Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 101 of 325
Found at i:32646197 original size:94 final size:94
Alignment explanation
Indices: 32646001--32646266 Score: 241
Period size: 94 Copynumber: 2.8 Consensus size: 94
32645991 CTTATGCCCC
* * * * *
32646001 TAAAGTTGCAGTGGGTCGGATTGAATCTACCATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGA
1 TAAAGTTGCAGTGGGTCGGATTGAAACTACAATAGCAAATCTTATCTCCTTAAAGTTGCAATGGA
* * *
32646066 GCAAGATAAAGTTACAGATCTTATACCCT
66 GCAAGATAAAGCTACAGATCCTATACCAT
* * * ** *
32646095 TGAGGTTGCAGTGGATCGGATTGAGGCTGCAATAGCAAATCTTATCTCCTTAAAGTTGCAATGGA
1 TAAAGTTGCAGTGGGTCGGATTGAAACTACAATAGCAAATCTTATCTCCTTAAAGTTGCAATGGA
* **
32646160 TC-AGATTGAAA-CTACA-ATTCCTATATTAT
66 GCAAGA-T-AAAGCTACAGA-TCCTATACCAT
* * * * * * * *
32646189 TAAAGTTGCAATGGGTTGGAATGAAACTACAACAACAAATCTTCTCTCTTTAAAATTGCAATGGA
1 TAAAGTTGCAGTGGGTCGGATTGAAACTACAATAGCAAATCTTATCTCCTTAAAGTTGCAATGGA
* *
32646254 GTAAGATGAAGCT
66 GCAAGATAAAGCT
32646267 GTGAAACTAA
Statistics
Matches: 134, Mismatches: 33, Indels: 10
0.76 0.19 0.06
Matches are distributed among these distances:
93 6 0.04
94 122 0.91
95 6 0.04
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.30
Consensus pattern (94 bp):
TAAAGTTGCAGTGGGTCGGATTGAAACTACAATAGCAAATCTTATCTCCTTAAAGTTGCAATGGA
GCAAGATAAAGCTACAGATCCTATACCAT
Found at i:32647245 original size:26 final size:26
Alignment explanation
Indices: 32647206--32647313 Score: 146
Period size: 26 Copynumber: 4.2 Consensus size: 26
32647196 TGATACAAAT
32647206 TGATAATGTG-TTAGGTAAATGTTCCA
1 TGATAATG-GATTAGGTAAATGTTCCA
* *
32647232 TGATAATAGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
32647258 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
* * *
32647284 AGATAATGGTTTAGGTAAATGTTCTA
1 TGATAATGGATTAGGTAAATGTTCCA
32647310 TGAT
1 TGAT
32647314 GGGAATTTCA
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
25 1 0.01
26 71 0.99
ACGTcount: A:0.34, C:0.06, G:0.22, T:0.37
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:32647271 original size:52 final size:52
Alignment explanation
Indices: 32647206--32647313 Score: 162
Period size: 52 Copynumber: 2.1 Consensus size: 52
32647196 TGATACAAAT
* *
32647206 TGATAATGTGTTAGGTAAATGTTCCATGATAATAGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCAAGATAATAGATTAGGTAAATATTCCA
* * * *
32647258 TGATAATGGGTTAGGTAAATGTTCCAAGATAATGGTTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCAAGATAATAGATTAGGTAAATATTCCA
32647310 TGAT
1 TGAT
32647314 GGGAATTTCA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.34, C:0.06, G:0.22, T:0.37
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCAAGATAATAGATTAGGTAAATATTCCA
Found at i:32655522 original size:26 final size:26
Alignment explanation
Indices: 32655483--32655590 Score: 146
Period size: 26 Copynumber: 4.2 Consensus size: 26
32655473 TGATACAAAT
*
32655483 TGATAATGTG-TTAGGTAAATGTTCCA
1 TGATAATG-GATTAGGTAAATATTCCA
*
32655509 TGATAATAGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATATTCCA
*
32655535 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATATTCCA
* * *
32655561 TGATAATGGTTTAGGTAAATGTTCTA
1 TGATAATGGATTAGGTAAATATTCCA
32655587 TGAT
1 TGAT
32655591 GGGAATTTCA
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
25 1 0.01
26 73 0.99
ACGTcount: A:0.34, C:0.06, G:0.21, T:0.38
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATATTCCA
Found at i:32655540 original size:52 final size:52
Alignment explanation
Indices: 32655483--32655590 Score: 162
Period size: 52 Copynumber: 2.1 Consensus size: 52
32655473 TGATACAAAT
* *
32655483 TGATAATGTGTTAGGTAAATGTTCCATGATAATAGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCATGATAATAGATTAGGTAAATATTCCA
* * * *
32655535 TGATAATGGGTTAGGTAAATATTCCATGATAATGGTTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATATTCCATGATAATAGATTAGGTAAATATTCCA
32655587 TGAT
1 TGAT
32655591 GGGAATTTCA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.34, C:0.06, G:0.21, T:0.38
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATATTCCATGATAATAGATTAGGTAAATATTCCA
Found at i:32657108 original size:26 final size:26
Alignment explanation
Indices: 32657079--32657131 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
32657069 TTTACAGTTT
*
32657079 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCATAGG-GATAAATTGACCGAAA
* *
32657105 TACCCATAGGGTTAAATTGACCTAAA
1 TACCCATAGGGATAAATTGACCGAAA
32657131 T
1 T
32657132 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCATAGGGATAAATTGACCGAAA
Found at i:32657932 original size:30 final size:30
Alignment explanation
Indices: 32657898--32657958 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
32657888 CAAGCAAAGC
32657898 TTCCGCAATGAAAGTATTTTCCAAAATTAA
1 TTCCGCAATGAAAGTATTTTCCAAAATTAA
32657928 TTCCGCAATGAAAGTATTTTCCAAAATTAA
1 TTCCGCAATGAAAGTATTTTCCAAAATTAA
32657958 T
1 T
32657959 CATTTTTCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.34
Consensus pattern (30 bp):
TTCCGCAATGAAAGTATTTTCCAAAATTAA
Found at i:32659684 original size:21 final size:21
Alignment explanation
Indices: 32659660--32659700 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
32659650 TAACAGGACT
*
32659660 GCTGACGTGGCAAGTTAACTA
1 GCTGACATGGCAAGTTAACTA
*
32659681 GCTGATATGGCAAGTTAACT
1 GCTGACATGGCAAGTTAACT
32659701 TGCCACGTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (21 bp):
GCTGACATGGCAAGTTAACTA
Found at i:32660178 original size:12 final size:12
Alignment explanation
Indices: 32660158--32660230 Score: 60
Period size: 12 Copynumber: 6.1 Consensus size: 12
32660148 ATCTAGGGTT
**
32660158 ATTTCGATTTCA
1 ATTTCGATTTTG
*
32660170 ATTTTGATTTTG
1 ATTTCGATTTTG
32660182 A-TTCTGATTTTG
1 ATTTC-GATTTTG
*
32660194 ATTTTGATTTCT-
1 ATTTCGATTT-TG
*
32660206 ATTTCGATTTGG
1 ATTTCGATTTTG
*
32660218 ATTTCAATTTTG
1 ATTTCGATTTTG
32660230 A
1 A
32660231 AACACTCACT
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
11 2 0.04
12 43 0.90
13 3 0.06
ACGTcount: A:0.21, C:0.08, G:0.14, T:0.58
Consensus pattern (12 bp):
ATTTCGATTTTG
Found at i:32660179 original size:6 final size:6
Alignment explanation
Indices: 32660170--32660317 Score: 64
Period size: 6 Copynumber: 23.7 Consensus size: 6
32660160 TTCGATTTCA
* * *
32660170 ATTTTG ATTTTG ATTCTG ATTTTG ATTTTG ATTTCT- ATTTCG ATTTGG
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTT-TG ATTTTG ATTTTG
** ** * * **
32660218 ATTTCA ATTTTG AAACACTCACTG ATTCTG ATCTTG ATTTTG ATTTCA
1 ATTTTG ATTTTG ----A-T-TTTG ATTTTG ATTTTG ATTTTG ATTTTG
* * * * * * *
32660266 ATTTCG ATCTTG ATTTAG ATTTGG ATTTGG ATTTGG ATTTGG ATTTTG
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG
32660314 ATTT
1 ATTT
32660318 AGGGTTATTT
Statistics
Matches: 111, Mismatches: 23, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
6 104 0.94
7 2 0.02
8 1 0.01
10 1 0.01
11 1 0.01
12 2 0.02
ACGTcount: A:0.21, C:0.09, G:0.17, T:0.53
Consensus pattern (6 bp):
ATTTTG
Found at i:32660184 original size:18 final size:18
Alignment explanation
Indices: 32660158--32660230 Score: 85
Period size: 18 Copynumber: 4.1 Consensus size: 18
32660148 ATCTAGGGTT
*
32660158 ATTTCGATTTCAATTTTG
1 ATTTTGATTTCAATTTTG
*
32660176 ATTTTGA-TTCTGATTTTG
1 ATTTTGATTTC-AATTTTG
* *
32660194 ATTTTGATTTCTATTTCG
1 ATTTTGATTTCAATTTTG
*
32660212 ATTTGGATTTCAATTTTG
1 ATTTTGATTTCAATTTTG
32660230 A
1 A
32660231 AACACTCACT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
17 3 0.07
18 40 0.87
19 3 0.07
ACGTcount: A:0.21, C:0.08, G:0.14, T:0.58
Consensus pattern (18 bp):
ATTTTGATTTCAATTTTG
Found at i:32660829 original size:37 final size:37
Alignment explanation
Indices: 32660779--32660851 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
32660769 AAGAAGACAT
32660779 GTATGGTAGTGATGTGTCTAATAGGATAGGAGTTAAA
1 GTATGGTAGTGATGTGTCTAATAGGATAGGAGTTAAA
32660816 GTATGGTAGTGATGTGTCTAATAGGATAGGAGTTAA
1 GTATGGTAGTGATGTGTCTAATAGGATAGGAGTTAA
32660852 TTTAGATGGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.32, C:0.03, G:0.33, T:0.33
Consensus pattern (37 bp):
GTATGGTAGTGATGTGTCTAATAGGATAGGAGTTAAA
Found at i:32662579 original size:30 final size:28
Alignment explanation
Indices: 32662538--32662598 Score: 86
Period size: 30 Copynumber: 2.1 Consensus size: 28
32662528 GTGTTGCCTA
*
32662538 TTTTTTAATATGCATGCAGTGAGTATTTT
1 TTTTTTAATATGCATGCAGTGACT-TTTT
*
32662567 TTTTTATAATATGCATGTAGTGACTTTTT
1 TTTTT-TAATATGCATGCAGTGACTTTTT
32662596 TTT
1 TTT
32662599 AGCGGTGTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 12 0.41
30 17 0.59
ACGTcount: A:0.23, C:0.07, G:0.15, T:0.56
Consensus pattern (28 bp):
TTTTTTAATATGCATGCAGTGACTTTTT
Found at i:32663989 original size:16 final size:16
Alignment explanation
Indices: 32663968--32663998 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
32663958 ATGAGCTGGT
32663968 TAGCCATGTATAACAG
1 TAGCCATGTATAACAG
32663984 TAGCCATGTATAACA
1 TAGCCATGTATAACA
32663999 TATATTAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (16 bp):
TAGCCATGTATAACAG
Found at i:32664050 original size:36 final size:38
Alignment explanation
Indices: 32663976--32664059 Score: 118
Period size: 36 Copynumber: 2.3 Consensus size: 38
32663966 GTTAGCCATG
* * *
32663976 TATAACAGTAGCCATGTATAACATATATTAAGCAACAA
1 TATACCAGCAGCCATGTATAACATACATTAAGCAACAA
*
32664014 TATACCAGCAGCCATGTATACCA-ACA-TAAGCAACAA
1 TATACCAGCAGCCATGTATAACATACATTAAGCAACAA
32664050 TATACCAGCA
1 TATACCAGCA
32664060 ACAATATTAC
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
36 20 0.48
37 2 0.05
38 20 0.48
ACGTcount: A:0.45, C:0.23, G:0.11, T:0.21
Consensus pattern (38 bp):
TATACCAGCAGCCATGTATAACATACATTAAGCAACAA
Found at i:32664077 original size:36 final size:36
Alignment explanation
Indices: 32664004--32664080 Score: 102
Period size: 36 Copynumber: 2.1 Consensus size: 36
32663994 TAACATATAT
* * * *
32664004 TAAGCAACAATATACCAGCAGCCATGTATACCAACA
1 TAAGCAACAATATACCAGCAACAATATATACAAACA
32664040 TAAGCAACAATATACCAGCAACAATAT-TACAATACA
1 TAAGCAACAATATACCAGCAACAATATATACAA-ACA
32664076 TAAGC
1 TAAGC
32664081 TAGTTTTCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
35 4 0.11
36 32 0.89
ACGTcount: A:0.48, C:0.25, G:0.09, T:0.18
Consensus pattern (36 bp):
TAAGCAACAATATACCAGCAACAATATATACAAACA
Found at i:32664437 original size:3 final size:3
Alignment explanation
Indices: 32664422--32664472 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
32664412 CTATTTTTCC
* * * * *
32664422 TCT TCT CCT TCT TCT TCT TCT TCC AC- TCC TCT TCT TCT TCT TCT TTT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
32664469 TCT T
1 TCT T
32664473 TTTTTCTAAC
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
2 1 0.03
3 38 0.97
ACGTcount: A:0.02, C:0.37, G:0.00, T:0.61
Consensus pattern (3 bp):
TCT
Found at i:32664456 original size:20 final size:21
Alignment explanation
Indices: 32664426--32664464 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
32664416 TTTTCCTCTT
32664426 CTCCTTCTTCTTCTTCTTCCA
1 CTCCTTCTTCTTCTTCTTCCA
32664447 CTCC-TCTTCTTCTTCTTC
1 CTCCTTCTTCTTCTTCTTC
32664465 TTTTTCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.03, C:0.44, G:0.00, T:0.54
Consensus pattern (21 bp):
CTCCTTCTTCTTCTTCTTCCA
Found at i:32676048 original size:217 final size:216
Alignment explanation
Indices: 32675672--32676085 Score: 528
Period size: 217 Copynumber: 1.9 Consensus size: 216
32675662 GAGAAAGATT
* * * * *
32675672 ATTGAAGAGATTCCATCTAAAGACTCATTTGATTTAACTGATGAATCAGAAACTAAATCAAACTC
1 ATTGAAGAGATTCCACCTAAAGACTCATCTAATTCAACTGATGAACCAGAAACTAAATCAAACTC
* * *
32675737 CACTTTATAGAGGACATACCTCTGAAGGAAATCATCGATAACAAAGCTCGATCCAAGAAGCCAAA
66 CACTTTATAGAAGACATACCTCTAAAGGAAATCATCGATAACAAACCTCGATCCAAGAAGCCAAA
* * * * *
32675802 TGTTCCTATGACTGCACAACAACGTAACAATAGGATAAAGCAAGTAGGTGTACCTTCTTTGCTTG
131 TGTGCATATGACTGCACAACAACGTAACAAGAAGATAAAGCAAGTAAGTGTACCTTCTTTGCTTG
32675867 CTGAAGCTGCTGCCAAGGTAC
196 CTGAAGCTGCTGCCAAGGTAC
** *
32675888 ATTGAAGAGATTCCACCTAAAGACTCATCTAATTCAGTTGATGAACCAGAAAC-AGAATCAGAC-
1 ATTGAAGAGATTCCACCTAAAGACTCATCTAATTCAACTGATGAACCAGAAACTA-AATCAAACT
* * * * **
32675951 CCTAGCTTTGTAGAAGACATACCTCTAAAGGAAATCATTGGTGGA-AAACCTCGATCCAAGTGGC
65 CC-A-CTTTATAGAAGACATACCTCTAAAGGAAATCATCGAT-AACAAACCTCGATCCAAGAAGC
* * * * *
32676015 CAAATGTGCATATGACTGCACAACAATGTAACAAGAAGATGAAGTAAGTAAGTGTACTTTCTTTT
127 CAAATGTGCATATGACTGCACAACAACGTAACAAGAAGATAAAGCAAGTAAGTGTACCTTCTTTG
32676080 CTTGCT
192 CTTGCT
32676086 AAAGATAAGG
Statistics
Matches: 167, Mismatches: 27, Indels: 7
0.83 0.13 0.03
Matches are distributed among these distances:
215 3 0.02
216 54 0.32
217 109 0.65
218 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.25
Consensus pattern (216 bp):
ATTGAAGAGATTCCACCTAAAGACTCATCTAATTCAACTGATGAACCAGAAACTAAATCAAACTC
CACTTTATAGAAGACATACCTCTAAAGGAAATCATCGATAACAAACCTCGATCCAAGAAGCCAAA
TGTGCATATGACTGCACAACAACGTAACAAGAAGATAAAGCAAGTAAGTGTACCTTCTTTGCTTG
CTGAAGCTGCTGCCAAGGTAC
Found at i:32689802 original size:18 final size:17
Alignment explanation
Indices: 32689758--32689804 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
32689748 TGTTAAATTG
*
32689758 TTTTATTTGT-AA-TTA
1 TTTTATTTATAAATTTA
32689773 TTTTATTTATAAATTTA
1 TTTTATTTATAAATTTA
*
32689790 TTTTTTTTAATAAAT
1 TTTTATTT-ATAAAT
32689805 GAATTTCATG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 9 0.33
16 2 0.07
17 10 0.37
18 6 0.22
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (17 bp):
TTTTATTTATAAATTTA
Found at i:32689865 original size:10 final size:10
Alignment explanation
Indices: 32689851--32689883 Score: 52
Period size: 9 Copynumber: 3.5 Consensus size: 10
32689841 ATTTATAAAT
32689851 ATTTTTATG-
1 ATTTTTATGC
32689860 ATTTTTATGC
1 ATTTTTATGC
32689870 A-TTTTATGC
1 ATTTTTATGC
32689879 ATTTT
1 ATTTT
32689884 ATAAAATCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 18 0.82
10 4 0.18
ACGTcount: A:0.21, C:0.06, G:0.09, T:0.64
Consensus pattern (10 bp):
ATTTTTATGC
Found at i:32695271 original size:33 final size:31
Alignment explanation
Indices: 32695186--32695271 Score: 84
Period size: 33 Copynumber: 2.6 Consensus size: 31
32695176 AATATTTTTT
*
32695186 TTCTATTTAAAATAAATATAAGTTTAATATATA
1 TTCTATTT--AATATATATAAGTTTAATATATA
*
32695219 TTCTATTTAATATAAATATAAGTTTAATA-ATTT
1 TTCTATTTAATAT--ATATAAGTTTAATATA-TA
32695252 TTAACTATTTAATATATATA
1 TT--CTATTTAATATATATA
32695272 TAATTTTTTC
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
31 4 0.09
32 1 0.02
33 30 0.65
35 11 0.24
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.49
Consensus pattern (31 bp):
TTCTATTTAATATATATAAGTTTAATATATA
Found at i:32696990 original size:25 final size:27
Alignment explanation
Indices: 32696953--32697005 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
32696943 TCAAACATGC
32696953 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
32696979 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
32697005 A
1 A
32697006 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:32698479 original size:25 final size:26
Alignment explanation
Indices: 32698445--32698553 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
32698435 CATGAAATTC
32698445 TTATCATGAAACATTTACCTAACC-A
1 TTATCATGAAACATTTACCTAACCTA
*
32698470 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
32698496 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
32698522 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
32698548 TTATCA
1 TTATCA
32698554 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
25 24 0.30
26 57 0.70
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:32699244 original size:14 final size:15
Alignment explanation
Indices: 32699227--32699255 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
32699217 GAGTATGGTA
32699227 AAATA-TTAAAAAAT
1 AAATATTTAAAAAAT
32699241 AAATATTTAAAAAAT
1 AAATATTTAAAAAAT
32699256 TACTAATAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATATTTAAAAAAT
Found at i:32699661 original size:12 final size:12
Alignment explanation
Indices: 32699644--32699668 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32699634 CATTCATAAT
32699644 ATAAAATTAAAA
1 ATAAAATTAAAA
32699656 ATAAAATTAAAA
1 ATAAAATTAAAA
32699668 A
1 A
32699669 ATTAAAAGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
ATAAAATTAAAA
Found at i:32705534 original size:26 final size:26
Alignment explanation
Indices: 32705504--32705559 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
32705494 TGAAATTCCC
32705504 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
32705530 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
32705556 ATCA
1 ATCA
32705560 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:32706505 original size:42 final size:42
Alignment explanation
Indices: 32706452--32706533 Score: 128
Period size: 42 Copynumber: 2.0 Consensus size: 42
32706442 TATTTAACTC
32706452 TTTGATGTCATTTATAATTCTATACAACTCCCCATTTCTTTT
1 TTTGATGTCATTTATAATTCTATACAACTCCCCATTTCTTTT
* * * *
32706494 TTTGATGTCATTTATACTTCTATAGAACTTCTCATTTCTT
1 TTTGATGTCATTTATAATTCTATACAACTCCCCATTTCTT
32706534 ATCTTTTGGT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.23, C:0.20, G:0.06, T:0.51
Consensus pattern (42 bp):
TTTGATGTCATTTATAATTCTATACAACTCCCCATTTCTTTT
Found at i:32707150 original size:11 final size:11
Alignment explanation
Indices: 32707134--32707158 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
32707124 CTTACGAACC
32707134 CATTTCTCAAT
1 CATTTCTCAAT
32707145 CATTTCTCAAT
1 CATTTCTCAAT
32707156 CAT
1 CAT
32707159 GTCGTACACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.44
Consensus pattern (11 bp):
CATTTCTCAAT
Found at i:32717310 original size:44 final size:44
Alignment explanation
Indices: 32717247--32717544 Score: 194
Period size: 44 Copynumber: 6.6 Consensus size: 44
32717237 ATTGAAGGCT
* *
32717247 TTATCTCTCTGAAGTTGCAGTGGAGCAGGTTGAAGTAGTAAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTAGCAAGTC
* **
32717291 TTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCGAA-TC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAG-TAGC-AAGTC
* * * * * **
32717336 TTATTTCCCTGAAGATACAGTGGAACAGATTG-AGCTATAAATAAATAGATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAG---T--A-GCA-AG-TC
* * ** * * **
32717387 TTATCTCTCTGAAGTTGCAGTAGATTA-GAT-CA-TAGCAAACC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTAGCAAGTC
*
32717428 TTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAGTAGCAAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTAGCAAGTC
* *** *
32717472 TTATCTCCTTGAAGTTGCAGTGGAGCAAACTGAAGATAAC-AGATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAG-TAGCAAG-TC
* *
32717517 TTATCTCCCTGAAGTCGCAATGGAGCAG
1 TTATCTCCCTGAAGTTGCAGTGGAGCAG
32717545 ATCAAAGCCA
Statistics
Matches: 195, Mismatches: 43, Indels: 31
0.72 0.16 0.12
Matches are distributed among these distances:
41 25 0.13
42 3 0.02
43 2 0.01
44 73 0.37
45 60 0.31
46 5 0.03
48 2 0.01
49 1 0.01
50 2 0.01
51 22 0.11
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (44 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTAGCAAGTC
Found at i:32717881 original size:44 final size:44
Alignment explanation
Indices: 32717786--32717952 Score: 140
Period size: 44 Copynumber: 3.8 Consensus size: 44
32717776 CACCATGGTG
*
32717786 AATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGCCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCCACA
* * **
32717830 AACCTTATC-CCTCTGAAGTTGCAGTGGGGTA-AGTTGAAGTTACA
1 AATCTTATCTCC-CTGAAGTTGCAGTGGAGTAGA-TTGAAGCCACA
* * * * * * **
32717874 AGTCTTATTTCCCTGAAGTCGTAGTGGAGCAGACTGAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCCA-CA
* * * *
32717919 AATCTTATCTCCTTGAAGATGCAATGAAGTAGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGAT
32717953 CAAGCTACAA
Statistics
Matches: 94, Mismatches: 24, Indels: 9
0.74 0.19 0.07
Matches are distributed among these distances:
43 3 0.03
44 62 0.66
45 29 0.31
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCCACA
Found at i:32717962 original size:88 final size:88
Alignment explanation
Indices: 32717788--32717962 Score: 192
Period size: 88 Copynumber: 2.0 Consensus size: 88
32717778 CCATGGTGAA
* * * * *
32717788 TCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGCCACAAACCTTATCCCTCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTCGTAGTGGAGCAGACTGAAGACACAAACCTTATCCCTCTGAAGATGCA
* ** * * *
32717853 GTGGGGTAAGTTGAAGTTACAAG
66 ATGAAGTAAGATCAAGCTACAAG
* * *
32717876 TCTTATTTCCCTGAAGTCGTAGTGGAGCAGACTGAAGATAGCAAATCTTATCTCCT-TGAAGATG
1 TCTTATCTCCCTGAAGTCGTAGTGGAGCAGACTGAAGACA-CAAACCTTATC-CCTCTGAAGATG
32717940 CAATGAAGT-AGATCAAGCTACAA
64 CAATGAAGTAAGATCAAGCTACAA
32717963 TAGCAAAAGA
Statistics
Matches: 71, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
88 45 0.63
89 23 0.32
90 3 0.04
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (88 bp):
TCTTATCTCCCTGAAGTCGTAGTGGAGCAGACTGAAGACACAAACCTTATCCCTCTGAAGATGCA
ATGAAGTAAGATCAAGCTACAAG
Found at i:32719961 original size:21 final size:20
Alignment explanation
Indices: 32719920--32719963 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
32719910 CATCATTTGT
32719920 TTTAAATTTATTCATTATTA
1 TTTAAATTTATTCATTATTA
* * *
32719940 TTTAGATTCTATTTATTTTTA
1 TTTAAATT-TATTCATTATTA
32719961 TTT
1 TTT
32719964 TGCCTTATGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (20 bp):
TTTAAATTTATTCATTATTA
Found at i:32721132 original size:36 final size:35
Alignment explanation
Indices: 32721056--32721132 Score: 93
Period size: 36 Copynumber: 2.2 Consensus size: 35
32721046 TAAAGTAAAT
* *
32721056 AAAGAATTAAACAAATAAAGAAACAAAAGAAATAG
1 AAAGAATTAAACAAATAAAGAAACAAAACAAAGAG
* *
32721091 AAAGAA-TAAACAGAATAAGGAGAACGAAACAAAGAG
1 AAAGAATTAAACA-AATAAAGA-AACAAAACAAAGAG
32721127 AAAGAA
1 AAAGAA
32721133 AGTGGAAAGA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
34 6 0.17
35 13 0.36
36 17 0.47
ACGTcount: A:0.69, C:0.06, G:0.17, T:0.08
Consensus pattern (35 bp):
AAAGAATTAAACAAATAAAGAAACAAAACAAAGAG
Found at i:32724920 original size:5 final size:5
Alignment explanation
Indices: 32724910--32724937 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
32724900 CTGTGTGTTC
32724910 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
32724938 TCACAATTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:32731064 original size:39 final size:39
Alignment explanation
Indices: 32731010--32731101 Score: 148
Period size: 39 Copynumber: 2.4 Consensus size: 39
32731000 CAAGACACTG
*
32731010 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTGCTA
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTA
* * *
32731049 GAAATGTATCCGGGCTAAAGTCCTGTAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTA
32731088 GAAATGTATCCGGG
1 GAAATGTATCCGGG
32731102 ACTTTCCGTG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 49 1.00
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (39 bp):
GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTA
Found at i:32741920 original size:39 final size:39
Alignment explanation
Indices: 32741866--32741964 Score: 153
Period size: 39 Copynumber: 2.5 Consensus size: 39
32741856 ATTACATTCC
32741866 GGGCTAAAGTCCCGCAGGCTTCATGCTGGAAATGTATCA
1 GGGCTAAAGTCCCGCAGGCTTCATGCTGGAAATGTATCA
* * *
32741905 GGGCTAAAGTCCCGCAGGCTTCGTGTTGGAAATGTATCC
1 GGGCTAAAGTCCCGCAGGCTTCATGCTGGAAATGTATCA
**
32741944 GGGCTAAAGTTTCGCAGGCTT
1 GGGCTAAAGTCCCGCAGGCTT
32741965 TGTGCTGGTA
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 55 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.25
Consensus pattern (39 bp):
GGGCTAAAGTCCCGCAGGCTTCATGCTGGAAATGTATCA
Found at i:32748928 original size:21 final size:22
Alignment explanation
Indices: 32748882--32748929 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
32748872 TTGGCCCAAG
32748882 CAAATAAACAAAAAATAAAACC
1 CAAATAAACAAAAAATAAAACC
* * *
32748904 CAAATAACCAAATAA-AAAGCC
1 CAAATAAACAAAAAATAAAACC
32748925 CAAAT
1 CAAAT
32748930 TTTAAGTCCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.67, C:0.21, G:0.02, T:0.10
Consensus pattern (22 bp):
CAAATAAACAAAAAATAAAACC
Found at i:32750565 original size:26 final size:25
Alignment explanation
Indices: 32750485--32750749 Score: 87
Period size: 26 Copynumber: 10.4 Consensus size: 25
32750475 CTATTTTTTA
* * *
32750485 TTATTTTAAACTTTCTATATATTAT
1 TTATTTTAAATTTTTTATACATTAT
* *
32750510 TTATTTTGAAATGTTTT-TACATACTCT
1 TTATTTT-AAATTTTTTATACAT--TAT
32750537 TTATTTTAAATTATTTTATACATTAT
1 TTATTTTAAATT-TTTTATACATTAT
* ** * **
32750563 TTATTCTAAATTTTCACATATAGCAT
1 TTATTTTAAATTTT-TTATACATTAT
* * * *
32750589 TTAATTTAAACTATTT-TGCATGTTAT
1 TTATTTTAAATTTTTTATACA--TTAT
* * * *
32750615 TCATTTTAATTTTCTTTTGTA-TTTAT
1 TTATTTTAA-ATT-TTTTATACATTAT
* **
32750641 TTATTTTAAGCTACTTTAGT--ATTAT
1 TTATTTTAA-ATTTTTTA-TACATTAT
* *
32750666 TTATTTT-AAGTTTGTATACATTAT
1 TTATTTTAAATTTTTTATACATTAT
*
32750690 TTATTTGAAACTTTTTTAT--ATTAT
1 TTATTTTAAA-TTTTTTATACATTAT
* * ** *
32750714 TTACTTTAAGTCGCTTTATTCATTAT
1 TTATTTTAAAT-TTTTTATACATTAT
32750740 TTATTTTAAA
1 TTATTTTAAA
32750750 CTTTGTTTCT
Statistics
Matches: 169, Mismatches: 52, Indels: 37
0.66 0.20 0.14
Matches are distributed among these distances:
22 1 0.01
23 4 0.02
24 31 0.18
25 29 0.17
26 81 0.48
27 14 0.08
28 8 0.05
29 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.05, T:0.58
Consensus pattern (25 bp):
TTATTTTAAATTTTTTATACATTAT
Found at i:32750693 original size:24 final size:23
Alignment explanation
Indices: 32750661--32750748 Score: 77
Period size: 24 Copynumber: 3.6 Consensus size: 23
32750651 CTACTTTAGT
32750661 ATTATTTATTTTAAGTTTGTATAC
1 ATTATTTATTTTAAGTTT-TATAC
* * * *
32750685 ATTATTTATTTGAAACTTTTTTAT
1 ATTATTTATTT-TAAGTTTTATAC
* *
32750709 ATTATTTACTTTAAGTCGCTTTATTC
1 ATTATTTATTTTAAGT---TTTATAC
32750735 ATTATTTATTTTAA
1 ATTATTTATTTTAA
32750749 ACTTTGTTTC
Statistics
Matches: 49, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
23 3 0.06
24 24 0.49
25 5 0.10
26 17 0.35
ACGTcount: A:0.28, C:0.07, G:0.06, T:0.59
Consensus pattern (23 bp):
ATTATTTATTTTAAGTTTTATAC
Found at i:32750722 original size:48 final size:48
Alignment explanation
Indices: 32750637--32750770 Score: 139
Period size: 48 Copynumber: 2.8 Consensus size: 48
32750627 TCTTTTGTAT
* ** *
32750637 TTATTTATTTTAAGCTACTTTAGTATTATTTATTTTAAGT-TTGTATACA
1 TTATTTATTTTAAACTTTTTTA-TATTATTTACTTTAAGTCTT-TATACA
* *
32750686 TTATTTATTTGAAACTTTTTTATATTATTTACTTTAAGTCGCTTTATTCA
1 TTATTTATTTTAAACTTTTTTATATTATTTACTTTAAGT--CTTTATACA
* *
32750736 TTATTTATTTTAAACTTTGTT-T-CTATTTACTTTAA
1 TTATTTATTTTAAACTTTTTTATATTATTTACTTTAA
32750771 TTTCTTTTTA
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
48 28 0.38
49 19 0.26
50 24 0.33
51 2 0.03
ACGTcount: A:0.27, C:0.08, G:0.06, T:0.59
Consensus pattern (48 bp):
TTATTTATTTTAAACTTTTTTATATTATTTACTTTAAGTCTTTATACA
Found at i:32756977 original size:12 final size:12
Alignment explanation
Indices: 32756960--32756984 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32756950 CAGAGGCTAT
32756960 TAACAATATTTA
1 TAACAATATTTA
32756972 TAACAATATTTA
1 TAACAATATTTA
32756984 T
1 T
32756985 GTTATAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TAACAATATTTA
Found at i:32764343 original size:30 final size:30
Alignment explanation
Indices: 32764303--32764367 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
32764293 GCAGAAAAAA
*
32764303 CTCTTAAATTTCTCCTTAAAATTT-TCAAAG
1 CTCTCAAATTTCT-CTTAAAATTTCTCAAAG
*
32764333 CTCTCAAATTTCTCTTTAAATTTCTCAAAG
1 CTCTCAAATTTCTCTTAAAATTTCTCAAAG
32764363 CTCTC
1 CTCTC
32764368 TTTAATTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 9 0.28
30 23 0.72
ACGTcount: A:0.29, C:0.25, G:0.03, T:0.43
Consensus pattern (30 bp):
CTCTCAAATTTCTCTTAAAATTTCTCAAAG
Found at i:32766413 original size:21 final size:21
Alignment explanation
Indices: 32766388--32766430 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
32766378 ACCCACAACT
*
32766388 AGAGCAACAATAACCCCCGCC
1 AGAGCAACAACAACCCCCGCC
*
32766409 AGAGCAACCACAACCCCCGCC
1 AGAGCAACAACAACCCCCGCC
32766430 A
1 A
32766431 AAAGCTGAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.37, C:0.47, G:0.14, T:0.02
Consensus pattern (21 bp):
AGAGCAACAACAACCCCCGCC
Found at i:32766589 original size:24 final size:23
Alignment explanation
Indices: 32766562--32766617 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 23
32766552 TGTTTAATAA
32766562 AATAAAAGCTATTTTTA-ATATTTT
1 AATAAAA-CTATTTTTATAT-TTTT
*
32766586 AATAGTAAATTATTTTTATATTTTT
1 AATA--AAACTATTTTTATATTTTT
32766611 AATAAAA
1 AATAAAA
32766618 TAGAAGTTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 3 0.11
24 4 0.14
25 16 0.57
26 5 0.18
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.50
Consensus pattern (23 bp):
AATAAAACTATTTTTATATTTTT
Found at i:32767014 original size:10 final size:10
Alignment explanation
Indices: 32766999--32767042 Score: 70
Period size: 10 Copynumber: 4.4 Consensus size: 10
32766989 AATTTTAGCT
32766999 TTTATCTTTA
1 TTTATCTTTA
*
32767009 TTTATCCTTA
1 TTTATCTTTA
32767019 TTTATCTTTA
1 TTTATCTTTA
*
32767029 ATTATCTTTA
1 TTTATCTTTA
32767039 TTTA
1 TTTA
32767043 ATTGTTTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 30 1.00
ACGTcount: A:0.23, C:0.11, G:0.00, T:0.66
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:32770845 original size:25 final size:25
Alignment explanation
Indices: 32770805--32770852 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
32770795 CGGTGTCACG
32770805 GACCTCACCATCATTGTAAATAAAA
1 GACCTCACCATCATTGTAAATAAAA
* *
32770830 GACCTCACTATTATTGTAAATAA
1 GACCTCACCATCATTGTAAATAA
32770853 CAACACTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (25 bp):
GACCTCACCATCATTGTAAATAAAA
Found at i:32774196 original size:17 final size:17
Alignment explanation
Indices: 32774165--32774198 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
32774155 TGTCTATTTG
**
32774165 GAAAAAAAATGTTAAAA
1 GAAAAAAAACCTTAAAA
32774182 GAAAAAAAACCTTAAAA
1 GAAAAAAAACCTTAAAA
32774199 CGTATAGAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.71, C:0.06, G:0.09, T:0.15
Consensus pattern (17 bp):
GAAAAAAAACCTTAAAA
Found at i:32774459 original size:48 final size:47
Alignment explanation
Indices: 32774392--32774484 Score: 159
Period size: 48 Copynumber: 2.0 Consensus size: 47
32774382 AAATTAATGT
* *
32774392 TTTAAGTAAAAACATTATTACACAGCAGTAATTAAAATAGTAATTGA
1 TTTAAGTAAAAAAATTATTACACAACAGTAATTAAAATAGTAATTGA
32774439 TTTAAGTAAAAAAAATTATTACACAACAGTAATTAAAATAGTAATT
1 TTTAAGT-AAAAAAATTATTACACAACAGTAATTAAAATAGTAATT
32774485 TAGATTAGAT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
47 7 0.16
48 36 0.84
ACGTcount: A:0.52, C:0.08, G:0.09, T:0.32
Consensus pattern (47 bp):
TTTAAGTAAAAAAATTATTACACAACAGTAATTAAAATAGTAATTGA
Found at i:32789392 original size:16 final size:16
Alignment explanation
Indices: 32789371--32789401 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32789361 AAATAAAGTA
32789371 TAATAAAACAAATAGG
1 TAATAAAACAAATAGG
*
32789387 TAATAAAAGAAATAG
1 TAATAAAACAAATAG
32789402 AAAGCCATGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.03, G:0.13, T:0.19
Consensus pattern (16 bp):
TAATAAAACAAATAGG
Found at i:32789897 original size:19 final size:20
Alignment explanation
Indices: 32789873--32789913 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
32789863 AAATTTAGGT
*
32789873 AAATATTGAATA-AAAATTG
1 AAATATTCAATATAAAATTG
*
32789892 AAATATTCAATATGAAATTG
1 AAATATTCAATATAAAATTG
32789912 AA
1 AA
32789914 TTGTGTTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.32
Consensus pattern (20 bp):
AAATATTCAATATAAAATTG
Found at i:32790930 original size:19 final size:19
Alignment explanation
Indices: 32790906--32790944 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
32790896 CTTCTGCCCA
*
32790906 GCCTCCATGCTCCAC-AACG
1 GCCTCCACGC-CCACGAACG
32790925 GCCTCCACGCCCACGAACG
1 GCCTCCACGCCCACGAACG
32790944 G
1 G
32790945 TTTCTCCACG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.21, C:0.49, G:0.21, T:0.10
Consensus pattern (19 bp):
GCCTCCACGCCCACGAACG
Found at i:32810060 original size:18 final size:18
Alignment explanation
Indices: 32810015--32810061 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
32810005 TCGTGTGGCC
*
32810015 TGCCCGTATGAGCCCACA
1 TGCCCGTATGGGCCCACA
*
32810033 TGCCAGTATGGGCCCACA
1 TGCCCGTATGGGCCCACA
*
32810051 TGCCCCTATGG
1 TGCCCGTATGG
32810062 TCCACACGCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.19, C:0.36, G:0.26, T:0.19
Consensus pattern (18 bp):
TGCCCGTATGGGCCCACA
Found at i:32816712 original size:61 final size:61
Alignment explanation
Indices: 32816646--32816778 Score: 248
Period size: 61 Copynumber: 2.2 Consensus size: 61
32816636 ATAAATGCGG
32816646 TATTTTTTTAAATAAAAATGGATATTAAAATAATATATAAAAAAGATTAGAAATCAATTCA
1 TATTTTTTTAAATAAAAATGGATATTAAAATAATATATAAAAAAGATTAGAAATCAATTCA
32816707 TATTTTTTTAAATAAAAATGGATATTAAAATAATATATAAAAAAGATTAGAAATCAATTCA
1 TATTTTTTTAAATAAAAATGGATATTAAAATAATATATAAAAAAGATTAGAAATCAATTCA
* *
32816768 TACTTTGTTAA
1 TATTTTTTTAA
32816779 TAGATAAAGA
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 70 1.00
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.38
Consensus pattern (61 bp):
TATTTTTTTAAATAAAAATGGATATTAAAATAATATATAAAAAAGATTAGAAATCAATTCA
Found at i:32820158 original size:45 final size:45
Alignment explanation
Indices: 32820102--32820206 Score: 147
Period size: 45 Copynumber: 2.3 Consensus size: 45
32820092 TGATATCTGC
* * *
32820102 TATCTTTGATCTGCTCCCTGTCTAATACAGAGACGTCAAATCTAT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTAT
* *
32820147 TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTAT
* *
32820192 CATCTTGGATCTGCT
1 TATCTTCGATCTGCT
32820207 TCGATGTAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 53 1.00
ACGTcount: A:0.24, C:0.27, G:0.15, T:0.34
Consensus pattern (45 bp):
TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTAT
Found at i:32820349 original size:78 final size:78
Alignment explanation
Indices: 32820220--32820513 Score: 412
Period size: 78 Copynumber: 3.8 Consensus size: 78
32820210 ATGTAAACAC
* * * *
32820220 ATGAAGATCAGATCTGCTATGTCTTCGATCTGCTCCCCATCTAAAACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTACTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
32820285 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * *
32820298 ATGAAGGTCCA-ATCTATTATGTCTTCGATATGCTCCCCGTCTAATATAGAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTACTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
*
32820362 TTAGATCTGCTTCA
65 TTGGATCTGCTTCA
* * **
32820376 ATGAAGGTCAGATCTACTATGTCTTCGATCTACTCCCCGTCTAACACAGAGATG-TGAATCATCT
1 ATGAAGGTCAGATCTACTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
32820440 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * * **
32820453 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATC
1 ATGAAGGTCAGATCTACTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
32820514 TGTTTCTTCG
Statistics
Matches: 188, Mismatches: 25, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
77 69 0.37
78 117 0.62
79 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (78 bp):
ATGAAGGTCAGATCTACTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:32820505 original size:155 final size:156
Alignment explanation
Indices: 32820220--32820513 Score: 448
Period size: 155 Copynumber: 1.9 Consensus size: 156
32820210 ATGTAAACAC
* *
32820220 ATGAAGATCAGATCTGCTATGTCTTCGATCTGCTCCCCATCTAAAACAGAGATGCCAAATCATCT
1 ATGAAGATCAGATCTACTATGTCTTCGATCTACTCCCCATCTAAAACAGAGATGCCAAATCATCT
* *
32820285 TGGATCTGCTTCAATGAAGGTCCAATCTATTATGTCTTCGATATGCTCCCCGTCTAATATAGAGA
66 TGGATCTGCTTCAATGAAGGTCCAATCTACTATGTCTTCGATATGCTCCCCGTCGAATATAGAGA
32820350 TGCCAAATCATCTTAGATCTGCTTCA
131 TGCCAAATCATCTTAGATCTGCTTCA
* * * **
32820376 ATGAAGGTCAGATCTACTATGTCTTCGATCTACTCCCCGTCTAACACAGAGATG-TGAATCATCT
1 ATGAAGATCAGATCTACTATGTCTTCGATCTACTCCCCATCTAAAACAGAGATGCCAAATCATCT
* * * *
32820440 TGGATCTGCTTCAATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAG
66 TGGATCTGCTTCAATGAAGGTCCA-ATCTACTATGTCTTCGATATGCTCCCCGTCGAATATAGAG
32820504 ATGCCAAATC
130 ATGCCAAATC
32820514 TGTTTCTTCG
Statistics
Matches: 124, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
154 2 0.02
155 73 0.59
156 49 0.40
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (156 bp):
ATGAAGATCAGATCTACTATGTCTTCGATCTACTCCCCATCTAAAACAGAGATGCCAAATCATCT
TGGATCTGCTTCAATGAAGGTCCAATCTACTATGTCTTCGATATGCTCCCCGTCGAATATAGAGA
TGCCAAATCATCTTAGATCTGCTTCA
Found at i:32820724 original size:78 final size:78
Alignment explanation
Indices: 32820595--32820800 Score: 340
Period size: 78 Copynumber: 2.6 Consensus size: 78
32820585 TGAAAGCCAA
*
32820595 ATCTGCTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATATTGGATCTGCTT
1 ATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATATTGGATCTGCTT
32820660 CAATGAAGGTCAG
66 CAATGAAGGTCAG
* * *
32820673 ATCTGTTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTT
1 ATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATATTGGATCTGCTT
32820738 CAATGAAGGTCAG
66 CAATGAAGGTCAG
* * * *
32820751 GTCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATAGAGATGCCAAATC
1 ATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
32820801 TGTTTCTTCG
Statistics
Matches: 118, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 118 1.00
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (78 bp):
ATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATATTGGATCTGCTT
CAATGAAGGTCAG
Found at i:32820855 original size:286 final size:287
Alignment explanation
Indices: 32820308--32821008 Score: 1208
Period size: 286 Copynumber: 2.4 Consensus size: 287
32820298 ATGAAGGTCC
* * * *
32820308 AATCTATTATGTCTTCGATATGCTCCCCGTCTAATATAGAGATGCCAAATCATCTTAGATCTGCT
1 AATCTACTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
* * * **
32820373 TCAATGAAGGTCAGATCTACTATGTCTTCGATCTACTCCCCGTCTAACACAGAGATG-TGAATCA
66 TCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCA
*
32820437 TCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGG
131 TCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATAG
32820502 AGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATC
196 AGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATC
32820567 TGCTTCAGCGTAAACACGTGAAAGCCA
261 TGCTTCAGCGTAAACACGTGAAAGCCA
* * *
32820594 AATCTGCTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATATTGGATCTGCT
1 AATCTACTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
* *
32820659 TCAATGAAGGTCAGATCTGTTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCA
66 TCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCA
*
32820724 TCTTGGATCTGCTTCAATGAAGGTCAGGTCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATAG
131 TCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATAG
32820789 AGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTT-GATC
196 AGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATC
*
32820853 TGCTTCAGTGTAAACACGTGAAAGCCA
261 TGCTTCAGCGTAAACACGTGAAAGCCA
32820880 AATCTACTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
1 AATCTACTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
* * *
32820945 TCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATAGAGATGCCAAATC
66 TCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
32821009 TGTTTCTTCG
Statistics
Matches: 389, Mismatches: 25, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
286 261 0.67
287 128 0.33
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.32
Consensus pattern (287 bp):
AATCTACTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
TCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCA
TCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATAG
AGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATC
TGCTTCAGCGTAAACACGTGAAAGCCA
Found at i:32820907 original size:208 final size:209
Alignment explanation
Indices: 32820681--32821099 Score: 741
Period size: 208 Copynumber: 2.0 Consensus size: 209
32820671 AGATCTGTTG
32820681 TGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAG
1 TGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAG
*
32820746 GTCAGGTCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATAGAGATGCCAAATCTGTTTCTTCG
66 GTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATAGAGATGCCAAATCTGTTTCTTCG
* * * *
32820811 ATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTT-GATCTGCTTCAGTGTAAACACGTGAA
131 ATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTGGATCCGCTTCAGCGTAAACACCTGAA
32820875 AGCCAAATCTACTA
196 AGCCAAATCTACTA
32820889 TGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAG
1 TGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAG
32820954 GTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATAGAGATGCCAAATCTGTTTCTTCG
66 GTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATAGAGATGCCAAATCTGTTTCTTCG
**
32821019 ATTTGTTCTCTGACAATACAGAGATGTTAAATCATCTTGGATCCGCTTCAGCGTAAACACCTGAA
131 ATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTGGATCCGCTTCAGCGTAAACACCTGAA
* * *
32821084 GGTCAAATCTGCTA
196 AGCCAAATCTACTA
32821098 TG
1 TG
32821100 CTTTAGCCTG
Statistics
Matches: 200, Mismatches: 10, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
208 164 0.82
209 36 0.18
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (209 bp):
TGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAG
GTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATAGAGATGCCAAATCTGTTTCTTCG
ATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTGGATCCGCTTCAGCGTAAACACCTGAA
AGCCAAATCTACTA
Found at i:32820965 original size:364 final size:357
Alignment explanation
Indices: 32820102--32821008 Score: 925
Period size: 364 Copynumber: 2.5 Consensus size: 357
32820092 TGATATCTGC
* * * * * * * * *
32820102 TATCTTTGATCTGCTCCCTGTCTAATACAGAGACGTCAAATCTATTATCTTCGATCTGCTCCCCG
1 TATCTTCGATCTGCTCTCAGTCGAACACGGAGAAGCCAAATCTCTT-TCTTCGATCTGCTCCCCG
*
32820167 TCTAATACAGAGATGCCAAATCTGTCATCTTGGATCTGCTTCGATGTAAACACATGAAGATCAGA
65 TCTAATACAGAGATGCCAAA----TCATCTTGGATCTG---C--T-T--ACACATGAAGGTCAGA
* *
32820232 TCTGCTATGTCTTCGATCTGCTCCCCATCTAAAACAGAGATGCCAAATCATCTTGGATCTGCTTC
118 TCTGCTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATATTGGATCTGCTTC
*
32820297 AATGAAGGTCCAATCTATTATGTCTTCGATATGCTCCCCGTCTAATATAGAGATGCCAAATCATC
183 AATGAAGGTCCAATCTATTATGTCTTCGATATGCTCCCCGTCTAATACAGAGATGCCAAATCATC
*
32820362 TTAGATCTGCTTCAATGAAGGTCAGATCTACTATGTCTTCGATCTACTCCCCGTCTAACACAGAG
248 TTAGATCTGCTTCAATGAAGGTCAGATCTACTATGTCTTCGATCTACTCCCCGTCGAACACAGAG
** * ** *
32820427 ATGTGAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTA
313 ATGCAAATCATCTTCGATCTGCTTCAATGAAGGTCAGAGATGCAA
* * * * * * * * * * *
32820472 TGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGA
1 TATCTTCGATCTGCTCTCAGTCGAACACGGAGAAGCCAAATCTCTTTCTTCGATCTGCTCCCCGT
* * * * *
32820537 C-AGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGC
66 CTAATACAGAGATGCCAAATCATCTTGGATCTGCTT-A-C----ACA--TGAAGGTCAGATCTGC
32820601 TATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATATTGGATCTGCTTCAATGA
123 TATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATATTGGATCTGCTTCAATGA
* * * *
32820666 AGGT-CAGATCTGTTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
188 AGGTCCA-ATCTATTATGTCTTCGATATGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTAG
* * * * * *
32820730 ATCTGCTTCAATGAAGGTCAGGTCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATAGAGATGC
252 ATCTGCTTCAATGAAGGTCAGATCTACTATGTCTTCGATCTACTCCCCGTCGAACACAGAGATG-
* * **
32820795 CAAATCTGTTTCTTCGATTTG-TTCTCTGACA-GTACAGAGATGCCAAA
316 CAAATC---ATCTTCGATCTGCTTCAATGA-AGGT-CAGAGATG-C-AA
32820842 TCATCTT-GATCTGCT-TCAGT-GTAAACACGTGA-AAGCCAAATCTACTATGTCTTCGATCTGC
1 T-ATCTTCGATCTGCTCTCAGTCG--AACACG-GAGAAGCCAAATCT-CT-T-TCTTCGATCTGC
32820903 TCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTT-CA-ATGAAGGTCAGATCTGCT
59 TCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTACACATGAAGGTCAGATCTGCT
* * * *
32820966 ATGTCTTCGATCTGCTCTCCGTCGAATATAGAGATGCCAAATC
124 ATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATC
32821009 TGTTTCTTCG
Statistics
Matches: 447, Mismatches: 66, Indels: 54
0.79 0.12 0.10
Matches are distributed among these distances:
357 1 0.00
358 2 0.00
359 1 0.00
361 1 0.00
362 3 0.01
363 2 0.00
364 254 0.57
365 4 0.01
366 1 0.00
367 9 0.02
368 33 0.07
369 20 0.04
370 60 0.13
371 8 0.02
372 1 0.00
373 15 0.03
374 32 0.07
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (357 bp):
TATCTTCGATCTGCTCTCAGTCGAACACGGAGAAGCCAAATCTCTTTCTTCGATCTGCTCCCCGT
CTAATACAGAGATGCCAAATCATCTTGGATCTGCTTACACATGAAGGTCAGATCTGCTATGTCTT
CGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATATTGGATCTGCTTCAATGAAGGTCCAA
TCTATTATGTCTTCGATATGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTAGATCTGCTTC
AATGAAGGTCAGATCTACTATGTCTTCGATCTACTCCCCGTCGAACACAGAGATGCAAATCATCT
TCGATCTGCTTCAATGAAGGTCAGAGATGCAA
Found at i:32836552 original size:13 final size:14
Alignment explanation
Indices: 32836536--32836564 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
32836526 AAAGAAAGTC
32836536 ATTAAAAA-TTAAT
1 ATTAAAAATTTAAT
32836549 ATTAAAAATTTAAT
1 ATTAAAAATTTAAT
32836563 AT
1 AT
32836565 ATACAACTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
ATTAAAAATTTAAT
Found at i:32844833 original size:104 final size:104
Alignment explanation
Indices: 32844699--32844907 Score: 400
Period size: 104 Copynumber: 2.0 Consensus size: 104
32844689 ACCAGCTGCT
32844699 GGCTTCTGTTTCTAAGTTACAGTTGAGGCATAAGTTAAAAAACCGAGCACCACAATCTGCAATGC
1 GGCTTCTGTTTCTAAGTTACAGTTGAGGCATAAGTTAAAAAACCGAGCACCACAATCTGCAATGC
* *
32844764 ATCGTCCGGAGGCTGTCATTGTTTCATACACCGTTGATG
66 ATCGTCCGGAGGCTGTCATTGTTCCAGACACCGTTGATG
32844803 GGCTTCTGTTTCTAAGTTACAGTTGAGGCATAAGTTAAAAAACCGAGCACCACAATCTGCAATGC
1 GGCTTCTGTTTCTAAGTTACAGTTGAGGCATAAGTTAAAAAACCGAGCACCACAATCTGCAATGC
32844868 ATCGTCCGGAGGCTGTCATTGTTCCAGACACCGTTGATG
66 ATCGTCCGGAGGCTGTCATTGTTCCAGACACCGTTGATG
32844907 G
1 G
32844908 CTGATTCCAA
Statistics
Matches: 103, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
104 103 1.00
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (104 bp):
GGCTTCTGTTTCTAAGTTACAGTTGAGGCATAAGTTAAAAAACCGAGCACCACAATCTGCAATGC
ATCGTCCGGAGGCTGTCATTGTTCCAGACACCGTTGATG
Found at i:32847235 original size:18 final size:17
Alignment explanation
Indices: 32847209--32847243 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
32847199 AATAAAAGGA
32847209 TTTTTTTTTCAATTTTC
1 TTTTTTTTTCAATTTTC
*
32847226 TTTTTCTTTTTAATTTTC
1 TTTTT-TTTTCAATTTTC
32847244 ATGAAATCAT
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:0.11, C:0.11, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTTTTTTCAATTTTC
Found at i:32865322 original size:44 final size:43
Alignment explanation
Indices: 32865091--32865416 Score: 209
Period size: 44 Copynumber: 7.6 Consensus size: 43
32865081 AAAGAATTTC
* *
32865091 AGATCTTATCTCCTTGAGGTTACAGCGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAG-CAG
* * * * * *
32865135 AAATCCTATCTCCTTGAGATTACAATGGAGCGGATT-AA--AG
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCAG
* * * * * *
32865175 -GATCTTATCTCTCTGAAGTTACAGTAGAGAAGA-TCACATCAG
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGA-AGCAG
* * * *** * *
32865217 -G-TCTTATTTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTC
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCA---G
32865261 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAG-CAG
* * *
32865305 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA-
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAG-CAG
** * * * * ** *
32865348 CTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAA
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCAG
*
32865391 AGGATCTTATCTCTCTGAGGTTACAG
1 A-GATCTTATCTCCCTGAGGTTACAG
32865417 CAGAGTAGAT
Statistics
Matches: 213, Mismatches: 56, Indels: 26
0.72 0.19 0.09
Matches are distributed among these distances:
38 1 0.00
39 24 0.11
40 3 0.01
41 26 0.12
42 5 0.02
43 32 0.15
44 89 0.42
45 1 0.00
46 31 0.15
47 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (43 bp):
AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCAG
Found at i:32865358 original size:87 final size:88
Alignment explanation
Indices: 32865048--32865383 Score: 316
Period size: 90 Copynumber: 3.9 Consensus size: 88
32865038 ATTATACAGG
* * * *
32865048 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCTTGAGGTTA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAA--TCAGATCTTATCTCCCTGAAGTTA
* *
32865113 CAGCGGAGCAGATTGAAGCCAGAAA
64 CAGTGGAGCAGATTGAAGCCAGAGA
* * * * * *
32865138 TCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAG-----GATCTTATCTCTCTGAAGTTACA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAATCAGATCTTATCTCCCTGAAGTTACA
* * * *
32865198 GTAGAGAAGA-TCACA-TCAG-G-
66 GTGGAGCAGATTGA-AGCCAGAGA
* * * *
32865218 TCTTATTTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAGGTTA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAA--TCAGATCTTATCTCCCTGAAGTTA
32865283 CAGTGGAGCAGATTGAAGCCAGAGA
64 CAGTGGAGCAGATTGAAGCCAGAGA
* * * *
32865308 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAG-A-CACTATCCTATCTCCCTGAAGTTAC
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAATCA-GATCTTATCTCCCTGAAGTTAC
*
32865371 AGTGGAGCGGATT
65 AGTGGAGCAGATT
32865384 AAAATAAAGG
Statistics
Matches: 194, Mismatches: 39, Indels: 29
0.74 0.15 0.11
Matches are distributed among these distances:
80 29 0.15
82 5 0.03
83 28 0.14
86 2 0.01
87 61 0.31
88 5 0.03
89 2 0.01
90 62 0.32
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (88 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAATCAGATCTTATCTCCCTGAAGTTACA
GTGGAGCAGATTGAAGCCAGAGA
Found at i:32865397 original size:87 final size:87
Alignment explanation
Indices: 32865267--32865428 Score: 218
Period size: 87 Copynumber: 1.9 Consensus size: 87
32865257 TTTCAGATCT
* * ** *
32865267 TATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCG
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGAAAGAGATCTTATCTCCCTGAGATTACAGCA
32865332 GAGCAGATCGAAGACACTATCC
66 GAGCAGATCGAAGACACTATCC
* * * *
32865354 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAG-GATCTTATCTCTCTGAGGTTACAGC
1 TATCTCCCTGAAGTTACAGTGGAGCAGATT-AAAGAAAGAGATCTTATCTCCCTGAGATTACAGC
*
32865418 AGAGTAGATCG
65 AGAGCAGATCG
32865429 CATCAAGTCT
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
87 60 0.94
88 4 0.06
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (87 bp):
TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGAAAGAGATCTTATCTCCCTGAGATTACAGCA
GAGCAGATCGAAGACACTATCC
Found at i:32870353 original size:14 final size:15
Alignment explanation
Indices: 32870329--32870357 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
32870319 TCTAATTACA
32870329 AGGATATTTAATAAC
1 AGGATATTTAATAAC
32870344 AGGA-ATTTAATAAC
1 AGGATATTTAATAAC
32870358 CAAATCTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.48, C:0.07, G:0.14, T:0.31
Consensus pattern (15 bp):
AGGATATTTAATAAC
Found at i:32873941 original size:23 final size:23
Alignment explanation
Indices: 32873915--32873965 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
32873905 AACTTGGAAT
32873915 AATAAA-AAAT-AAAACAGTTTAAA
1 AATAAACAAATGAAAA-A-TTTAAA
*
32873938 AATAAACAAATGAAAAATTTACA
1 AATAAACAAATGAAAAATTTAAA
32873961 AATAA
1 AATAA
32873966 CATATAAAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 16 0.64
24 5 0.20
25 4 0.16
ACGTcount: A:0.69, C:0.06, G:0.04, T:0.22
Consensus pattern (23 bp):
AATAAACAAATGAAAAATTTAAA
Found at i:32874042 original size:11 final size:11
Alignment explanation
Indices: 32874001--32874043 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
32873991 ATATAACATC
32874001 TAAAT-AAATA
1 TAAATAAAATA
*
32874011 GTAAATAAAACA
1 -TAAATAAAATA
32874023 TATAATAAAATA
1 TA-AATAAAATA
32874035 TAAATAAAA
1 TAAATAAAA
32874044 CAGCTTGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 14 0.50
12 14 0.50
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (11 bp):
TAAATAAAATA
Found at i:32877174 original size:12 final size:12
Alignment explanation
Indices: 32877155--32877194 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
32877145 AAATTTTGTA
32877155 AAAT-TTACTAT
1 AAATATTACTAT
32877166 AAATATTACTAT
1 AAATATTACTAT
*
32877178 AAACATTAACTAT
1 AAATATT-ACTAT
32877191 AAAT
1 AAAT
32877195 TGATAGGTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 4 0.16
12 13 0.52
13 8 0.32
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.38
Consensus pattern (12 bp):
AAATATTACTAT
Found at i:32878956 original size:27 final size:27
Alignment explanation
Indices: 32878916--32878982 Score: 116
Period size: 27 Copynumber: 2.4 Consensus size: 27
32878906 TTTTGTGCAT
32878916 AAAAGAGGGTAAAGTGGAGTGACTTGAAG
1 AAAAG-GGG-AAAGTGGAGTGACTTGAAG
32878945 AAAAGGGGAAAGTGGAGTGACTTGAAG
1 AAAAGGGGAAAGTGGAGTGACTTGAAG
32878972 AAAAGGGGAAA
1 AAAAGGGGAAA
32878983 AGGAAGTTGG
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
27 30 0.79
28 3 0.08
29 5 0.13
ACGTcount: A:0.45, C:0.03, G:0.39, T:0.13
Consensus pattern (27 bp):
AAAAGGGGAAAGTGGAGTGACTTGAAG
Found at i:32882571 original size:21 final size:21
Alignment explanation
Indices: 32882547--32882597 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
32882537 CCAAACCTTG
*
32882547 AGGTTTCGAGTTTGGAATTTA
1 AGGTTTAGAGTTTGGAATTTA
*
32882568 AGGTTTAGAGTTTGGGATTTA
1 AGGTTTAGAGTTTGGAATTTA
32882589 AGGTTTAGA
1 AGGTTTAGA
32882598 TTCGAGGTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.25, C:0.02, G:0.31, T:0.41
Consensus pattern (21 bp):
AGGTTTAGAGTTTGGAATTTA
Found at i:32884610 original size:10 final size:10
Alignment explanation
Indices: 32884595--32884626 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
32884585 TAAATACATT
32884595 TAATTAAAGA
1 TAATTAAAGA
32884605 TAATTAAAGA
1 TAATTAAAGA
32884615 TAATTAAA-A
1 TAATTAAAGA
32884624 TAA
1 TAA
32884627 AATCCTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:32884652 original size:27 final size:26
Alignment explanation
Indices: 32884622--32884684 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
32884612 AGATAATTAA
32884622 AATAAAATCCTAAAATTAAATAATCCT
1 AATAAAATCCTAAAATT-AATAATCCT
* * * *
32884649 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCCTAAAATTAATAATCCT
32884676 AATATAAAT
1 AATA-AAAT
32884685 AAAATGGAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 19 0.66
28 10 0.34
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (26 bp):
AATAAAATCCTAAAATTAATAATCCT
Found at i:32884671 original size:15 final size:15
Alignment explanation
Indices: 32884651--32884680 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
32884641 ATAATCCTAA
*
32884651 TAATTATCTTAATAT
1 TAATTATCCTAATAT
32884666 TAATTATCCTAATAT
1 TAATTATCCTAATAT
32884681 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:32888061 original size:42 final size:42
Alignment explanation
Indices: 32888001--32888104 Score: 118
Period size: 42 Copynumber: 2.5 Consensus size: 42
32887991 CCGAAGGCTG
* * * *
32888001 AACAAAAGCTCGTGAGAGCTAAACAGAAACCCATAAGGGTTG
1 AACAGAAGCTCGTAAGAGCTAAACAGAAACCCATAAAGGTTA
* * * *
32888043 AACGGAAGCTCGTAAGAGCTGAACGGAAACCCGTAAAGGTTA
1 AACAGAAGCTCGTAAGAGCTAAACAGAAACCCATAAAGGTTA
**
32888085 AACAGAAGCTCAAAAGAGCT
1 AACAGAAGCTCGTAAGAGCT
32888105 TAATTGAAAC
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.42, C:0.19, G:0.25, T:0.13
Consensus pattern (42 bp):
AACAGAAGCTCGTAAGAGCTAAACAGAAACCCATAAAGGTTA
Found at i:32888077 original size:21 final size:21
Alignment explanation
Indices: 32888015--32888078 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
32888005 AAAGCTCGTG
* * *
32888015 AGAGCTAAACAGAAACCCATA
1 AGAGCTGAACGGAAACCCGTA
* * * *
32888036 AGGGTTGAACGGAAGCTCGTA
1 AGAGCTGAACGGAAACCCGTA
32888057 AGAGCTGAACGGAAACCCGTA
1 AGAGCTGAACGGAAACCCGTA
32888078 A
1 A
32888079 AGGTTAAACA
Statistics
Matches: 32, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.41, C:0.20, G:0.27, T:0.12
Consensus pattern (21 bp):
AGAGCTGAACGGAAACCCGTA
Found at i:32888252 original size:19 final size:19
Alignment explanation
Indices: 32888228--32888268 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
32888218 TCCTCCAATG
*
32888228 TGATCAATTCATTAATTTT
1 TGATCAATTCATCAATTTT
32888247 TGATCAATTCATCAATTTT
1 TGATCAATTCATCAATTTT
32888266 TGA
1 TGA
32888269 ATGTACTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.32, C:0.12, G:0.07, T:0.49
Consensus pattern (19 bp):
TGATCAATTCATCAATTTT
Found at i:32892787 original size:22 final size:22
Alignment explanation
Indices: 32892751--32892792 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
32892741 AGCAACTTGA
*
32892751 TTTTTCTTTAGTTTCTTTTTTC
1 TTTTTCTTTAGTTTCCTTTTTC
**
32892773 TTTTTCTTTTTTTTCCTTTT
1 TTTTTCTTTAGTTTCCTTTT
32892793 CTGTTTACTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.02, C:0.14, G:0.02, T:0.81
Consensus pattern (22 bp):
TTTTTCTTTAGTTTCCTTTTTC
Found at i:32902347 original size:3 final size:3
Alignment explanation
Indices: 32902332--32902391 Score: 63
Period size: 3 Copynumber: 21.0 Consensus size: 3
32902322 TTCGGGAACA
* * * *
32902332 AAG AAG GAG AAG AAG AAA AAG AA- AAG AAG GAG AAG AAG GA- AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
32902378 -AG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG
32902392 GAGGAGCCGG
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
2 5 0.11
3 41 0.89
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:32903136 original size:150 final size:150
Alignment explanation
Indices: 32902979--32903480 Score: 735
Period size: 150 Copynumber: 3.4 Consensus size: 150
32902969 AAAATAAAAA
* * * *
32902979 ATAAAAAATAAAATATGAAAATATTATATTTTAAAAAATAAAATACGAAAATAAAAAAATATGAA
1 ATAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAATAAAAAAATAAGAA
32903044 CAAAGTGTCAAAGTCAGGGTTATTTATTAAATTAATATAAAAAACACTTAAATAATACATTTGAA
66 CAAAGTGTCAAAGTCAGGGTTATTTATTAAATTAATATAAAAAACACTTAAATAATACATTTGAA
*
32903109 ACATTTTTAGCTAAAGTAAT
131 ACATTTTTAGCTAAAATAAT
* *
32903129 ATAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAATATAC-AAAA-ATAAAAATACGAA
1 ATAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAATAAAAAAATAAGAA
* * **
32903192 TAAAGTGCTAAAAG-CAGGGTTATTTATTAAAAAAATATAAAAAACACTTAAATAATACATTTGA
66 CAAAGTG-TCAAAGTCAGGGTTATTTATTAAATTAATATAAAAAACACTTAAATAATACATTTGA
*
32903256 AACATTATGTA-CTAAAATAAT
130 AACATT-TTTAGCTAAAATAAT
* *
32903277 ATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATAGGAAAATAAAAAAA-AAGA
1 ATAAA-AAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAATAAAAAAATAAGA
* * * * *
32903341 AGAAAATGCCAAAATCAGGGTTGTTTATTAAATTAATATAAAAAACACTTAAATAATACATTTGA
65 ACAAAGTGTCAAAGTCAGGGTTATTTATTAAATTAATATAAAAAACACTTAAATAATACATTTGA
*
32903406 AACATTTTTTGCTAAAATAAT
130 AACATTTTTAGCTAAAATAAT
* *
32903427 ATAAAAAAATAAAATACGAAAATAATATATTATAAAAAATAATATACAAAAATA
1 AT-AAAAAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAATA
32903481 TTTTACTTAT
Statistics
Matches: 315, Mismatches: 29, Indels: 16
0.88 0.08 0.04
Matches are distributed among these distances:
148 85 0.27
149 56 0.18
150 165 0.52
151 9 0.03
ACGTcount: A:0.58, C:0.06, G:0.07, T:0.28
Consensus pattern (150 bp):
ATAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAATAAAAAAATAAGAA
CAAAGTGTCAAAGTCAGGGTTATTTATTAAATTAATATAAAAAACACTTAAATAATACATTTGAA
ACATTTTTAGCTAAAATAAT
Found at i:32903437 original size:13 final size:14
Alignment explanation
Indices: 32903419--32903478 Score: 61
Period size: 15 Copynumber: 4.2 Consensus size: 14
32903409 ATTTTTTGCT
32903419 AAAATAATATA-AA
1 AAAATAATATACAA
*
32903432 AAAATAAAATACGAA
1 AAAATAATATAC-AA
*
32903447 AATAAT-ATATTATAA
1 AA-AATAATA-TACAA
32903462 AAAATAATATACAA
1 AAAATAATATACAA
32903476 AAA
1 AAA
32903479 TATTTTACTT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
13 10 0.26
14 10 0.26
15 13 0.34
16 5 0.13
ACGTcount: A:0.72, C:0.03, G:0.02, T:0.23
Consensus pattern (14 bp):
AAAATAATATACAA
Found at i:32903479 original size:13 final size:13
Alignment explanation
Indices: 32903419--32903480 Score: 54
Period size: 13 Copynumber: 4.5 Consensus size: 13
32903409 ATTTTTTGCT
*
32903419 AAAATAATATAAA
1 AAAATAATATACA
*
32903432 AAAATAAAATACGAA
1 AAAATAATATAC--A
32903447 AATAATATATTATA-A
1 AA-AATA-A-TATACA
32903462 AAAATAATATACA
1 AAAATAATATACA
32903475 AAAATA
1 AAAATA
32903481 TTTTACTTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
12 4 0.10
13 18 0.45
14 4 0.10
15 6 0.15
16 4 0.10
17 1 0.03
18 3 0.08
ACGTcount: A:0.71, C:0.03, G:0.02, T:0.24
Consensus pattern (13 bp):
AAAATAATATACA
Found at i:32904596 original size:17 final size:17
Alignment explanation
Indices: 32904565--32904627 Score: 65
Period size: 17 Copynumber: 3.7 Consensus size: 17
32904555 AATAAATATA
32904565 TATATTTTTATTTTTAAT
1 TATATTTTTA-TTTTAAT
32904583 TATATTTTTATTTTAAT
1 TATATTTTTATTTTAAT
* * * *
32904600 TTTAATTTTAATATAAT
1 TATATTTTTATTTTAAT
*
32904617 CA-ATTTTTATT
1 TATATTTTTATT
32904628 ATATATTTTC
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
16 7 0.19
17 20 0.54
18 10 0.27
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (17 bp):
TATATTTTTATTTTAAT
Found at i:32904609 original size:6 final size:6
Alignment explanation
Indices: 32904570--32904611 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
32904560 ATATATATAT
* * *
32904570 TTTTAT TTTTAA TTAT-A TTTTTA TTTTAA TTTTAA TTTTAA T
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA T
32904612 ATAATCAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
5 4 0.13
6 27 0.87
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (6 bp):
TTTTAA
Found at i:32904672 original size:40 final size:40
Alignment explanation
Indices: 32904628--32904708 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 40
32904618 AATTTTTATT
32904628 ATATATTTTCAATTTGTGTATTGTTTTAAGAATTGTTTTA
1 ATATATTTTCAATTTGTGTATTGTTTTAAGAATTGTTTTA
** * * * * *
32904668 ATATATTTTTTATTTGTTTCTTTTTTTAATATTTGTTTTA
1 ATATATTTTCAATTTGTGTATTGTTTTAAGAATTGTTTTA
32904708 A
1 A
32904709 ATGTATTTGA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.25, C:0.02, G:0.09, T:0.64
Consensus pattern (40 bp):
ATATATTTTCAATTTGTGTATTGTTTTAAGAATTGTTTTA
Found at i:32906599 original size:17 final size:17
Alignment explanation
Indices: 32906579--32906617 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
32906569 AATACATTAC
32906579 AACATTAATCT-AATTGG
1 AACATTAAT-TAAATTGG
32906596 AACATTAATTAAATTGG
1 AACATTAATTAAATTGG
32906613 AACAT
1 AACAT
32906618 ACTATTACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 1 0.05
17 20 0.95
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.33
Consensus pattern (17 bp):
AACATTAATTAAATTGG
Found at i:32909838 original size:15 final size:16
Alignment explanation
Indices: 32909817--32909852 Score: 65
Period size: 15 Copynumber: 2.3 Consensus size: 16
32909807 ATGCAGTGAG
32909817 ATCTTGAGCTCTATGT
1 ATCTTGAGCTCTATGT
32909833 -TCTTGAGCTCTATGT
1 ATCTTGAGCTCTATGT
32909848 ATCTT
1 ATCTT
32909853 CCTCTGGGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.17, C:0.19, G:0.17, T:0.47
Consensus pattern (16 bp):
ATCTTGAGCTCTATGT
Found at i:32910915 original size:11 final size:11
Alignment explanation
Indices: 32910896--32910932 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
32910886 AAATTATACC
32910896 TTCTTTTTTCT
1 TTCTTTTTTCT
*
32910907 TTTTTTTTTCT
1 TTCTTTTTTCT
*
32910918 TTCTTTTTTCC
1 TTCTTTTTTCT
32910929 TTCT
1 TTCT
32910933 CCTTCTTCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (11 bp):
TTCTTTTTTCT
Found at i:32912488 original size:38 final size:38
Alignment explanation
Indices: 32912446--32912526 Score: 94
Period size: 38 Copynumber: 2.1 Consensus size: 38
32912436 ACTCTTTCAT
* * *
32912446 ATTTTCTCTTCTTTTATCAT-TCCAATTTAGAAAAG-TTG
1 ATTTTCTCTCCTCTTATCATCT-CAATTTA-AAAAGATTA
*
32912484 ATTTTCTCTCCTCTTATTATCTCAATTTAAAAAGATTA
1 ATTTTCTCTCCTCTTATCATCTCAATTTAAAAAGATTA
32912522 ATTTT
1 ATTTT
32912527 AAGCATTAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
37 5 0.14
38 31 0.84
39 1 0.03
ACGTcount: A:0.28, C:0.16, G:0.05, T:0.51
Consensus pattern (38 bp):
ATTTTCTCTCCTCTTATCATCTCAATTTAAAAAGATTA
Found at i:32912852 original size:17 final size:17
Alignment explanation
Indices: 32912830--32912864 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 17
32912820 CCCCAATCAT
32912830 TTTTTTATTATTAATATAA
1 TTTTTTA-T-TTAATATAA
32912849 TTTTTTATTTAATATA
1 TTTTTTATTTAATATA
32912865 TATAACATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 1 0.06
19 7 0.44
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTTTATTTAATATAA
Found at i:32912867 original size:21 final size:19
Alignment explanation
Indices: 32912830--32912869 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
32912820 CCCCAATCAT
*
32912830 TTTTTTATTATTAATATAA
1 TTTTTTATTAATAATATAA
32912849 TTTTTTATTTAATATATATAA
1 TTTTTTA-TTAATA-ATATAA
32912870 CATAAGCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 5 0.28
21 6 0.33
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTTTATTAATAATATAA
Found at i:32925881 original size:32 final size:32
Alignment explanation
Indices: 32925845--32925913 Score: 77
Period size: 32 Copynumber: 2.2 Consensus size: 32
32925835 TGAAAAATCA
*
32925845 AATTTAAAAGGAAAT-TTTCAAATTATATATTT
1 AATTTAAAA-GAAATAATTCAAATTATATATTT
*** *
32925877 AATTTTGTAGAAATAATTCAATTTATATATTT
1 AATTTAAAAGAAATAATTCAAATTATATATTT
32925909 AATTT
1 AATTT
32925914 CAATATCTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
31 5 0.16
32 26 0.84
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (32 bp):
AATTTAAAAGAAATAATTCAAATTATATATTT
Found at i:32929490 original size:23 final size:24
Alignment explanation
Indices: 32929452--32929500 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
32929442 AATTTTAAAA
* *
32929452 TCTAAAAATTAGAAAGATTAAATT
1 TCTAAAAATTAAAAAGATCAAATT
*
32929476 TCTAAAAA-TAAAAAGGTCAAATT
1 TCTAAAAATTAAAAAGATCAAATT
32929499 TC
1 TC
32929501 AAACGCACGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.53, C:0.08, G:0.08, T:0.31
Consensus pattern (24 bp):
TCTAAAAATTAAAAAGATCAAATT
Found at i:32930758 original size:49 final size:49
Alignment explanation
Indices: 32930686--32930786 Score: 202
Period size: 49 Copynumber: 2.1 Consensus size: 49
32930676 TATAAAAGTT
32930686 AGTAGTGGTGACTAAATAGAAAAAAACATGCGAAGAACAAAGCAGAACA
1 AGTAGTGGTGACTAAATAGAAAAAAACATGCGAAGAACAAAGCAGAACA
32930735 AGTAGTGGTGACTAAATAGAAAAAAACATGCGAAGAACAAAGCAGAACA
1 AGTAGTGGTGACTAAATAGAAAAAAACATGCGAAGAACAAAGCAGAACA
32930784 AGT
1 AGT
32930787 TCCCAACTAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 52 1.00
ACGTcount: A:0.52, C:0.12, G:0.23, T:0.13
Consensus pattern (49 bp):
AGTAGTGGTGACTAAATAGAAAAAAACATGCGAAGAACAAAGCAGAACA
Found at i:32934205 original size:26 final size:28
Alignment explanation
Indices: 32934162--32934217 Score: 80
Period size: 26 Copynumber: 2.1 Consensus size: 28
32934152 AGATAACTAC
32934162 TAATATATTAAAATATATTAATATAAAA
1 TAATATATTAAAATATATTAATATAAAA
* *
32934190 TAATAT-TTTAAA-ATATTAGTATAAAA
1 TAATATATTAAAATATATTAATATAAAA
32934216 TA
1 TA
32934218 TTTATTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 15 0.58
27 5 0.19
28 6 0.23
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (28 bp):
TAATATATTAAAATATATTAATATAAAA
Found at i:32934214 original size:13 final size:13
Alignment explanation
Indices: 32934176--32934219 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
32934166 ATATTAAAAT
32934176 ATATTAATATAAA
1 ATATTAATATAAA
* * *
32934189 ATAATATTTTAAA
1 ATATTAATATAAA
*
32934202 ATATTAGTATAAA
1 ATATTAATATAAA
32934215 ATATT
1 ATATT
32934220 TATTTTTTAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (13 bp):
ATATTAATATAAA
Found at i:32935427 original size:18 final size:19
Alignment explanation
Indices: 32935388--32935428 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
32935378 AAAAACTATA
32935388 ATATTTTTTTATGAATAAAT
1 ATATTTTTTTATGAAT-AAT
32935408 ATATTATTTTTAT-AAT-AT
1 ATATT-TTTTTATGAATAAT
32935426 ATA
1 ATA
32935429 GTACGGACAC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
18 5 0.25
20 8 0.40
21 7 0.35
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (19 bp):
ATATTTTTTTATGAATAAT
Found at i:32943564 original size:9 final size:9
Alignment explanation
Indices: 32943550--32943815 Score: 87
Period size: 9 Copynumber: 28.1 Consensus size: 9
32943540 CTGATTTTAT
32943550 TAAAAATTA
1 TAAAAATTA
32943559 TAAAAAAATTA
1 T--AAAAATTA
32943570 TAAAAA--A
1 TAAAAATTA
* *
32943577 TTAAAATCAA
1 TAAAAAT-TA
**
32943587 TAAAAGCTA
1 TAAAAATTA
*
32943596 TAAATATTA
1 TAAAAATTA
**
32943605 TTAAATTTTTAA
1 -TAAA-AATT-A
*
32943617 TAAAAATCA
1 TAAAAATTA
32943626 TAAAAATTA
1 TAAAAATTA
* *
32943635 GAAAAAATA
1 TAAAAATTA
* *
32943644 GAAAAAATA
1 TAAAAATTA
*
32943653 TAAAAATCA
1 TAAAAATTA
* *
32943662 TTAAAAAATG
1 -TAAAAATTA
*
32943672 TAAAAATTTG
1 TAAAAA-TTA
*
32943682 TAAAATTTTA
1 TAAAA-ATTA
32943692 TAAAAATCGTA
1 TAAAAAT--TA
*
32943703 AAAAAATTA
1 TAAAAATTA
32943712 T-AAAATATA
1 TAAAAAT-TA
*
32943721 TAGAAA-TA
1 TAAAAATTA
32943729 TAAAAATTA
1 TAAAAATTA
32943738 TAAAAAAATTA
1 T--AAAAATTA
* *
32943749 T-AAAGTCA
1 TAAAAATTA
*
32943757 TAAGAATTA
1 TAAAAATTA
32943766 TACAAAA-TA
1 TA-AAAATTA
*
32943775 TAAAGAAATA
1 TAAA-AATTA
*
32943785 T-AAATTTCA
1 TAAAAATT-A
32943794 TAAAAAAAATTA
1 T---AAAAATTA
32943806 TAAAAATTA
1 TAAAAATTA
32943815 T
1 T
32943816 CGTACCAAAA
Statistics
Matches: 192, Mismatches: 38, Indels: 54
0.68 0.13 0.19
Matches are distributed among these distances:
7 6 0.03
8 22 0.11
9 84 0.44
10 39 0.20
11 33 0.17
12 3 0.02
13 5 0.03
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.30
Consensus pattern (9 bp):
TAAAAATTA
Found at i:32943564 original size:10 final size:10
Alignment explanation
Indices: 32943546--32943579 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
32943536 GCTTCTGATT
*
32943546 TTATTAAAAA
1 TTATAAAAAA
32943556 TTATAAAAAAA
1 TTAT-AAAAAA
32943567 TTATAAAAAA
1 TTATAAAAAA
32943577 TTA
1 TTA
32943580 AAATCAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
TTATAAAAAA
Found at i:32943567 original size:11 final size:11
Alignment explanation
Indices: 32943551--32943576 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
32943541 TGATTTTATT
32943551 AAAAATTATAA
1 AAAAATTATAA
32943562 AAAAATTATAA
1 AAAAATTATAA
32943573 AAAA
1 AAAA
32943577 TTAAAATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (11 bp):
AAAAATTATAA
Found at i:32943640 original size:76 final size:75
Alignment explanation
Indices: 32943550--32943706 Score: 176
Period size: 76 Copynumber: 2.1 Consensus size: 75
32943540 CTGATTTTAT
* * ** * *
32943550 TAAAAATTATAAAAAAATTATAAAAAAT-T-AAAATCAATAAAAGCTATAAATATTAT-TAAATT
1 TAAAAATTA-GAAAAAA-TAGAAAAAATATAAAAATCAATAAAAAATATAAAAATT-TGTAAAAT
32943612 TTTAATAAAAATCA
63 TTT-ATAAAAATCA
* *
32943626 TAAAAATTAGAAAAAATAGAAAAAATATAAAAATCATTAAAAAATGTAAAAATTTGTAAAATTTT
1 TAAAAATTAGAAAAAATAGAAAAAATATAAAAATCAATAAAAAATATAAAAATTTGTAAAATTTT
*
32943691 ATAAAAATCG
66 ATAAAAATCA
32943701 TAAAAA
1 TAAAAA
32943707 AATTATAAAA
Statistics
Matches: 69, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
74 9 0.13
75 23 0.33
76 37 0.54
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.30
Consensus pattern (75 bp):
TAAAAATTAGAAAAAATAGAAAAAATATAAAAATCAATAAAAAATATAAAAATTTGTAAAATTTT
ATAAAAATCA
Found at i:32943669 original size:19 final size:19
Alignment explanation
Indices: 32943616--32943812 Score: 65
Period size: 19 Copynumber: 10.4 Consensus size: 19
32943606 TAAATTTTTA
*
32943616 ATAAAAATCA-TAAAAATT
1 ATAAAAATCATTAAAAAAT
* *
32943634 AGAAAAA--ATAGAAAAAAT
1 ATAAAAATCAT-TAAAAAAT
32943652 ATAAAAATCATTAAAAAAT
1 ATAAAAATCATTAAAAAAT
* * **
32943671 GTAAAAAT-TTGTAAAATTTT
1 ATAAAAATCAT-TAAAA-AAT
* *
32943691 ATAAAAATCGTAAAAAAAT
1 ATAAAAATCATTAAAAAAT
*
32943710 -TATAAAAT-A-TATAGAAAT
1 ATA-AAAATCATTA-AAAAAT
* *
32943728 ATAAAAATTATAAAAAAAT
1 ATAAAAATCATTAAAAAAT
* * *
32943747 -TATAAAGTCA-TAAGAATT
1 ATA-AAAATCATTAAAAAAT
32943765 ATACAAAAT-A-TAAAGAAAT
1 ATA-AAAATCATTAAA-AAAT
** *
32943784 ATAAATTTCATAAAAAAAATT
1 ATAAAAATCAT-TAAAAAA-T
32943805 ATAAAAAT
1 ATAAAAAT
32943813 TATCGTACCA
Statistics
Matches: 127, Mismatches: 33, Indels: 35
0.65 0.17 0.18
Matches are distributed among these distances:
16 1 0.01
17 1 0.01
18 45 0.35
19 51 0.40
20 18 0.14
21 11 0.09
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (19 bp):
ATAAAAATCATTAAAAAAT
Found at i:32943740 original size:26 final size:27
Alignment explanation
Indices: 32943704--32943788 Score: 93
Period size: 28 Copynumber: 3.1 Consensus size: 27
32943694 AAAATCGTAA
32943704 AAAAATTAT-AAAATATATAGAAATAT
1 AAAAATTATAAAAATATATAGAAATAT
* *
32943730 AAAAATTATAAAAAAATTATA-AAGTCAT
1 AAAAATTATAAAAATA-TATAGAAAT-AT
* *
32943758 AAGAATTATACAAAATATAAAGAAATAT
1 AAAAATTATA-AAAATATATAGAAATAT
32943786 AAA
1 AAA
32943789 TTTCATAAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
26 9 0.19
27 8 0.17
28 22 0.47
29 8 0.17
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (27 bp):
AAAAATTATAAAAATATATAGAAATAT
Found at i:32943747 original size:37 final size:37
Alignment explanation
Indices: 32943690--32943815 Score: 114
Period size: 37 Copynumber: 3.3 Consensus size: 37
32943680 TGTAAAATTT
**
32943690 TATAAAAATCGTAAAAAAATTATAAAAT-ATATAGAAA
1 TATAAAAATTATAAAAAAATTATAAAATCATA-AGAAA
* *
32943727 TATAAAAATTATAAAAAAATTATAAAGTCATAAGAAT
1 TATAAAAATTATAAAAAAATTATAAAATCATAAGAAA
* * *
32943764 TATACAAAA-TATAAAGAAA-TATAAATTTCATAAAAAAAA
1 TATA-AAAATTATAAAAAAATTATAAA-ATCAT--AAGAAA
32943803 TTATAAAAATTAT
1 -TATAAAAATTAT
32943816 CGTACCAAAA
Statistics
Matches: 74, Mismatches: 8, Indels: 11
0.80 0.09 0.12
Matches are distributed among these distances:
36 6 0.08
37 46 0.62
38 7 0.09
39 8 0.11
40 7 0.09
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.29
Consensus pattern (37 bp):
TATAAAAATTATAAAAAAATTATAAAATCATAAGAAA
Found at i:32943790 original size:26 final size:25
Alignment explanation
Indices: 32943706--32943799 Score: 66
Period size: 26 Copynumber: 3.5 Consensus size: 25
32943696 AATCGTAAAA
*
32943706 AAATTAT-AAAATATATAGAAATAT
1 AAATTATAAAAATATAAAGAAATAT
**
32943730 AAAAATTATAAAAAAATTATAAAGTCATA-
1 --AAATTAT--AAAAA-TATAAAGAAATAT
32943759 AGAATTATACAAAATATAAAGAAATAT
1 A-AATTATA-AAAATATAAAGAAATAT
32943786 AAATTTCATAAAAA
1 AAA-TT-ATAAAAA
32943800 AAATTATAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 17
0.71 0.07 0.22
Matches are distributed among these distances:
26 20 0.37
27 12 0.22
28 9 0.17
29 4 0.07
30 9 0.17
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.29
Consensus pattern (25 bp):
AAATTATAAAAATATAAAGAAATAT
Found at i:32943998 original size:24 final size:25
Alignment explanation
Indices: 32943948--32944000 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
32943938 TCATTAAATT
*
32943948 TTTTTTATGATTTTTATAAAATTAAA
1 TTTTTTACGATTTTTATAAAA-TAAA
*
32943974 TTTTTTACGATTTTTATAGAA-AAA
1 TTTTTTACGATTTTTATAAAATAAA
32943998 TTT
1 TTT
32944001 ATAATTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 6 0.24
26 19 0.76
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.57
Consensus pattern (25 bp):
TTTTTTACGATTTTTATAAAATAAA
Found at i:32944248 original size:85 final size:85
Alignment explanation
Indices: 32944087--32944255 Score: 205
Period size: 85 Copynumber: 2.0 Consensus size: 85
32944077 TAATAAGAGC
* * * *
32944087 AGGGGCTTAATTGCTTTTTTGAAAAATTTTGAAGATCTTTTTGATGCATTTTGAAAGTTCAATTA
1 AGGGGCTTAATTGCTTTTTTGAAAAAGTTTGAAGACCTTTTTGATGCATTCTGAAAGTTCAAGTA
*
32944152 CCCAATTGAGTG-AAAAAAT
66 CCCAATCGAGTGCAAAAAAT
* * * *
32944171 AGGGGCTTAATTGCTTTTTTTGAAGAAGTTTGAGGGCCTTTTTGATTCATTCTGAAAGTTCAAGT
1 AGGGGCTTAATTGC-TTTTTTGAAAAAGTTTGAAGACCTTTTTGATGCATTCTGAAAGTTCAAGT
****
32944236 GTTTAATCGAGTGCAAAAAA
65 ACCCAATCGAGTGCAAAAAA
32944256 AAAAAGAAGA
Statistics
Matches: 70, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
84 14 0.20
85 50 0.71
86 6 0.09
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (85 bp):
AGGGGCTTAATTGCTTTTTTGAAAAAGTTTGAAGACCTTTTTGATGCATTCTGAAAGTTCAAGTA
CCCAATCGAGTGCAAAAAAT
Found at i:32948225 original size:16 final size:16
Alignment explanation
Indices: 32948204--32948242 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
32948194 AAATAATGCT
32948204 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
32948220 ATTACAGCTCTATTCT
1 ATTACAGCTCTATTCC
32948236 ATTACAG
1 ATTACAG
32948243 TGAACCAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.28, C:0.26, G:0.08, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:32948903 original size:23 final size:24
Alignment explanation
Indices: 32948873--32948922 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
32948863 TATTTCTTTT
* *
32948873 AAATATTTTAAAATTTACAATA-A
1 AAATATTTGAAAATTTAAAATATA
*
32948896 AAATATTTGAAATTTTAAAATATA
1 AAATATTTGAAAATTTAAAATATA
32948920 AAA
1 AAA
32948923 AAATATATGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 19 0.83
24 4 0.17
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (24 bp):
AAATATTTGAAAATTTAAAATATA
Found at i:32950220 original size:3 final size:3
Alignment explanation
Indices: 32950214--32950255 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
32950204 CAACAACAAC
32950214 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
32950256 TTAAGACAGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:32954323 original size:18 final size:17
Alignment explanation
Indices: 32954302--32954365 Score: 60
Period size: 18 Copynumber: 3.6 Consensus size: 17
32954292 ATTATTAAAC
32954302 TATTATAAAAAGTAAAAA
1 TATTATAAAAA-TAAAAA
32954320 TATTATTAAAAA-AATAAA
1 TATTA-TAAAAATAA-AAA
* *
32954338 TACTAAAAAATATAAAAA
1 TATTATAAAA-ATAAAAA
32954356 TA-TATAAAAA
1 TATTATAAAAA
32954366 ACTATTAAGA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
16 1 0.03
17 12 0.31
18 18 0.46
19 8 0.21
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.28
Consensus pattern (17 bp):
TATTATAAAAATAAAAA
Found at i:32954381 original size:20 final size:19
Alignment explanation
Indices: 32954341--32954411 Score: 63
Period size: 20 Copynumber: 3.6 Consensus size: 19
32954331 AAATAAATAC
32954341 TAAAAAATATAAAAATATA
1 TAAAAAATATAAAAATATA
*
32954360 TAAAAAACTATTAAGAAT-TA
1 TAAAAAA-TA-TAAAAATATA
* * *
32954380 TAAATATTATTAAAATATAA
1 TAAAAAATATAAAAATAT-A
*
32954400 TAAAATATATAA
1 TAAAAAATATAA
32954412 CATTTAAGCT
Statistics
Matches: 39, Mismatches: 9, Indels: 7
0.71 0.16 0.13
Matches are distributed among these distances:
18 5 0.13
19 10 0.26
20 18 0.46
21 6 0.15
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (19 bp):
TAAAAAATATAAAAATATA
Found at i:32961151 original size:34 final size:35
Alignment explanation
Indices: 32961113--32961180 Score: 104
Period size: 34 Copynumber: 2.0 Consensus size: 35
32961103 TAAAAGTTTT
32961113 TTATATAATATAAATTATAT-AAAAAATAA-AAAAC
1 TTATATAATATAAA-TATATCAAAAAATAAGAAAAC
*
32961147 TTATATAATATAAATATTTCAAAAAATAAGAAAA
1 TTATATAATATAAATATATCAAAAAATAAGAAAA
32961181 AAATAAATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
33 4 0.13
34 23 0.74
35 4 0.13
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.32
Consensus pattern (35 bp):
TTATATAATATAAATATATCAAAAAATAAGAAAAC
Found at i:32969173 original size:16 final size:17
Alignment explanation
Indices: 32969146--32969179 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
32969136 CCTACACTAC
*
32969146 AGAATCTTCATTTTAGA
1 AGAATCTTCATTTGAGA
32969163 AGAAT-TTCATTTGAGA
1 AGAATCTTCATTTGAGA
32969179 A
1 A
32969180 TCGGTGCCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.38
Consensus pattern (17 bp):
AGAATCTTCATTTGAGA
Found at i:32971610 original size:23 final size:23
Alignment explanation
Indices: 32971540--32971610 Score: 65
Period size: 23 Copynumber: 3.0 Consensus size: 23
32971530 ATCACCATTG
* *
32971540 AAACATGAATCATATATAGT-TC
1 AAACATGAATCATATATAATAAC
* *
32971562 TTAACATGAAATTATA-ACTAATAAC
1 -AAACATG-AATCATATA-TAATAAC
32971587 AAACATGAATCATATATAATAAC
1 AAACATGAATCATATATAATAAC
32971610 A
1 A
32971611 TTTAAATGCA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
23 21 0.55
24 16 0.42
25 1 0.03
ACGTcount: A:0.52, C:0.13, G:0.06, T:0.30
Consensus pattern (23 bp):
AAACATGAATCATATATAATAAC
Found at i:32972225 original size:18 final size:19
Alignment explanation
Indices: 32972183--32972227 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
32972173 CGAAGATCTC
32972183 TAGATTTAATTTTTTGAAA
1 TAGATTTAATTTTTTGAAA
32972202 TAGATTTAATTTTTTGAAA
1 TAGATTTAATTTTTTGAAA
32972221 T-GATTTA
1 TAGATTTA
32972228 GTTCAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 6 0.23
19 20 0.77
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (19 bp):
TAGATTTAATTTTTTGAAA
Found at i:32972858 original size:32 final size:32
Alignment explanation
Indices: 32972822--32972883 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
32972812 AGATTTTGGT
32972822 TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
1 TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
*
32972854 TTTTTCGTGTTGTCAAAGAGTTGAACAATG
1 TTTTTCATGTTGTCAAAGAGTTGAACAATG
32972884 AAAATAGATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.39
Consensus pattern (32 bp):
TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
Found at i:32977909 original size:14 final size:15
Alignment explanation
Indices: 32977873--32977909 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
32977863 AAAAATTTAA
32977873 AAATTAAAACTAATC
1 AAATTAAAACTAATC
32977888 AAATTAAAA-T-ATC
1 AAATTAAAACTAATC
32977901 AATATTAAA
1 AA-ATTAAA
32977910 TTTACAACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 5 0.24
14 7 0.33
15 9 0.43
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.30
Consensus pattern (15 bp):
AAATTAAAACTAATC
Done.