412942 original size:8 final size:8
Alignment explanation
Indices: 43412921--43412958 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
43412911 TCAGTTCAGG
*
43412921 TTTTTTTC
1 TTTTTTTA
43412929 TGTTTTTTA
1 T-TTTTTTA
43412938 TTTTTTTA
1 TTTTTTTA
43412946 -TTTTTTA
1 TTTTTTTA
43412953 TTTTTT
1 TTTTTT
43412959 GATATATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
7 7 0.26
8 13 0.48
9 7 0.26
ACGTcount: A:0.08, C:0.03, G:0.03, T:0.87
Consensus pattern (8 bp):
TTTTTTTA
Found at i:43412990 original size:27 final size:29
Alignment explanation
Indices: 43412960--43413028 Score: 108
Period size: 28 Copynumber: 2.5 Consensus size: 29
43412950 TTATTTTTTG
43412960 ATATATTTTGGTAAAT-AAAAAAA-TTAT
1 ATATATTTTGGTAAATAAAAAAAAGTTAT
43412987 ATATATTTTGGTAAATAAAAAAAAGTTAT
1 ATATATTTTGGTAAATAAAAAAAAGTTAT
*
43413016 A-ACATTTTGGTAA
1 ATATATTTTGGTAA
43413029 TTTTTTATTT
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 16 0.41
28 18 0.46
29 5 0.13
ACGTcount: A:0.49, C:0.01, G:0.10, T:0.39
Consensus pattern (29 bp):
ATATATTTTGGTAAATAAAAAAAAGTTAT
Found at i:43415005 original size:23 final size:23
Alignment explanation
Indices: 43414979--43415047 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
43414969 TTTTCCTTCC
43414979 TTTTTCTTCTTCTTCTTTCTTTT
1 TTTTTCTTCTTCTTCTTTCTTTT
*
43415002 TTTTT-TCTCTTCTCCTTTCCTTTT
1 TTTTTCT-TCTTCTTCTTT-CTTTT
* * * *
43415026 CTTTCCTTATTTTTCTTTCTTT
1 TTTTTCTTCTTCTTCTTTCTTT
43415048 CCTCCCCTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
22 1 0.03
23 19 0.51
24 16 0.43
25 1 0.03
ACGTcount: A:0.01, C:0.25, G:0.00, T:0.74
Consensus pattern (23 bp):
TTTTTCTTCTTCTTCTTTCTTTT
Found at i:43415023 original size:43 final size:38
Alignment explanation
Indices: 43414960--43415118 Score: 172
Period size: 38 Copynumber: 4.3 Consensus size: 38
43414950 AATTACCTTA
* * *
43414960 TTTTCTTTTTTTTCCT-TCCTTTTTCTTCTTC-TTCTTTCT
1 TTTTC-TTTCTTTCCTCTCC-TTTCCTT-TTCTTTCCTTCT
* *
43414999 TTTT-TTT-TTCTCTTCTCCTTTCCTTTTCTTTCCTTAT
1 TTTTCTTTCTT-TCCTCTCCTTTCCTTTTCTTTCCTTCT
*
43415036 TTTTCTTTCTTTCCTCCCCTTTCCTTTTCTTTCCTTCT
1 TTTTCTTTCTTTCCTCTCCTTTCCTTTTCTTTCCTTCT
43415074 TTTTCTTTCTTTCCTCTCCTTTCC---T-TTTCCTTCT
1 TTTTCTTTCTTTCCTCTCCTTTCCTTTTCTTTCCTTCT
43415108 TTTTCTTTCTT
1 TTTTCTTTCTT
43415119 CCTTTCTTTC
Statistics
Matches: 107, Mismatches: 8, Indels: 15
0.82 0.06 0.12
Matches are distributed among these distances:
34 20 0.19
35 1 0.01
36 5 0.05
37 22 0.21
38 53 0.50
39 6 0.06
ACGTcount: A:0.01, C:0.30, G:0.00, T:0.69
Consensus pattern (38 bp):
TTTTCTTTCTTTCCTCTCCTTTCCTTTTCTTTCCTTCT
Found at i:43415031 original size:10 final size:10
Alignment explanation
Indices: 43414960--43415116 Score: 80
Period size: 10 Copynumber: 15.9 Consensus size: 10
43414950 AATTACCTTA
*
43414960 TTTTCTTT-T
1 TTTTCTTTCC
*
43414969 TTTTCCTTCC
1 TTTTCTTTCC
43414979 TTTT-TCTT-C
1 TTTTCT-TTCC
*
43414988 TTCTTCTTTCTT
1 TT-TTCTTTC-C
*
43415000 TTTTTTTTCTC
1 TTTTCTTTC-C
*
43415011 TTCTCCTTTCC
1 TT-TTCTTTCC
43415022 TTTTCTTTCC
1 TTTTCTTTCC
43415032 TTATT-TTT-C
1 TT-TTCTTTCC
43415041 -TTTCTTTCC
1 TTTTCTTTCC
***
43415050 TCCCCTTTCC
1 TTTTCTTTCC
43415060 TTTTCTTTCC
1 TTTTCTTTCC
43415070 TTCTT-TTT-C
1 TT-TTCTTTCC
43415079 -TTTCTTTCC
1 TTTTCTTTCC
* *
43415088 TCTCCTTTCC
1 TTTTCTTTCC
* *
43415098 TTTTCCTTCT
1 TTTTCTTTCC
43415108 TTTTCTTTC
1 TTTTCTTTC
43415117 TTCCTTTCTT
Statistics
Matches: 111, Mismatches: 22, Indels: 29
0.69 0.14 0.18
Matches are distributed among these distances:
7 4 0.04
8 8 0.07
9 14 0.13
10 61 0.55
11 17 0.15
12 7 0.06
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTTCTTTCC
Found at i:43415044 original size:18 final size:18
Alignment explanation
Indices: 43414960--43415133 Score: 101
Period size: 18 Copynumber: 9.4 Consensus size: 18
43414950 AATTACCTTA
*
43414960 TTTTCTTTTTTTTCCTTCCT
1 TTTTC-TTTCTTTCCTT-CT
43414980 TTTTC-TTC-TT-CTTCT
1 TTTTCTTTCTTTCCTTCT
* *
43414995 TTCTTTTTTTTTTCTCTTCT
1 TT-TTCTTTCTTTC-CTTCT
* *
43415015 CCTTTCCTTTTCTTTCCTTAT
1 --TTTTC-TTTCTTTCCTTCT
* *
43415036 TTTTCTTTCTTTCCTCCCC
1 TTTTCTTTCTTTCCT-TCT
*
43415055 TTTCCTTTTCTTTCCTTCT
1 TTTTC-TTTCTTTCCTTCT
43415074 TTTTCTTTCTTTCC-TCT
1 TTTTCTTTCTTTCCTTCT
* *
43415091 CCTTTC-CT-TTTCCTTCT
1 -TTTTCTTTCTTTCCTTCT
43415108 TTTTCTTTC-TTCCTTTCT
1 TTTTCTTTCTTTCC-TTCT
43415126 TTCTTCTT
1 TT-TTCTT
43415134 CTTCCCCTCT
Statistics
Matches: 119, Mismatches: 19, Indels: 33
0.70 0.11 0.19
Matches are distributed among these distances:
15 4 0.03
16 14 0.12
17 16 0.13
18 33 0.28
19 18 0.15
20 20 0.17
21 5 0.04
22 9 0.08
ACGTcount: A:0.01, C:0.30, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTCTTTCTTTCCTTCT
Found at i:43415077 original size:14 final size:14
Alignment explanation
Indices: 43415060--43415133 Score: 55
Period size: 14 Copynumber: 5.1 Consensus size: 14
43415050 TCCCCTTTCC
43415060 TTTTCTTTCCTTCT
1 TTTTCTTTCCTTCT
*
43415074 TTTTCTTTCTTTCCT
1 TTTTCTTTCCTT-CT
43415089 CTCCTTTCCTTTTCCTTCT
1 -T--TTT-C-TTTCCTTCT
43415108 TTTTCTTT-CTTC-
1 TTTTCTTTCCTTCT
*
43415120 CTTTCTTT-CTTCT
1 TTTTCTTTCCTTCT
43415133 T
1 T
43415134 CTTCCCCTCT
Statistics
Matches: 49, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
12 11 0.22
13 4 0.08
14 14 0.29
15 3 0.06
16 4 0.08
18 4 0.08
19 3 0.06
20 6 0.12
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTCTTTCCTTCT
Found at i:43415085 original size:28 final size:28
Alignment explanation
Indices: 43415054--43415133 Score: 85
Period size: 34 Copynumber: 2.8 Consensus size: 28
43415044 CTTTCCTCCC
43415054 CTTTCCTTTTCTTTCCTTCTTTTTCTTT
1 CTTTCCTTTTCTTTCCTTCTTTTTCTTT
43415082 CTTTCCTCTCCTTTCCTTTTCCTTCTTTTTCTTT
1 CTTT-C-CT--TTT-C-TTTCCTTCTTTTTCTTT
43415116 C-TTCC-TTTCTTT-CTTCTT
1 CTTTCCTTTTCTTTCCTTCTT
43415134 CTTCCCCTCT
Statistics
Matches: 46, Mismatches: 0, Indels: 15
0.75 0.00 0.25
Matches are distributed among these distances:
25 6 0.13
26 3 0.07
27 1 0.02
28 7 0.15
29 1 0.02
30 2 0.04
31 1 0.02
32 4 0.09
33 3 0.07
34 18 0.39
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (28 bp):
CTTTCCTTTTCTTTCCTTCTTTTTCTTT
Found at i:43415117 original size:10 final size:10
Alignment explanation
Indices: 43414960--43415136 Score: 65
Period size: 10 Copynumber: 16.7 Consensus size: 10
43414950 AATTACCTTA
43414960 TTTTCTTT-T
1 TTTTCTTTCT
*
43414969 TTTTCCTTCCT
1 TTTT-CTTTCT
43414980 TTTTC-TTCT
1 TTTTCTTTCT
*
43414989 TCTTCTTTCTT
1 TTTTCTTTC-T
*
43415000 TTTTTTTTCT
1 TTTTCTTTCT
* *
43415010 CTTCTCCTTTCC
1 -TT-TTCTTTCT
43415022 TTTTCTTTCCTTAT
1 TTTTCTTT-C---T
43415036 TTTTCTTTC-
1 TTTTCTTTCT
* ** *
43415045 TTTCCTCCCC
1 TTTTCTTTCT
*
43415055 TTTCCTTT-T
1 TTTTCTTTCT
* *
43415064 CTTTCCTTCT
1 TTTTCTTTCT
43415074 TTTTCTTTCT
1 TTTTCTTTCT
*
43415084 TTCCTCTCCTTTCC
1 TT--T-T-CTTTCT
*
43415098 TTTTCCTTCT
1 TTTTCTTTCT
43415108 TTTTCTTTCT
1 TTTTCTTTCT
43415118 TCCTTTCTTTCT
1 T--TTTCTTTCT
*
43415130 TCTTCTT
1 TTTTCTT
43415137 CCCCTCTCCT
Statistics
Matches: 124, Mismatches: 26, Indels: 35
0.67 0.14 0.19
Matches are distributed among these distances:
9 22 0.18
10 49 0.40
11 19 0.15
12 17 0.14
13 2 0.02
14 15 0.12
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTTCTTTCT
Found at i:43415129 original size:22 final size:23
Alignment explanation
Indices: 43415094--43415136 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
43415084 TTCCTCTCCT
*
43415094 TTCCTTTTCCTTCTTTTTCTTTC
1 TTCCTTTTCCTTCTTCTTCTTTC
*
43415117 TTCC-TTTCTTTCTTCTTCTT
1 TTCCTTTTCCTTCTTCTTCTT
43415137 CCCCTCTCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (23 bp):
TTCCTTTTCCTTCTTCTTCTTTC
Found at i:43415134 original size:28 final size:30
Alignment explanation
Indices: 43415056--43415137 Score: 89
Period size: 28 Copynumber: 2.7 Consensus size: 30
43415046 TTCCTCCCCT
*
43415056 TTCCTTTTCTTTCCTTCTTTTTCTTTCTTTCC
1 TTCC-TTTCTTT-CTTCTTCTTCTTTCTTTCC
*
43415088 TCTCCTTTCCTTT-TCCTTCTT-TTTCTTT-C
1 T-TCCTTT-CTTTCTTCTTCTTCTTTCTTTCC
43415117 TTCCTTTCTTTCTTCTTCTTC
1 TTCCTTTCTTTCTTCTTCTTC
43415138 CCCTCTCCTT
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
27 4 0.09
28 13 0.30
29 2 0.05
30 7 0.16
31 6 0.14
32 4 0.09
33 7 0.16
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (30 bp):
TTCCTTTCTTTCTTCTTCTTCTTTCTTTCC
Found at i:43415147 original size:42 final size:40
Alignment explanation
Indices: 43415035--43415150 Score: 105
Period size: 42 Copynumber: 2.9 Consensus size: 40
43415025 TCTTTCCTTA
* *
43415035 TTTTTCTTTCTTTCCTCCCCTT-TCCT-T--TTCTTTCCTTC
1 TTTTTCTTTCTTTCCTCTCCTTCCCCTCTCCTTCTTT--TTC
* * *
43415073 TTTTTCTTTCTTTCCTCTCCTTTCCTTTTCCTTCTTTTTC
1 TTTTTCTTTCTTTCCTCTCCTTCCCCTCTCCTTCTTTTTC
* *
43415113 TTTCTTCCTTTCTTTCTTCTTCTTCCCCTCTCCTTCTT
1 TTT-TT-CTTTCTTTCCTCTCCTTCCCCTCTCCTTCTT
43415151 CCCCCCACCA
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
38 21 0.33
39 2 0.03
40 7 0.11
41 2 0.03
42 32 0.50
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (40 bp):
TTTTTCTTTCTTTCCTCTCCTTCCCCTCTCCTTCTTTTTC
Found at i:43418493 original size:23 final size:22
Alignment explanation
Indices: 43418467--43418509 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
43418457 TTCTTCTTAA
*
43418467 TTTTTAGTATTTTTAATTAAAAT
1 TTTTTA-TATTATTAATTAAAAT
43418490 TTTTTATATTATTAATTAAA
1 TTTTTATATTATTAATTAAA
43418510 TTTAAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
TTTTTATATTATTAATTAAAAT
Found at i:43419273 original size:33 final size:33
Alignment explanation
Indices: 43419209--43419274 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
43419199 CAGACAATTT
* *
43419209 AACAAAGATACCAACATCTTAGTTTCGAGTAAC
1 AACAAAGATACCAACATCTGAGTTTCCAGTAAC
43419242 AACAAAGATACCAACATCCTGA-TTTCCAGTAAC
1 AACAAAGATACCAACAT-CTGAGTTTCCAGTAAC
43419275 CAAGGTATGG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 27 0.90
34 3 0.10
ACGTcount: A:0.42, C:0.24, G:0.11, T:0.23
Consensus pattern (33 bp):
AACAAAGATACCAACATCTGAGTTTCCAGTAAC
Found at i:43420818 original size:29 final size:29
Alignment explanation
Indices: 43420776--43420840 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
43420766 AAATTTTAAA
* * * *
43420776 TTAATAATGATAAAATTTTATTTTGATTCT
1 TTAA-AATGATAAAAATTTAATTTAATCCT
*
43420806 TTAAAATTATAAAAATTTAATTTAATCCT
1 TTAAAATGATAAAAATTTAATTTAATCCT
43420835 TTAAAA
1 TTAAAA
43420841 ATATTAAGAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 26 0.87
30 4 0.13
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.48
Consensus pattern (29 bp):
TTAAAATGATAAAAATTTAATTTAATCCT
Found at i:43423708 original size:2 final size:2
Alignment explanation
Indices: 43423703--43423728 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
43423693 TGTGTGTGTG
43423703 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
43423729 AATAATTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:43423849 original size:13 final size:13
Alignment explanation
Indices: 43423831--43423855 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43423821 AAAATGAGTA
43423831 AATAATAATAATC
1 AATAATAATAATC
43423844 AATAATAATAAT
1 AATAATAATAAT
43423856 ACAAGATTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (13 bp):
AATAATAATAATC
Found at i:43423903 original size:11 final size:12
Alignment explanation
Indices: 43423883--43423950 Score: 54
Period size: 13 Copynumber: 5.8 Consensus size: 12
43423873 TTAAACTTAG
43423883 ATAA-ATAAATA
1 ATAATATAAATA
43423894 A-AATATAAAT-
1 ATAATATAAATA
*
43423904 ACAATA-ACAATA
1 ATAATATA-AATA
*
43423916 ATAATACAAACTA
1 ATAATATAAA-TA
*
43423929 ATAACATAATATA
1 ATAATATAA-ATA
43423942 ATAATATAA
1 ATAATATAA
43423951 TACTGAGATA
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
10 4 0.09
11 14 0.30
12 7 0.15
13 20 0.43
14 1 0.02
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.26
Consensus pattern (12 bp):
ATAATATAAATA
Found at i:43423903 original size:15 final size:17
Alignment explanation
Indices: 43423883--43423924 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
43423873 TTAAACTTAG
43423883 ATAAATA-AATAA-AAT
1 ATAAATACAATAACAAT
43423898 ATAAATACAATAACAAT
1 ATAAATACAATAACAAT
43423915 A-ATAATACAA
1 ATA-AATACAA
43423925 ACTAATAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.29
16 6 0.25
17 11 0.46
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (17 bp):
ATAAATACAATAACAAT
Found at i:43424552 original size:30 final size:30
Alignment explanation
Indices: 43424510--43424570 Score: 72
Period size: 30 Copynumber: 2.0 Consensus size: 30
43424500 CGATATTTTG
43424510 AAATAAACAAAAA-AATAAAAAACAAATAAA
1 AAATAAACAAAAATAATAAAAAA-AAATAAA
* *
43424540 AAATATAA-AAAAATGATAAAACAAAATAAA
1 AAATA-AACAAAAATAATAAAAAAAAATAAA
43424570 A
1 A
43424571 CGAAAATCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 18 0.67
31 9 0.33
ACGTcount: A:0.80, C:0.05, G:0.02, T:0.13
Consensus pattern (30 bp):
AAATAAACAAAAATAATAAAAAAAAATAAA
Found at i:43424571 original size:10 final size:9
Alignment explanation
Indices: 43424518--43424570 Score: 52
Period size: 10 Copynumber: 5.3 Consensus size: 9
43424508 TGAAATAAAC
43424518 AAAAAAATAA
1 AAAAAAAT-A
43424528 AAAACAAATA
1 AAAA-AAATA
*
43424538 AAAAATATA
1 AAAAAAATA
43424547 AAAAAATGATA
1 AAAAAA--ATA
43424558 AAACAAAATA
1 AAA-AAAATA
43424568 AAA
1 AAA
43424571 CGAAAATCAC
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
9 9 0.24
10 15 0.41
11 10 0.27
12 3 0.08
ACGTcount: A:0.81, C:0.04, G:0.02, T:0.13
Consensus pattern (9 bp):
AAAAAAATA
Found at i:43427493 original size:33 final size:33
Alignment explanation
Indices: 43427432--43427494 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
43427422 CACATGAATG
* *
43427432 AAAGATACCAACATCTTAGTTTCGAGTAACAAC
1 AAAGATACCAACATCTGAGTTTCCAGTAACAAC
*
43427465 AAAGATACCAACGTCCTGA-TTTCCAGTAAC
1 AAAGATACCAACAT-CTGAGTTTCCAGTAAC
43427495 CAAGGTATGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
33 23 0.88
34 3 0.12
ACGTcount: A:0.40, C:0.24, G:0.13, T:0.24
Consensus pattern (33 bp):
AAAGATACCAACATCTGAGTTTCCAGTAACAAC
Found at i:43430018 original size:21 final size:20
Alignment explanation
Indices: 43429983--43430022 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
43429973 TTACTTAGAA
*
43429983 ATATTTAAAATTAACAATAT
1 ATATTAAAAATTAACAATAT
43430003 ATATTAAAATATTAACAATA
1 ATATTAAAA-ATTAACAATA
43430023 AGTTATGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (20 bp):
ATATTAAAAATTAACAATAT
Found at i:43430204 original size:13 final size:13
Alignment explanation
Indices: 43430183--43430257 Score: 87
Period size: 13 Copynumber: 5.8 Consensus size: 13
43430173 ACACTCAAAT
43430183 TTTTCAAAAGTAC
1 TTTTCAAAAGTAC
* *
43430196 TTCTCAAAAGCAC
1 TTTTCAAAAGTAC
*
43430209 TTCTCAAAAGTAC
1 TTTTCAAAAGTAC
* * *
43430222 TTTTCCACAGCAC
1 TTTTCAAAAGTAC
*
43430235 TTTTCAAAAATAC
1 TTTTCAAAAGTAC
43430248 TTTTCAAAAG
1 TTTTCAAAAG
43430258 CAATGAAGAA
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 50 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (13 bp):
TTTTCAAAAGTAC
Found at i:43430222 original size:26 final size:26
Alignment explanation
Indices: 43430186--43430259 Score: 103
Period size: 26 Copynumber: 2.8 Consensus size: 26
43430176 CTCAAATTTT
*
43430186 TCAAAAGTACTTCTCAAAAGCACTTC
1 TCAAAAGTACTTTTCAAAAGCACTTC
* * *
43430212 TCAAAAGTACTTTTCCACAGCACTTT
1 TCAAAAGTACTTTTCAAAAGCACTTC
*
43430238 TCAAAAATACTTTTCAAAAGCA
1 TCAAAAGTACTTTTCAAAAGCA
43430260 ATGAAGAACT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.39, C:0.24, G:0.07, T:0.30
Consensus pattern (26 bp):
TCAAAAGTACTTTTCAAAAGCACTTC
Found at i:43436475 original size:6 final size:6
Alignment explanation
Indices: 43436427--43436477 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
43436417 TTAATTTTCC
* *
43436427 TATTAT TATTATT TATTTT TACTATTT TA-TTT TATTTT CATTTT TATTTT
1 TATTTT TATT-TT TATTTT TA-T-TTT TATTTT TATTTT TATTTT TATTTT
43436477 T
1 T
43436478 GCAGGAAAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
5 5 0.13
6 22 0.58
7 6 0.16
8 5 0.13
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.75
Consensus pattern (6 bp):
TATTTT
Found at i:43440617 original size:17 final size:17
Alignment explanation
Indices: 43440578--43440637 Score: 61
Period size: 18 Copynumber: 3.6 Consensus size: 17
43440568 GACAATAAAA
* *
43440578 ATAATATAATAACAAAGT
1 ATAATTTAAAAAC-AAGT
43440596 ATAATTTAAAAACAAGT
1 ATAATTTAAAAACAAGT
* *
43440613 GTAATTT-AAAA-AATT
1 ATAATTTAAAAACAAGT
43440628 ATAATTTAAA
1 ATAATTTAAA
43440638 TATTATATGT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
15 9 0.25
16 6 0.17
17 10 0.28
18 11 0.31
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.33
Consensus pattern (17 bp):
ATAATTTAAAAACAAGT
Found at i:43440634 original size:15 final size:16
Alignment explanation
Indices: 43440578--43440637 Score: 59
Period size: 15 Copynumber: 3.6 Consensus size: 16
43440568 GACAATAAAA
*
43440578 ATAATATAATAACAAAGT
1 ATAATTTAA-AAC-AAGT
43440596 ATAATTTAAAAACAAGT
1 ATAATTT-AAAACAAGT
* *
43440613 GTAATTTAAAA-AATT
1 ATAATTTAAAACAAGT
43440628 ATAATTTAAA
1 ATAATTTAAA
43440638 TATTATATGT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
15 12 0.32
16 4 0.11
17 10 0.27
18 9 0.24
19 2 0.05
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.33
Consensus pattern (16 bp):
ATAATTTAAAACAAGT
Found at i:43444274 original size:2 final size:2
Alignment explanation
Indices: 43444267--43444304 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
43444257 AAGCCTGAGG
*
43444267 GA GA GA GA GA GA GA GA GA CA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
43444305 AATGAGCACA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.03, G:0.47, T:0.00
Consensus pattern (2 bp):
GA
Found at i:43445756 original size:6 final size:6
Alignment explanation
Indices: 43445745--43445773 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
43445735 AGGTATGCTC
43445745 GTTTTT GTTTTT GTTTTT GTTTTT GTTTT
1 GTTTTT GTTTTT GTTTTT GTTTTT GTTTT
43445774 ATAGCATTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (6 bp):
GTTTTT
Found at i:43446745 original size:16 final size:18
Alignment explanation
Indices: 43446724--43446763 Score: 66
Period size: 16 Copynumber: 2.3 Consensus size: 18
43446714 AATGTTTTTT
43446724 ATTAAATTTTTA-C-TTA
1 ATTAAATTTTTATCATTA
43446740 ATTAAATTTTTATCATTA
1 ATTAAATTTTTATCATTA
43446758 ATTAAA
1 ATTAAA
43446764 ATAATTAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 12 0.55
17 1 0.05
18 9 0.41
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTAAATTTTTATCATTA
Found at i:43447084 original size:22 final size:22
Alignment explanation
Indices: 43447054--43447098 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
43447044 TTCATAAAAG
*
43447054 ATAATAAAAAT-TTGAAAAAATT
1 ATAA-AAAAATATTTAAAAAATT
*
43447076 ATAAAAAAATATTTAAAACATT
1 ATAAAAAAATATTTAAAAAATT
43447098 A
1 A
43447099 AAATTGATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (22 bp):
ATAAAAAAATATTTAAAAAATT
Found at i:43448246 original size:19 final size:20
Alignment explanation
Indices: 43448224--43448277 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 20
43448214 TTTAAATATA
43448224 TTTTATTAATTTTATA-AAT
1 TTTTATTAATTTTATAGAAT
43448243 TTTTA-TAA-TTTATTAGAAT
1 TTTTATTAATTTTA-TAGAAT
*
43448262 TTTTATAATATTTTAT
1 TTTTATTA-ATTTTAT
43448278 TTCTTTAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
17 4 0.14
18 5 0.17
19 13 0.45
20 1 0.03
21 2 0.07
22 4 0.14
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (20 bp):
TTTTATTAATTTTATAGAAT
Found at i:43448247 original size:48 final size:47
Alignment explanation
Indices: 43448186--43448297 Score: 113
Period size: 48 Copynumber: 2.4 Consensus size: 47
43448176 TTTATAGAAT
43448186 TTTAAT-ATGTTTTATAACATT-TTA-AATATTTAAATATATTTTATTAA
1 TTTAATAAT-TTTTATAA-ATTATTAGAATATTTAAA-ATATTTTATTAA
* * * * **
43448233 TTTTATAAATTTTTATAATTTATTAGAATTTTTATAATATTTTATTTC
1 TTTAAT-AATTTTTATAAATTATTAGAATATTTAAAATATTTTATTAA
43448281 TTTAATAATTTTTATAA
1 TTTAATAATTTTTATAA
43448298 GTTTATATCA
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
47 18 0.33
48 26 0.48
49 10 0.19
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (47 bp):
TTTAATAATTTTTATAAATTATTAGAATATTTAAAATATTTTATTAA
Found at i:43448276 original size:10 final size:10
Alignment explanation
Indices: 43448165--43448277 Score: 62
Period size: 10 Copynumber: 11.6 Consensus size: 10
43448155 TGTTACATTT
* *
43448165 TTTTATGATT
1 TTTTATAATA
43448175 TTTTATAGA-A
1 TTTTATA-ATA
*
43448185 TTTTA-ATATG
1 TTTTATA-ATA
*
43448195 TTTTATAACA
1 TTTTATAATA
43448205 TTTTA-AATA
1 TTTTATAATA
*
43448214 -TTTAAATATA
1 TTTTATA-ATA
*
43448224 TTTTATTA-A
1 TTTTATAATA
43448233 TTTTATAA-A
1 TTTTATAATA
43448242 TTTTTATAAT-
1 -TTTTATAATA
*
43448252 TTATTAGAAT-
1 TT-TTATAATA
43448262 TTTTATAATA
1 TTTTATAATA
43448272 TTTTAT
1 TTTTAT
43448278 TTCTTTAATA
Statistics
Matches: 81, Mismatches: 12, Indels: 20
0.72 0.11 0.18
Matches are distributed among these distances:
8 4 0.05
9 23 0.28
10 48 0.59
11 6 0.07
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.59
Consensus pattern (10 bp):
TTTTATAATA
Found at i:43448294 original size:10 final size:9
Alignment explanation
Indices: 43448224--43448311 Score: 65
Period size: 10 Copynumber: 9.2 Consensus size: 9
43448214 TTTAAATATA
43448224 TTTTATTAA-
1 TTTTA-TAAT
43448233 TTTTATAAAT
1 TTTTAT-AAT
43448243 TTTTATAAT
1 TTTTATAAT
*
43448252 TTATTAGAAT
1 TT-TTATAAT
43448262 TTTTATAAT
1 TTTTATAAT
43448271 ATTTTAT--T
1 -TTTTATAAT
43448279 TCTTTAATAAT
1 T-TTT-ATAAT
43448290 TTTTATAAGT
1 TTTTATAA-T
*
43448300 TTATATCAAT
1 TTTTAT-AAT
43448310 TT
1 TT
43448312 CTTTCTTTTT
Statistics
Matches: 66, Mismatches: 3, Indels: 19
0.75 0.03 0.22
Matches are distributed among these distances:
7 1 0.02
8 5 0.08
9 24 0.36
10 32 0.48
11 4 0.06
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (9 bp):
TTTTATAAT
Found at i:43448426 original size:9 final size:9
Alignment explanation
Indices: 43448412--43448437 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
43448402 TTATTTTAAC
43448412 GGTCAATGT
1 GGTCAATGT
43448421 GGTCAATGT
1 GGTCAATGT
43448430 GGTCAATG
1 GGTCAATG
43448438 ACAGAAACCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.12, G:0.35, T:0.31
Consensus pattern (9 bp):
GGTCAATGT
Done.