Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 117 of 279
Found at i:37170343 original size:27 final size:27
Alignment explanation
Indices: 37170313--37170367 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
37170303 TTTAACCAAG
37170313 CAAACTAAAACTCTTGTCAACTCTTGA
1 CAAACTAAAACTCTTGTCAACTCTTGA
37170340 CAAACTAAAACTCTTGTCAACTCTTGA
1 CAAACTAAAACTCTTGTCAACTCTTGA
37170367 C
1 C
37170368 TCCGTTTTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.29
Consensus pattern (27 bp):
CAAACTAAAACTCTTGTCAACTCTTGA
Found at i:37172336 original size:40 final size:40
Alignment explanation
Indices: 37172281--37172362 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
37172271 AAACCAAAAT
37172281 AATAATAATAATAATTTGAACTTAAAGTAACCTTAATTAA
1 AATAATAATAATAATTTGAACTTAAAGTAACCTTAATTAA
37172321 AATAATAATAATAATTTGAACTTAAAGTAACCTTAATTAA
1 AATAATAATAATAATTTGAACTTAAAGTAACCTTAATTAA
37172361 AA
1 AA
37172363 ATCAAAATTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.54, C:0.07, G:0.05, T:0.34
Consensus pattern (40 bp):
AATAATAATAATAATTTGAACTTAAAGTAACCTTAATTAA
Found at i:37173947 original size:5 final size:5
Alignment explanation
Indices: 37173937--37173986 Score: 55
Period size: 5 Copynumber: 9.8 Consensus size: 5
37173927 AATTTTTTAT
* * * *
37173937 AATTA AATTA AATTA AGTTA AATTTA AATTC AATTT AATCA AATTA AATT
1 AATTA AATTA AATTA AATTA AA-TTA AATTA AATTA AATTA AATTA AATT
37173987 CTAATCGAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
5 32 0.86
6 5 0.14
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (5 bp):
AATTA
Found at i:37173980 original size:21 final size:21
Alignment explanation
Indices: 37173937--37173987 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
37173927 AATTTTTTAT
*
37173937 AATTAAATT-AAATTAAGTTA
1 AATTAAATTCAAATTAAGTCA
*
37173957 AATTTAAATTCAATTTAA-TCA
1 AA-TTAAATTCAAATTAAGTCA
37173978 AATTAAATTC
1 AATTAAATTC
37173988 TAATCGAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 10 0.37
21 11 0.41
22 6 0.22
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.41
Consensus pattern (21 bp):
AATTAAATTCAAATTAAGTCA
Found at i:37181881 original size:21 final size:22
Alignment explanation
Indices: 37181843--37181885 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
37181833 ACATCAATAT
37181843 TATATTAATATATATATTTAAA
1 TATATTAATATATATATTTAAA
* *
37181865 TATATT-ATATTTTTATTTAAA
1 TATATTAATATATATATTTAAA
37181886 GTTCAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TATATTAATATATATATTTAAA
Found at i:37185918 original size:16 final size:16
Alignment explanation
Indices: 37185897--37185932 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
37185887 TCATTTTGAT
*
37185897 TTTTGAGTTTAGATTA
1 TTTTGAGCTTAGATTA
*
37185913 TTTTGAGCTTGGATTA
1 TTTTGAGCTTAGATTA
37185929 TTTT
1 TTTT
37185933 AAATTTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.19, C:0.03, G:0.19, T:0.58
Consensus pattern (16 bp):
TTTTGAGCTTAGATTA
Found at i:37187320 original size:84 final size:83
Alignment explanation
Indices: 37187172--37187393 Score: 256
Period size: 82 Copynumber: 2.7 Consensus size: 83
37187162 AAAATATAAG
* * * *
37187172 TTTATTATATAATAATTTATAATTTCATTATTTTTGAAG-GGACTATAA--AAAATATTTTATTT
1 TTTATTATATATTAATTTATAATTTCTTTATTTAT-AAGAGGACTA-AATTAAAAAATTTTATTT
*
37187234 TTATGGGG-GCTAAAGTACAATT
64 TTA-GGGGATC-AAAGTAC-ATT
* * *
37187256 TTTATTATATATTAACTTATAATTTCTTTGTTTATAAGAGGATTAAATTAAAAAATTTTA-TTTT
1 TTTATTATATATTAATTTATAATTTCTTTATTTATAAGAGGACTAAATTAAAAAATTTTATTTTT
*
37187320 AGGGGATCAAAGTGCATT
66 AGGGGATCAAAGTACATT
* *
37187338 TTTACTATATATTAATTTATAATTTCTTTATTTATAAGAGAACTAAATTGAAAAAA
1 TTTATTATATATTAATTTATAATTTCTTTATTTATAAGAGGACTAAATT-AAAAAA
37187394 AAACCATTTG
Statistics
Matches: 119, Mismatches: 14, Indels: 11
0.83 0.10 0.08
Matches are distributed among these distances:
82 47 0.39
83 21 0.18
84 41 0.34
85 10 0.08
ACGTcount: A:0.39, C:0.05, G:0.10, T:0.46
Consensus pattern (83 bp):
TTTATTATATATTAATTTATAATTTCTTTATTTATAAGAGGACTAAATTAAAAAATTTTATTTTT
AGGGGATCAAAGTACATT
Found at i:37194229 original size:18 final size:18
Alignment explanation
Indices: 37194197--37194236 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 18
37194187 TAATTTTATA
37194197 TTTTAATTTGATATTATATT
1 TTTTAATTT-ATATTA-ATT
37194217 TTTTAATTT-TATTAATT
1 TTTTAATTTATATTAATT
37194234 TTT
1 TTT
37194237 CGAAATTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 6 0.30
18 5 0.25
20 9 0.45
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.70
Consensus pattern (18 bp):
TTTTAATTTATATTAATT
Found at i:37197855 original size:23 final size:23
Alignment explanation
Indices: 37197829--37197872 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
37197819 ATAATTATGT
* *
37197829 TTTTTTATAAAATTAAATATTAA
1 TTTTTTAAAAAAATAAATATTAA
*
37197852 TTTTTTAAAAAAATATATATT
1 TTTTTTAAAAAAATAAATATT
37197873 TTTTACATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
TTTTTTAAAAAAATAAATATTAA
Found at i:37198560 original size:19 final size:19
Alignment explanation
Indices: 37198532--37198570 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
37198522 TTACATGTTC
*
37198532 TATTTCATATTCAAATTAA
1 TATTTAATATTCAAATTAA
*
37198551 TATTTAATATTTAAATTAA
1 TATTTAATATTCAAATTAA
37198570 T
1 T
37198571 GATTAGATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (19 bp):
TATTTAATATTCAAATTAA
Found at i:37200894 original size:3 final size:3
Alignment explanation
Indices: 37200883--37200935 Score: 63
Period size: 3 Copynumber: 17.7 Consensus size: 3
37200873 CAATAATACC
* * *
37200883 AAT ACT AAT AAT AGT AA- AGAT GAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
37200928 AAT AAT AA
1 AAT AAT AA
37200936 NNNNNNNNNN
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
2 1 0.02
3 41 0.98
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:37201295 original size:31 final size:29
Alignment explanation
Indices: 37201260--37201328 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 29
37201250 TTGTTTGTAA
*
37201260 TTGGGCTGAGGGTCTATTTTGGGTCTTGGGT
1 TTGGGCTGAGGGT-TATTTT-GGTCATGGGT
* * *
37201291 TTGGGCTGGTGGGTTGTTTTGGTGATGGGT
1 TTGGGCT-GAGGGTTATTTTGGTCATGGGT
37201321 TTGGGCTG
1 TTGGGCTG
37201329 GGTTAAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 1 0.03
30 15 0.45
31 12 0.36
32 5 0.15
ACGTcount: A:0.04, C:0.07, G:0.46, T:0.42
Consensus pattern (29 bp):
TTGGGCTGAGGGTTATTTTGGTCATGGGT
Found at i:37201876 original size:46 final size:45
Alignment explanation
Indices: 37201761--37202046 Score: 192
Period size: 46 Copynumber: 6.6 Consensus size: 45
37201751 TTTTAATCCA
* * *
37201761 CTCCACTGTAA-CTTCAGGGAGATAGGA--T-AGTGTCTTCGATCTG
1 CTCCACTGTAATC-TCAGGGAGATAAGATCTGAAT-TCTTTGATCTG
* * * *
37201804 CTCCGCTGTAACCTCAGGGATATAAGATCTGAAATTCTTTGGTCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCTG-AATTCTTTGATCTG
* * * *
37201850 TTCCACTGTAATCTCAGGGAGATAAGACCTG-A---TGTGATCTT
1 CTCCACTGTAATCTCAGGGAGATAAGATCTGAATTCTTTGATCTG
* * * * *
37201891 CTCTACTGTAA-CTTTAGAGAGATAAGATC------CTTTAATCCG
1 CTCCACTGTAATC-TCAGGGAGATAAGATCTGAATTCTTTGATCTG
* * * *
37201930 CTCCATTGTAATCTCAAGGAGATAGGAT-T-ACTATCTTTGATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCTGAAT-TCTTTGATCTG
* *
37201974 CTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCTG-AATTCTTTGATCTG
*
37202020 TTCCACTGTAATCTCAGGGAGATAAGA
1 CTCCACTGTAATCTCAGGGAGATAAGA
37202047 CCTGTATTAT
Statistics
Matches: 187, Mismatches: 39, Indels: 31
0.73 0.15 0.12
Matches are distributed among these distances:
39 25 0.13
40 2 0.01
41 28 0.15
43 22 0.12
44 34 0.18
45 2 0.01
46 70 0.37
47 4 0.02
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (45 bp):
CTCCACTGTAATCTCAGGGAGATAAGATCTGAATTCTTTGATCTG
Found at i:37202017 original size:170 final size:170
Alignment explanation
Indices: 37201676--37202050 Score: 504
Period size: 170 Copynumber: 2.2 Consensus size: 170
37201666 TTTCAATCCA
* * * * *
37201676 TTCCACTG-CATCTTCAGGGAAATAAGACTTAATGCGACCTACTCTGCTGTAACCTCAGAGAGAT
1 TTCCACTGTAATC-TCAGGGAGATAAGACCTGATGCGACCTACTCTACTGTAACCTCAGAGAGAT
* * *
37201740 AAGATCCTTTATTTTAATCCACTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGC
65 AAGATCC----TTTTAATCCACTCCACTGTAACTTCAAGGAGATAGGATACTATCTTCGATCTGC
*
37201805 TCCGCTGTAACCTCAGGGATATAAGATCTGAAATTCTTTGGTCTG
126 TCCGCTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTG
* * * * *
37201850 TTCCACTGTAATCTCAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTTAGAGAGATA
1 TTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGACCTACTCTACTGTAACCTCAGAGAGATA
* * *
37201915 AGATCC-TTTAATCCGCTCCATTGTAA-TCTCAAGGAGATAGGATTACTATCTTTGATCTGCTCC
66 AGATCCTTTTAATCCACTCCACTGTAACT-TCAAGGAGATAGGA-TACTATCTTCGATCTGCTCC
*
37201978 GCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTG
129 GCTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTG
37202020 TTCCACTGTAATCTCAGGGAGATAAGACCTG
1 TTCCACTGTAATCTCAGGGAGATAAGACCTG
37202051 TATTATGAAC
Statistics
Matches: 180, Mismatches: 18, Indels: 10
0.87 0.09 0.05
Matches are distributed among these distances:
168 1 0.01
169 31 0.17
170 88 0.49
174 57 0.32
175 3 0.02
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (170 bp):
TTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGACCTACTCTACTGTAACCTCAGAGAGATA
AGATCCTTTTAATCCACTCCACTGTAACTTCAAGGAGATAGGATACTATCTTCGATCTGCTCCGC
TGTAACCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTG
Found at i:37224831 original size:31 final size:29
Alignment explanation
Indices: 37224796--37224864 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 29
37224786 TTGTTTGTAA
*
37224796 TTGGGCTGAGGGTCTATTTTGGGTCTTGGGT
1 TTGGGCTGAGGGT-TATTTT-GGTCATGGGT
* * *
37224827 TTGGGCTGGTGGGTTGTTTTGGTGATGGGT
1 TTGGGCT-GAGGGTTATTTTGGTCATGGGT
37224857 TTGGGCTG
1 TTGGGCTG
37224865 GGTTAAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 1 0.03
30 15 0.45
31 12 0.36
32 5 0.15
ACGTcount: A:0.04, C:0.07, G:0.46, T:0.42
Consensus pattern (29 bp):
TTGGGCTGAGGGTTATTTTGGTCATGGGT
Found at i:37239778 original size:24 final size:26
Alignment explanation
Indices: 37239731--37239779 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 26
37239721 ATATTAAAAG
*
37239731 ATATATATATATAAAATGTATACATA
1 ATATATATATATAAAATATATACATA
*
37239757 ATATA-ATAT-TAAAATATTTACAT
1 ATATATATATATAAAATATATACAT
37239780 GGTATATACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 12 0.57
25 4 0.19
26 5 0.24
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (26 bp):
ATATATATATATAAAATATATACATA
Found at i:37240320 original size:38 final size:38
Alignment explanation
Indices: 37240278--37240354 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
37240268 AAAAAAGCTG
* *
37240278 ATCCCACTCCTCATGCTACTTTGTTTTATTATTAATTA
1 ATCCCACTCCCCATGCCACTTTGTTTTATTATTAATTA
37240316 ATCCCACTCCCCATGCCACTTTGTTTTATTATTAATTA
1 ATCCCACTCCCCATGCCACTTTGTTTTATTATTAATTA
37240354 A
1 A
37240355 AACCATATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.25, C:0.26, G:0.05, T:0.44
Consensus pattern (38 bp):
ATCCCACTCCCCATGCCACTTTGTTTTATTATTAATTA
Found at i:37240662 original size:43 final size:44
Alignment explanation
Indices: 37240604--37240691 Score: 160
Period size: 43 Copynumber: 2.0 Consensus size: 44
37240594 GAGGATCAAG
37240604 CCCTCCTAGCCCAAAAATGTTTT-AAAAAACTTTGTCCTCTCCT
1 CCCTCCTAGCCCAAAAATGTTTTAAAAAAACTTTGTCCTCTCCT
37240647 CCCTCCTAGCCCAAAAATGTTTTAAAAAAAACTTTGTCCTCTCCT
1 CCCTCCTAGCCCAAAAATGTTTT-AAAAAAACTTTGTCCTCTCCT
37240692 TAGAAAGGTT
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
43 23 0.53
45 20 0.47
ACGTcount: A:0.30, C:0.32, G:0.07, T:0.32
Consensus pattern (44 bp):
CCCTCCTAGCCCAAAAATGTTTTAAAAAAACTTTGTCCTCTCCT
Found at i:37244211 original size:2 final size:2
Alignment explanation
Indices: 37244204--37244247 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
37244194 CTCCTTTCGT
37244204 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
37244246 TC
1 TC
37244248 CTCCACCTCC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:37245772 original size:2 final size:2
Alignment explanation
Indices: 37245765--37245797 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
37245755 CTTTCATTCC
37245765 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
37245798 ACAATGTACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:37263659 original size:17 final size:16
Alignment explanation
Indices: 37263627--37263660 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
37263617 TTGGCTATTC
*
37263627 TGTTTCTTTCTTCTTT
1 TGTTTCTTTATTCTTT
37263643 TGTTTCTTTTATTCTTT
1 TGTTTC-TTTATTCTTT
37263660 T
1 T
37263661 ATTTTAACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.03, C:0.15, G:0.06, T:0.76
Consensus pattern (16 bp):
TGTTTCTTTATTCTTT
Found at i:37263708 original size:14 final size:14
Alignment explanation
Indices: 37263649--37263699 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
37263639 CTTTTGTTTC
*
37263649 TTTTA-TTCTTTTA
1 TTTTATTTCCTTTA
* *
37263662 TTTTAACTTACTTTA
1 TTTT-ATTTCCTTTA
*
37263677 CTTTATTTCCTTTA
1 TTTTATTTCCTTTA
37263691 TTTTATTTC
1 TTTTATTTC
37263700 TTTTGTTTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
13 4 0.13
14 17 0.57
15 9 0.30
ACGTcount: A:0.18, C:0.14, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTATTTCCTTTA
Found at i:37263868 original size:14 final size:17
Alignment explanation
Indices: 37263849--37263885 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 17
37263839 ATTTATTTCT
37263849 TAATATAA-T-ATTT-A
1 TAATATAATTAATTTAA
37263863 TAATATAATTAATTTAA
1 TAATATAATTAATTTAA
37263880 TAATAT
1 TAATAT
37263886 CCTTTATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 8 0.40
15 1 0.05
16 4 0.20
17 7 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TAATATAATTAATTTAA
Found at i:37264362 original size:17 final size:18
Alignment explanation
Indices: 37264340--37264373 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
37264330 TGAGTTGATA
37264340 TATTTTAA-TATTTCAAT
1 TATTTTAATTATTTCAAT
37264357 TATTTTAATTATTTCAA
1 TATTTTAATTATTTCAA
37264374 ACTAATTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (18 bp):
TATTTTAATTATTTCAAT
Found at i:37265111 original size:23 final size:22
Alignment explanation
Indices: 37265079--37265138 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
37265069 ATTTTTAAAA
* *
37265079 AAAAAT-TATTTATTTTAATTAT
1 AAAAATATATTTATATTAA-TAC
*
37265101 AAAATTATATTTATATTAATAC
1 AAAAATATATTTATATTAATAC
37265123 AAAAATATATATTATA
1 AAAAATATAT-TTATA
37265139 ATATCATTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
22 16 0.50
23 16 0.50
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (22 bp):
AAAAATATATTTATATTAATAC
Found at i:37265734 original size:15 final size:16
Alignment explanation
Indices: 37265706--37265751 Score: 53
Period size: 14 Copynumber: 3.0 Consensus size: 16
37265696 ATTTTACAAT
37265706 TTAAATATCAATAATTA
1 TTAAATAT-AATAATTA
37265723 TTAAATAT-ATAATT-
1 TTAAATATAATAATTA
*
37265737 TTATAT-TAATAATTA
1 TTAAATATAATAATTA
37265752 CATATTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 1 0.04
14 11 0.42
15 6 0.23
17 8 0.31
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (16 bp):
TTAAATATAATAATTA
Found at i:37268782 original size:9 final size:9
Alignment explanation
Indices: 37268765--37268806 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
37268755 ATGATGATTA
*
37268765 AATTTAGTT
1 AATTAAGTT
37268774 AATTAAGTTT
1 AATTAAG-TT
*
37268784 AATTAAGAT
1 AATTAAGTT
37268793 AATTAAG-T
1 AATTAAGTT
37268801 AATTAA
1 AATTAA
37268807 TTAGTTATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
8 7 0.23
9 14 0.47
10 9 0.30
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.43
Consensus pattern (9 bp):
AATTAAGTT
Found at i:37276434 original size:18 final size:18
Alignment explanation
Indices: 37276399--37276437 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
37276389 TAATTTGATT
* *
37276399 AAAAAAAATCGAATTTCA
1 AAAAAAAAACGAAGTTCA
*
37276417 AAAAAAAAAGGAAGTTCA
1 AAAAAAAAACGAAGTTCA
37276435 AAA
1 AAA
37276438 TAATTTTTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.67, C:0.08, G:0.10, T:0.15
Consensus pattern (18 bp):
AAAAAAAAACGAAGTTCA
Found at i:37276503 original size:27 final size:27
Alignment explanation
Indices: 37276445--37276502 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
37276435 AAATAATTTT
*
37276445 TAAAATTCAAATTTTTTATAAAAATTC
1 TAAAATTCAAATTTTTTATAAAAATTA
* * *
37276472 TAAAATTTATATTTTTT-TAAATATTA
1 TAAAATTCAAATTTTTTATAAAAATTA
37276498 TAAAA
1 TAAAA
37276503 AAATTAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 12 0.44
27 15 0.56
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (27 bp):
TAAAATTCAAATTTTTTATAAAAATTA
Found at i:37281161 original size:39 final size:38
Alignment explanation
Indices: 37281106--37281183 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 38
37281096 TGAGGAAGAA
37281106 CCGCTCTTTCCCCCATCTAATTTCACCATTTTTGGTGG
1 CCGCTCTTTCCCCCATCTAATTTCACCATTTTTGGTGG
37281144 CNCGCTCTTTCCCCCATCTAATTTCACCATTTTTGGTGG
1 C-CGCTCTTTCCCCCATCTAATTTCACCATTTTTGGTGG
37281183 C
1 C
37281184 TGACTTATTG
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
38 1 0.03
39 38 0.97
ACGTcount: A:0.13, C:0.35, G:0.13, T:0.38
Consensus pattern (38 bp):
CCGCTCTTTCCCCCATCTAATTTCACCATTTTTGGTGG
Found at i:37286682 original size:30 final size:30
Alignment explanation
Indices: 37286648--37286710 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
37286638 ATAAAAAAGA
* *
37286648 TAATAATAAATTTAAAT-TTTATATTAATAT
1 TAATAATAAA-TAAAATAATTATATTAATAT
* *
37286678 TAATATTAAATAAAATAATTATATTACTAT
1 TAATAATAAATAAAATAATTATATTAATAT
37286708 TAA
1 TAA
37286711 ATAAAATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 5 0.18
30 23 0.82
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (30 bp):
TAATAATAAATAAAATAATTATATTAATAT
Found at i:37286701 original size:24 final size:24
Alignment explanation
Indices: 37286674--37286719 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
37286664 TTTTATATTA
37286674 ATATTAATATTAAATAAAATAATT
1 ATATTAATATTAAATAAAATAATT
*
37286698 ATATTACTATTAAATAAAATAA
1 ATATTAATATTAAATAAAATAA
37286720 AAAAAATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (24 bp):
ATATTAATATTAAATAAAATAATT
Found at i:37289992 original size:26 final size:25
Alignment explanation
Indices: 37289954--37290006 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
37289944 ATTTTTTTAC
37289954 TTTTCCCTCAAAACT-TTTACTCCTCA
1 TTTTCCCTCAAAA-TATTTACT-CTCA
37289980 TTTTCTCCT-AAAATATTTACTCTCA
1 TTTTC-CCTCAAAATATTTACTCTCA
37290005 TT
1 TT
37290007 CCATCCCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
25 7 0.28
26 15 0.60
27 3 0.12
ACGTcount: A:0.25, C:0.28, G:0.00, T:0.47
Consensus pattern (25 bp):
TTTTCCCTCAAAATATTTACTCTCA
Found at i:37297951 original size:15 final size:16
Alignment explanation
Indices: 37297916--37297953 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
37297906 TACCTTTTAA
37297916 TAATTTTAATAGTTTT
1 TAATTTTAATAGTTTT
* *
37297932 AAATTTTAA-ATTTTT
1 TAATTTTAATAGTTTT
37297947 TAATTTT
1 TAATTTT
37297954 TAAAATTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (16 bp):
TAATTTTAATAGTTTT
Found at i:37297962 original size:8 final size:8
Alignment explanation
Indices: 37297910--37297966 Score: 53
Period size: 8 Copynumber: 7.0 Consensus size: 8
37297900 TTTTTATACC
37297910 TTTTAATAA
1 TTTTAA-AA
*
37297919 TTTTAATAG
1 TTTTAA-AA
37297928 TTTT-AAA
1 TTTTAAAA
*
37297935 TTTTAAAT
1 TTTTAAAA
* *
37297943 TTTTTAAT
1 TTTTAAAA
37297951 TTTTAAAA
1 TTTTAAAA
37297959 TTTTAAAA
1 TTTTAAAA
37297967 ATTAATAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
7 5 0.12
8 24 0.59
9 12 0.29
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (8 bp):
TTTTAAAA
Found at i:37298851 original size:18 final size:19
Alignment explanation
Indices: 37298824--37298862 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
37298814 TTTTGGATTT
*
37298824 TTTTATAAA-TATTTTAAA
1 TTTTAAAAATTATTTTAAA
*
37298842 TTTTAAAAATTATTTTGAA
1 TTTTAAAAATTATTTTAAA
37298861 TT
1 TT
37298863 ATTTTGTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (19 bp):
TTTTAAAAATTATTTTAAA
Found at i:37302694 original size:87 final size:87
Alignment explanation
Indices: 37302541--37302809 Score: 522
Period size: 87 Copynumber: 3.1 Consensus size: 87
37302531 TCGTCTTTCC
*
37302541 AAAGTAG-ACCTGCAAAATATGTAGACATATGAATGATGGCACTGAAAACAATTATCAGGTAACG
1 AAAGTAGTACCTGCAAAATATGTAAACATATGAATGATGGCACTGAAAACAATTATCAGGTAACG
37302605 TGCAAAGGCAATTCAAACGAAG
66 TGCAAAGGCAATTCAAACGAAG
37302627 AAAGTAGTACCTGCAAAATATGTAAACATATGAATGATGGCACTGAAAACAATTATCAGGTAACG
1 AAAGTAGTACCTGCAAAATATGTAAACATATGAATGATGGCACTGAAAACAATTATCAGGTAACG
37302692 TGCAAAGGCAATTCAAACGAAG
66 TGCAAAGGCAATTCAAACGAAG
37302714 AAAGTAGTACCTGCAAAATATGTAAACATATGAATGATGGCACTGAAAACAATTATCAGGTAACG
1 AAAGTAGTACCTGCAAAATATGTAAACATATGAATGATGGCACTGAAAACAATTATCAGGTAACG
37302779 TGCAAAGGCAATTCAAACGAAG
66 TGCAAAGGCAATTCAAACGAAG
37302801 AAAGTAGTA
1 AAAGTAGTA
37302810 GACATACCTG
Statistics
Matches: 181, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
86 7 0.04
87 174 0.96
ACGTcount: A:0.45, C:0.14, G:0.20, T:0.20
Consensus pattern (87 bp):
AAAGTAGTACCTGCAAAATATGTAAACATATGAATGATGGCACTGAAAACAATTATCAGGTAACG
TGCAAAGGCAATTCAAACGAAG
Found at i:37303818 original size:29 final size:29
Alignment explanation
Indices: 37303776--37303833 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
37303766 ATATCTATGA
*
37303776 ACCACTATCAACCAACATAAAGCTGCGTT
1 ACCACTATCAACCAACATAAACCTGCGTT
*
37303805 ACCACTATTAACCAACATAAACCTGCGTT
1 ACCACTATCAACCAACATAAACCTGCGTT
37303834 CTCCAACAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.38, C:0.31, G:0.09, T:0.22
Consensus pattern (29 bp):
ACCACTATCAACCAACATAAACCTGCGTT
Found at i:37314485 original size:6 final size:6
Alignment explanation
Indices: 37314474--37314504 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
37314464 TCATCTTTTA
*
37314474 TTTATT TTTATT TTTATT TTTATC TTTATT T
1 TTTATT TTTATT TTTATT TTTATT TTTATT T
37314505 CCCCTTTGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTATT
Found at i:37317368 original size:25 final size:25
Alignment explanation
Indices: 37317318--37317368 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
37317308 TGTGTAACAA
* *
37317318 CAAATGAATAGGGGCACTATGTGTG
1 CAAATGAATAGAGGCACTATGAGTG
*
37317343 CAAATGATTAGAGGCACTGA-GAGTG
1 CAAATGAATAGAGGCACT-ATGAGTG
37317368 C
1 C
37317369 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTATGAGTG
Found at i:37322019 original size:40 final size:40
Alignment explanation
Indices: 37321824--37322022 Score: 263
Period size: 40 Copynumber: 5.0 Consensus size: 40
37321814 TTGAGAGTTA
*
37321824 TATATCCGGGCTAAGTCCCGAAGAGCATTTGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * * *
37321864 TATATCTGGGCTAAGTCTCGAAGAGCATTCGTGCTAGAGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * *
37321904 TATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGAGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * * *
37321944 TGTATCAGGGTTAAGTTCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * *
37321984 TATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTG
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
37322023 ATGTGTATTC
Statistics
Matches: 139, Mismatches: 20, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 139 1.00
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.29
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
Found at i:37322236 original size:25 final size:25
Alignment explanation
Indices: 37322186--37322236 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
37322176 TGTGTAACAA
* *
37322186 CAAATGAATAGGGGCACTATGTGTG
1 CAAATGAATAGAGGCACTATGAGTG
*
37322211 CAAATGATTAGAGGCACTGA-GAGTG
1 CAAATGAATAGAGGCACT-ATGAGTG
37322236 C
1 C
37322237 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTATGAGTG
Found at i:37332818 original size:58 final size:58
Alignment explanation
Indices: 37332723--37332846 Score: 203
Period size: 58 Copynumber: 2.1 Consensus size: 58
37332713 TTTGACGTTA
* * *
37332723 AAAAAGATCTAGCCCGGAAGGGTGATCCTAATATAAGCCCTCCCGAAGAATATGTGTG
1 AAAAGGATCTAACCCGGAAGAGTGATCCTAATATAAGCCCTCCCGAAGAATATGTGTG
*
37332781 AAAAGGATCTAACCCGGACGAGTGATCCTAATATAAGCCCTCCCGAAGAATATGTGTG
1 AAAAGGATCTAACCCGGAAGAGTGATCCTAATATAAGCCCTCCCGAAGAATATGTGTG
*
37332839 AAATGGAT
1 AAAAGGAT
37332847 TTAGCCCAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
58 61 1.00
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.21
Consensus pattern (58 bp):
AAAAGGATCTAACCCGGAAGAGTGATCCTAATATAAGCCCTCCCGAAGAATATGTGTG
Found at i:37336195 original size:40 final size:40
Alignment explanation
Indices: 37336140--37336247 Score: 180
Period size: 40 Copynumber: 2.7 Consensus size: 40
37336130 GAGCATTGGA
* *
37336140 ATATATCCGGGCTAAGGCCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
37336180 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
* *
37336220 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
37336248 ATGTGTTTGC
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 64 1.00
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.21
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
Found at i:37338131 original size:17 final size:17
Alignment explanation
Indices: 37338085--37338132 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
37338075 CCGGTAAAAT
*
37338085 GTTTTTACGAAAACAAAG
1 GTTTTT-CGAAAATAAAG
* *
37338103 GTTTATCAAAAATAAAG
1 GTTTTTCGAAAATAAAG
37338120 GTTTTTCGAAAAT
1 GTTTTTCGAAAAT
37338133 GCAAACTGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 20 0.80
18 5 0.20
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.33
Consensus pattern (17 bp):
GTTTTTCGAAAATAAAG
Found at i:37344533 original size:19 final size:19
Alignment explanation
Indices: 37344511--37344550 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
37344501 TTAAACTTTT
* *
37344511 ATTATACTTTTCTATTCTA
1 ATTAAACTTTTCGATTCTA
37344530 ATTAAACTTTTCGATTCTA
1 ATTAAACTTTTCGATTCTA
37344549 AT
1 AT
37344551 AAAAAAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.30, C:0.15, G:0.03, T:0.53
Consensus pattern (19 bp):
ATTAAACTTTTCGATTCTA
Found at i:37349531 original size:31 final size:32
Alignment explanation
Indices: 37349493--37349554 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
37349483 CTCGCTGCAA
* *
37349493 TCTGGTGGCTTCGCCAC-ATATATATATCTGT
1 TCTGGTGGCCTAGCCACAATATATATATCTGT
*
37349524 TCTGGTGGCCTAGCCACAATATCTATATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
37349555 GTGACTTCGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 15 0.56
32 12 0.44
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.35
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:37359381 original size:17 final size:17
Alignment explanation
Indices: 37359334--37359381 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
37359324 TCAGTAAAAT
*
37359334 GTTTTTACGAAAACAAAG
1 GTTTTT-CGAAAATAAAG
*
37359352 GTTTATT-GCAAATAAAG
1 GTTT-TTCGAAAATAAAG
37359369 GTTTTTCGAAAAT
1 GTTTTTCGAAAAT
37359382 GCGAACCTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
16 2 0.08
17 17 0.68
18 4 0.16
19 2 0.08
ACGTcount: A:0.40, C:0.08, G:0.17, T:0.35
Consensus pattern (17 bp):
GTTTTTCGAAAATAAAG
Found at i:37366186 original size:28 final size:27
Alignment explanation
Indices: 37366131--37366232 Score: 96
Period size: 28 Copynumber: 3.7 Consensus size: 27
37366121 TATGGCCCAC
* * * *
37366131 TAGGCCCAATCTCCTTCATATGGCCCAT
1 TAGGCCCAATCACATTTATACGG-CCAT
* **
37366159 TAAGCCCAATCACATTTATGTGGTCCAT
1 TAGGCCCAATCACATTTATACGG-CCAT
* *
37366187 TAGGCCCAAATCAAATTCATACGGCCAT
1 TAGGCCC-AATCACATTTATACGGCCAT
37366215 TAGGCCCAATCACATTTA
1 TAGGCCCAATCACATTTA
37366233 CAGTCATGCT
Statistics
Matches: 60, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
27 9 0.15
28 39 0.65
29 12 0.20
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
TAGGCCCAATCACATTTATACGGCCAT
Found at i:37371577 original size:29 final size:28
Alignment explanation
Indices: 37371531--37371589 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
37371521 TTTAATCCTT
*
37371531 TATATATATATTTAATTTATTTTAAATAC
1 TATATATATATTTAATTT-TTTTAAACAC
*
37371560 TATATGTATTATTT-ATTTTTTTAAACAC
1 TATATATA-TATTTAATTTTTTTAAACAC
37371588 TA
1 TA
37371590 GTTATATGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 11 0.41
29 11 0.41
30 5 0.19
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (28 bp):
TATATATATATTTAATTTTTTTAAACAC
Found at i:37371631 original size:17 final size:15
Alignment explanation
Indices: 37371607--37371739 Score: 52
Period size: 14 Copynumber: 9.1 Consensus size: 15
37371597 GTAAAAATAG
37371607 TATA-TATATTATTTA
1 TATATTATATTA-TTA
37371622 TCATATTATATTATTA
1 T-ATATTATATTATTA
37371638 TATA-T-T-TTATT-
1 TATATTATATTATTA
* *
37371649 TATA-AATTTTATTA
1 TATATTATATTATTA
* *
37371663 TATGTTATA-TATTT
1 TATATTATATTATTA
*
37371677 TACTATATATATTATTCCT
1 TA-TAT-TATATTATT--A
*
37371696 TACATTAT-TT-TTA
1 TATATTATATTATTA
* *
37371709 TTTTATTATA-AATTA
1 -TATATTATATTATTA
*
37371724 TATATTATTTTATTA
1 TATATTATATTATTA
37371739 T
1 T
37371740 TCATTAATTA
Statistics
Matches: 89, Mismatches: 14, Indels: 30
0.67 0.11 0.23
Matches are distributed among these distances:
11 4 0.04
12 6 0.07
13 6 0.07
14 23 0.26
15 18 0.20
16 13 0.15
17 14 0.16
18 2 0.02
19 3 0.03
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.61
Consensus pattern (15 bp):
TATATTATATTATTA
Found at i:37371651 original size:13 final size:13
Alignment explanation
Indices: 37371607--37371665 Score: 57
Period size: 13 Copynumber: 4.4 Consensus size: 13
37371597 GTAAAAATAG
*
37371607 TATATATATTATT
1 TATATATTTTATT
*
37371620 TATCATATTATATTAT
1 TAT-ATATTTTA-T-T
37371636 TATATATTTTATT
1 TATATATTTTATT
*
37371649 TATAAATTTTA-T
1 TATATATTTTATT
37371661 TATAT
1 TATAT
37371666 GTTATATATT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
12 5 0.13
13 14 0.37
14 7 0.18
15 8 0.21
16 4 0.11
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (13 bp):
TATATATTTTATT
Found at i:37371745 original size:22 final size:21
Alignment explanation
Indices: 37371696--37371745 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
37371686 TATTATTCCT
*
37371696 TACATTATTTTTATTTTATTA
1 TACATTATTATTATTTTATTA
*
37371717 TAAATTATATATTATTTTATTA
1 TACATTAT-TATTATTTTATTA
*
37371739 TTCATTA
1 TACATTA
37371746 ATTAAGTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (21 bp):
TACATTATTATTATTTTATTA
Found at i:37383837 original size:67 final size:67
Alignment explanation
Indices: 37383723--37383853 Score: 208
Period size: 67 Copynumber: 2.0 Consensus size: 67
37383713 GCGTCTCTGA
* * ***
37383723 ATTGACAGAGGGCAGATCGAAGATAGCAGATTTGGTGTCTCTATATTGACAGAGAGCAGATCGAT
1 ATTGACAGAGAGCAGATCAAAGATAGCAGATTTGGCAACTCTATATTGACAGAGAGCAGATCGAT
37383788 GT
66 GT
*
37383790 ATTGACAGAGAGCAGATCAAAGATAGCAGATTTGGCAACTCTGTATTGACAGAGAGCAGATCGA
1 ATTGACAGAGAGCAGATCAAAGATAGCAGATTTGGCAACTCTATATTGACAGAGAGCAGATCGA
37383854 AGATAGCAGA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
67 58 1.00
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.23
Consensus pattern (67 bp):
ATTGACAGAGAGCAGATCAAAGATAGCAGATTTGGCAACTCTATATTGACAGAGAGCAGATCGAT
GT
Found at i:37383948 original size:21 final size:21
Alignment explanation
Indices: 37383880--37383968 Score: 90
Period size: 21 Copynumber: 4.1 Consensus size: 21
37383870 GTCTCTGTAT
*
37383880 TGACAGAGGGCAGATCAAAGA
1 TGACAGAGGGCAGATCGAAGA
* ** * *
37383901 TGACAGATTTGGCATCTCTGTA-T
1 TGACAGA--GGGCAGATC-GAAGA
37383924 TGACAGAGGGCAGATCGAAGA
1 TGACAGAGGGCAGATCGAAGA
37383945 TGACAGAGGGCAGATCGAAGA
1 TGACAGAGGGCAGATCGAAGA
37383966 TGA
1 TGA
37383969 AAAATTTGGC
Statistics
Matches: 53, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
20 2 0.04
21 37 0.70
23 13 0.25
24 1 0.02
ACGTcount: A:0.35, C:0.15, G:0.33, T:0.18
Consensus pattern (21 bp):
TGACAGAGGGCAGATCGAAGA
Found at i:37383951 original size:44 final size:44
Alignment explanation
Indices: 37383787--37383945 Score: 248
Period size: 44 Copynumber: 3.6 Consensus size: 44
37383777 AGCAGATCGA
*
37383787 TGTATTGACAGAGAGCAGATCAAAGATAGCAGATTTGGCAACTC
1 TGTATTGACAGAGAGCAGATCAAAGATAGCAGATTTGGCATCTC
* *
37383831 TGTATTGACAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTC
1 TGTATTGACAGAGAGCAGATCAAAGATAGCAGATTTGGCATCTC
*
37383875 TGTATTGACAGAGGGCAGATCAAAGAT-GACAGATTTGGCATCTC
1 TGTATTGACAGAGAGCAGATCAAAGATAG-CAGATTTGGCATCTC
* *
37383919 TGTATTGACAGAGGGCAGATCGAAGAT
1 TGTATTGACAGAGAGCAGATCAAAGAT
37383946 GACAGAGGGC
Statistics
Matches: 107, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
43 1 0.01
44 106 0.99
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.24
Consensus pattern (44 bp):
TGTATTGACAGAGAGCAGATCAAAGATAGCAGATTTGGCATCTC
Found at i:37383959 original size:65 final size:65
Alignment explanation
Indices: 37383880--37384016 Score: 229
Period size: 65 Copynumber: 2.1 Consensus size: 65
37383870 GTCTCTGTAT
* * *
37383880 TGACAGAGGGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTGACAGAGGGCAGATCGAAGA
1 TGACAGAGGGCAGATCAAAGATGAAAAATTTGGCATCTCTGTATTGACAGAGGGCAGATCAAAGA
* *
37383945 TGACAGAGGGCAGATCGAAGATGAAAAATTTGGCGTCTCTGTATTGACAGAGGGCAGATCAAAGA
1 TGACAGAGGGCAGATCAAAGATGAAAAATTTGGCATCTCTGTATTGACAGAGGGCAGATCAAAGA
37384010 TGACAGA
1 TGACAGA
37384017 TTTGGCATCT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
65 67 1.00
ACGTcount: A:0.35, C:0.15, G:0.31, T:0.20
Consensus pattern (65 bp):
TGACAGAGGGCAGATCAAAGATGAAAAATTTGGCATCTCTGTATTGACAGAGGGCAGATCAAAGA
Found at i:37383979 original size:109 final size:110
Alignment explanation
Indices: 37383836--37384055 Score: 356
Period size: 109 Copynumber: 2.0 Consensus size: 110
37383826 AACTCTGTAT
* *
37383836 TGACAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGACAGAGGGCAGATCAAAGA
1 TGACAGAGAGCAGATCGAAGATAGAAAATTTGGCGTCTCTGTATTGACAGAGGGCAGATCAAAGA
37383901 TGACAGATTTGGCATCTCTGTATT-GACAGAGG-GCAGATCGAAGA
66 TGACAGATTTGGCATCTCTGTATTAG-CAGAGGAGCAGATCGAAGA
*
37383945 TGACAGAGGGCAGATCGAAGAT-GAAAAATTTGGCGTCTCTGTATTGACAGAGGGCAGATCAAAG
1 TGACAGAGAGCAGATCGAAGATAG-AAAATTTGGCGTCTCTGTATTGACAGAGGGCAGATCAAAG
* *
37384009 ATGACAGATTTGGCATCTCTGTATTAGCCGGGGAGCAGATCGAAGA
65 ATGACAGATTTGGCATCTCTGTATTAGCAGAGGAGCAGATCGAAGA
37384055 T
1 T
37384056 AGCAAATCTG
Statistics
Matches: 103, Mismatches: 5, Indels: 5
0.91 0.04 0.04
Matches are distributed among these distances:
108 1 0.01
109 88 0.85
110 14 0.14
ACGTcount: A:0.32, C:0.15, G:0.30, T:0.22
Consensus pattern (110 bp):
TGACAGAGAGCAGATCGAAGATAGAAAATTTGGCGTCTCTGTATTGACAGAGGGCAGATCAAAGA
TGACAGATTTGGCATCTCTGTATTAGCAGAGGAGCAGATCGAAGA
Found at i:37383993 original size:44 final size:44
Alignment explanation
Indices: 37383945--37384055 Score: 143
Period size: 44 Copynumber: 2.5 Consensus size: 44
37383935 AGATCGAAGA
*
37383945 TGACAGAGGGCAGATCGAAGATGAAAAATTTGGCGTCTCTGTAT
1 TGACAGAGGGCAGATCGAAGATGAAAAATTTGGCATCTCTGTAT
* * *
37383989 TGACAGAGGGCAGATCAAAGATGACAGATTTGGCATCTCTGTAT
1 TGACAGAGGGCAGATCGAAGATGAAAAATTTGGCATCTCTGTAT
* *
37384033 T-AGCCGGGGAGCAGATCGAAGAT
1 TGA-CAGAGG-GCAGATCGAAGAT
37384056 AGCAAATCTG
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
43 1 0.02
44 45 0.78
45 12 0.21
ACGTcount: A:0.32, C:0.15, G:0.31, T:0.23
Consensus pattern (44 bp):
TGACAGAGGGCAGATCGAAGATGAAAAATTTGGCATCTCTGTAT
Found at i:37385588 original size:15 final size:15
Alignment explanation
Indices: 37385570--37385612 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
37385560 AAATAGTATA
*
37385570 TATATATTTTTTATT
1 TATATATTATTTATT
*
37385585 TATATATTATTTATCA
1 TATATATTATTTAT-T
37385601 TATTATATTATT
1 TA-TATATTATT
37385613 CTATATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 13 0.54
16 2 0.08
17 9 0.38
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (15 bp):
TATATATTATTTATT
Found at i:37385623 original size:17 final size:16
Alignment explanation
Indices: 37385572--37385627 Score: 55
Period size: 17 Copynumber: 3.5 Consensus size: 16
37385562 ATAGTATATA
37385572 TATATT-TTT-TATTT
1 TATATTATTTATATTT
*
37385586 ATATATTATTTATCATAT
1 -TATATTATTTAT-ATTT
37385604 TATATTATTCTATATTT
1 TATATTATT-TATATTT
37385621 TAT-TTAT
1 TATATTAT
37385628 AAATTTTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
15 6 0.17
16 7 0.20
17 16 0.46
18 6 0.17
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (16 bp):
TATATTATTTATATTT
Found at i:37385624 original size:15 final size:15
Alignment explanation
Indices: 37385572--37385624 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 15
37385562 ATAGTATATA
37385572 TATATTTT-TTATT-
1 TATATTTTATTATTC
*
37385585 TATATATTATT-TATC
1 TATATTTTATTAT-TC
*
37385600 -ATATTATATTATTC
1 TATATTTTATTATTC
37385614 TATATTTTATT
1 TATATTTTATT
37385625 TATAAATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
13 8 0.26
14 13 0.42
15 10 0.32
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (15 bp):
TATATTTTATTATTC
Found at i:37385721 original size:22 final size:21
Alignment explanation
Indices: 37385672--37385721 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
37385662 TATTATTCCT
*
37385672 TACATTATTTTTATTTTATTA
1 TACATTATTATTATTTTATTA
*
37385693 TAAATTATATATTATTTTATTA
1 TACATTAT-TATTATTTTATTA
*
37385715 TTCATTA
1 TACATTA
37385722 ATTACGTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (21 bp):
TACATTATTATTATTTTATTA
Found at i:37387804 original size:262 final size:262
Alignment explanation
Indices: 37387334--37387856 Score: 1001
Period size: 262 Copynumber: 2.0 Consensus size: 262
37387324 TACCACTATT
37387334 GTACCATGAACTTATAAATGTACATATGTCAACCTAATAATAATAATACATTTGCCGAATCATAC
1 GTACCATGAACTTATAAATGTACATATGTCAACCTAATAATAATAATACATTTGCCGAATCATAC
37387399 ACACAACATAACTATTAATTTAAAAAGCTAATTTAACTTGTTTCTACTTACCCAATTCATTACAT
66 ACACAACATAACTATTAATTTAAAAAGCTAATTTAACTTGTTTCTACTTACCCAATTCATTACAT
37387464 TAATATCCTTGACCTATTCACATATACATAACATAATTATTTCACTCCAACATTAAACCGATATA
131 TAATATCCTTGACCTATTCACATATACATAACATAATTATTTCACTCCAACATTAAACCGATATA
**
37387529 GTAAACCATTCACAAGACAAAACATATTTCGTTAAACCCTTACCACATTCGAACTTAGCCATACA
196 GTAAACCATTCACAAGACAAAACATATTTCCCTAAACCCTTACCACATTCGAACTTAGCCATACA
37387594 AC
261 AC
37387596 GTACCATGAACTTATAAATGTACATATGTCAACCTAATAATAATAATACATTTGCCGAATCATAC
1 GTACCATGAACTTATAAATGTACATATGTCAACCTAATAATAATAATACATTTGCCGAATCATAC
37387661 ACACAACATAACTATTAATTTAAAAAGCTAATTTAACTTGTTTCTACTTACCCAATTCATTACAT
66 ACACAACATAACTATTAATTTAAAAAGCTAATTTAACTTGTTTCTACTTACCCAATTCATTACAT
*
37387726 TAATATCCTTGACCTATTCACATATACATAACATAATTATTTCACTCCAACATTAAACCGATTTA
131 TAATATCCTTGACCTATTCACATATACATAACATAATTATTTCACTCCAACATTAAACCGATATA
* *
37387791 GTAAACTATTCACAAGACAAAACATATTTCCCTAAACCCTTACCATATTCGAACTTAGCCATACA
196 GTAAACCATTCACAAGACAAAACATATTTCCCTAAACCCTTACCACATTCGAACTTAGCCATACA
37387856 A
261 A
37387857 AATTTAATAC
Statistics
Matches: 256, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
262 256 1.00
ACGTcount: A:0.40, C:0.22, G:0.06, T:0.32
Consensus pattern (262 bp):
GTACCATGAACTTATAAATGTACATATGTCAACCTAATAATAATAATACATTTGCCGAATCATAC
ACACAACATAACTATTAATTTAAAAAGCTAATTTAACTTGTTTCTACTTACCCAATTCATTACAT
TAATATCCTTGACCTATTCACATATACATAACATAATTATTTCACTCCAACATTAAACCGATATA
GTAAACCATTCACAAGACAAAACATATTTCCCTAAACCCTTACCACATTCGAACTTAGCCATACA
AC
Found at i:37388235 original size:303 final size:303
Alignment explanation
Indices: 37387688--37388270 Score: 1166
Period size: 303 Copynumber: 1.9 Consensus size: 303
37387678 ATTTAAAAAG
37387688 CTAATTTAACTTGTTTCTACTTACCCAATTCATTACATTAATATCCTTGACCTATTCACATATAC
1 CTAATTTAACTTGTTTCTACTTACCCAATTCATTACATTAATATCCTTGACCTATTCACATATAC
37387753 ATAACATAATTATTTCACTCCAACATTAAACCGATTTAGTAAACTATTCACAAGACAAAACATAT
66 ATAACATAATTATTTCACTCCAACATTAAACCGATTTAGTAAACTATTCACAAGACAAAACATAT
37387818 TTCCCTAAACCCTTACCATATTCGAACTTAGCCATACAAAATTTAATACCAATTCACAATTTAAT
131 TTCCCTAAACCCTTACCATATTCGAACTTAGCCATACAAAATTTAATACCAATTCACAATTTAAT
37387883 GCTTATATTATCATAACAACCAATTTCATATTTATATCATCTATACATAGCAATAGCCGAATCAA
196 GCTTATATTATCATAACAACCAATTTCATATTTATATCATCTATACATAGCAATAGCCGAATCAA
37387948 CTAAGCATGTTAAGGAAAGATATATAAACCATAATCATTTCAT
261 CTAAGCATGTTAAGGAAAGATATATAAACCATAATCATTTCAT
37387991 CTAATTTAACTTGTTTCTACTTACCCAATTCATTACATTAATATCCTTGACCTATTCACATATAC
1 CTAATTTAACTTGTTTCTACTTACCCAATTCATTACATTAATATCCTTGACCTATTCACATATAC
37388056 ATAACATAATTATTTCACTCCAACATTAAACCGATTTAGTAAACTATTCACAAGACAAAACATAT
66 ATAACATAATTATTTCACTCCAACATTAAACCGATTTAGTAAACTATTCACAAGACAAAACATAT
37388121 TTCCCTAAACCCTTACCATATTCGAACTTAGCCATACAAAATTTAATACCAATTCACAATTTAAT
131 TTCCCTAAACCCTTACCATATTCGAACTTAGCCATACAAAATTTAATACCAATTCACAATTTAAT
37388186 GCTTATATTATCATAACAACCAATTTCATATTTATATCATCTATACATAGCAATAGCCGAATCAA
196 GCTTATATTATCATAACAACCAATTTCATATTTATATCATCTATACATAGCAATAGCCGAATCAA
37388251 CTAAGCATGTTAAGGAAAGA
261 CTAAGCATGTTAAGGAAAGA
37388271 CCTACCATCA
Statistics
Matches: 280, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
303 280 1.00
ACGTcount: A:0.39, C:0.22, G:0.05, T:0.33
Consensus pattern (303 bp):
CTAATTTAACTTGTTTCTACTTACCCAATTCATTACATTAATATCCTTGACCTATTCACATATAC
ATAACATAATTATTTCACTCCAACATTAAACCGATTTAGTAAACTATTCACAAGACAAAACATAT
TTCCCTAAACCCTTACCATATTCGAACTTAGCCATACAAAATTTAATACCAATTCACAATTTAAT
GCTTATATTATCATAACAACCAATTTCATATTTATATCATCTATACATAGCAATAGCCGAATCAA
CTAAGCATGTTAAGGAAAGATATATAAACCATAATCATTTCAT
Found at i:37388358 original size:16 final size:16
Alignment explanation
Indices: 37388334--37388365 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
37388324 AAATTCGAGA
37388334 TTTCAGGATTTTTGGG
1 TTTCAGGATTTTTGGG
*
37388350 TTTCGGGATTTTTGGG
1 TTTCAGGATTTTTGGG
37388366 GCATTACACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.09, C:0.06, G:0.34, T:0.50
Consensus pattern (16 bp):
TTTCAGGATTTTTGGG
Found at i:37415867 original size:33 final size:33
Alignment explanation
Indices: 37415820--37415893 Score: 130
Period size: 33 Copynumber: 2.2 Consensus size: 33
37415810 ACCTTTAAAG
*
37415820 ATACCTATTAACTTATTTGAATTTTTTTGACTA
1 ATACTTATTAACTTATTTGAATTTTTTTGACTA
37415853 ATACTTATTAACTTATTTGAATTTTTTTGACTA
1 ATACTTATTAACTTATTTGAATTTTTTTGACTA
*
37415886 ACACTTAT
1 ATACTTAT
37415894 AAAACATAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.31, C:0.12, G:0.05, T:0.51
Consensus pattern (33 bp):
ATACTTATTAACTTATTTGAATTTTTTTGACTA
Found at i:37421688 original size:12 final size:12
Alignment explanation
Indices: 37421671--37421699 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
37421661 AAATTCATAT
37421671 TATATATATACA
1 TATATATATACA
37421683 TATATATATACA
1 TATATATATACA
37421695 T-TATA
1 TATATA
37421700 AATATCACCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (12 bp):
TATATATATACA
Found at i:37422176 original size:43 final size:43
Alignment explanation
Indices: 37422129--37422214 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
37422119 AAATCGTACA
* * *
37422129 ATGCCAATGTCCTAGACATGGTCTTACAT-GTAACCACATATCG
1 ATGCCAATGTCCCAGACAGGGTCTTAC-TCGTAAACACATATCG
* *
37422172 ATGCCACTGTCCCAGACAGGGTCTTGCTCGTAAACACATATCG
1 ATGCCAATGTCCCAGACAGGGTCTTACTCGTAAACACATATCG
37422215 GTATCACATA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
42 1 0.03
43 36 0.97
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGGGTCTTACTCGTAAACACATATCG
Found at i:37424103 original size:25 final size:27
Alignment explanation
Indices: 37424049--37424108 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 27
37424039 TGATATTTCA
*
37424049 TCATCAAACATCATAAAACACAAATAT
1 TCATCAAACAACATAAAACACAAATAT
*
37424076 TCATC-AACAACATAACACA-AAATAT
1 TCATCAAACAACATAAAACACAAATAT
*
37424101 TCACCAAA
1 TCATCAAA
37424109 ATCAAAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 10 0.34
26 14 0.48
27 5 0.17
ACGTcount: A:0.55, C:0.25, G:0.00, T:0.20
Consensus pattern (27 bp):
TCATCAAACAACATAAAACACAAATAT
Found at i:37424337 original size:30 final size:31
Alignment explanation
Indices: 37424313--37424371 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
37424303 GTAAATACTC
* *
37424313 AAAATTTGAGGGATTAA-AGTGTAAATATGA
1 AAAATTTGAAGGACTAATAGTGTAAATATGA
*
37424343 AAAATTTGAAGGACTAATAGTGCAAATAT
1 AAAATTTGAAGGACTAATAGTGTAAATAT
37424372 TTTAAGGGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.47, C:0.03, G:0.20, T:0.29
Consensus pattern (31 bp):
AAAATTTGAAGGACTAATAGTGTAAATATGA
Found at i:37424588 original size:61 final size:61
Alignment explanation
Indices: 37424513--37424629 Score: 216
Period size: 61 Copynumber: 1.9 Consensus size: 61
37424503 AGATTACAAA
*
37424513 GGGCAAAATGGTCAATTGGAAGAGAGAGAAATCTAGAAAGTAATGATGATGTTGGTGATAT
1 GGGCAAAATGGTCAATTGAAAGAGAGAGAAATCTAGAAAGTAATGATGATGTTGGTGATAT
*
37424574 GGGCAAAATGGTCAATTGAAAGGGAGAGAAATCTAGAAAGTAATGATGATGTTGGT
1 GGGCAAAATGGTCAATTGAAAGAGAGAGAAATCTAGAAAGTAATGATGATGTTGGT
37424630 TATAATTTAT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
61 54 1.00
ACGTcount: A:0.39, C:0.05, G:0.32, T:0.24
Consensus pattern (61 bp):
GGGCAAAATGGTCAATTGAAAGAGAGAGAAATCTAGAAAGTAATGATGATGTTGGTGATAT
Found at i:37424709 original size:20 final size:19
Alignment explanation
Indices: 37424658--37424711 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
37424648 AATTAGATAA
37424658 TTATTATTTATTTAATATT
1 TTATTATTTATTTAATATT
* ** *
37424677 TTAATAAGATATTTATTATT
1 TT-ATTATTTATTTAATATT
37424697 TTATTATTTTATTTA
1 TTATTA-TTTATTTA
37424712 GTATATATAT
Statistics
Matches: 26, Mismatches: 7, Indels: 3
0.72 0.19 0.08
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (19 bp):
TTATTATTTATTTAATATT
Found at i:37427464 original size:27 final size:27
Alignment explanation
Indices: 37427396--37427496 Score: 112
Period size: 28 Copynumber: 3.6 Consensus size: 27
37427386 ATACAGAAAA
* *
37427396 TGTGACAGAGTCACCAGATACAGATATTT
1 TGTGGCAGAGCCACCAGA-ACAGATA-TT
* * *
37427425 TGTGGTAGTGCCACCAGAACAGATATA
1 TGTGGCAGAGCCACCAGAACAGATATT
*
37427452 TGTGGCAGGGCCACCAGAACAGATAATT
1 TGTGGCAGAGCCACCAGAACAGAT-ATT
*
37427480 TGTGGCATAGCCACCAG
1 TGTGGCAGAGCCACCAG
37427497 GACGCTTCCT
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
27 23 0.38
28 24 0.39
29 14 0.23
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.22
Consensus pattern (27 bp):
TGTGGCAGAGCCACCAGAACAGATATT
Found at i:37427492 original size:28 final size:27
Alignment explanation
Indices: 37427407--37427496 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
37427397 GTGACAGAGT
* *
37427407 CACCAGATACAGATATTTTGTGGTAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
* *
37427436 CACCAGAACAGAT-ATATGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
37427463 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
37427491 CACCAG
1 CACCAG
37427497 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
27 23 0.43
28 23 0.43
29 7 0.13
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.21
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:37435132 original size:27 final size:27
Alignment explanation
Indices: 37435080--37435169 Score: 101
Period size: 28 Copynumber: 3.2 Consensus size: 27
37435070 GTGATAGAGT
37435080 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
37435109 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
* *
37435136 CACCAAAATAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
37435164 CACCAG
1 CACCAG
37435170 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 22 0.42
28 23 0.44
29 7 0.13
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.21
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:37435165 original size:28 final size:27
Alignment explanation
Indices: 37435088--37435168 Score: 83
Period size: 27 Copynumber: 2.9 Consensus size: 27
37435078 GTCACCAGAT
* *
37435088 ACAGATATTTTGTGGCAGTGCCACCAGA
1 ACAGATAATTTGTGGCA-TGCCACCAAA
* *
37435116 ACAGAT-ATATGTGGCAGGGCCACCAAA
1 ACAGATAATTTGTGGCA-TGCCACCAAA
*
37435143 ATAGATAATTTGTGGCATAGCCACCA
1 ACAGATAATTTGTGGCAT-GCCACCA
37435169 GGACGCTTCC
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
27 22 0.50
28 22 0.50
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.22
Consensus pattern (27 bp):
ACAGATAATTTGTGGCATGCCACCAAA
Found at i:37435574 original size:8 final size:8
Alignment explanation
Indices: 37435558--37435589 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
37435548 CCCAAAATAC
37435558 CGGCTTTT
1 CGGCTTTT
*
37435566 CGGCATTT
1 CGGCTTTT
37435574 CGGCTTTT
1 CGGCTTTT
37435582 CGGCTTTT
1 CGGCTTTT
37435590 GCCGATCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.03, C:0.25, G:0.25, T:0.47
Consensus pattern (8 bp):
CGGCTTTT
Found at i:37438065 original size:45 final size:45
Alignment explanation
Indices: 37437934--37438057 Score: 203
Period size: 45 Copynumber: 2.8 Consensus size: 45
37437924 TACCAGAAAT
* * *
37437934 GAGTAAGACCATAGCTAAAAGACACTATGGCATCATGATTCGGAC
1 GAGTAAGACCATAGCTGAAAGACGCTATGGCATCATGATTCAGAC
* *
37437979 GAGTAAGACCATAGCAGAAAGCCGCTATGGCATCATGATTCAGAC
1 GAGTAAGACCATAGCTGAAAGACGCTATGGCATCATGATTCAGAC
37438024 GAGTAAGACCATAGCTGAAAGACGCTATGGCATC
1 GAGTAAGACCATAGCTGAAAGACGCTATGGCATC
37438058 GCAATTCAAA
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 72 1.00
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (45 bp):
GAGTAAGACCATAGCTGAAAGACGCTATGGCATCATGATTCAGAC
Found at i:37438075 original size:45 final size:45
Alignment explanation
Indices: 37437934--37438136 Score: 190
Period size: 45 Copynumber: 4.5 Consensus size: 45
37437924 TACCAGAAAT
* * **
37437934 GAGTAAGACCATAGCTAAAAGACACTATGGCATCATGATTCGGAC
1 GAGTAAGACCATAGCTGAAAGACGCTATGGCATCATGATTCAAAC
* * *
37437979 GAGTAAGACCATAGCAGAAAGCCGCTATGGCATCATGATTCAGAC
1 GAGTAAGACCATAGCTGAAAGACGCTATGGCATCATGATTCAAAC
*** *
37438024 GAGTAAGACCATAGCTGAAAGACGCTATGGCATCGCAATTCAAAT
1 GAGTAAGACCATAGCTGAAAGACGCTATGGCATCATGATTCAAAC
* * * ** * * * *
37438069 GTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAAT
1 GAGTAAGACCATAGCTGAAAGACGCTATGGCATCATGAT-TCAAAC
* * *
37438115 GTGTAAGACCATGGTTGAAAGA
1 GAGTAAGACCATAGCTGAAAGA
37438137 TACCATGGCA
Statistics
Matches: 134, Mismatches: 23, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
45 107 0.80
46 27 0.20
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (45 bp):
GAGTAAGACCATAGCTGAAAGACGCTATGGCATCATGATTCAAAC
Found at i:37438125 original size:46 final size:46
Alignment explanation
Indices: 37438065--37438243 Score: 252
Period size: 46 Copynumber: 3.9 Consensus size: 46
37438055 ATCGCAATTC
* *
37438065 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATG
* *
37438111 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATG
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATG
* *
37438157 AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACTTGACA-G
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATG
* * * *
37438202 AAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 -AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
37438244 TCGAAGATAA
Statistics
Matches: 121, Mismatches: 11, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
45 1 0.01
46 120 0.99
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (46 bp):
AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATG
Found at i:37438366 original size:26 final size:26
Alignment explanation
Indices: 37438326--37438375 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
37438316 ACCAGATGAC
*
37438326 AAATGGTTATATGAATTGGTTATACA
1 AAATGGTTATATGAAATGGTTATACA
* * *
37438352 AAATGGTTGTGTGAAATGTTTATA
1 AAATGGTTATATGAAATGGTTATA
37438376 GGAAAATAGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.36, C:0.02, G:0.22, T:0.40
Consensus pattern (26 bp):
AAATGGTTATATGAAATGGTTATACA
Found at i:37440156 original size:40 final size:40
Alignment explanation
Indices: 37439949--37440156 Score: 193
Period size: 42 Copynumber: 5.0 Consensus size: 40
37439939 GTTTACAAAC
* * **
37439949 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTT--TT
*
37439991 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGC-TTA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTT
* *
37440030 AGGGAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTTTT
1 A---AAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG---CTTTT
** * * **
37440076 CTAATCGCCGCTAAAGAACATGTTCTTTAGTGGCATTTTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTT
* * *
37440116 ACAAACGCCGCAAAAGAACATGTTCTTTAGTGGCGCTTTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTT
37440156 A
1 A
37440157 TACAAAAACG
Statistics
Matches: 141, Mismatches: 18, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
39 2 0.01
40 40 0.28
41 1 0.01
42 67 0.48
43 29 0.21
46 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (40 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTT
Found at i:37440244 original size:14 final size:14
Alignment explanation
Indices: 37440221--37440254 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
37440211 GCCCTCCTGT
*
37440221 AGCAAAATTTCAAA
1 AGCAACATTTCAAA
37440235 AGCAACATTTCAAA
1 AGCAACATTTCAAA
37440249 AGCAAC
1 AGCAAC
37440255 CAATAGCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.53, C:0.21, G:0.09, T:0.18
Consensus pattern (14 bp):
AGCAACATTTCAAA
Found at i:37440546 original size:21 final size:21
Alignment explanation
Indices: 37440478--37440548 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
37440468 TTTTGCTCTG
* *
37440478 CTCTGCTTCTCTTGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
37440499 CTCCGCTTCCCTCGCTGCAGT
1 CTCTGCTTCCCTCGCTGCAGC
* * *
37440520 CGCTGCTTCCCTCGCTTCCGC
1 CTCTGCTTCCCTCGCTGCAGC
37440541 CTCTGCTT
1 CTCTGCTT
37440549 TAAGTTGTAG
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.03, C:0.45, G:0.18, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:37446046 original size:11 final size:9
Alignment explanation
Indices: 37445998--37446085 Score: 64
Period size: 9 Copynumber: 9.9 Consensus size: 9
37445988 AATTGCAATG
37445998 GTAAGTTAT
1 GTAAGTTAT
37446007 GTAAGTTAT
1 GTAAGTTAT
37446016 GTAAGTTAAAT
1 GTAAGTT--AT
37446027 GT-A-TTAT
1 GTAAGTTAT
37446034 GTAAGTTAAAT
1 GTAAGTT--AT
37446045 GTAAG-T-T
1 GTAAGTTAT
37446052 GTAAGTTAT
1 GTAAGTTAT
*
37446061 -TATGTATTAT
1 GTAAG--TTAT
37446071 GTAAG-T-T
1 GTAAGTTAT
37446078 GTAAGTTA
1 GTAAGTTA
37446086 AATGTATTGT
Statistics
Matches: 64, Mismatches: 2, Indels: 26
0.70 0.02 0.28
Matches are distributed among these distances:
7 16 0.25
8 7 0.11
9 21 0.33
10 6 0.09
11 14 0.22
ACGTcount: A:0.35, C:0.00, G:0.20, T:0.44
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:37446077 original size:26 final size:26
Alignment explanation
Indices: 37446043--37446173 Score: 205
Period size: 26 Copynumber: 5.2 Consensus size: 26
37446033 TGTAAGTTAA
37446043 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
37446069 ATGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
37446094 GTGTAAGTT-TAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
37446119 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* *
37446145 GTGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
37446170 ATGT
1 ATGT
37446174 CAGTCAAATG
Statistics
Matches: 96, Mismatches: 7, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
24 7 0.07
25 40 0.42
26 49 0.51
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (26 bp):
ATGTAAGTTGTAAGTTATTATGTATT
Found at i:37446188 original size:76 final size:79
Alignment explanation
Indices: 37446012--37446202 Score: 275
Period size: 76 Copynumber: 2.5 Consensus size: 79
37446002 GTTATGTAAG
37446012 TTATGTAAGTTAAATGTATTATGTAAGTTAAATGTAAGTTGTAAGTTATTATGTATTATGTAAGT
1 TTATGTAAGTTAAATGTATTATGTAAGTT-AATGTAAGTTGTAAGTTATTATGTATTATGTAAGT
37446077 TGTAAGTTAAATGTA
65 TGTAAGTTAAATGTA
* * *
37446092 TTGTGTAAGTTTAA-GTTATTATGT-A-TT-ATGTAAGTTGTAAGTTATTATGTATTGTGTAAGT
1 TTATGTAAGTTAAATG-TATTATGTAAGTTAATGTAAGTTGTAAGTTATTATGTATTATGTAAGT
37446153 TGTAAGTTAAATGTA
65 TGTAAGTTAAATGTA
* * *
37446168 TTATGTCAGTCAAATGTATTATATAAGTT-ATGTAA
1 TTATGTAAGTTAAATGTATTATGTAAGTTAATGTAA
37446203 TTCGATTTTT
Statistics
Matches: 99, Mismatches: 8, Indels: 10
0.85 0.07 0.09
Matches are distributed among these distances:
76 65 0.66
77 2 0.02
78 10 0.10
79 2 0.02
80 20 0.20
ACGTcount: A:0.34, C:0.01, G:0.19, T:0.46
Consensus pattern (79 bp):
TTATGTAAGTTAAATGTATTATGTAAGTTAATGTAAGTTGTAAGTTATTATGTATTATGTAAGTT
GTAAGTTAAATGTA
Found at i:37446262 original size:20 final size:20
Alignment explanation
Indices: 37446212--37446273 Score: 90
Period size: 20 Copynumber: 3.1 Consensus size: 20
37446202 ATTCGATTTT
* *
37446212 TTATCTTAACATGATATAAG
1 TTATCTTAATATTATATAAG
*
37446232 TTAT-GTAATATTATATAAG
1 TTATCTTAATATTATATAAG
37446251 TTATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAG
37446271 TTA
1 TTA
37446274 AGAAATTGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
19 16 0.43
20 21 0.57
ACGTcount: A:0.40, C:0.05, G:0.08, T:0.47
Consensus pattern (20 bp):
TTATCTTAATATTATATAAG
Found at i:37448315 original size:19 final size:19
Alignment explanation
Indices: 37448291--37448332 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
37448281 GGACTACGTT
*
37448291 GGGGAACTGTTAGGGATTA
1 GGGGAAATGTTAGGGATTA
* *
37448310 GGGGAAATTTTAGGGATTT
1 GGGGAAATGTTAGGGATTA
37448329 GGGG
1 GGGG
37448333 GAGATGTCTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.24, C:0.02, G:0.45, T:0.29
Consensus pattern (19 bp):
GGGGAAATGTTAGGGATTA
Found at i:37448993 original size:230 final size:231
Alignment explanation
Indices: 37448662--37449170 Score: 772
Period size: 230 Copynumber: 2.2 Consensus size: 231
37448652 TAATGCAAAT
*** * **
37448662 TTGCGGCG-TTTA-ATAAAAGCGCCACTAAAACCAACTAAGTAAACGGCGTTGTTTTCCGTAACA
1 TTGCGGCGTTTTATATAAAA-CGCCACTAAATGTAA-TAAGAAAACGGCGTCATTTTCCGTAACA
* * *
37448725 CCATTTCGATTTTGCGGCGTTTATATATAAGCGCCACTAAATATAAGGTCAAACGCAGTCGTTTA
64 CCATTTCGAGTTTGCGACGTTTATATATAAACGCCACTAAATATAAGGTCAAACGCAGTCGTTTA
* *
37448790 AAGCAAACTCCTGTAATCTTTAAAATATATTTGCGGCGTTTTGGGTGTAACGCCACAAATATC-C
129 AAGCAAACTCCTGTAATCTTTAAAATATATTTGCGGCGTTTTGGGTGTAACGCCACAAATAACAA
* * * *
37448854 TTGAAAACGATGCCGTTTCTGTAACAAAGAAAACATAC
194 TGGAAAACGACGCCGTTCCCGTAACAAAGAAAACATAC
* *
37448892 TTGCGGCGTTTTATCTAAAACGCCACTAAATGTAATAAGAAAACGGCGTCATTTTTCGTAACACC
1 TTGCGGCGTTTTATATAAAACGCCACTAAATGTAATAAGAAAACGGCGTCATTTTCCGTAACACC
* *
37448957 ATTTCGAGTTTGCGACGTTTATATATAAATGCCACTAAATATAAGGTCAAACGCAGTCGTTTAAC
66 ATTTCGAGTTTGCGACGTTTATATATAAACGCCACTAAATATAAGGTCAAACGCAGTCGTTTAAA
* *
37449022 GCAAACTCGTGTAATCTTTAAAATATATTTGCGGCGTTTTGGGTGTAACGCCACTAATAACAATG
131 GCAAACTCCTGTAATCTTTAAAATATATTTGCGGCGTTTTGGGTGTAACGCCACAAATAACAATG
*
37449087 GAAAACGACGCCGTTCCCGTAACAAAGAAAACATAG
196 GAAAACGACGCCGTTCCCGTAACAAAGAAAACATAC
*
37449123 TTGCGGCGTTTTGTATAAAACGCCACTAAATGTAATAAGAAAACGGCG
1 TTGCGGCGTTTTATATAAAACGCCACTAAATGTAATAAGAAAACGGCG
37449171 CCGTTTTCTT
Statistics
Matches: 252, Mismatches: 24, Indels: 5
0.90 0.09 0.02
Matches are distributed among these distances:
230 152 0.60
231 95 0.38
232 5 0.02
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (231 bp):
TTGCGGCGTTTTATATAAAACGCCACTAAATGTAATAAGAAAACGGCGTCATTTTCCGTAACACC
ATTTCGAGTTTGCGACGTTTATATATAAACGCCACTAAATATAAGGTCAAACGCAGTCGTTTAAA
GCAAACTCCTGTAATCTTTAAAATATATTTGCGGCGTTTTGGGTGTAACGCCACAAATAACAATG
GAAAACGACGCCGTTCCCGTAACAAAGAAAACATAC
Found at i:37449600 original size:7 final size:7
Alignment explanation
Indices: 37449588--37449672 Score: 80
Period size: 7 Copynumber: 12.1 Consensus size: 7
37449578 CCTTAAATTT
37449588 CCAAACC
1 CCAAACC
37449595 CCAAACC
1 CCAAACC
*
37449602 CCAAACA
1 CCAAACC
** *
37449609 TTAAACT
1 CCAAACC
* *
37449616 CTAAACT
1 CCAAACC
* *
37449623 CAAAAAC
1 CCAAACC
*
37449630 CCAAATC
1 CCAAACC
37449637 CCAAACC
1 CCAAACC
37449644 CCAAACC
1 CCAAACC
37449651 CCAAACC
1 CCAAACC
37449658 CCAAACC
1 CCAAACC
*
37449665 ACAAACC
1 CCAAACC
37449672 C
1 C
37449673 TTACATCCGA
Statistics
Matches: 65, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
7 65 1.00
ACGTcount: A:0.47, C:0.46, G:0.00, T:0.07
Consensus pattern (7 bp):
CCAAACC
Found at i:37449992 original size:15 final size:16
Alignment explanation
Indices: 37449964--37449994 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
37449954 CCCTAACACG
37449964 ACCCCTATAACCCTAA
1 ACCCCTATAACCCTAA
37449980 ACCCCTA-AACCCTAA
1 ACCCCTATAACCCTAA
37449995 GTCTTAAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.39, C:0.45, G:0.00, T:0.16
Consensus pattern (16 bp):
ACCCCTATAACCCTAA
Found at i:37450283 original size:18 final size:21
Alignment explanation
Indices: 37450260--37450308 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 21
37450250 ATTAATCACG
37450260 ATATTAATTTG-GTG-TTT-T
1 ATATTAATTTGTGTGATTTAT
* *
37450278 ATATTACTTTGTTTGATTTAT
1 ATATTAATTTGTGTGATTTAT
37450299 ATATTAATTT
1 ATATTAATTT
37450309 AGTCGAACTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 10 0.40
19 2 0.08
20 3 0.12
21 10 0.40
ACGTcount: A:0.27, C:0.02, G:0.10, T:0.61
Consensus pattern (21 bp):
ATATTAATTTGTGTGATTTAT
Found at i:37450955 original size:40 final size:38
Alignment explanation
Indices: 37450861--37450959 Score: 101
Period size: 39 Copynumber: 2.5 Consensus size: 38
37450851 CGTCGTTGGC
* * *
37450861 CTTATTTTTTTGCGGCGCTTTTTGTGAATCGCCGCTATTG
1 CTTA-TTTTTAGCGGCG-TTTTCGTGAATCGCCGCTAATG
* *
37450901 CTTATTATTAGCGGCGTTTTCGTTAATGCGCCGCTAATG
1 CTTATTTTTAGCGGCGTTTTCGTGAAT-CGCCGCTAATG
37450940 -TTCAATTTTTAGCGGCGTTT
1 CTT--ATTTTTAGCGGCGTTT
37450960 GTTGTCCAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
38 11 0.22
39 20 0.40
40 19 0.38
ACGTcount: A:0.14, C:0.19, G:0.22, T:0.44
Consensus pattern (38 bp):
CTTATTTTTAGCGGCGTTTTCGTGAATCGCCGCTAATG
Found at i:37451953 original size:20 final size:19
Alignment explanation
Indices: 37451902--37451955 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
37451892 AATTAGATAA
37451902 TTATTATTTATTTAATATT
1 TTATTATTTATTTAATATT
* ** *
37451921 TTAATAAGATATTTATTATT
1 TT-ATTATTTATTTAATATT
37451941 TTATTATTTTATTTA
1 TTATTA-TTTATTTA
37451956 GTATATATAT
Statistics
Matches: 26, Mismatches: 7, Indels: 3
0.72 0.19 0.08
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (19 bp):
TTATTATTTATTTAATATT
Found at i:37455379 original size:32 final size:32
Alignment explanation
Indices: 37455338--37455401 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
37455328 AAGCAGGATA
37455338 CAAAATCCATCGTAACTCTTTCCCATTTACGC
1 CAAAATCCATCGTAACTCTTTCCCATTTACGC
*
37455370 CAAAATCCATCGTACCTCTTTCCCATTTACGC
1 CAAAATCCATCGTAACTCTTTCCCATTTACGC
37455402 TCAGGTATCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.27, C:0.36, G:0.06, T:0.31
Consensus pattern (32 bp):
CAAAATCCATCGTAACTCTTTCCCATTTACGC
Found at i:37460093 original size:38 final size:38
Alignment explanation
Indices: 37460051--37460128 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
37460041 CACACAGAGT
37460051 AAGCTAACTTAGCTTAGTAAGCCTTAAGCAAATTAAAC
1 AAGCTAACTTAGCTTAGTAAGCCTTAAGCAAATTAAAC
37460089 AAGCTAACTTAGCTTAGTAAGCCTTAAGCAAATTAAAC
1 AAGCTAACTTAGCTTAGTAAGCCTTAAGCAAATTAAAC
37460127 AA
1 AA
37460129 CTCACTGAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.44, C:0.18, G:0.13, T:0.26
Consensus pattern (38 bp):
AAGCTAACTTAGCTTAGTAAGCCTTAAGCAAATTAAAC
Found at i:37464159 original size:17 final size:17
Alignment explanation
Indices: 37464137--37464169 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
37464127 GATATGATAC
37464137 TAAAAT-TACTAAAAAAT
1 TAAAATATA-TAAAAAAT
37464154 TAAAATATATAAAAAA
1 TAAAATATATAAAAAA
37464170 ATCAGGGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (17 bp):
TAAAATATATAAAAAAT
Found at i:37464470 original size:23 final size:22
Alignment explanation
Indices: 37464425--37464482 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
37464415 AAAAGGTATC
* *
37464425 TACAAATTAAATC-TCTAAAAT
1 TACAAATCATATCTTCTAAAAT
*
37464446 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAAAT
*
37464469 TACATATCATATCT
1 TACAAATCATATCT
37464483 AATATTGCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.45, C:0.17, G:0.02, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAAAT
Found at i:37464516 original size:35 final size:36
Alignment explanation
Indices: 37464473--37464543 Score: 126
Period size: 35 Copynumber: 2.0 Consensus size: 36
37464463 TAAGATTACA
*
37464473 TATCATATCTAATATTGCA-ATCATATCTAAGATTG
1 TATCATATCTAAGATTGCATATCATATCTAAGATTG
37464508 TATCATATCTAAGATTGCATATCATATCTAAGATTG
1 TATCATATCTAAGATTGCATATCATATCTAAGATTG
37464544 CATATCATTG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 18 0.53
36 16 0.47
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (36 bp):
TATCATATCTAAGATTGCATATCATATCTAAGATTG
Found at i:37464532 original size:19 final size:19
Alignment explanation
Indices: 37464461--37464551 Score: 143
Period size: 19 Copynumber: 4.9 Consensus size: 19
37464451 AATCATATCT
*
37464461 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
*
37464480 TCTAATATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
37464498 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
37464515 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
37464534 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
37464552 TGAAGATTAT
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
17 16 0.24
18 15 0.23
19 35 0.53
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:37464955 original size:45 final size:45
Alignment explanation
Indices: 37464900--37465099 Score: 276
Period size: 45 Copynumber: 4.5 Consensus size: 45
37464890 GGAAGGTGAT
* *
37464900 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
*
37464945 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * *
37464990 ATCTGCT-TCTTCAATCTGCTTCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * * *
37465034 ATCTGTTATCTCCGATTTGCTCCCCGTCCAATACAGGGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * *
37465079 ATCTATCATCTTGGATCTGCT
1 ATCTGTTATCTTCGATCTGCT
37465100 TCGATGTAAA
Statistics
Matches: 135, Mismatches: 19, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
44 40 0.30
45 95 0.70
ACGTcount: A:0.23, C:0.29, G:0.15, T:0.32
Consensus pattern (45 bp):
ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
Found at i:37465022 original size:89 final size:90
Alignment explanation
Indices: 37464900--37465082 Score: 287
Period size: 89 Copynumber: 2.0 Consensus size: 90
37464890 GGAAGGTGAT
** *
37464900 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTTCGATCTGC
1 ATCTGCTATCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTCCGATCTGC
*
37464965 TCCCCGTCTAATACAGAGACGCCAA
66 TCCCCGTCCAATACAGAGACGCCAA
* *
37464990 ATCTGCT-TCTTCAATCTGCTTCCCGTCTAATACAGAGATGCCAAATCTGTTATCTCCGATTTGC
1 ATCTGCTATCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTCCGATCTGC
* *
37465054 TCCCCGTCCAATACAGGGATGCCAA
66 TCCCCGTCCAATACAGAGACGCCAA
37465079 ATCT
1 ATCT
37465083 ATCATCTTGG
Statistics
Matches: 85, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
89 78 0.92
90 7 0.08
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.31
Consensus pattern (90 bp):
ATCTGCTATCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTCCGATCTGC
TCCCCGTCCAATACAGAGACGCCAA
Found at i:37465321 original size:78 final size:78
Alignment explanation
Indices: 37465129--37465329 Score: 269
Period size: 78 Copynumber: 2.6 Consensus size: 78
37465119 GTCAGAGCTA
* *
37465129 CTATGTCTTCGATTTGCTCCCCGTCTAATACAAAGATGCCAAATCATCTTGGATCTGCTTCAATG
1 CTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATG
37465194 AAGGTCCAATCTG
66 AAGGTCCAATCTG
* * * *
37465207 TTGTGCCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATG
1 CTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATG
* *
37465272 GAGGT-CAGGTCTG
66 AAGGTCCA-ATCTG
* * ** *
37465285 CTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATACCAAATC
1 CTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
37465330 TATTTCTTCG
Statistics
Matches: 105, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
77 2 0.02
78 103 0.98
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (78 bp):
CTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATG
AAGGTCCAATCTG
Found at i:37465458 original size:87 final size:89
Alignment explanation
Indices: 37465359--37465627 Score: 239
Period size: 78 Copynumber: 3.2 Consensus size: 89
37465349 CTGACAGTAC
* *
37465359 AGAGATGCCAAATCATCTTAGATCTGCTTCA-GTGTAAACA-CGTGAAAGCAAAATCTGCTATGT
1 AGAGATGCCAAATCATCTTAGATCTGCTTCATGTGAAAACATC-CGAAAGCAAAATCTGCTATGT
*
37465422 CTTCGATCTGCTC-CTTGTC-AACGCA-
65 CTTCGATCTGCTCTC-CGTCGAA--CAT
* * ** *
37465447 AG-GATGCCAAATCATCTTAGATCTACTTCGATGTGAAAACATCCGAAGGTTAGATCTGCTATGT
1 AGAGATGCCAAATCATCTTAGATCTGCTTC-ATGTGAAAACATCCGAAAGCAAAATCTGCTATGT
*
37465511 CTTCGATCTGCTCTCCGTCGAATAT
65 CTTCGATCTGCTCTCCGTCGAACAT
* * **
37465536 AGAGATGCCAAATCATCTTGGATCTGCTTCA-ATG--AAGGT-C---AG----ATCTGCTATGTC
1 AGAGATGCCAAATCATCTTAGATCTGCTTCATGTGAAAACATCCGAAAGCAAAATCTGCTATGTC
*
37465590 TTCGATCTGCTCTCCGTCGAATAT
66 TTCGATCTGCTCTCCGTCGAACAT
*
37465614 GGAGATGCCAAATC
1 AGAGATGCCAAATC
37465628 TGTTTCTTTG
Statistics
Matches: 158, Mismatches: 16, Indels: 24
0.80 0.08 0.12
Matches are distributed among these distances:
78 49 0.31
82 1 0.01
85 1 0.01
86 3 0.02
87 26 0.16
88 6 0.04
89 43 0.27
90 29 0.18
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (89 bp):
AGAGATGCCAAATCATCTTAGATCTGCTTCATGTGAAAACATCCGAAAGCAAAATCTGCTATGTC
TTCGATCTGCTCTCCGTCGAACAT
Found at i:37465516 original size:89 final size:87
Alignment explanation
Indices: 37465362--37465523 Score: 227
Period size: 89 Copynumber: 1.8 Consensus size: 87
37465352 ACAGTACAGA
* * *
37465362 GATGCCAAATCATCTTAGATCTGCTTCAGTGTAAACACGTGAAAGCAAAATCTGCTATGTCTTCG
1 GATGCCAAATCATCTTAGATCTACTTCAGTGAAAACACGCGAAAGCAAAATCTGCTATGTCTTCG
37465427 ATCTGCTCCTTGTCAACGCAAG
66 ATCTGCTCCTTGTCAACGCAAG
* ** *
37465449 GATGCCAAATCATCTTAGATCTACTTCGATGTGAAAACATC-CGAAGGTTAGATCTGCTATGTCT
1 GATGCCAAATCATCTTAGATCTACTTC-A-GTGAAAACA-CGCGAAAGCAAAATCTGCTATGTCT
37465513 TCGATCTGCTC
63 TCGATCTGCTC
37465524 TCCGTCGAAT
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
87 26 0.40
88 1 0.02
89 37 0.57
90 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (87 bp):
GATGCCAAATCATCTTAGATCTACTTCAGTGAAAACACGCGAAAGCAAAATCTGCTATGTCTTCG
ATCTGCTCCTTGTCAACGCAAG
Found at i:37465562 original size:298 final size:298
Alignment explanation
Indices: 37465213--37465847 Score: 1099
Period size: 298 Copynumber: 2.1 Consensus size: 298
37465203 TCTGTTGTGC
* * * * *
37465213 CTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGGAGGTC
1 CTTCGATCTGCTCTCCGTCGAATATAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTC
*
37465278 AGGTCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATACCAAATCTATTTCTTCGATT
66 AGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATACCAAATCTATTTCTTCGATT
***
37465343 TGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGTGTAAACACGTGAAAGC
131 TGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCACCATAAACACGTGAAAGC
* *
37465408 AAAATCTGCTATGTCTTCGATCTGCTCCTTGTCAACGCAAGGATGCCAAATCATCTTAGATCTAC
196 AAAATCTGCTATGTCTTCGATCCGCTCCTTGTCAACGCAAGGATACCAAATCATCTTAGATCTAC
37465473 TTCGATGTGAAAACATCCGAAGGTTAGATCTGCTATGT
261 TTCGATGTGAAAACATCCGAAGGTTAGATCTGCTATGT
37465511 CTTCGATCTGCTCTCCGTCGAATATAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTC
1 CTTCGATCTGCTCTCCGTCGAATATAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTC
* * *
37465576 AGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTTGATT
66 AGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATACCAAATCTATTTCTTCGATT
*
37465641 TGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTTACCATAAACACGTGAAAGC
131 TGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCACCATAAACACGTGAAAGC
* *
37465706 CAAATCTTCTATGTCTTCGATCCGCTCCTTGTCAACGCAAGGATACCAAATCATCTTAGATCTAC
196 AAAATCTGCTATGTCTTCGATCCGCTCCTTGTCAACGCAAGGATACCAAATCATCTTAGATCTAC
37465771 TTCGATGTGAAAACATCCGAAGGTTAGATCTGCTATGT
261 TTCGATGTGAAAACATCCGAAGGTTAGATCTGCTATGT
* *
37465809 CTTCGATCTGCTCTCCGTCGAATATGGAGATGCTAAATC
1 CTTCGATCTGCTCTCCGTCGAATATAGAGATGCCAAATC
37465848 TGTTTCTTTG
Statistics
Matches: 318, Mismatches: 19, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
298 318 1.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (298 bp):
CTTCGATCTGCTCTCCGTCGAATATAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTC
AGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATACCAAATCTATTTCTTCGATT
TGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCACCATAAACACGTGAAAGC
AAAATCTGCTATGTCTTCGATCCGCTCCTTGTCAACGCAAGGATACCAAATCATCTTAGATCTAC
TTCGATGTGAAAACATCCGAAGGTTAGATCTGCTATGT
Found at i:37476308 original size:47 final size:47
Alignment explanation
Indices: 37476207--37476374 Score: 232
Period size: 46 Copynumber: 3.6 Consensus size: 47
37476197 TGATGTCATA
* * * *
37476207 GTATCTTTCAACTATGGTTTTACTCGTTTT-CTGTCATATTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTTCCTGTCATGTTGCCATG
* *
37476253 GTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTTCCTGTCATGTTGCCATG
* * *
37476300 GTATCTTTCAACCATGGTCTTACTCA-TTTCATGTCAGGTTGCCATA
1 GTATCTTTCAACCATGGTCTTACTCATTTTCCTGTCATGTTGCCATG
*
37476346 GTATCTTTCAACCATGGTCTTATTCATTT
1 GTATCTTTCAACCATGGTCTTACTCATTT
37476375 CATATCACTT
Statistics
Matches: 108, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
46 67 0.62
47 41 0.38
ACGTcount: A:0.19, C:0.23, G:0.14, T:0.44
Consensus pattern (47 bp):
GTATCTTTCAACCATGGTCTTACTCATTTTCCTGTCATGTTGCCATG
Found at i:37476539 original size:46 final size:46
Alignment explanation
Indices: 37476470--37476598 Score: 222
Period size: 46 Copynumber: 2.8 Consensus size: 46
37476460 TGATGTCATA
* *
37476470 GTATCTTTCAACTATGGTTTTACACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
*
37476516 GTATCTTTCAACCATGGTCTTACACATTTCATATCAAGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
*
37476562 GTATCTTTCAACCATGGTCTTACACATTCCATATCAG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAG
37476599 AAAGCACACT
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.26, C:0.23, G:0.13, T:0.38
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
Found at i:37481227 original size:46 final size:46
Alignment explanation
Indices: 37481154--37481559 Score: 598
Period size: 46 Copynumber: 8.8 Consensus size: 46
37481144 TGATGTCATA
* * * * *
37481154 GTATCTTTCAACTATGGTTTTACTCATTTTC-TGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATG
** *** *
37481200 GTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATG
* * *
37481247 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGTTGCAATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
** *
37481293 GTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
*
37481339 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
37481385 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
*
37481431 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
37481477 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
* *
37481523 GTATCTTTCAACTATGGTCTTACACATTCCATATCAG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAG
37481560 AGAGCACACT
Statistics
Matches: 337, Mismatches: 22, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
46 298 0.88
47 39 0.12
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
Found at i:37485685 original size:17 final size:17
Alignment explanation
Indices: 37485663--37485695 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
37485653 GATATGATAC
37485663 TAAAAT-TACTAAAAAAT
1 TAAAATATA-TAAAAAAT
37485680 TAAAATATATAAAAAA
1 TAAAATATATAAAAAA
37485696 ATCAGGGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (17 bp):
TAAAATATATAAAAAAT
Found at i:37486010 original size:19 final size:19
Alignment explanation
Indices: 37485986--37486076 Score: 143
Period size: 19 Copynumber: 4.9 Consensus size: 19
37485976 AATCATATCT
*
37485986 TCTAAGCTTGCATATCATA
1 TCTAAGATTGCATATCATA
37486005 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
37486023 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
37486040 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
37486059 TCTAAAATTGCATATCAT
1 TCTAAGATTGCATATCAT
37486077 TGAAGATTAT
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 35 0.52
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:37486038 original size:35 final size:36
Alignment explanation
Indices: 37485998--37486068 Score: 126
Period size: 35 Copynumber: 2.0 Consensus size: 36
37485988 TAAGCTTGCA
*
37485998 TATCATATCTAAGATTGCA-ATCATATCTAAGATTG
1 TATCATATCTAAGATTGCATATCATATCTAAAATTG
37486033 TATCATATCTAAGATTGCATATCATATCTAAAATTG
1 TATCATATCTAAGATTGCATATCATATCTAAAATTG
37486069 CATATCATTG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 19 0.56
36 15 0.44
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (36 bp):
TATCATATCTAAGATTGCATATCATATCTAAAATTG
Found at i:37486055 original size:14 final size:15
Alignment explanation
Indices: 37486000--37486055 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
37485990 AGCTTGCATA
37486000 TCATATCTAAGATTG
1 TCATATCTAAGATTG
37486015 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
37486033 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
37486050 -CATATC
1 TCATATC
37486056 ATATCTAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:37488222 original size:42 final size:42
Alignment explanation
Indices: 37488175--37488262 Score: 176
Period size: 42 Copynumber: 2.1 Consensus size: 42
37488165 AAAATCAATT
37488175 GGGTGCCATGTAACACCCCTCACCTGTATTCAATCCGAAAGA
1 GGGTGCCATGTAACACCCCTCACCTGTATTCAATCCGAAAGA
37488217 GGGTGCCATGTAACACCCCTCACCTGTATTCAATCCGAAAGA
1 GGGTGCCATGTAACACCCCTCACCTGTATTCAATCCGAAAGA
37488259 GGGT
1 GGGT
37488263 TACGGAGTAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.22
Consensus pattern (42 bp):
GGGTGCCATGTAACACCCCTCACCTGTATTCAATCCGAAAGA
Found at i:37490692 original size:3 final size:3
Alignment explanation
Indices: 37490684--37490800 Score: 87
Period size: 3 Copynumber: 38.7 Consensus size: 3
37490674 ATTAGTTTAG
** * *
37490684 TTA TTA TTA TTA TT- TTA CCA TTA CTTA -TA TTTA TTA TCA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA -TTA TTA TTA TTA TTA
* * * *
37490729 TTA TGA CTA TTA TTA TTA CTA TTA TTA TTA -TA TTA TTTA TTA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
* *
37490774 TTA CTA TTA TTTA TTA TCA TTA TTA TT
1 TTA TTA TTA -TTA TTA TTA TTA TTA TT
37490801 GTCATTTTAT
Statistics
Matches: 87, Mismatches: 20, Indels: 14
0.72 0.17 0.12
Matches are distributed among these distances:
2 6 0.07
3 70 0.80
4 11 0.13
ACGTcount: A:0.32, C:0.09, G:0.01, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:37490732 original size:12 final size:12
Alignment explanation
Indices: 37490714--37490811 Score: 71
Period size: 12 Copynumber: 8.4 Consensus size: 12
37490704 TTACTTATAT
37490714 TTATTATCATTA
1 TTATTATCATTA
* * *
37490726 CTATTATGACTA
1 TTATTATCATTA
* *
37490738 TTATTATTACTA
1 TTATTATCATTA
*
37490750 TTATTATTA-TA
1 TTATTATCATTA
37490761 TTATT-T-ATTA
1 TTATTATCATTA
*
37490771 TCATTA-CTATTA
1 TTATTATC-ATTA
37490783 TTTATTATCATTA
1 -TTATTATCATTA
*
37490796 TTATTGTCATT-
1 TTATTATCATTA
37490807 TTATT
1 TTATT
37490812 TTATTTTTTA
Statistics
Matches: 72, Mismatches: 8, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
9 1 0.01
10 7 0.10
11 12 0.17
12 42 0.58
13 9 0.12
14 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.59
Consensus pattern (12 bp):
TTATTATCATTA
Found at i:37490833 original size:12 final size:11
Alignment explanation
Indices: 37490818--37490860 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 11
37490808 TATTTTATTT
37490818 TTTATTTACTTA
1 TTTATTT-CTTA
37490830 TTTATTTGCTTA
1 TTTATTT-CTTA
*
37490842 TTTCATTTTTTA
1 TTT-ATTTCTTA
37490854 TTTATTT
1 TTTATTT
37490861 GTTTAAACTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
11 4 0.14
12 20 0.71
13 4 0.14
ACGTcount: A:0.19, C:0.07, G:0.02, T:0.72
Consensus pattern (11 bp):
TTTATTTCTTA
Found at i:37490865 original size:12 final size:12
Alignment explanation
Indices: 37490827--37490865 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
37490817 TTTTATTTAC
*
37490827 TTATTTATTTGC
1 TTATTTATTTGT
37490839 TTATTTCATTT-T
1 TTATTT-ATTTGT
37490851 TTATTTATTTGT
1 TTATTTATTTGT
37490863 TTA
1 TTA
37490866 AACTTTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
11 4 0.17
12 16 0.67
13 4 0.17
ACGTcount: A:0.18, C:0.05, G:0.05, T:0.72
Consensus pattern (12 bp):
TTATTTATTTGT
Done.