Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 41 of 145
Found at i:13197132 original size:26 final size:26
Alignment explanation
Indices: 13197096--13197147 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
13197086 TTTATTATTA
13197096 AATTGTTCTAAAAATTCTAATTGAAC
1 AATTGTTCTAAAAATTCTAATTGAAC
13197122 AATTGTTCTAAAAATTCTAATTGAAC
1 AATTGTTCTAAAAATTCTAATTGAAC
13197148 TCTTACTCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.38
Consensus pattern (26 bp):
AATTGTTCTAAAAATTCTAATTGAAC
Found at i:13200603 original size:27 final size:26
Alignment explanation
Indices: 13200573--13200636 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 26
13200563 AATATAATAT
*
13200573 AATTATAAAATAATTAAATTGTACTTA
1 AATTATAAAAT-ATTAAATTGTAATTA
* *
13200600 AATTATTAAAATATTTAATTTTAATTA
1 AATTA-TAAAATATTAAATTGTAATTA
*
13200627 AATTTTAAAA
1 AATTATAAAA
13200637 GCTCAAATCC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 5 0.16
27 21 0.66
28 6 0.19
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (26 bp):
AATTATAAAATATTAAATTGTAATTA
Found at i:13203909 original size:29 final size:30
Alignment explanation
Indices: 13203862--13203929 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
13203852 TTGCCCAAGA
* * **
13203862 GTAAATACTCAAAACTTGAGGGATTAA-AGT
1 GTAAATA-TAAAAACTTGAAGGACCAATAGT
*
13203892 GTAAATATAAAAATTTGAAGGACCAATAGT
1 GTAAATATAAAAACTTGAAGGACCAATAGT
13203922 GTAAATAT
1 GTAAATAT
13203930 TTTAGGGGTG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 14 0.44
30 18 0.56
ACGTcount: A:0.47, C:0.07, G:0.18, T:0.28
Consensus pattern (30 bp):
GTAAATATAAAAACTTGAAGGACCAATAGT
Found at i:13206901 original size:50 final size:50
Alignment explanation
Indices: 13206740--13207023 Score: 295
Period size: 50 Copynumber: 5.6 Consensus size: 50
13206730 CGATCTCGTA
* * * * *
13206740 TAAGACCATGTCTGGGACATGGCATCGACATCGATATGTGA-G--CCAGTG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCA-TG
* * *
13206788 TAAGACCATGTCTGAGATATGGCATTGGCATCATTGAGATTAGGAGAGGTCCCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAGA-T--GAGAGGTCCCATG
* *
13206844 TAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCTCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATG
* **
13206894 TAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCCG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATG
* * ** *
13206944 TAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCCCAAG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATG
* * *
13206994 TAAGACCATATCTGGGATATGGCGTTGGCA
1 TAAGACCATGTCTGGGACATGGCATTGGCA
13207024 GTACAGAAAA
Statistics
Matches: 200, Mismatches: 27, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
48 26 0.13
50 128 0.64
51 3 0.01
52 2 0.01
53 4 0.02
54 3 0.01
55 2 0.01
56 29 0.14
57 3 0.01
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (50 bp):
TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATG
Found at i:13206959 original size:100 final size:102
Alignment explanation
Indices: 13206740--13207023 Score: 326
Period size: 100 Copynumber: 2.8 Consensus size: 102
13206730 CGATCTCGTA
* * * *
13206740 TAAGACCATGTCTGGGACATGGCATCGACATCGATATGTGAG-CCAGTGTAAGACCATGTCTGAG
1 TAAGACCATGTCTGGGACATGGCATCGGCACCGATATGAGAGTCCA-TGTAAGACCATGTCTGGG
* * *
13206804 ATATGGCATTGGCATCATTGAGATTAGGAGAGGTCCCATG
65 ATATGGCGTTGGCATCA-CGAGATTA-GAGAGGTCCCACG
* * *
13206844 TAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCTCATGTAAGACCATGTCTGG
1 TAAGACCATGTCTGGGACATGGCATCGGCACCGATATGAGA-GTC-CATGTAAGACCATGTCTGG
* *
13206909 GACATGGCGTTGGCA-C-CGAGA-T-GAGAGGTCCCCCG
64 GATATGGCGTTGGCATCACGAGATTAGAGAGGTCCCACG
* * * *
13206944 TAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCCCAAGTAAGACCATATCTGG
1 TAAGACCATGTCTGGGACATGGCATCGGCACCGATATGAG-AGT-CCATGTAAGACCATGTCTGG
13207009 GATATGGCGTTGGCA
64 GATATGGCGTTGGCA
13207024 GTACAGAAAA
Statistics
Matches: 156, Mismatches: 19, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
100 80 0.51
101 2 0.01
102 1 0.01
103 4 0.03
104 35 0.22
105 2 0.01
106 30 0.19
107 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (102 bp):
TAAGACCATGTCTGGGACATGGCATCGGCACCGATATGAGAGTCCATGTAAGACCATGTCTGGGA
TATGGCGTTGGCATCACGAGATTAGAGAGGTCCCACG
Found at i:13217223 original size:15 final size:16
Alignment explanation
Indices: 13217190--13217223 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
13217180 TTTTATCAAT
13217190 TAAATAACTAAATTTG
1 TAAATAACTAAATTTG
*
13217206 TAAATGACTAAA-TTG
1 TAAATAACTAAATTTG
13217221 TAA
1 TAA
13217224 GAAAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.35
Consensus pattern (16 bp):
TAAATAACTAAATTTG
Found at i:13219493 original size:17 final size:17
Alignment explanation
Indices: 13219460--13219493 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
13219450 GGGTTTTGAT
* *
13219460 TTTGTATAGTGAGAAAA
1 TTTGGATAGTGAAAAAA
13219477 TTTGGATAGTGAAAAAA
1 TTTGGATAGTGAAAAAA
13219494 AGTGTCAAAT
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:0.44, C:0.00, G:0.24, T:0.32
Consensus pattern (17 bp):
TTTGGATAGTGAAAAAA
Found at i:13223370 original size:44 final size:44
Alignment explanation
Indices: 13223303--13223466 Score: 195
Period size: 44 Copynumber: 3.6 Consensus size: 44
13223293 TTTGAATACT
*
13223303 TCTGATCAGTGACAAGTGTTAAGTGGTAGCTTTAGCTACATTTA
1 TCTGATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACATTTA
*
13223347 TCTGATCAGTGACAAGTGATAAGTGGTAACTTTAGCTACACTTATCTAA
1 TCTGATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACA--T-T-T-A
* *
13223396 TCAGTGA-CAAGTGACAAGTGATAAATGGTAGCTTTAGCTACACTTA
1 TC--TGATC-AGTGACAAGTGATAAGTGGTAGCTTTAGCTACATTTA
* *
13223442 TCTGACCAGTGACAAGTGACAAGTG
1 TCTGATCAGTGACAAGTGATAAGTG
13223467 ATAAATGTGA
Statistics
Matches: 104, Mismatches: 7, Indels: 18
0.81 0.05 0.14
Matches are distributed among these distances:
44 57 0.55
45 1 0.01
46 4 0.04
47 2 0.02
48 2 0.02
49 3 0.03
50 1 0.01
51 34 0.33
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (44 bp):
TCTGATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACATTTA
Found at i:13223409 original size:51 final size:51
Alignment explanation
Indices: 13223354--13223473 Score: 204
Period size: 51 Copynumber: 2.4 Consensus size: 51
13223344 TTATCTGATC
* *
13223354 AGTGACAAGTGATAAGTGGTAACTTTAGCTACACTTATCTAATCAGTGACA
1 AGTGACAAGTGATAAATGGTAACTTTAGCTACACTTATCTAACCAGTGACA
* *
13223405 AGTGACAAGTGATAAATGGTAGCTTTAGCTACACTTATCTGACCAGTGACA
1 AGTGACAAGTGATAAATGGTAACTTTAGCTACACTTATCTAACCAGTGACA
13223456 AGTGACAAGTGATAAATG
1 AGTGACAAGTGATAAATG
13223474 TGATCCGTGT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 65 1.00
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.28
Consensus pattern (51 bp):
AGTGACAAGTGATAAATGGTAACTTTAGCTACACTTATCTAACCAGTGACA
Found at i:13225525 original size:18 final size:17
Alignment explanation
Indices: 13225492--13225525 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
13225482 AAATTTAACT
*
13225492 ATTTATTAATAATTATA
1 ATTTATTAAAAATTATA
13225509 ATTTATTAAAAAATTAT
1 ATTTATT-AAAAATTAT
13225526 GTGTTGTCCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTATTAAAAATTATA
Found at i:13237062 original size:317 final size:317
Alignment explanation
Indices: 13236487--13237121 Score: 1270
Period size: 317 Copynumber: 2.0 Consensus size: 317
13236477 ACAAATAATT
13236487 TATTTTACAATAATTCATTAAGTCTAATGTAAACTCGAAATTATATAGGGTTCTTCTATATATTT
1 TATTTTACAATAATTCATTAAGTCTAATGTAAACTCGAAATTATATAGGGTTCTTCTATATATTT
13236552 TTACCACCTTTTTACTCAATAAATATGTTAATCTTGAGTAATTGTTATTAAAATAAATGAATTTT
66 TTACCACCTTTTTACTCAATAAATATGTTAATCTTGAGTAATTGTTATTAAAATAAATGAATTTT
13236617 ACTTAATTATTAATATTGGAAATAAATTTATAAAGTATGTGAAATTGTTCTTAATTACATGATTT
131 ACTTAATTATTAATATTGGAAATAAATTTATAAAGTATGTGAAATTGTTCTTAATTACATGATTT
13236682 TTTGTACATATTTTATATTATTTCATGTTAATTTATTAATATATGATTTTTCACTATGTAGAAGG
196 TTTGTACATATTTTATATTATTTCATGTTAATTTATTAATATATGATTTTTCACTATGTAGAAGG
13236747 ACCATTGAAGATGTAATTAATATGAATGAAACATGGACATGCACAAATCAATTCATG
261 ACCATTGAAGATGTAATTAATATGAATGAAACATGGACATGCACAAATCAATTCATG
13236804 TATTTTACAATAATTCATTAAGTCTAATGTAAACTCGAAATTATATAGGGTTCTTCTATATATTT
1 TATTTTACAATAATTCATTAAGTCTAATGTAAACTCGAAATTATATAGGGTTCTTCTATATATTT
13236869 TTACCACCTTTTTACTCAATAAATATGTTAATCTTGAGTAATTGTTATTAAAATAAATGAATTTT
66 TTACCACCTTTTTACTCAATAAATATGTTAATCTTGAGTAATTGTTATTAAAATAAATGAATTTT
13236934 ACTTAATTATTAATATTGGAAATAAATTTATAAAGTATGTGAAATTGTTCTTAATTACATGATTT
131 ACTTAATTATTAATATTGGAAATAAATTTATAAAGTATGTGAAATTGTTCTTAATTACATGATTT
13236999 TTTGTACATATTTTATATTATTTCATGTTAATTTATTAATATATGATTTTTCACTATGTAGAAGG
196 TTTGTACATATTTTATATTATTTCATGTTAATTTATTAATATATGATTTTTCACTATGTAGAAGG
13237064 ACCATTGAAGATGTAATTAATATGAATGAAACATGGACATGCACAAATCAATTCATG
261 ACCATTGAAGATGTAATTAATATGAATGAAACATGGACATGCACAAATCAATTCATG
13237121 T
1 T
13237122 GGACGGCAAA
Statistics
Matches: 318, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
317 318 1.00
ACGTcount: A:0.37, C:0.09, G:0.11, T:0.43
Consensus pattern (317 bp):
TATTTTACAATAATTCATTAAGTCTAATGTAAACTCGAAATTATATAGGGTTCTTCTATATATTT
TTACCACCTTTTTACTCAATAAATATGTTAATCTTGAGTAATTGTTATTAAAATAAATGAATTTT
ACTTAATTATTAATATTGGAAATAAATTTATAAAGTATGTGAAATTGTTCTTAATTACATGATTT
TTTGTACATATTTTATATTATTTCATGTTAATTTATTAATATATGATTTTTCACTATGTAGAAGG
ACCATTGAAGATGTAATTAATATGAATGAAACATGGACATGCACAAATCAATTCATG
Found at i:13241272 original size:7 final size:6
Alignment explanation
Indices: 13241255--13241302 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
13241245 TTAGTTTTAA
* * * *
13241255 TATTTT TATTTT TCATTTT TATTTT TGTTTT TAATGT TAATTT TATTT
1 TATTTT TATTTT T-ATTTT TATTTT TATTTT TATTTT TATTTT TATTT
13241303 GTTTCTGTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
6 29 0.83
7 6 0.17
ACGTcount: A:0.19, C:0.02, G:0.04, T:0.75
Consensus pattern (6 bp):
TATTTT
Found at i:13241286 original size:13 final size:13
Alignment explanation
Indices: 13241256--13241280 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13241246 TAGTTTTAAT
13241256 ATTTTTATTTTTC
1 ATTTTTATTTTTC
13241269 ATTTTTATTTTT
1 ATTTTTATTTTT
13241281 GTTTTTAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (13 bp):
ATTTTTATTTTTC
Found at i:13241297 original size:19 final size:19
Alignment explanation
Indices: 13241256--13241302 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
13241246 TAGTTTTAAT
* * *
13241256 ATTTTTATTTTTCATTTTT
1 ATTTTTATTTTTAATGTTA
*
13241275 ATTTTTGTTTTTAATGTTA
1 ATTTTTATTTTTAATGTTA
13241294 A-TTTTATTT
1 ATTTTTATTT
13241303 GTTTCTGTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.19, C:0.02, G:0.04, T:0.74
Consensus pattern (19 bp):
ATTTTTATTTTTAATGTTA
Found at i:13250808 original size:25 final size:25
Alignment explanation
Indices: 13250735--13250800 Score: 98
Period size: 25 Copynumber: 2.7 Consensus size: 25
13250725 TGTAAATGTT
*
13250735 TGCTCACACGAGCTG-AAATCAGAA
1 TGCTCACACGAGCTGTGAATCAGAA
* *
13250759 TGCTCAAACGAGCTATGAATCAGAA
1 TGCTCACACGAGCTGTGAATCAGAA
13250784 TGCTCACACGAGCTGTG
1 TGCTCACACGAGCTGTG
13250801 GGTCAGAACA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
24 13 0.36
25 23 0.64
ACGTcount: A:0.33, C:0.24, G:0.23, T:0.20
Consensus pattern (25 bp):
TGCTCACACGAGCTGTGAATCAGAA
Found at i:13255686 original size:16 final size:16
Alignment explanation
Indices: 13255665--13255697 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
13255655 ACACACTTCT
13255665 TTAAAGAGGATTTAGA
1 TTAAAGAGGATTTAGA
13255681 TTAAAGAGGATTTAGA
1 TTAAAGAGGATTTAGA
13255697 T
1 T
13255698 AGCACACTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.24, T:0.33
Consensus pattern (16 bp):
TTAAAGAGGATTTAGA
Found at i:13255767 original size:65 final size:65
Alignment explanation
Indices: 13255693--13255866 Score: 242
Period size: 65 Copynumber: 2.7 Consensus size: 65
13255683 AAAGAGGATT
* * * **
13255693 TAGATAGCACACTTCTTTAAAGTGACTTTACCTCTTTAAGGTAACA-TGCTTCTTTGAAGCGGAC
1 TAGATAGCACACTTCTTTAAAGTGGCTTTACCTCTTTAAGGTAACACTG-TTCATTAAAGCAAAC
13255757 A
65 A
* *
13255758 TAGATAGCACACTTCTTAAAAGTGGCTTTACCTCTTTAAGGTAACACTGTTCATTAAAGCAAACT
1 TAGATAGCACACTTCTTTAAAGTGGCTTTACCTCTTTAAGGTAACACTGTTCATTAAAGCAAACA
* * *
13255823 TAGATAGCACAGTTCTTTAAAATGGCTTTACCTCATTAAGGTAA
1 TAGATAGCACACTTCTTTAAAGTGGCTTTACCTCTTTAAGGTAA
13255867 TAATAGAATA
Statistics
Matches: 97, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
65 95 0.98
66 2 0.02
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (65 bp):
TAGATAGCACACTTCTTTAAAGTGGCTTTACCTCTTTAAGGTAACACTGTTCATTAAAGCAAACA
Found at i:13259275 original size:25 final size:26
Alignment explanation
Indices: 13259245--13259311 Score: 84
Period size: 25 Copynumber: 2.7 Consensus size: 26
13259235 ATATAATAGT
**
13259245 TTAAAATGGATAATATAT-GAAAAAC
1 TTAAAATAAATAATATATAGAAAAAC
**
13259270 TTAAAATAAATAATA-ATAGAAAATT
1 TTAAAATAAATAATATATAGAAAAAC
13259295 TTAAAATAAATAATATA
1 TTAAAATAAATAATATA
13259312 AAGTTTAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
24 2 0.06
25 33 0.92
26 1 0.03
ACGTcount: A:0.61, C:0.01, G:0.06, T:0.31
Consensus pattern (26 bp):
TTAAAATAAATAATATATAGAAAAAC
Found at i:13259309 original size:22 final size:20
Alignment explanation
Indices: 13259276--13259332 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
13259266 AAACTTAAAA
*
13259276 TAAAT-AATAATAGAAAATTT
1 TAAATAAATAATA-AAAAGTT
*
13259296 TAAAATAAATAATATAAAGTT
1 T-AAATAAATAATAAAAAGTT
13259317 TAAATAAATAAATAAA
1 TAAATAAAT-AATAAA
13259333 TTGCAAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 9 0.29
21 15 0.48
22 7 0.23
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.32
Consensus pattern (20 bp):
TAAATAAATAATAAAAAGTT
Found at i:13259318 original size:21 final size:21
Alignment explanation
Indices: 13259270--13259332 Score: 67
Period size: 25 Copynumber: 2.9 Consensus size: 21
13259260 TATGAAAAAC
*
13259270 TTAAAATAAATAATAATAGAAAATT
1 TTAAAATAAATAAT-AT---AAAGT
13259295 TTAAAATAAATAATATAAAGT
1 TTAAAATAAATAATATAAAGT
13259316 TT-AAATAAATAA-ATAAA
1 TTAAAATAAATAATATAAA
13259333 TTGCAAAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
19 5 0.14
20 10 0.27
21 6 0.16
24 2 0.05
25 14 0.38
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (21 bp):
TTAAAATAAATAATATAAAGT
Found at i:13259323 original size:20 final size:20
Alignment explanation
Indices: 13259276--13259332 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
13259266 AAACTTAAAA
* *
13259276 TAAAT-AATAATAGAAAATTT
1 TAAATAAATAATA-TAAAGTT
13259296 TAAAATAAATAATATAAAGTT
1 T-AAATAAATAATATAAAGTT
13259317 TAAATAAATAA-ATAAA
1 TAAATAAATAATATAAA
13259333 TTGCAAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
19 5 0.15
20 11 0.33
21 10 0.30
22 7 0.21
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.32
Consensus pattern (20 bp):
TAAATAAATAATATAAAGTT
Found at i:13265241 original size:731 final size:733
Alignment explanation
Indices: 13263832--13265285 Score: 2003
Period size: 731 Copynumber: 2.0 Consensus size: 733
13263822 ATGTGTCATA
* *
13263832 AACTAACTAAAAATTTGACTAGGTCAAGTGCACCTATCAATTAATAGTATAGCTACAATGAGCAA
1 AACTAACTAAAAATTTGACTAGGTCAAGTGCACCTATCAATTAATAGTATAACAACAATGAGCAA
* * * *
13263897 ATATATCATTCTCACAAAGACTAAAAGTACTAGTAATTATTGTCTTTCTATCATTTAATCGGATA
66 AGATATCATTCCCACAAAGACTAAAAGTACCAGTAATTATTGTCTTTCTATCATTTAATCCGATA
* *
13263962 ATTAGAGTGATTAATTAAAAATAAAATTAACTAAATTAATTAACTAACAAACATGATAAAGAAAA
131 ATTAGAGTGATTAATTAAAAATAAAATTAACTAAATTAACTAACTAACAAACACGATAAAGAAAA
* * ** * *
13264027 AAAAACATGAAAATAATCAAGTAGTAACCAAGAAGCAAAACAATACCCTGGAAAGAATTCACCTA
196 AAAAACAAGAAAATAAACAAGTAACAACCAAGAAGCAAAACAATACCCAGGAAAGAATCCACCTA
* * * * *
13264092 GATTTCATTTGTCACTATCAATCTAAATTACGCAATTTCTTTACTTAGTATCCTGATCTGTAGAA
261 GATTTCATCTGTCACTATCAATCTAAATTACGCAATCTCTTTACTTAGCATCCTGATCCGCAGAA
*
13264157 ATCCCTAAATTATGTAAATATCTATTTCAAGAGTAAGAGCAACTAACTCTAGGTTGATTATTTGA
326 ATCCCTAAATTATGTAAATATCTATTTCAAGAGTAAGAG--ACTAACTCTAGGTTGATTAATTGA
** ** * *
13264222 AATTTCTTTCTAATTAAAACCCCTCTTATCGCATTAACTCTATCTATGGATTCCCCTATTAGATT
389 AAACTCTTTCTAATTAAAACCCCTAGTATCGCATTAACTCGATCTATGGATTCCCCTACTAGATT
* * *
13264287 TGACTCTAATCCGGTAGATTTATGTTGTCCTATTTCTAGGATTACATGCAATAACACTCAATTAC
454 TGACCCTAATACGGTAGATTTATGTTATCCTATTTCTAGGATTACATGCAATAACACTCAATTAC
* * *
13264352 GCAAGATCTACTCTTAAATAGGGTCTATTCCTCCTCTGATTTAAGCACATCAAACATGAATCAAT
519 GCAAGATCTACTCTTAAACAGGGTCTATTCCTCCTCAGATTTAAACACATCAAACATGAATCAAT
* * * * *
13264417 AGTCTATAAATATTAAACCAATAATTAAACATACATCATTGAGAACAAGAAACGAAGTGTTTATT
584 AGTCTAGAAATATTAAACCAAAAATTAAACACACATAATTGAGAACAAGAAACGAAGTATTTATT
* * **
13264482 GCGTAAAATAAAAATCAAATGGCAGAATCTATCATAGGGTTCATCTCCCTAGGTATTTAGAAAAT
649 GCGTAAAATAAAAATCAAACGACAGAATCTATCATAGAATTCATCTCCCTAGGTATTTAGAAAAT
13264547 TAGTTCATTGATGCGTCGTG
714 TAGTTCATTGATGCGTCGTG
* *
13264567 AACTAACTCAAAATTTGACTAAGG-CAAGTGCACCTATCAATTAATAGTATAACAACAGTGAGCA
1 AACTAACTAAAAATTTGACT-AGGTCAAGTGCACCTATCAATTAATAGTATAACAACAATGAGCA
* * * * * *
13264631 CAGGTATCATTCCCACGAATACTAATAGTACCAGTAATTATTGTCTTTCTATTATTTAA-CCGAT
65 AAGATATCATTCCCACAAAGACTAAAAGTACCAGTAATTATTGTCTTTCTATCATTTAATCCGAT
* * * **
13264695 AAATTTGAGTGATTGATTAAAAATTAAAATTAACTAATTTAACTAACTAATGAACACGA-AAAG-
130 -AATTAGAGTGATTAATTAAAAA-TAAAATTAACTAAATTAACTAACTAACAAACACGATAAAGA
* * * * * * **
13264758 TAACAAAACAAGAAAATAAACGATTAACAATCGAGAAGTGAAACAATACCCAGGAAAGAATCCAC
193 AAAAAAAACAAGAAAATAAACAAGTAACAACCAAGAAGCAAAACAATACCCAGGAAAGAATCCAC
*
13264823 CTAGCTTTCATCTGTCACTATCAATCTAAATTACGCAAATCT-TTTACTTAGCA-CCTTGATCCG
258 CTAGATTTCATCTGTCACTATCAATCTAAATTACGC-AATCTCTTTACTTAGCATCC-TGATCCG
* *
13264886 CAGAAATCCCTAAATTATGCT-AATATCTCTTTCAAGAGTAAGAG-CTGACTCTAGGTTGATTAA
321 CAGAAATCCCTAAATTATG-TAAATATCTATTTCAAGAGTAAGAGACTAACTCTAGGTTGATTAA
*
13264949 TTGAAAACTCTTTCTAATTAAAACCCCTAGTATCGCATTAACTCGATCTATGGATTCCTCTACTA
385 TTGAAAACTCTTTCTAATTAAAACCCCTAGTATCGCATTAACTCGATCTATGGATTCCCCTACTA
* * * *
13265014 GATTTGACCCTAATATGGTAGATTTAT-TTCATTCTATTTCTAGGATTGCATGCAACT-CCACTC
450 GATTTGACCCTAATACGGTAGATTTATGTT-ATCCTATTTCTAGGATTACATGCAA-TAACACTC
* * * * *
13265077 AATTATGCAATATTTACTCTTAAACAGGGTCTATTCCTTCTCAGATTTAAACACATCAAACATGG
513 AATTACGCAAGATCTACTCTTAAACAGGGTCTATTCCTCCTCAGATTTAAACACATCAAACATGA
*** * *
13265142 ATCAATAGTCTAGAAATATTAAACCAAGAAATTAAGTGCACATAATTGAGAACAAG-ATCTAAGT
578 ATCAATAGTCTAGAAATATTAAACCAA-AAATTAAACACACATAATTGAGAACAAGAAACGAAGT
*
13265206 ATTTATTGCGTAAAATAAAAATCAAACGACAGAATCTATCATAGAATTCATCTGCCTAGGTATTT
642 ATTTATTGCGTAAAATAAAAATCAAACGACAGAATCTATCATAGAATTCATCTCCCTAGGTATTT
13265271 AGAAAATTAGTTCAT
707 AGAAAATTAGTTCAT
13265286 GCTTGAAAAT
Statistics
Matches: 629, Mismatches: 81, Indels: 22
0.86 0.11 0.03
Matches are distributed among these distances:
730 2 0.00
731 289 0.46
732 23 0.04
733 2 0.00
734 145 0.23
735 135 0.21
736 33 0.05
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.31
Consensus pattern (733 bp):
AACTAACTAAAAATTTGACTAGGTCAAGTGCACCTATCAATTAATAGTATAACAACAATGAGCAA
AGATATCATTCCCACAAAGACTAAAAGTACCAGTAATTATTGTCTTTCTATCATTTAATCCGATA
ATTAGAGTGATTAATTAAAAATAAAATTAACTAAATTAACTAACTAACAAACACGATAAAGAAAA
AAAAACAAGAAAATAAACAAGTAACAACCAAGAAGCAAAACAATACCCAGGAAAGAATCCACCTA
GATTTCATCTGTCACTATCAATCTAAATTACGCAATCTCTTTACTTAGCATCCTGATCCGCAGAA
ATCCCTAAATTATGTAAATATCTATTTCAAGAGTAAGAGACTAACTCTAGGTTGATTAATTGAAA
ACTCTTTCTAATTAAAACCCCTAGTATCGCATTAACTCGATCTATGGATTCCCCTACTAGATTTG
ACCCTAATACGGTAGATTTATGTTATCCTATTTCTAGGATTACATGCAATAACACTCAATTACGC
AAGATCTACTCTTAAACAGGGTCTATTCCTCCTCAGATTTAAACACATCAAACATGAATCAATAG
TCTAGAAATATTAAACCAAAAATTAAACACACATAATTGAGAACAAGAAACGAAGTATTTATTGC
GTAAAATAAAAATCAAACGACAGAATCTATCATAGAATTCATCTCCCTAGGTATTTAGAAAATTA
GTTCATTGATGCGTCGTG
Found at i:13265668 original size:10 final size:11
Alignment explanation
Indices: 13265643--13265667 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
13265633 AATTTTTCTG
13265643 TTTTCACTCAT
1 TTTTCACTCAT
13265654 TTTTCACTCAT
1 TTTTCACTCAT
13265665 TTT
1 TTT
13265668 CTCTTAAAAG
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:0.16, C:0.24, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTCACTCAT
Found at i:13269625 original size:19 final size:16
Alignment explanation
Indices: 13269603--13269644 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 16
13269593 GTGCATAATA
13269603 AAATAAAATAAATCTAAAT
1 AAATAAAATAAA---AAAT
13269622 AAATAAAATAAAAAAT
1 AAATAAAATAAAAAAT
13269638 AAATAAA
1 AAATAAA
13269645 GCATAAAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 11 0.48
19 12 0.52
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.21
Consensus pattern (16 bp):
AAATAAAATAAAAAAT
Found at i:13273977 original size:20 final size:21
Alignment explanation
Indices: 13273938--13273985 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
13273928 AGCCTTGTGC
13273938 TGAGCCACAGCAACCCTATGT
1 TGAGCCACAGCAACCCTATGT
* *
13273959 TGAGCCGCATCAA-CCTATGT
1 TGAGCCACAGCAACCCTATGT
13273979 TGAGCCA
1 TGAGCCA
13273986 TAAAGGCTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.27, C:0.31, G:0.21, T:0.21
Consensus pattern (21 bp):
TGAGCCACAGCAACCCTATGT
Found at i:13276414 original size:15 final size:15
Alignment explanation
Indices: 13276394--13276426 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
13276384 GATAAAACTA
*
13276394 TTGGTATGGATTTTG
1 TTGGTAGGGATTTTG
13276409 TTGGTAGGGATTTTG
1 TTGGTAGGGATTTTG
13276424 TTG
1 TTG
13276427 ATTTTGGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.36, T:0.52
Consensus pattern (15 bp):
TTGGTAGGGATTTTG
Found at i:13288110 original size:2 final size:2
Alignment explanation
Indices: 13288105--13288145 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
13288095 TATATATATA
*
13288105 TG TG TG TG TG TG TG TG TG TG TG TG TG TT TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
13288146 TTGAATATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.00, G:0.46, T:0.54
Consensus pattern (2 bp):
TG
Found at i:13290504 original size:79 final size:79
Alignment explanation
Indices: 13290413--13290572 Score: 221
Period size: 79 Copynumber: 2.0 Consensus size: 79
13290403 TCCATTTACC
* * *
13290413 TTATATGTTGAGATATACAATCCATGAAGATATGAGCTAAGTTTATGATCTTTTGTATCCTTATA
1 TTATATATTGAGATATACAATCCATGAAGATATAAGCTAAGTTTATGATCTTTTGTATCATTATA
13290478 TTAAGGACAATTGA
66 TTAAGGACAATTGA
** * * * *
13290492 TTATATATTGAGATATGTAATCCATGAAGATATAAGTTGATTTTATGATCTTTTGTATTATTATA
1 TTATATATTGAGATATACAATCCATGAAGATATAAGCTAAGTTTATGATCTTTTGTATCATTATA
* *
13290557 TTAAGTATAATTGA
66 TTAAGGACAATTGA
13290571 TT
1 TT
13290573 TGATGAGATT
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
79 70 1.00
ACGTcount: A:0.34, C:0.07, G:0.15, T:0.44
Consensus pattern (79 bp):
TTATATATTGAGATATACAATCCATGAAGATATAAGCTAAGTTTATGATCTTTTGTATCATTATA
TTAAGGACAATTGA
Found at i:13297378 original size:43 final size:43
Alignment explanation
Indices: 13297322--13297480 Score: 130
Period size: 43 Copynumber: 3.7 Consensus size: 43
13297312 AATTCAGTGA
*
13297322 TACGGGGAATCAGCACATAACAACC-CCTTTCACAATCAAAGT
1 TACGTGGAATCAGCACATAACAACCACCTTTCACAATCAAAGT
* * * ** *
13297364 TACGATGGAATCAGCACTTAGA-AACCACCTTT-ATATTCAGTGA
1 TACG-TGGAATCAGCACATA-ACAACCACCTTTCACAATCAAAGT
* * * *
13297407 TACGGGGAATCAGCACATAGCAACC-CCTTTCACCATTAAA-T
1 TACGTGGAATCAGCACATAACAACCACCTTTCACAATCAAAGT
* *
13297448 ATACGGTGGAATCAGCACTTAGCAACCACCTTT
1 -TAC-GTGGAATCAGCACATAACAACCACCTTT
13297481 AAATATACGG
Statistics
Matches: 90, Mismatches: 19, Indels: 14
0.73 0.15 0.11
Matches are distributed among these distances:
41 5 0.06
42 27 0.30
43 47 0.52
44 11 0.12
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (43 bp):
TACGTGGAATCAGCACATAACAACCACCTTTCACAATCAAAGT
Found at i:13297432 original size:85 final size:83
Alignment explanation
Indices: 13297285--13297551 Score: 325
Period size: 85 Copynumber: 3.2 Consensus size: 83
13297275 CATTACTCGG
* * *
13297285 TGGATTCAGCACTTAGCAACCACCTTAAATTCAGTGATACGGGGAATCAGCACATAACAACCCCT
1 TGGAATCAGCACTTAGCAACCACCTTTAATTCAGTGATACGGGGAATCAGCACATAGCAACCCCT
13297350 TTCACAATCAAAGTTACGA
66 TTCACAATCAAA-TTACGA
*
13297369 TGGAATCAGCACTTAGAAACCACCTTTATATTCAGTGATACGGGGAATCAGCACATAGCAACCCC
1 TGGAATCAGCACTTAGCAACCACCTTTA-ATTCAGTGATACGGGGAATCAGCACATAGCAACCCC
* * *
13297434 TTTCACCATTAAATATACGG
65 TTTCACAATCAAAT-TACGA
* *
13297454 TGGAATCAGCACTTAGCAACCACCTTTAA---A-T-ATACGGTGAATCAGCACTTAGCAACCACC
1 TGGAATCAGCACTTAGCAACCACCTTTAATTCAGTGATACGGGGAATCAGCACATAGCAACC-CC
*
13297514 TTT-AGAATCAATAATT-C-A
65 TTTCACAATC-A-AATTACGA
*
13297532 GGGAATCAGCACTTAGCAAC
1 TGGAATCAGCACTTAGCAAC
13297552 TCCTCGGGGA
Statistics
Matches: 163, Mismatches: 15, Indels: 16
0.84 0.08 0.08
Matches are distributed among these distances:
78 19 0.12
79 28 0.17
80 8 0.05
81 4 0.02
84 27 0.17
85 77 0.47
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.24
Consensus pattern (83 bp):
TGGAATCAGCACTTAGCAACCACCTTTAATTCAGTGATACGGGGAATCAGCACATAGCAACCCCT
TTCACAATCAAATTACGA
Found at i:13297503 original size:36 final size:37
Alignment explanation
Indices: 13297364--13297517 Score: 150
Period size: 36 Copynumber: 3.9 Consensus size: 37
13297354 CAATCAAAGT
* *
13297364 TACGATGGAATCAGCACTTAGAAACCACCTTTATATTCAGTGA
1 TACGGTGGAATCAGCACTTAGCAACCACCTTTA-A---A-T-A
* *
13297407 TACGG-GGAATCAGCACATAGCAACCCCTTTCACCATTAAATA
1 TACGGTGGAATCAGCACTTAGCAA---C---CACCTTTAAATA
13297449 TACGGTGGAATCAGCACTTAGCAACCACCTTTAAATA
1 TACGGTGGAATCAGCACTTAGCAACCACCTTTAAATA
13297486 TACGGT-GAATCAGCACTTAGCAACCACCTTTA
1 TACGGTGGAATCAGCACTTAGCAACCACCTTTA
13297518 GAATCAATAA
Statistics
Matches: 98, Mismatches: 6, Indels: 21
0.78 0.05 0.17
Matches are distributed among these distances:
36 26 0.27
37 17 0.17
40 1 0.01
42 22 0.22
43 22 0.22
44 1 0.01
45 1 0.01
47 1 0.01
48 7 0.07
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (37 bp):
TACGGTGGAATCAGCACTTAGCAACCACCTTTAAATA
Found at i:13297907 original size:84 final size:85
Alignment explanation
Indices: 13297765--13297934 Score: 324
Period size: 84 Copynumber: 2.0 Consensus size: 85
13297755 AATTCACATA
*
13297765 CAAATTTACTTTGGTGCAACAATATAGAAATTTAGCAATTTAGTCTTTAATCTTTTCTTTTCTTC
1 CAAATTTACTTTGGTGCAACAATATAGAAATTTAGCAATTTAGTCTTTAATCTTTTCTTTTCTCC
13297830 GATCAAGGTCGATTCCACTT
66 GATCAAGGTCGATTCCACTT
13297850 CAAATTTAC-TTGGTGCAACAATATAGAAATTTAGCAATTTAGTCTTTAATCTTTTCTTTTCTCC
1 CAAATTTACTTTGGTGCAACAATATAGAAATTTAGCAATTTAGTCTTTAATCTTTTCTTTTCTCC
13297914 GATCAAGGTCGATTCCACTT
66 GATCAAGGTCGATTCCACTT
13297934 C
1 C
13297935 TTTCTTGAAC
Statistics
Matches: 84, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
84 75 0.89
85 9 0.11
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.41
Consensus pattern (85 bp):
CAAATTTACTTTGGTGCAACAATATAGAAATTTAGCAATTTAGTCTTTAATCTTTTCTTTTCTCC
GATCAAGGTCGATTCCACTT
Found at i:13304020 original size:39 final size:37
Alignment explanation
Indices: 13303953--13304045 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
13303943 TCCAGTATGG
* *
13303953 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
13303992 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
13304029 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
13304046 AATCTATCCA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:13304270 original size:37 final size:36
Alignment explanation
Indices: 13304178--13304271 Score: 102
Period size: 37 Copynumber: 2.6 Consensus size: 36
13304168 GTCTCCAAAT
* * *
13304178 TCACATTTCAATTCAATTTCACTTTTTCACTTTCAA
1 TCACAATTCAATTCAAATTCACTTTTCCACTTTCAA
*
13304214 TCACAATTCAATTCAAAATTCACTTTTCCATTTTTCAA
1 TCACAATTCAATTC-AAATTCACTTTTCCA-CTTTCAA
13304252 GTCA-ATATTCAATT-AAATTC
1 -TCACA-ATTCAATTCAAATTC
13304272 CATACATATA
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
36 13 0.26
37 19 0.38
38 7 0.14
39 11 0.22
ACGTcount: A:0.33, C:0.22, G:0.01, T:0.44
Consensus pattern (36 bp):
TCACAATTCAATTCAAATTCACTTTTCCACTTTCAA
Found at i:13304631 original size:22 final size:24
Alignment explanation
Indices: 13304589--13304633 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 24
13304579 CTACTAAGTT
13304589 TACTTACTTTTCTAACTTAATTCA
1 TACTTACTTTTCTAACTTAATTCA
13304613 TACTT-CTTTTCT-ACTTAATTC
1 TACTTACTTTTCTAACTTAATTC
13304634 TTTGCCATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 9 0.43
23 7 0.33
24 5 0.24
ACGTcount: A:0.24, C:0.22, G:0.00, T:0.53
Consensus pattern (24 bp):
TACTTACTTTTCTAACTTAATTCA
Found at i:13304975 original size:6 final size:6
Alignment explanation
Indices: 13304958--13304988 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
13304948 TAGTTTTTCC
*
13304958 TTTCTT TCTCTT TTTCTT TTTCTT TTTCTT T
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT T
13304989 CTTTCTCCCC
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:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTCTT
Found at i:13305294 original size:24 final size:24
Alignment explanation
Indices: 13305262--13305318 Score: 114
Period size: 24 Copynumber: 2.4 Consensus size: 24
13305252 AATAAATGTA
13305262 ATACACTTGTATTTTATTTTTACC
1 ATACACTTGTATTTTATTTTTACC
13305286 ATACACTTGTATTTTATTTTTACC
1 ATACACTTGTATTTTATTTTTACC
13305310 ATACACTTG
1 ATACACTTG
13305319 GAAAAATCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.26, C:0.18, G:0.05, T:0.51
Consensus pattern (24 bp):
ATACACTTGTATTTTATTTTTACC
Found at i:13306037 original size:198 final size:198
Alignment explanation
Indices: 13305699--13306085 Score: 623
Period size: 198 Copynumber: 2.0 Consensus size: 198
13305689 CTTTTTGATT
* * * * * *
13305699 TCTTTTAATCTATAATTTAACTTTTACACTTAATTCTATTTAGTCCTTTTTTCTAATTATTATTA
1 TCTTTTAATCTATAAGTAAACTTTTACACTTAACTCTATTTAATCATTTTTCCTAATTATTATTA
*
13305764 ATTAGACTAAATTCACCTAATTAATATCTAATTAAACACTCAACTAAACTCATAATTACTTCTAA
66 ATTAGACTAAATTCACCTAATTAATACCTAATTAAACACTCAACTAAACTCATAATTACTTCTAA
*
13305829 TAATTATTTATGACTCAGTTTATTAAGACGGAGGCCCGATAATGTACATTTCCAATGCCTATGAA
131 TAATTATTTATGACTCAGTTTATTAAGACGGAGGCCAGATAATGTACATTTCCAATGCCTATGAA
13305894 TTC
196 TTC
* * *
13305897 TCTTTTAATCTGTAAGTAAACTTTTACTCTGT-ACTCTATTTAATCATTTTTCCTAATTATTCTT
1 TCTTTTAATCTATAAGTAAACTTTTACACT-TAACTCTATTTAATCATTTTTCCTAATTATTATT
* *
13305961 AATTAGACTAAATTCACCTAATTAATACCTAATTAAGCACTCAGCTAAACTCATAATTACTTCTA
65 AATTAGACTAAATTCACCTAATTAATACCTAATTAAACACTCAACTAAACTCATAATTACTTCTA
* *
13306026 ATAATTATTTATGACTCAGTTTATTAAGACGGAGGCCAGATAATGTACTTTTCCGATGCC
130 ATAATTATTTATGACTCAGTTTATTAAGACGGAGGCCAGATAATGTACATTTCCAATGCC
13306086 CGTGAATTTT
Statistics
Matches: 173, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
198 172 0.99
199 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.41
Consensus pattern (198 bp):
TCTTTTAATCTATAAGTAAACTTTTACACTTAACTCTATTTAATCATTTTTCCTAATTATTATTA
ATTAGACTAAATTCACCTAATTAATACCTAATTAAACACTCAACTAAACTCATAATTACTTCTAA
TAATTATTTATGACTCAGTTTATTAAGACGGAGGCCAGATAATGTACATTTCCAATGCCTATGAA
TTC
Found at i:13313101 original size:16 final size:16
Alignment explanation
Indices: 13313068--13313114 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
13313058 AAACTTTTAA
*
13313068 GTTCTTTGTT-TTTGTT
1 GTTCTTTCTTCTTT-TT
13313084 GTTCTTTCTTCTTTTT
1 GTTCTTTCTTCTTTTT
*
13313100 GTTTTTTCTTCTTTT
1 GTTCTTTCTTCTTTT
13313115 CTGCGATTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 25 0.89
17 3 0.11
ACGTcount: A:0.00, C:0.13, G:0.11, T:0.77
Consensus pattern (16 bp):
GTTCTTTCTTCTTTTT
Found at i:13317741 original size:16 final size:16
Alignment explanation
Indices: 13317692--13317741 Score: 73
Period size: 16 Copynumber: 3.1 Consensus size: 16
13317682 GATTTGCTAT
* *
13317692 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
*
13317708 TACACCTCTAATCTAA
1 TACACCTCTAATCCAA
13317724 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
13317740 TA
1 TA
13317742 TAGCGAACCA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:13319881 original size:29 final size:30
Alignment explanation
Indices: 13319822--13319879 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
13319812 TCCGAGCCTT
*
13319822 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
13319852 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
13319880 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:13324801 original size:13 final size:13
Alignment explanation
Indices: 13324783--13324807 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13324773 TAAAGGGGGT
13324783 TTAAAATTAAAAA
1 TTAAAATTAAAAA
13324796 TTAAAATTAAAA
1 TTAAAATTAAAA
13324808 TTAGAAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
TTAAAATTAAAAA
Found at i:13329751 original size:28 final size:29
Alignment explanation
Indices: 13329710--13329770 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 29
13329700 CCCCCCAAAT
*
13329710 GGTGTCGCCAGACAGTG-TCCCTCCACCTG
1 GGTGTCGCCAGACAATGCT-CCTCCACCTG
* *
13329739 GGTGTCGTC-GACAATGCTCCTCCACTTG
1 GGTGTCGCCAGACAATGCTCCTCCACCTG
13329767 GGTG
1 GGTG
13329771 CTACCTGACA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 19 0.68
29 9 0.32
ACGTcount: A:0.13, C:0.33, G:0.30, T:0.25
Consensus pattern (29 bp):
GGTGTCGCCAGACAATGCTCCTCCACCTG
Found at i:13330468 original size:3 final size:3
Alignment explanation
Indices: 13330460--13330500 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
13330450 ATGTTATTAA
13330460 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
13330501 GAGTGGGAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:13330675 original size:23 final size:26
Alignment explanation
Indices: 13330649--13330697 Score: 77
Period size: 23 Copynumber: 2.0 Consensus size: 26
13330639 TTTGTGGATT
13330649 AATTATTG-ATTGAAAA-GTG-GAAA
1 AATTATTGAATTGAAAATGTGAGAAA
13330672 AATTATTGAATTGAAAATGTGAGAAA
1 AATTATTGAATTGAAAATGTGAGAAA
13330698 TTGTGATTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 8 0.35
24 8 0.35
25 3 0.13
26 4 0.17
ACGTcount: A:0.49, C:0.00, G:0.20, T:0.31
Consensus pattern (26 bp):
AATTATTGAATTGAAAATGTGAGAAA
Found at i:13331648 original size:24 final size:24
Alignment explanation
Indices: 13331598--13331722 Score: 195
Period size: 24 Copynumber: 5.3 Consensus size: 24
13331588 CACTAATGAA
* *
13331598 CAGAGAGCACTAAAGTGCT-ATA-
1 CAGAGAGCACCAACGTGCTAATAT
13331620 CAGAGAGCA-C-ACGTGCTAATAT
1 CAGAGAGCACCAACGTGCTAATAT
13331642 CAGAGAGCACCAACGTGCTAATAAT
1 CAGAGAGCACCAACGTGCTAAT-AT
13331667 CAGAGAGCACCAACGTGCTAATAT
1 CAGAGAGCACCAACGTGCTAATAT
13331691 CAGAGAGCACCAACGTGCTAATAT
1 CAGAGAGCACCAACGTGCTAATAT
13331715 CAGAGAGC
1 CAGAGAGC
13331723 GCGCTAAAGT
Statistics
Matches: 96, Mismatches: 2, Indels: 8
0.91 0.02 0.08
Matches are distributed among these distances:
20 6 0.06
21 3 0.03
22 18 0.19
23 1 0.01
24 44 0.46
25 24 0.25
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.16
Consensus pattern (24 bp):
CAGAGAGCACCAACGTGCTAATAT
Found at i:13331694 original size:49 final size:46
Alignment explanation
Indices: 13331598--13331722 Score: 191
Period size: 49 Copynumber: 2.7 Consensus size: 46
13331588 CACTAATGAA
* *
13331598 CAGAGAGCACTAAAGTGCT-ATA-CAGAGAGCACACGTGCTAATAT
1 CAGAGAGCACCAACGTGCTAATATCAGAGAGCACACGTGCTAATAT
13331642 CAGAGAGCACCAACGTGCTAATAATCAGAGAGCACCAACGTGCTAATAT
1 CAGAGAGCACCAACGTGCTAAT-ATCAGAGAGCA-C-ACGTGCTAATAT
13331691 CAGAGAGCACCAACGTGCTAATATCAGAGAGC
1 CAGAGAGCACCAACGTGCTAATATCAGAGAGC
13331723 GCGCTAAAGT
Statistics
Matches: 74, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
44 17 0.23
45 2 0.03
46 1 0.01
47 9 0.12
48 11 0.15
49 34 0.46
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.16
Consensus pattern (46 bp):
CAGAGAGCACCAACGTGCTAATATCAGAGAGCACACGTGCTAATAT
Found at i:13332816 original size:13 final size:13
Alignment explanation
Indices: 13332798--13332832 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
13332788 TTTGTTTTAT
13332798 ATATAA-AATAATA
1 ATATAATAAT-ATA
13332811 ATATAATAATATA
1 ATATAATAATATA
13332824 ATATAATAA
1 ATATAATAA
13332833 CTTACTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 18 0.86
14 3 0.14
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
ATATAATAATATA
Found at i:13342063 original size:63 final size:63
Alignment explanation
Indices: 13341964--13342092 Score: 258
Period size: 63 Copynumber: 2.0 Consensus size: 63
13341954 AAATTACAAT
13341964 ATTCTGATCAATTAAAAGTTCAAGATAAAGAAATTCTAGGTTAACGAATCAATAAAACTCTAA
1 ATTCTGATCAATTAAAAGTTCAAGATAAAGAAATTCTAGGTTAACGAATCAATAAAACTCTAA
13342027 ATTCTGATCAATTAAAAGTTCAAGATAAAGAAATTCTAGGTTAACGAATCAATAAAACTCTAA
1 ATTCTGATCAATTAAAAGTTCAAGATAAAGAAATTCTAGGTTAACGAATCAATAAAACTCTAA
13342090 ATT
1 ATT
13342093 ATAAGATAAA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 66 1.00
ACGTcount: A:0.47, C:0.12, G:0.11, T:0.29
Consensus pattern (63 bp):
ATTCTGATCAATTAAAAGTTCAAGATAAAGAAATTCTAGGTTAACGAATCAATAAAACTCTAA
Found at i:13344268 original size:21 final size:21
Alignment explanation
Indices: 13344239--13344278 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
13344229 ATGAATAATA
*
13344239 TAATTGTTTTG-CGTTTTAACT
1 TAATAGTTTTGAC-TTTTAACT
13344260 TAATAGTTTTGACTTTTAA
1 TAATAGTTTTGACTTTTAA
13344279 TTTTAGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.25, C:0.07, G:0.12, T:0.55
Consensus pattern (21 bp):
TAATAGTTTTGACTTTTAACT
Found at i:13348141 original size:16 final size:17
Alignment explanation
Indices: 13348104--13348143 Score: 64
Period size: 18 Copynumber: 2.4 Consensus size: 17
13348094 AAATCTTTGT
13348104 TAAAATAAAATATAGTAG
1 TAAAATAAAATATAG-AG
13348122 TAAAATAAAATATA-AG
1 TAAAATAAAATATAGAG
13348138 TAAAAT
1 TAAAAT
13348144 CCATATAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 8 0.36
18 14 0.64
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (17 bp):
TAAAATAAAATATAGAG
Found at i:13351055 original size:63 final size:63
Alignment explanation
Indices: 13350935--13351078 Score: 155
Period size: 63 Copynumber: 2.3 Consensus size: 63
13350925 ACACGCCTAT
* *
13350935 ACGGCTTGG-CACATGCCCATGTGCCTTGCCCGTGTGTCTCAAATATAAACTCAGTGAGTCAC
1 ACGGCTTGGACACATGCCCATGTGCCTTGCCCGTGTGCCTCAAATACAAACTCAGTGAGTCAC
* ** * * * * ** *
13350997 ATGGCTTGGACACATGCCGGTGTGTCTTGTCCGTGTGCCTCTAATACGAACTTGGTGAGTGAC
1 ACGGCTTGGACACATGCCCATGTGCCTTGCCCGTGTGCCTCAAATACAAACTCAGTGAGTCAC
* *
13351060 ACGGCCTGGACACACGCCC
1 ACGGCTTGGACACATGCCC
13351079 CTCTGTCTCA
Statistics
Matches: 65, Mismatches: 16, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
62 8 0.12
63 57 0.88
ACGTcount: A:0.20, C:0.28, G:0.26, T:0.25
Consensus pattern (63 bp):
ACGGCTTGGACACATGCCCATGTGCCTTGCCCGTGTGCCTCAAATACAAACTCAGTGAGTCAC
Found at i:13353448 original size:22 final size:23
Alignment explanation
Indices: 13353418--13353460 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
13353408 ACAACAAAAC
* *
13353418 AGGCTTTTAGCGGC-CTTTTTTT
1 AGGCCTTTAGCAGCGCTTTTTTT
13353440 AGGCCTTTAGCAGCGCTTTTT
1 AGGCCTTTAGCAGCGCTTTTT
13353461 AGCGCCGCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.12, C:0.21, G:0.23, T:0.44
Consensus pattern (23 bp):
AGGCCTTTAGCAGCGCTTTTTTT
Found at i:13353580 original size:43 final size:43
Alignment explanation
Indices: 13353532--13353628 Score: 133
Period size: 43 Copynumber: 2.3 Consensus size: 43
13353522 ATGTCACTAA
* * * *
13353532 CTTTTGCGGCGTTTGTGTTTAAAGCGTCGCTAAA-AATCATGTT
1 CTTTTGCGGCGTTTGTGATAAAAGCGCCGCTAAAGAA-CATGAT
13353575 CTTTTGCGGCGTTTGTGATAAAAGCGCCGCTAAAGAACATGAT
1 CTTTTGCGGCGTTTGTGATAAAAGCGCCGCTAAAGAACATGAT
*
13353618 CTTTAGCGGCG
1 CTTTTGCGGCG
13353629 CCTTACTCAA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
43 46 0.96
44 2 0.04
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.33
Consensus pattern (43 bp):
CTTTTGCGGCGTTTGTGATAAAAGCGCCGCTAAAGAACATGAT
Found at i:13358932 original size:16 final size:15
Alignment explanation
Indices: 13358899--13358937 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
13358889 TTTCGGGTAT
13358899 GGGAA-AAATTGAAG
1 GGGAATAAATTGAAG
*
13358913 GGGAATAAATTTGGAG
1 GGGAATAAA-TTGAAG
13358929 GGGAATAAA
1 GGGAATAAA
13358938 ACCACAGCGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 5 0.23
15 3 0.14
16 14 0.64
ACGTcount: A:0.46, C:0.00, G:0.36, T:0.18
Consensus pattern (15 bp):
GGGAATAAATTGAAG
Found at i:13359335 original size:47 final size:48
Alignment explanation
Indices: 13359271--13359369 Score: 173
Period size: 47 Copynumber: 2.1 Consensus size: 48
13359261 CATAGTTTTG
* *
13359271 TTTAAGTAATATTTATAAAAATTAGATAAAATTATAAATTTTAGT-TT
1 TTTAAGTAATATATATAAAAATTAGATAAAATTAAAAATTTTAGTGTT
13359318 TTTAAGTAATATATATAAAAATTAGATAAAATTAAAAATTTTAGTGTT
1 TTTAAGTAATATATATAAAAATTAGATAAAATTAAAAATTTTAGTGTT
13359366 TTTA
1 TTTA
13359370 TTTCATTTTT
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
47 43 0.88
48 6 0.12
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.45
Consensus pattern (48 bp):
TTTAAGTAATATATATAAAAATTAGATAAAATTAAAAATTTTAGTGTT
Found at i:13359390 original size:19 final size:18
Alignment explanation
Indices: 13359354--13359407 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
13359344 TAAAATTAAA
13359354 AATTTTAGTGTTTTTATTTC
1 AATTTTA-T-TTTTTATTTC
* *
13359374 ATTTTTATTTTTGTATTTT
1 AATTTTATTTTT-TATTTC
*
13359393 AATTTTATTTCTTAT
1 AATTTTATTTTTTAT
13359408 AAATTGGCCC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 7 0.24
19 16 0.55
20 6 0.21
ACGTcount: A:0.20, C:0.04, G:0.06, T:0.70
Consensus pattern (18 bp):
AATTTTATTTTTTATTTC
Found at i:13359392 original size:25 final size:26
Alignment explanation
Indices: 13359355--13359407 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 26
13359345 AAAATTAAAA
* *
13359355 ATTTTAGTGTTTTTATTTCATTT-TT
1 ATTTTAGTATTTTAATTTCATTTCTT
* *
13359380 ATTTTTGTATTTTAATTTTATTTCTT
1 ATTTTAGTATTTTAATTTCATTTCTT
13359406 AT
1 AT
13359408 AAATTGGCCC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.19, C:0.04, G:0.06, T:0.72
Consensus pattern (26 bp):
ATTTTAGTATTTTAATTTCATTTCTT
Found at i:13360106 original size:15 final size:15
Alignment explanation
Indices: 13360086--13360114 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
13360076 ACATAAACTA
13360086 TAAATCCTTAACCCC
1 TAAATCCTTAACCCC
13360101 TAAATCCTTAACCC
1 TAAATCCTTAACCC
13360115 TAACCCCTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.38, G:0.00, T:0.28
Consensus pattern (15 bp):
TAAATCCTTAACCCC
Found at i:13360575 original size:99 final size:99
Alignment explanation
Indices: 13360404--13360595 Score: 305
Period size: 99 Copynumber: 1.9 Consensus size: 99
13360394 TTAAAAACGC
* *
13360404 CGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGAGCTTAGGTTTTTTTGTAGCGCTTTCCC
1 CGCTAAATCCCCGAAAGATCAGAAAACGGCGTCGTTGAGCTTAGGTTTTTTTGCAGCGCTTTCCC
*
13360469 AAAAACGCCGCTAAAG-CCATGAGCATTAAAGCGG
66 AAAAACGCCACTAAAGTCC-TGAGCATTAAAGCGG
* * * *
13360503 CGCTAAATCCTCGAAAGATCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTC
1 CGCTAAATCCCCGAAAGATCAGAAAACGGCGTCGTTGAGCTTAGGTTTTTTTGCAGCGCTTTCCC
13360568 AAAAACGCCACTAAAGTCCTGAGCATTA
66 AAAAACGCCACTAAAGTCCTGAGCATTA
13360596 GCGGTGCTTT
Statistics
Matches: 85, Mismatches: 7, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
99 83 0.98
100 2 0.02
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (99 bp):
CGCTAAATCCCCGAAAGATCAGAAAACGGCGTCGTTGAGCTTAGGTTTTTTTGCAGCGCTTTCCC
AAAAACGCCACTAAAGTCCTGAGCATTAAAGCGG
Found at i:13361856 original size:3 final size:3
Alignment explanation
Indices: 13361848--13361885 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
13361838 ATAAACAATG
13361848 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
13361886 ACTGCCGTCG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:13371323 original size:5 final size:5
Alignment explanation
Indices: 13371315--13371340 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
13371305 TAAAATTAAA
13371315 AATTT AATTT AATTT AATTT AATTT A
1 AATTT AATTT AATTT AATTT AATTT A
13371341 TATAATAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
AATTT
Found at i:13371443 original size:75 final size:76
Alignment explanation
Indices: 13371319--13371469 Score: 295
Period size: 75 Copynumber: 2.0 Consensus size: 76
13371309 ATTAAAAATT
13371319 TAATTTAATTTAATTTAATTTATATAATAATATATTTCAATATACTCATATTGATACATATTCAT
1 TAATTTAATTTAATTTAATTTATATAATAATATATTTCAATATACTCATATTGATACATATTCAT
13371384 ATCAAAACAAA
66 ATCAAAACAAA
13371395 TAATTTAA-TTAATTTAATTTATATAATAATATATTTCAATATACTCATATTGATACATATTCAT
1 TAATTTAATTTAATTTAATTTATATAATAATATATTTCAATATACTCATATTGATACATATTCAT
13371459 ATCAAAACAAA
66 ATCAAAACAAA
13371470 AATGATACAC
Statistics
Matches: 75, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
75 67 0.89
76 8 0.11
ACGTcount: A:0.46, C:0.09, G:0.01, T:0.43
Consensus pattern (76 bp):
TAATTTAATTTAATTTAATTTATATAATAATATATTTCAATATACTCATATTGATACATATTCAT
ATCAAAACAAA
Found at i:13379081 original size:30 final size:30
Alignment explanation
Indices: 13379012--13379081 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
13379002 TAACTATGCA
* * *
13379012 GCGACACACGACTGTGTAGACCTCTCGTAT
1 GCGACACACAACTGTGTAGACCGCCCGTAT
* *
13379042 GCGATACACAACTGTGTAGACCGCCCGTGT
1 GCGACACACAACTGTGTAGACCGCCCGTAT
*
13379072 GCGGCACACA
1 GCGACACACA
13379082 CCCGTGTGGC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.24, C:0.31, G:0.26, T:0.19
Consensus pattern (30 bp):
GCGACACACAACTGTGTAGACCGCCCGTAT
Found at i:13379861 original size:73 final size:73
Alignment explanation
Indices: 13379714--13379850 Score: 238
Period size: 73 Copynumber: 1.9 Consensus size: 73
13379704 CTGAAACAGA
* *
13379714 TACTTAATTGCTCAACCTACTTATTGACCCTAACTACAAACCTCAAAACTTCTAACCCCAAATTA
1 TACTTAATTGCTAAACCTACTTATTGACCCTAACTACAAACCTCAAAACTTCTAACCCCAAAATA
13379779 TGAAGTGT
66 TGAAGTGT
* *
13379787 TACTTAATTGTTAAACCTACTTATTGACCCTAACTACAAACCTCAAAACTTCTAATCCCAAAAT
1 TACTTAATTGCTAAACCTACTTATTGACCCTAACTACAAACCTCAAAACTTCTAACCCCAAAAT
13379851 CTAAGGTGTT
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
73 60 1.00
ACGTcount: A:0.37, C:0.27, G:0.05, T:0.31
Consensus pattern (73 bp):
TACTTAATTGCTAAACCTACTTATTGACCCTAACTACAAACCTCAAAACTTCTAACCCCAAAATA
TGAAGTGT
Found at i:13380977 original size:11 final size:11
Alignment explanation
Indices: 13380950--13380985 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
13380940 GTCAGAATTC
13380950 ATAATTTTTTA
1 ATAATTTTTTA
*
13380961 ACTAATTTTTTT
1 A-TAATTTTTTA
13380973 ATAATTTTTTA
1 ATAATTTTTTA
13380984 AT
1 AT
13380986 GTTTTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (11 bp):
ATAATTTTTTA
Found at i:13380990 original size:9 final size:8
Alignment explanation
Indices: 13380968--13381017 Score: 55
Period size: 9 Copynumber: 5.9 Consensus size: 8
13380958 TTAACTAATT
13380968 TTTTTATAA
1 TTTTT-TAA
13380977 TTTTTTAA
1 TTTTTTAA
*
13380985 TGTTTTTTA
1 T-TTTTTAA
*
13380994 TTTTTTAT
1 TTTTTTAA
13381002 TTTTTTAA
1 TTTTTTAA
13381010 TATTTTTA
1 T-TTTTTA
13381018 TTAAAATTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
8 17 0.49
9 18 0.51
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (8 bp):
TTTTTTAA
Found at i:13380997 original size:25 final size:25
Alignment explanation
Indices: 13380969--13381016 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
13380959 TAACTAATTT
*
13380969 TTTTATAATTTTTTAATGTTTTTTA
1 TTTTATAATTTTTTAATATTTTTTA
* *
13380994 TTTTTTATTTTTTTAATATTTTT
1 TTTTATAATTTTTTAATATTTTT
13381017 ATTAAAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (25 bp):
TTTTATAATTTTTTAATATTTTTTA
Found at i:13380998 original size:17 final size:15
Alignment explanation
Indices: 13380976--13381019 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 15
13380966 TTTTTTTATA
13380976 ATTTTTTAATGTTTTTT
1 ATTTTTT-AT-TTTTTT
13380993 ATTTTTTATTTTTTT
1 ATTTTTTATTTTTTT
13381008 AATATTTTTATT
1 -AT-TTTTTATT
13381020 AAAATTTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 6 0.24
16 4 0.16
17 15 0.60
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.77
Consensus pattern (15 bp):
ATTTTTTATTTTTTT
Found at i:13381050 original size:22 final size:22
Alignment explanation
Indices: 13381025--13381071 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
13381015 TTATTAAAAT
*
13381025 TTAATAATTTTTATCATTCTTA
1 TTAAAAATTTTTATCATTCTTA
*
13381047 TTAAAAATTTTTATCATTTTTA
1 TTAAAAATTTTTATCATTCTTA
13381069 TTA
1 TTA
13381072 TATGTTACGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (22 bp):
TTAAAAATTTTTATCATTCTTA
Found at i:13383051 original size:29 final size:28
Alignment explanation
Indices: 13382980--13383051 Score: 65
Period size: 29 Copynumber: 2.5 Consensus size: 28
13382970 AATTAGAGTT
* *
13382980 TTATGTGTATAATTATACCAAATTAAAA
1 TTATATGTATAATTATACCAAATCAAAA
* * *
13383008 TTCATATATACAATTATACATTAAATCAAAA
1 TT-ATATGTATAATTATAC--CAAATCAAAA
13383039 TT-TATGTATAATT
1 TTATATGTATAATT
13383052 TTAAAATTTA
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
28 2 0.06
29 22 0.65
31 10 0.29
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.42
Consensus pattern (28 bp):
TTATATGTATAATTATACCAAATCAAAA
Found at i:13383380 original size:18 final size:18
Alignment explanation
Indices: 13383357--13383394 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
13383347 ATTTGGGTAA
13383357 AACCGAAAAAATTCGGTT
1 AACCGAAAAAATTCGGTT
**
13383375 AACCGACCAAATTCGGTT
1 AACCGAAAAAATTCGGTT
13383393 AA
1 AA
13383395 TCGGTCGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.42, C:0.21, G:0.16, T:0.21
Consensus pattern (18 bp):
AACCGAAAAAATTCGGTT
Found at i:13391458 original size:46 final size:46
Alignment explanation
Indices: 13391391--13391575 Score: 280
Period size: 46 Copynumber: 4.0 Consensus size: 46
13391381 CATGGAAAAG
* *
13391391 TGTGAAACGTAAGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
* *
13391437 TGTGAAAAGTAGGTATGGTATTTCGGTAAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
* *
13391483 TGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCACACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
* * * *
13391529 TGTGAAAAGTACGTATGGTATTTCCGTGAAGAAAATCATACTAAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
13391575 T
1 T
13391576 ATAGCCTTGT
Statistics
Matches: 125, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 125 1.00
ACGTcount: A:0.36, C:0.10, G:0.25, T:0.29
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
Found at i:13392172 original size:24 final size:24
Alignment explanation
Indices: 13392144--13392189 Score: 76
Period size: 23 Copynumber: 1.9 Consensus size: 24
13392134 GTAGAAGTTG
13392144 AATTAGAAGCTGAATGAG-ATATGA
1 AATTA-AAGCTGAATGAGTATATGA
13392168 AATTAAAGCTGAATGAGTATAT
1 AATTAAAGCTGAATGAGTATAT
13392190 TTTCACATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.46, C:0.04, G:0.22, T:0.28
Consensus pattern (24 bp):
AATTAAAGCTGAATGAGTATATGA
Found at i:13396968 original size:10 final size:9
Alignment explanation
Indices: 13396950--13396984 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
13396940 TGACTCGGGC
13396950 TCTTTTTTT
1 TCTTTTTTT
13396959 TCTCTTTTTT
1 TCT-TTTTTT
13396969 TCTTTTTTT
1 TCTTTTTTT
*
13396978 CCTTTTT
1 TCTTTTT
13396985 CTTGCAGATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 15 0.62
10 9 0.38
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (9 bp):
TCTTTTTTT
Found at i:13397330 original size:4 final size:4
Alignment explanation
Indices: 13397312--13397377 Score: 63
Period size: 4 Copynumber: 17.5 Consensus size: 4
13397302 TATTTTATTA
*
13397312 CTTT TTTT C-TT CTTT CTTT C--T CTTT CTTT C-TT CTTT CTTT CTTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT
13397356 C-TT -TTT CTTT CGTTTT CTTT CT
1 CTTT CTTT CTTT C--TTT CTTT CT
13397378 CTTTTTCCTT
Statistics
Matches: 52, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
2 2 0.04
3 10 0.19
4 36 0.69
6 4 0.08
ACGTcount: A:0.00, C:0.24, G:0.02, T:0.74
Consensus pattern (4 bp):
CTTT
Found at i:13397335 original size:10 final size:10
Alignment explanation
Indices: 13397312--13397377 Score: 66
Period size: 10 Copynumber: 6.6 Consensus size: 10
13397302 TATTTTATTA
*
13397312 CTTTTTTTCTT
1 CTTTCTTTC-T
13397323 CTTTCTTTCT
1 CTTTCTTTCT
13397333 CTTTCTTTCTT
1 CTTTCTTTC-T
13397344 CTTTC-TT-T
1 CTTTCTTTCT
*
13397352 CTTTCTTTTT
1 CTTTCTTTCT
13397362 CTTTCGTTT-T
1 CTTTC-TTTCT
13397372 CTTTCT
1 CTTTCT
13397378 CTTTTTCCTT
Statistics
Matches: 50, Mismatches: 1, Indels: 10
0.82 0.02 0.16
Matches are distributed among these distances:
8 6 0.12
9 3 0.06
10 24 0.48
11 17 0.34
ACGTcount: A:0.00, C:0.24, G:0.02, T:0.74
Consensus pattern (10 bp):
CTTTCTTTCT
Found at i:13397340 original size:25 final size:25
Alignment explanation
Indices: 13397312--13397374 Score: 74
Period size: 25 Copynumber: 2.4 Consensus size: 25
13397302 TATTTTATTA
13397312 CTTTTTTTCTTCTTTCTTTCTCTTT
1 CTTTTTTTCTTCTTTCTTTCTCTTT
* *
13397337 C-TTTCTTCTTTCTTTCTTTCTTTTT
1 CTTTTTTTC-TTCTTTCTTTCTCTTT
13397362 CTTTCGTTTTCTT
1 CTTT--TTTTCTT
13397375 TCTCTTTTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
24 6 0.19
25 17 0.55
26 2 0.06
27 2 0.06
28 4 0.13
ACGTcount: A:0.00, C:0.24, G:0.02, T:0.75
Consensus pattern (25 bp):
CTTTTTTTCTTCTTTCTTTCTCTTT
Found at i:13397519 original size:22 final size:20
Alignment explanation
Indices: 13397484--13397525 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 20
13397474 TCCTTTTCTC
13397484 CTTTCCTTTTTTCTTCTCTT
1 CTTTCCTTTTTTCTTCTCTT
13397504 CTTTCTCTCTTTTTCTTCTCTT
1 CTTTC-CT-TTTTTCTTCTCTT
13397526 TCGTGCCGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 5 0.25
21 2 0.10
22 13 0.65
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (20 bp):
CTTTCCTTTTTTCTTCTCTT
Found at i:13397524 original size:11 final size:11
Alignment explanation
Indices: 13397491--13397526 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
13397481 CTCCTTTCCT
13397491 TTTTTCTTCTC
1 TTTTTCTTCTC
13397502 TTCTTTC-TCTC
1 TT-TTTCTTCTC
13397513 TTTTTCTTCTC
1 TTTTTCTTCTC
13397524 TTT
1 TTT
13397527 CGTGCCGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 4 0.17
11 15 0.65
12 4 0.17
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (11 bp):
TTTTTCTTCTC
Found at i:13397640 original size:27 final size:27
Alignment explanation
Indices: 13397610--13397661 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
13397600 GCCGTGTGCT
13397610 TTTGGCTGTTTT-TTTTTTAATTTTTGC
1 TTTGGCT-TTTTCTTTTTTAATTTTTGC
* *
13397637 TTTGTCTTTTTCTTTTTTCATTTTT
1 TTTGGCTTTTTCTTTTTTAATTTTT
13397662 CATTTTTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.06, C:0.10, G:0.10, T:0.75
Consensus pattern (27 bp):
TTTGGCTTTTTCTTTTTTAATTTTTGC
Found at i:13397918 original size:29 final size:29
Alignment explanation
Indices: 13397878--13398001 Score: 162
Period size: 29 Copynumber: 4.3 Consensus size: 29
13397868 GGGGTTAATG
*
13397878 TGTAATTTTAGGAAAATTTAAG-GTCAAAA
1 TGTAATTTTAGG-AAAGTTAAGTGTCAAAA
*
13397907 TGTAATTTTAGGAAAGTT-AGGGTCAAAA
1 TGTAATTTTAGGAAAGTTAAGTGTCAAAA
* *
13397935 TCTAATTTTAGGGAAGTTGAAGTGTCAAAA
1 TGTAATTTTAGGAAAGTT-AAGTGTCAAAA
**
13397965 TGTAATTTTAGGAAAGTTGGGTGTCAAAA
1 TGTAATTTTAGGAAAGTTAAGTGTCAAAA
13397994 TGTAATTT
1 TGTAATTT
13398002 ATATTTTCTT
Statistics
Matches: 84, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
27 2 0.02
28 28 0.33
29 29 0.35
30 25 0.30
ACGTcount: A:0.38, C:0.04, G:0.23, T:0.35
Consensus pattern (29 bp):
TGTAATTTTAGGAAAGTTAAGTGTCAAAA
Found at i:13397940 original size:28 final size:28
Alignment explanation
Indices: 13397878--13398001 Score: 158
Period size: 28 Copynumber: 4.3 Consensus size: 28
13397868 GGGGTTAATG
* *
13397878 TGTAATTTTAGGAAAATTTAAGGTCAAAA
1 TGTAATTTTAGG-AAAGTTAGGGTCAAAA
13397907 TGTAATTTTAGGAAAGTTAGGGTCAAAA
1 TGTAATTTTAGGAAAGTTAGGGTCAAAA
* * *
13397935 TCTAATTTTAGGGAAGTTGAAGTGTCAAAA
1 TGTAATTTTAGGAAAGTT--AGGGTCAAAA
*
13397965 TGTAATTTTAGGAAAGTTGGGTGTCAAAA
1 TGTAATTTTAGGAAAGTTAGG-GTCAAAA
13397994 TGTAATTT
1 TGTAATTT
13398002 ATATTTTCTT
Statistics
Matches: 83, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
28 31 0.37
29 27 0.33
30 25 0.30
ACGTcount: A:0.38, C:0.04, G:0.23, T:0.35
Consensus pattern (28 bp):
TGTAATTTTAGGAAAGTTAGGGTCAAAA
Found at i:13397969 original size:58 final size:58
Alignment explanation
Indices: 13397880--13398001 Score: 183
Period size: 58 Copynumber: 2.1 Consensus size: 58
13397870 GGTTAATGTG
*
13397880 TAATTTTAGGAAAATTTAAGGTCAAAATGTAATTTTAGGAAAGTTAGG-GTCAAAATC
1 TAATTTTAGGAAAATTGAAGGTCAAAATGTAATTTTAGGAAAGTTAGGTGTCAAAATC
* * * *
13397937 TAATTTTAGGGAAGTTGAAGTGTCAAAATGTAATTTTAGGAAAGTTGGGTGTCAAAATG
1 TAATTTTAGGAAAATTGAAG-GTCAAAATGTAATTTTAGGAAAGTTAGGTGTCAAAATC
13397996 TAATTT
1 TAATTT
13398002 ATATTTTCTT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
57 17 0.29
58 27 0.47
59 14 0.24
ACGTcount: A:0.39, C:0.04, G:0.22, T:0.35
Consensus pattern (58 bp):
TAATTTTAGGAAAATTGAAGGTCAAAATGTAATTTTAGGAAAGTTAGGTGTCAAAATC
Found at i:13398647 original size:151 final size:151
Alignment explanation
Indices: 13398334--13399361 Score: 1168
Period size: 151 Copynumber: 6.8 Consensus size: 151
13398324 CCTTGGCGTA
* * * *
13398334 CGACCCGAGGCTCAACTCACCTCTCGAATTATGAGTTGATCTTTGAAAAACAGAAA-T-ATAAAA
1 CGACCCGAGGCTCAACTCACTTCTCGGATTATGAGTTGATTTTTGAAAAATAGAAATTGA-AAAA
* * * ** *
13398397 TACCTTAGCGCGCGACCTGTGGCTCAACTCACCTCTTAGATTATAAGTTGATTTTTGAAAAATAG
65 TACCTCAGCGTGCGACCTGAGGCTCAACTCACCTCTCGGATTATGAGTTGATTTTTGAAAAATAG
* * **
13398462 AAATTAAAAAATACCTCGGCATG
130 AAATT-GAAAATACCTCAGCGCG
* * * * * * *
13398485 TGACTCAAGGCTCAACTCACCTCTCAGATTTTGAGTTTATTTTTGAAAAATAGAAATTGAAAAAT
1 CGACCCGAGGCTCAACTCACTTCTCGGATTATGAGTTGATTTTTGAAAAATAGAAATTGAAAAAT
* * * * *
13398550 ACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGAATTATGAGTTGATCTTTGAAAAATAGA
66 ACCTCAGCGTGCGACCTGAGGCTCAACTCACCTCTCGGATTATGAGTTGATTTTTGAAAAATAGA
*
13398615 AATTGAAGATACCTCAGCGCG
131 AATTGAAAATACCTCAGCGCG
* * * *
13398636 CGACTCGAGGCTCAACTCACCTCTCGGATTATGAATTGATTTTTGAAAAATATAAATTGAAAAAT
1 CGACCCGAGGCTCAACTCACTTCTCGGATTATGAGTTGATTTTTGAAAAATAGAAATTGAAAAAT
* * * * * *
13398701 ACATCAGCGTGTGACCTGAGACTCAACTCACTTCTCAGATTATGAGTTGATTTTTGAAAAATAAA
66 ACCTCAGCGTGCGACCTGAGGCTCAACTCACCTCTCGGATTATGAGTTGATTTTTGAAAAATAGA
* *
13398766 AATTGAAAATACCTCAGTGCT
131 AATTGAAAATACCTCAGCGCG
* * *
13398787 CGACCCGAGGCTCCACTCATCTTCTCGAATTATGAATTGATTTTTGAAAAATAGAAATTG-AAAA
1 CGACCCGAGGCTCAACTCA-CTTCTCGGATTATGAGTTGATTTTTGAAAAATAGAAATTGAAAAA
* ** * * * * * *
13398851 TACCTTAGCGTGCGACCCAAGGCTCAACTCACTTTTAGGATTATGAATTGATTTTTGAAAAACAA
65 TACCTCAGCGTGCGACCTGAGGCTCAACTCACCTCTCGGATTATGAGTTGATTTTTGAAAAATAG
*
13398916 AAATTGAGAATACCTCAGCGCG
130 AAATTGAAAATACCTCAGCGCG
* * * * *
13398938 CGCCCCGAGGCCCAACTCATTTTCTCGGATTATGGGTTGATTTTTGAAAAACAGAAATTG-AAAA
1 CGACCCGAGGCTCAACTCA-CTTCTCGGATTATGAGTTGATTTTTGAAAAATAGAAATTGAAAAA
* * ** *
13399002 TACCTCAGTGTGCAACCCAAGGCTCAACTCACCTCTCGGATTATAAGTTGATTTTTGAAAAATAG
65 TACCTCAGCGTGCGACCTGAGGCTCAACTCACCTCTCGGATTATGAGTTGATTTTTGAAAAATAG
****
13399067 AAATTGAAAATACCTCAATATG
130 AAATTGAAAATACCTCAGCGCG
* * * **
13399089 CGACCCGAGGCTCAACTGACTTCTCGGATTATGAGTTAATTTTTGATAAGCAGAAATT-AAAAAT
1 CGACCCGAGGCTCAACTCACTTCTCGGATTATGAGTTGATTTTTGAAAAATAGAAATTGAAAAAT
* * * * *
13399153 ACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGGATTATAAGTTCATTTTTGAAAAACAAC
66 ACCTCAGCGTGCGACCTGAGGCTCAACTCACCTCTCGGATTATGAGTTGATTTTTG--AAA-AAT
* *
13399218 AGAAATTGAAAATACCTTAGCGTG
128 AGAAATTGAAAATACCTCAGCGCG
* * * *
13399242 CGACCTGAGGCTCAACTCACTTCTCAGATTATGAGTTTATTTTTTGAAAAATAGAACTTG-AAAA
1 CGACCCGAGGCTCAACTCACTTCTCGGATTATGAGTTGA-TTTTTGAAAAATAGAAATTGAAAAA
** * *
13399306 TACCTCAATGTGCGACCCGAGGCTCAACTCACTTCTCGGATTATGAGTTGATTTTT
65 TACCTCAGCGTGCGACCTGAGGCTCAACTCACCTCTCGGATTATGAGTTGATTTTT
13399362 TCAAAGACGA
Statistics
Matches: 746, Mismatches: 122, Indels: 15
0.84 0.14 0.02
Matches are distributed among these distances:
150 88 0.12
151 429 0.58
152 104 0.14
153 58 0.08
154 67 0.09
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (151 bp):
CGACCCGAGGCTCAACTCACTTCTCGGATTATGAGTTGATTTTTGAAAAATAGAAATTGAAAAAT
ACCTCAGCGTGCGACCTGAGGCTCAACTCACCTCTCGGATTATGAGTTGATTTTTGAAAAATAGA
AATTGAAAATACCTCAGCGCG
Found at i:13399362 original size:76 final size:75
Alignment explanation
Indices: 13398305--13399361 Score: 1164
Period size: 75 Copynumber: 14.0 Consensus size: 75
13398295 TTTTTATTTT
* * * ** * *
13398305 AAAACAGAACTTGAAAACACCTTGGCGTACGACCCGAGGCTCAACTCACCTCTCGAATTATGAGT
1 AAAATAGAAATTGAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGGATTATGAGT
*
13398370 TGATCTTTGA
66 TGATTTTTGA
* * * * * ** *
13398380 AAAACAGAAATAT-AAAATACCTTAGCGCGCGACCTGTGGCTCAACTCACCTCTTAGATTATAAG
1 AAAATAGAAAT-TGAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGGATTATGAG
13398444 TTGATTTTTGA
65 TTGATTTTTGA
* * * * * * * *
13398455 AAAATAGAAATTAAAAAATACCTCGGCATGTGACTCAAGGCTCAACTCACCTCTCAGATTTTGAG
1 AAAATAGAAATT-GAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGGATTATGAG
*
13398520 TTTATTTTTGA
65 TTGATTTTTGA
* * * * *
13398531 AAAATAGAAATTGAAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGAATTATGAG
1 AAAATAGAAATTG-AAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGGATTATGAG
*
13398596 TTGATCTTTGA
65 TTGATTTTTGA
* * * *
13398607 AAAATAGAAATTGAAGATACCTCAGCGCGCGACTCGAGGCTCAACTCACCTCTCGGATTATGAAT
1 AAAATAGAAATTGAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGGATTATGAGT
13398672 TGATTTTTGA
66 TGATTTTTGA
* * * * * * *
13398682 AAAATATAAATTGAAAAATACATCAGCGTGTGACCTGAGACTCAACTCACTTCTCAGATTATGAG
1 AAAATAGAAATTG-AAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGGATTATGAG
13398747 TTGATTTTTGA
65 TTGATTTTTGA
* * * * *
13398758 AAAATAAAAATTGAAAATACCTCAGTGCT-CGACCCGAGGCTCCACTCATCTTCTCGAATTATGA
1 AAAATAGAAATTGAAAATACCTCAGCG-TGCGACCCGAGGCTCAACTCA-CCTCTCGGATTATGA
*
13398822 ATTGATTTTTGA
64 GTTGATTTTTGA
* * * * * *
13398834 AAAATAGAAATTGAAAATACCTTAGCGTGCGACCCAAGGCTCAACTCACTTTTAGGATTATGAAT
1 AAAATAGAAATTGAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGGATTATGAGT
13398899 TGATTTTTGA
66 TGATTTTTGA
* * * * * * ** *
13398909 AAAACAAAAATTGAGAATACCTCAGCGCGCGCCCCGAGGCCCAACTCATTTTCTCGGATTATGGG
1 AAAATAGAAATTGAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCA-CCTCTCGGATTATGAG
13398974 TTGATTTTTGA
65 TTGATTTTTGA
* * * * *
13398985 AAAACAGAAATTGAAAATACCTCAGTGTGCAACCCAAGGCTCAACTCACCTCTCGGATTATAAGT
1 AAAATAGAAATTGAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGGATTATGAGT
13399050 TGATTTTTGA
66 TGATTTTTGA
*** * *
13399060 AAAATAGAAATTGAAAATACCTCAATATGCGACCCGAGGCTCAACTGACTTCTCGGATTATGAGT
1 AAAATAGAAATTGAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGGATTATGAGT
*
13399125 TAATTTTTGA
66 TGATTTTTGA
* ** * * * * *
13399135 TAAGCAGAAATTAAAAATACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGGATTATAAGT
1 AAAATAGAAATTGAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGGATTATGAGT
*
13399200 TCATTTTTGAAA
66 TGATTTTTG--A
* * * * *
13399212 AACAACAGAAATTGAAAATACCTTAGCGTGCGACCTGAGGCTCAACTCACTTCTCAGATTATGAG
1 AA-AATAGAAATTGAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGGATTATGAG
*
13399277 TTTATTTTTTGA
65 TTGA-TTTTTGA
* ** *
13399289 AAAATAGAACTTGAAAATACCTCAATGTGCGACCCGAGGCTCAACTCACTTCTCGGATTATGAGT
1 AAAATAGAAATTGAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGGATTATGAGT
13399354 TGATTTTT
66 TGATTTTT
13399362 TCAAAGACGA
Statistics
Matches: 829, Mismatches: 140, Indels: 26
0.83 0.14 0.03
Matches are distributed among these distances:
74 1 0.00
75 383 0.46
76 377 0.45
77 5 0.01
78 57 0.07
79 6 0.01
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (75 bp):
AAAATAGAAATTGAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGGATTATGAGT
TGATTTTTGA
Found at i:13401646 original size:19 final size:19
Alignment explanation
Indices: 13401622--13401659 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
13401612 CTAACTAATT
13401622 TTGAATCCTTTATTTCCCA
1 TTGAATCCTTTATTTCCCA
13401641 TTGAATCCTTTATTTCCCA
1 TTGAATCCTTTATTTCCCA
13401660 ATCTCCACGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.26, G:0.05, T:0.47
Consensus pattern (19 bp):
TTGAATCCTTTATTTCCCA
Found at i:13405113 original size:50 final size:50
Alignment explanation
Indices: 13405031--13405274 Score: 229
Period size: 50 Copynumber: 4.8 Consensus size: 50
13405021 ATGCTTACAT
* *
13405031 ATGGTCACATGTGTAGTACTATGTGTAGGCTACTACGTGTATT-GAAACGA
1 ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATTAGAAA-GA
* * * * * *** * *
13405081 AAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGC
1 ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATTAGAAAGA
* * * * **
13405131 TTCGATCACGTGTGTAGTACTATGTCCAGGCTACTACGTGTGTTAGATATTA
1 AT-GGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATTAGA-AAGA
* * * *
13405183 ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTATGTGAATTGGAAAGT
1 ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATTAGAAAGA
* * *
13405233 TTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTAT
1 ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTAT
13405275 CGAATGATAA
Statistics
Matches: 151, Mismatches: 40, Indels: 6
0.77 0.20 0.03
Matches are distributed among these distances:
50 75 0.50
51 75 0.50
52 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (50 bp):
ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATTAGAAAGA
Found at i:13405155 original size:51 final size:50
Alignment explanation
Indices: 13405035--13405274 Score: 223
Period size: 51 Copynumber: 4.8 Consensus size: 50
13405025 TTACATATGG
* * * * *** *
13405035 TCACATGTGTAGTACTATGTGTAGGCTACTACGTGTATT-GAAACGAAAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTATTGGATA-GTTTGA
* * * ** *
13405085 TCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTATTGGATAG-TTTGA
* * * * *
13405136 TCACGTGTGTAGTACTATGTCCAGGCTACTACGTGTGTTAGATA-TTAATGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTATTGGATAGTT--TGA
* *
13405187 TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGAATTGGAAAGTTTGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTATTGGATAGTTTGA
* *
13405237 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTAT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTAT
13405275 CGAATGATAA
Statistics
Matches: 153, Mismatches: 32, Indels: 10
0.78 0.16 0.05
Matches are distributed among these distances:
49 2 0.01
50 71 0.46
51 78 0.51
52 2 0.01
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.33
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTATTGGATAGTTTGA
Found at i:13405239 original size:101 final size:101
Alignment explanation
Indices: 13405035--13405274 Score: 311
Period size: 101 Copynumber: 2.4 Consensus size: 101
13405025 TTACATATGG
* * *
13405035 TCACATGTGTAGTACTATGTGTAGGCTACTACGTGTATTGAAACGAAAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATTGAAACGAAAGGTCACATGTGTAGTAC
* *
13405100 TATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
66 TATGTGCAGGCTACTATGCGAACCGGAAAGCTTCGA
** * * ** * *
13405136 TCACGTGTGTAGTACTATGTCCAGGCTACTACGTGTGTTAGATATTAATGGTCACGTGTGTAGTA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATT-GAAACGAAAGGTCACATGTGTAGTA
* ** *
13405201 CTATGTGCAGGCTACTATGTGAATTGGAAAG-TTTGA
65 CTATGTGCAGGCTACTATGCGAACCGGAAAGCTTCGA
13405237 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTAT
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTAT
13405275 CGAATGATAA
Statistics
Matches: 119, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
101 74 0.62
102 45 0.38
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.33
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATTGAAACGAAAGGTCACATGTGTAGTAC
TATGTGCAGGCTACTATGCGAACCGGAAAGCTTCGA
Found at i:13405303 original size:101 final size:100
Alignment explanation
Indices: 13405035--13405310 Score: 265
Period size: 101 Copynumber: 2.7 Consensus size: 100
13405025 TTACATATGG
* * * * * *
13405035 TCACATGTGTAGTACTATGTGTAGGCTACTACGTGTATTGAAACGA-AAGGTCGCAT-GTGTAGT
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA-TG-AATGATAATGT-TCATCGTGTGGT
* *
13405098 ACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
63 ACTATGTGCAGGCTACTATGCGAACCGGAAAGCTTCGA
** * * *
13405136 TCACGTGTGTAGTACTATGTCCAGGCTACTACGTGTGTTAGAT-ATTAATGGTCA-CGTGTGTAG
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATGA-ATGA-TAATGTTCATCGTGTG--G
* ** *
13405199 TACTATGTGCAGGCTACTATGTGAATTGGAAAG-TTTGA
62 TACTATGTGCAGGCTACTATGCGAACCGGAAAGCTTCGA
* *
13405237 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAATGATAATAGTTAATCGAGTGGTA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTAT-GAATGATAAT-GTTCATCGTGTGGTA
13405302 CTATGTGCA
64 CTATGTGCA
13405311 AACCACCAAA
Statistics
Matches: 142, Mismatches: 23, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
99 2 0.01
100 8 0.06
101 93 0.65
102 34 0.24
103 5 0.04
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.32
Consensus pattern (100 bp):
TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATGAATGATAATGTTCATCGTGTGGTACT
ATGTGCAGGCTACTATGCGAACCGGAAAGCTTCGA
Found at i:13407072 original size:26 final size:26
Alignment explanation
Indices: 13407036--13407085 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
13407026 GAGAATTCTA
*
13407036 GAAGGTAATGATGATGTTTGTGATAT
1 GAAGGGAATGATGATGTTTGTGATAT
13407062 GAAGGGAATGATGATGTTTGTGAT
1 GAAGGGAATGATGATGTTTGTGAT
13407086 TTTTTTAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.34, T:0.36
Consensus pattern (26 bp):
GAAGGGAATGATGATGTTTGTGATAT
Found at i:13410057 original size:47 final size:48
Alignment explanation
Indices: 13409970--13410060 Score: 114
Period size: 47 Copynumber: 1.9 Consensus size: 48
13409960 TATATGAAAA
*
13409970 TGTGATTATGTGCTTCTGTATAAGACCATAGCTGAGCTATGGCATCAG
1 TGTGATTATGTGCTTCTGTATAAGACCATAGCTGAACTATGGCATCAG
* * * *
13410018 TGTGA-TATGTGTTTCTGTGTGAGACCATAG-TTATACTATGGCA
1 TGTGATTATGTGCTTCTGTATAAGACCATAGCTGA-ACTATGGCA
13410061 ATGTGAAAAG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
46 2 0.05
47 30 0.81
48 5 0.14
ACGTcount: A:0.24, C:0.14, G:0.25, T:0.36
Consensus pattern (48 bp):
TGTGATTATGTGCTTCTGTATAAGACCATAGCTGAACTATGGCATCAG
Found at i:13412393 original size:118 final size:119
Alignment explanation
Indices: 13412247--13412484 Score: 469
Period size: 118 Copynumber: 2.0 Consensus size: 119
13412237 AGCTAAAAGG
13412247 ACTAAATTGTAAAAATTACAAAAGTTTAGTTTTATATGTTAGAAGTGTCTAGTTGTTATGAAATT
1 ACTAAATTGTAAAAATTACAAAAGTTTAGTTTTATATGTTAGAAGTGTCTAGTTGTTATGAAATT
13412312 TTAAATTGGAGGTCCTTAAATGGTAATTAGACCATTGGTTATGTTATAGACAAA
66 TTAAATTGGAGGTCCTTAAATGGTAATTAGACCATTGGTTATGTTATAGACAAA
13412366 ACTAAATTGT-AAAATTACAAAAGTTTAGTTTTATATGTTAGAAGTGTCTAGTTGTTATGAAATT
1 ACTAAATTGTAAAAATTACAAAAGTTTAGTTTTATATGTTAGAAGTGTCTAGTTGTTATGAAATT
13412430 TTAAATTGGAGGTCCTTAAATGGTAATTAGACCATTGGTTATGTTATAGACAAA
66 TTAAATTGGAGGTCCTTAAATGGTAATTAGACCATTGGTTATGTTATAGACAAA
13412484 A
1 A
13412485 ATGGACATGA
Statistics
Matches: 119, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
118 109 0.92
119 10 0.08
ACGTcount: A:0.37, C:0.07, G:0.18, T:0.39
Consensus pattern (119 bp):
ACTAAATTGTAAAAATTACAAAAGTTTAGTTTTATATGTTAGAAGTGTCTAGTTGTTATGAAATT
TTAAATTGGAGGTCCTTAAATGGTAATTAGACCATTGGTTATGTTATAGACAAA
Found at i:13413481 original size:50 final size:50
Alignment explanation
Indices: 13413303--13413489 Score: 196
Period size: 50 Copynumber: 3.7 Consensus size: 50
13413293 AAAGTGATGG
* * * ** *
13413303 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGAATGAAAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAAAGTTAGA
* * * * * *
13413353 TCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTATCGGATAGCTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAAAG-TTAGA
* * * * *
13413404 TCATGTGAGTAGTACTATGTGCAGGCTACTACGTGAATCGAAAAGTTTGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAAAGTTAGA
13413454 TCACGTGTGTAGTACTATGTG-AGGGCTACTACGTGT
1 TCACGTGTGTAGTACTATGTGCA-GGCTACTACGTGT
13413490 TTCGAATGAT
Statistics
Matches: 110, Mismatches: 25, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
49 1 0.01
50 72 0.65
51 37 0.34
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAAAGTTAGA
Found at i:13424216 original size:22 final size:21
Alignment explanation
Indices: 13424193--13424232 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
13424183 TTTTATATAT
*
13424193 TTTAAAATTAAATTTTGATGA
1 TTTAAAAGTAAATTTTGATGA
*
13424214 TTTACAAGTAAATTTTGAT
1 TTTAAAAGTAAATTTTGAT
13424233 AAATCAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.03, G:0.10, T:0.47
Consensus pattern (21 bp):
TTTAAAAGTAAATTTTGATGA
Found at i:13424551 original size:16 final size:16
Alignment explanation
Indices: 13424526--13424577 Score: 56
Period size: 15 Copynumber: 3.3 Consensus size: 16
13424516 ACGACTCGGG
13424526 CTCTTTTTTTCCTTTT
1 CTCTTTTTTTCCTTTT
13424542 CTCTTATTTTT-C-TTT
1 CTCTT-TTTTTCCTTTT
*
13424557 CACTTTTTTTTCCTTTT
1 CTC-TTTTTTTCCTTTT
13424574 -TCTT
1 CTCTT
13424578 GCAAATTGGG
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
15 12 0.40
16 10 0.33
17 8 0.27
ACGTcount: A:0.04, C:0.23, G:0.00, T:0.73
Consensus pattern (16 bp):
CTCTTTTTTTCCTTTT
Found at i:13425058 original size:20 final size:20
Alignment explanation
Indices: 13425016--13425054 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
13425006 ATTATTATTT
13425016 TTCTTTCTTTCTCTTTTTTC
1 TTCTTTCTTTCTCTTTTTTC
13425036 TTCTTTCTTTCT-TTTTTTC
1 TTCTTTCTTTCTCTTTTTTC
13425055 CTTCGGCCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (20 bp):
TTCTTTCTTTCTCTTTTTTC
Found at i:13425169 original size:20 final size:21
Alignment explanation
Indices: 13425137--13425194 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 21
13425127 CTCTCCCTCT
13425137 TCTTTTCTCCTTCTCTCATTTC-C
1 TCTTTT-T-CTTCTCTC-TTTCTC
13425160 -CTTTTTCTTCTCTTCTTTCTC
1 TCTTTTTCTTCTC-TCTTTCTC
13425181 TCTTTTTCTTCTCT
1 TCTTTTTCTTCTCT
13425195 TTCGTGTCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
20 10 0.31
21 5 0.16
22 17 0.53
ACGTcount: A:0.02, C:0.34, G:0.00, T:0.64
Consensus pattern (21 bp):
TCTTTTTCTTCTCTCTTTCTC
Found at i:13425184 original size:11 final size:11
Alignment explanation
Indices: 13425160--13425196 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
13425150 TCTCATTTCC
13425160 CTTTTTCTTCT
1 CTTTTTCTTCT
13425171 CTTCTTTC-TCT
1 CTT-TTTCTTCT
13425182 CTTTTTCTTCT
1 CTTTTTCTTCT
13425193 CTTT
1 CTTT
13425197 CGTGTCAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 4 0.17
11 16 0.67
12 4 0.17
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (11 bp):
CTTTTTCTTCT
Found at i:13425578 original size:29 final size:28
Alignment explanation
Indices: 13425509--13425612 Score: 127
Period size: 29 Copynumber: 3.6 Consensus size: 28
13425499 AAACTTTTAA
*
13425509 GGTCAAATTGTAATTTTAGGAAAAGTTTAG
1 GGTCAAAATGTAATTTTA-GAAAAG-TTAG
* *
13425539 GGTTAAAATGTAATTTTAAAAAAGTTAG
1 GGTCAAAATGTAATTTTAGAAAAGTTAG
*
13425567 TGGTCAATATGTAATTTTAGAAAAGTTAGG
1 -GGTCAAAATGTAATTTTAGAAAAGTTA-G
*
13425597 GGTTAAAATGTAATTT
1 GGTCAAAATGTAATTT
13425613 ATATTTTTTT
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
28 4 0.06
29 43 0.67
30 17 0.27
ACGTcount: A:0.39, C:0.02, G:0.21, T:0.38
Consensus pattern (28 bp):
GGTCAAAATGTAATTTTAGAAAAGTTAG
Found at i:13426077 original size:26 final size:27
Alignment explanation
Indices: 13426039--13426089 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
13426029 GCAAGTAAAT
*
13426039 TTAAAAAT-GTTTTTTTAATTTTTTTG
1 TTAAAAATATTTTTTTTAATTTTTTTG
*
13426065 TTAAAAATATTTTTTTTTATTTTTT
1 TTAAAAATATTTTTTTTAATTTTTT
13426090 ATGTGCCATG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (27 bp):
TTAAAAATATTTTTTTTAATTTTTTTG
Found at i:13429169 original size:17 final size:19
Alignment explanation
Indices: 13429140--13429177 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
13429130 ATACAAAATT
13429140 AACCCTCAGCCC-AAACTA
1 AACCCTCAGCCCAAAACTA
13429158 AACCCT-AGCCCAAAACTA
1 AACCCTCAGCCCAAAACTA
13429176 AA
1 AA
13429178 AACTTTTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.45, C:0.39, G:0.05, T:0.11
Consensus pattern (19 bp):
AACCCTCAGCCCAAAACTA
Found at i:13432408 original size:3 final size:3
Alignment explanation
Indices: 13432394--13432486 Score: 71
Period size: 3 Copynumber: 30.0 Consensus size: 3
13432384 CAAATAAAAC
* * * *
13432394 TAA TAA TGA TAA TAA TTAA TAA TCA TAA TAT TAA TAA TCA TAA TAA
1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
13432440 TAA AAGA TAA TAA CAT TAA -AA TAA TGAA GAAA TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA T-AA -TAA TAA TAA TAA TAA TAA
13432487 AAGTGCTAAA
Statistics
Matches: 69, Mismatches: 16, Indels: 10
0.73 0.17 0.11
Matches are distributed among these distances:
2 2 0.03
3 58 0.84
4 9 0.13
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:13432458 original size:31 final size:31
Alignment explanation
Indices: 13432394--13432458 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
13432384 CAAATAAAAC
* * * *
13432394 TAATAATGATAATAATTAATAATCATAATAT
1 TAATAATCATAATAATTAAAAATAATAACAT
13432425 TAATAATCATAATAA-TAAAAGATAATAACAT
1 TAATAATCATAATAATTAAAA-ATAATAACAT
13432456 TAA
1 TAA
13432459 AATAATGAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 4 0.14
31 25 0.86
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (31 bp):
TAATAATCATAATAATTAAAAATAATAACAT
Found at i:13434545 original size:23 final size:24
Alignment explanation
Indices: 13434519--13434577 Score: 77
Period size: 23 Copynumber: 2.5 Consensus size: 24
13434509 AAAAACTTGC
13434519 AAAATATA-ATCTAAATTAAAAATA
1 AAAATATATAT-TAAATTAAAAATA
**
13434543 AAAA-ATATATTTGATTAAAAATA
1 AAAATATATATTAAATTAAAAATA
13434566 AAAATATATATT
1 AAAATATATATT
13434578 TAATATATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 18 0.58
24 13 0.42
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.34
Consensus pattern (24 bp):
AAAATATATATTAAATTAAAAATA
Found at i:13435552 original size:3 final size:3
Alignment explanation
Indices: 13435546--13435584 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
13435536 AAGAAGAAGA
* *
13435546 AGG AGG AGG AGG AGG AAG AGG AGG AAG AGG AGG AGG AGG
1 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG
13435585 TGGTGGTGGT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.38, C:0.00, G:0.62, T:0.00
Consensus pattern (3 bp):
AGG
Found at i:13435558 original size:9 final size:9
Alignment explanation
Indices: 13435541--13435584 Score: 61
Period size: 9 Copynumber: 4.8 Consensus size: 9
13435531 AGGAGAAGAA
13435541 GAAGAAGGAG
1 GAAG-AGGAG
*
13435551 GAGGAGGAG
1 GAAGAGGAG
13435560 GAAGAGGAG
1 GAAGAGGAG
13435569 GAAGAGGAG
1 GAAGAGGAG
*
13435578 GAGGAGG
1 GAAGAGG
13435585 TGGTGGTGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
9 28 0.90
10 3 0.10
ACGTcount: A:0.41, C:0.00, G:0.59, T:0.00
Consensus pattern (9 bp):
GAAGAGGAG
Found at i:13439281 original size:12 final size:12
Alignment explanation
Indices: 13439264--13439298 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
13439254 CTGCTTGGGA
13439264 TCTGGCTCGGGC
1 TCTGGCTCGGGC
13439276 TCTGGCTCGGGC
1 TCTGGCTCGGGC
*
13439288 TCTGGTTCGGG
1 TCTGGCTCGGG
13439299 ATCATGATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.00, C:0.29, G:0.43, T:0.29
Consensus pattern (12 bp):
TCTGGCTCGGGC
Found at i:13440880 original size:40 final size:40
Alignment explanation
Indices: 13440826--13441406 Score: 1144
Period size: 40 Copynumber: 14.5 Consensus size: 40
13440816 TGATTCCGTA
* *
13440826 CACCGGCATGAAGCCTGCTAGATGTATAGTCTGAATATTT
1 CACCGGCATTAAGCCTGCTAGACGTATAGTCTGAATATTT
13440866 CACCGGCATTAAGCCTGCTAGACGTATAGTCTGAATATTT
1 CACCGGCATTAAGCCTGCTAGACGTATAGTCTGAATATTT
13440906 CACCGGCATTAAGCCTGCTAGACGTATAGTCTGAATATTT
1 CACCGGCATTAAGCCTGCTAGACGTATAGTCTGAATATTT
13440946 CACCGGCATTAAGCCTGCTAGACGTATAGTCTGAATATTT
1 CACCGGCATTAAGCCTGCTAGACGTATAGTCTGAATATTT
13440986 CACCGGCATTAAGCCTGCTAGACGTATAGTCTGAATATTT
1 CACCGGCATTAAGCCTGCTAGACGTATAGTCTGAATATTT
13441026 CACCGGCATTAAGCCTGCTAGACGTATAGTCTGAATATTT
1 CACCGGCATTAAGCCTGCTAGACGTATAGTCTGAATATTT
13441066 CACCGGCATTAAGCCTGCTAGACGTATAGTCTGAATATTT
1 CACCGGCATTAAGCCTGCTAGACGTATAGTCTGAATATTT
13441106 CACCGGCATTAAGCCTGCTAGACGTATAGTCTGAATATTT
1 CACCGGCATTAAGCCTGCTAGACGTATAGTCTGAATATTT
13441146 CACCGGCATTAAGCCTGCTAGACGTATAGTCTGAATATTT
1 CACCGGCATTAAGCCTGCTAGACGTATAGTCTGAATATTT
13441186 CACCGGCATTAAGCCTGCTAGACGTATAGTCTGAATATTT
1 CACCGGCATTAAGCCTGCTAGACGTATAGTCTGAATATTT
13441226 CACCGGCATTAAGCCTGCTAGACGTATAGTCTGAATATTT
1 CACCGGCATTAAGCCTGCTAGACGTATAGTCTGAATATTT
13441266 CACCGGCATTAAGCCTGCTAGACGTATAGTCTGAATATTT
1 CACCGGCATTAAGCCTGCTAGACGTATAGTCTGAATATTT
13441306 CACCGGCATTAAGCCTGCTAGACGTATAGTCTGAATATTT
1 CACCGGCATTAAGCCTGCTAGACGTATAGTCTGAATATTT
13441346 CACCGGCATTAAGCCTGCTAGACGTATAGTCTGAATATTT
1 CACCGGCATTAAGCCTGCTAGACGTATAGTCTGAATATTT
13441386 CACCGGCATTAAGCCTGCTAG
1 CACCGGCATTAAGCCTGCTAG
13441407 GCACAAGCCT
Statistics
Matches: 539, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 539 1.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (40 bp):
CACCGGCATTAAGCCTGCTAGACGTATAGTCTGAATATTT
Found at i:13444560 original size:129 final size:130
Alignment explanation
Indices: 13444404--13444662 Score: 511
Period size: 129 Copynumber: 2.0 Consensus size: 130
13444394 TCTAGAATAA
13444404 TATCAAACTCGTCGAATGGCAACAACATCAAATCAGCCGAAAAACATGAATCTCGAATCATCAAC
1 TATCAAACTCGTCGAATGGCAACAACATCAAATCAGCCGAAAAACATGAATCTCGAATCATCAAC
13444469 GGACAATTTTTACTCATTTTGTCAACCAAAACACACCGGCCCAGGGGGTTTGATACTCTAATCAC
66 GGACAATTTTTACTCATTTTGTCAACCAAAACACACCGGCCCAGGGGGTTTGATACTCTAATCAC
13444534 TATCAAACTC-TCGAATGGCAACAACATCAAATCAGCCGAAAAACATGAATCTCGAATCATCAAC
1 TATCAAACTCGTCGAATGGCAACAACATCAAATCAGCCGAAAAACATGAATCTCGAATCATCAAC
13444598 GGACAATTTTTACTCATTTTGTCAACCAAAACACACCGGCCCAGGGGGTTTGATACTCTAATCAC
66 GGACAATTTTTACTCATTTTGTCAACCAAAACACACCGGCCCAGGGGGTTTGATACTCTAATCAC
13444663 AAACTCAGTA
Statistics
Matches: 129, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
129 119 0.92
130 10 0.08
ACGTcount: A:0.36, C:0.26, G:0.14, T:0.23
Consensus pattern (130 bp):
TATCAAACTCGTCGAATGGCAACAACATCAAATCAGCCGAAAAACATGAATCTCGAATCATCAAC
GGACAATTTTTACTCATTTTGTCAACCAAAACACACCGGCCCAGGGGGTTTGATACTCTAATCAC
Found at i:13446604 original size:118 final size:120
Alignment explanation
Indices: 13446373--13446611 Score: 455
Period size: 118 Copynumber: 2.0 Consensus size: 120
13446363 CTTATCAACG
13446373 CAACCAAATTTAATCAAAGGTATACTCGAATATAAATAATATACGTATACTCATTTAATGAAAAA
1 CAACCAAATTTAATCAAAGGTATACTCGAATATAAATAATATACGTATACTCATTTAATGAAAAA
13446438 CTTAAGTTTCATAAAGCAATTTATACATATATATATCCGTGTCAATTTAGTAAAT
66 CTTAAGTTTCATAAAGCAATTTATACATATATATATCCGTGTCAATTTAGTAAAT
13446493 CAACCAAATTT-ATCAAAGGTATACTCGAATATAAATAATATACGTATACTCATTTAATG-AAAA
1 CAACCAAATTTAATCAAAGGTATACTCGAATATAAATAATATACGTATACTCATTTAATGAAAAA
*
13446556 CTTAAGTTTCATAAAGCAATTTATACATTTATATATCCGTGTCAATTTAGTAAAT
66 CTTAAGTTTCATAAAGCAATTTATACATATATATATCCGTGTCAATTTAGTAAAT
13446611 C
1 C
13446612 TTATATACAT
Statistics
Matches: 118, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
118 59 0.50
119 48 0.41
120 11 0.09
ACGTcount: A:0.43, C:0.14, G:0.08, T:0.35
Consensus pattern (120 bp):
CAACCAAATTTAATCAAAGGTATACTCGAATATAAATAATATACGTATACTCATTTAATGAAAAA
CTTAAGTTTCATAAAGCAATTTATACATATATATATCCGTGTCAATTTAGTAAAT
Found at i:13449141 original size:24 final size:22
Alignment explanation
Indices: 13449112--13449228 Score: 109
Period size: 24 Copynumber: 5.2 Consensus size: 22
13449102 TTTACCTGTA
*
13449112 CTTCTTTTTTCTTCCTTTCCTCTT
1 CTTCTTTCTTC-TCCTTTCCT-TT
13449136 CTTC-TTCTTCTCCTTT-CTTT
1 CTTCTTTCTTCTCCTTTCCTTT
*
13449156 -TTCTTTCTTCTCCTTTCTTTTT
1 CTTCTTTCTTCTCCTTTC-CTTT
13449178 CTTTCTTTCTTCTCCTTTCCTTTT
1 C-TTCTTTCTTCTCCTTTCC-TTT
*
13449202 CTTTCTTT-TTCTTTCTTT-CTTT
1 C-TTCTTTCTTC-TCCTTTCCTTT
13449224 CTTCT
1 CTTCT
13449229 CTTGTCCCTC
Statistics
Matches: 82, Mismatches: 4, Indels: 17
0.80 0.04 0.17
Matches are distributed among these distances:
19 3 0.04
20 14 0.17
21 6 0.07
22 13 0.16
23 9 0.11
24 37 0.45
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (22 bp):
CTTCTTTCTTCTCCTTTCCTTT
Found at i:13449145 original size:20 final size:23
Alignment explanation
Indices: 13449124--13449228 Score: 111
Period size: 24 Copynumber: 4.9 Consensus size: 23
13449114 TCTTTTTTCT
*
13449124 TCCTTTCCTCTTC-TTCTTCTTC
1 TCCTTTCCTTTTCTTTCTTCTTC
*
13449146 TCCTTT-CTTTT-TCT-TTCTTC
1 TCCTTTCCTTTTCTTTCTTCTTC
*
13449166 TCCTTTCTTTTTCTTTCTTTCTTC
1 TCCTTTCCTTTTCTTTC-TTCTTC
13449190 TCCTTTCCTTTTCTTTCTT-TT-
1 TCCTTTCCTTTTCTTTCTTCTTC
13449211 T-CTTT-C-TTTCTTTCTTCT
1 TCCTTTCCTTTTCTTTCTTCT
13449229 CTTGTCCCTC
Statistics
Matches: 72, Mismatches: 5, Indels: 15
0.78 0.05 0.16
Matches are distributed among these distances:
18 10 0.14
19 2 0.03
20 16 0.22
21 10 0.14
22 10 0.14
23 2 0.03
24 22 0.31
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (23 bp):
TCCTTTCCTTTTCTTTCTTCTTC
Found at i:13449161 original size:10 final size:10
Alignment explanation
Indices: 13449148--13449219 Score: 81
Period size: 10 Copynumber: 6.8 Consensus size: 10
13449138 TCTTCTTCTC
13449148 CTTTCTTTTT
1 CTTTCTTTTT
* *
13449158 CTTTCTTCTC
1 CTTTCTTTTT
13449168 CTTTCTTTTT
1 CTTTCTTTTT
13449178 CTTTCTTTCTTCT
1 CTTTC-TT-TT-T
*
13449191 CCTTTCCTTTT
1 -CTTTCTTTTT
13449202 CTTTCTTTTT
1 CTTTCTTTTT
13449212 CTTTCTTT
1 CTTTCTTT
13449220 CTTTCTTCTC
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
10 38 0.73
11 3 0.06
12 4 0.08
13 2 0.04
14 5 0.10
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (10 bp):
CTTTCTTTTT
Found at i:13449196 original size:34 final size:32
Alignment explanation
Indices: 13449119--13449224 Score: 89
Period size: 34 Copynumber: 3.4 Consensus size: 32
13449109 GTACTTCTTT
* *
13449119 TTTCTTCCTTTCC--TCTTCTTC-TTCTTCTCC
1 TTTCTTCCTTTCCTTTCTT-TTCTTTCTTTTTC
*
13449149 TTTCTT--TTT-CTTTCTTCTCCTTTCTTTTTC
1 TTTCTTCCTTTCCTTTCTT-TTCTTTCTTTTTC
*
13449179 TTTCTTTCTTCTCCTTTCCTTTTCTTTCTTTTTC
1 TTTCTTCCTT-TCCTTT-CTTTTCTTTCTTTTTC
*
13449213 TTTCTTTCTTTC
1 TTTCTTCCTTTC
13449225 TTCTCTTGTC
Statistics
Matches: 64, Mismatches: 4, Indels: 13
0.79 0.05 0.16
Matches are distributed among these distances:
27 1 0.02
28 3 0.05
29 7 0.11
30 19 0.30
32 2 0.03
33 3 0.05
34 26 0.41
35 3 0.05
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (32 bp):
TTTCTTCCTTTCCTTTCTTTTCTTTCTTTTTC
Found at i:13449246 original size:44 final size:43
Alignment explanation
Indices: 13449117--13449248 Score: 140
Period size: 44 Copynumber: 3.0 Consensus size: 43
13449107 CTGTACTTCT
* *
13449117 TTTTTCTTCCTTTCCTCTTCTTCTTCTTCTCCTTTCTTTTTCTTTC
1 TTTTTCTTTCTTT-CT-TTCTTC-TCTTCTCCTTTCATTTTCTTTC
* * *
13449163 TTCTCCTTTCTTTTTCTTTCTT-TCTTCTCCTTTCCTTTTCTTTC
1 TTTTTCTTTC--TTTCTTTCTTCTCTTCTCCTTTCATTTTCTTTC
* *
13449207 TTTTTCTTTCTTTCTTTCTTCTCTTGTCCCTCTCATTTTCTT
1 TTTTTCTTTCTTTCTTTCTTCTCTTCT-CCTTTCATTTTCTT
13449249 CTCCACCCAC
Statistics
Matches: 73, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
42 10 0.14
43 5 0.07
44 41 0.56
46 12 0.16
47 2 0.03
48 3 0.04
ACGTcount: A:0.01, C:0.31, G:0.01, T:0.67
Consensus pattern (43 bp):
TTTTTCTTTCTTTCTTTCTTCTCTTCTCCTTTCATTTTCTTTC
Found at i:13451058 original size:3 final size:3
Alignment explanation
Indices: 13451018--13451049 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
13451008 TTAAAAAATG
*
13451018 TCT TCT TCT TCT TCT TCT TCT TTT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
13451050 ACCTTCTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TCT
Found at i:13452860 original size:21 final size:21
Alignment explanation
Indices: 13452836--13452875 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
13452826 TTTTCTAAAT
13452836 TTAAAA-GTCAAAACCATTAAG
1 TTAAAACG-CAAAACCATTAAG
13452857 TTAAAACGCAAAACCATTA
1 TTAAAACGCAAAACCATTA
13452876 TATTATTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.53, C:0.17, G:0.07, T:0.23
Consensus pattern (21 bp):
TTAAAACGCAAAACCATTAAG
Found at i:13454801 original size:146 final size:146
Alignment explanation
Indices: 13454530--13454804 Score: 489
Period size: 146 Copynumber: 1.9 Consensus size: 146
13454520 AAAATATTTT
*
13454530 TTTAGTGTTCATTATTATATTATATTGACAATTGACTAGCTTTTTATCATTCTTACTAAATTCAT
1 TTTAGTGTTCATTATTATATTATATTGACAATTGACTAACTTTTTATCATTCTTACTAAATTCAT
* * *
13454595 AAACATAATACCCATATTCTAAAATGTTTAGTCCAAAATCAAAATATATTATACTAAGCCCAAAC
66 AAACATAATACCCATATTCTAAAATATTTAGTCCAAAATCAAAATAAACTATACTAAGCCCAAAC
13454660 CTAAATAATATACTCA
131 CTAAATAATATACTCA
13454676 TTTAGTGTTCATTATTATATTATATTGACAATTGACTAACTTTTTATCATTCTTACTAAATTCAT
1 TTTAGTGTTCATTATTATATTATATTGACAATTGACTAACTTTTTATCATTCTTACTAAATTCAT
*
13454741 AAACATAATACCCATATTCTAAAATATTTAGTCCAAAATCAAAATAAACTA-ATTATAGCCCAAA
66 AAACATAATACCCATATTCTAAAATATTTAGTCCAAAATCAAAATAAACTATACTA-AGCCCAAA
13454805 TCTCAAGTCC
Statistics
Matches: 123, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
145 3 0.02
146 120 0.98
ACGTcount: A:0.40, C:0.16, G:0.05, T:0.39
Consensus pattern (146 bp):
TTTAGTGTTCATTATTATATTATATTGACAATTGACTAACTTTTTATCATTCTTACTAAATTCAT
AAACATAATACCCATATTCTAAAATATTTAGTCCAAAATCAAAATAAACTATACTAAGCCCAAAC
CTAAATAATATACTCA
Done.