Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168026.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_28, whole genome shotgun sequence
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: 15507587
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 37 of 91
Found at i:6249344 original size:4 final size:4
Alignment explanation
Indices: 6249335--6249368 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
6249325 CTTTTTTAAG
* *
6249335 ATTA ATTA ATTA ATCA GTTA ATTA ATTA ATTA AT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA AT
6249369 AATAATAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (4 bp):
ATTA
Found at i:6249373 original size:3 final size:3
Alignment explanation
Indices: 6249365--6249404 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
6249355 ATTAATTAAT
6249365 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
6249405 TTGGTGCCTA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:6251415 original size:227 final size:226
Alignment explanation
Indices: 6251020--6251479 Score: 785
Period size: 227 Copynumber: 2.0 Consensus size: 226
6251010 AAGCTCTGCC
* *
6251020 AATCATCTTCAAGTTGAAATAAATCAAGATTGAAAGATCCAAGTAGCCAATCTTGAGCATAAATA
1 AATCATCTTCAAGTTGAAATAAATCAAGATTAAAAGATCCAAGTAGCCAATCTTAAGCATAAATA
6251085 AGGGATTACACCATCTTAAGAGTTAAGAACTCTTATATACATCAAGCACATGACCACTACTGTTA
66 AGGGATTACACCATCTTAAGAGTTAAGAACTCTTATATACATCAAGCACATGACCACTACTGTTA
* *
6251150 AAAATAGAAGCAATTGTGGATATGAGATTTATTAATACATCATAAGCTAGATAAGAAAAGATAGG
131 AAAATAGAAGCAATTATGGATATGAGATTTATTAATACATCATAAGCTAGATAAGAAAAGATA-A
*
6251215 AAACCTATGGTTATTGAATTTCTACCAAGTTA
195 AAACCAATGGTTATTGAATTTCTACCAAGTTA
* *
6251247 AATCATCTTTAAGTTGAAATAAATGAAGATTAAAAGATCCAAGTAGCCAATCTTAAGCATAAATA
1 AATCATCTTCAAGTTGAAATAAATCAAGATTAAAAGATCCAAGTAGCCAATCTTAAGCATAAATA
* * *
6251312 AGGGTTTGCACCATCTTAAGAGTTAAGAACTCTTATATACATCAAGCACATGACCACTAGTGTTA
66 AGGGATTACACCATCTTAAGAGTTAAGAACTCTTATATACATCAAGCACATGACCACTACTGTTA
* *
6251377 AAAATAGAAGTAATTATGGATATGAGATTTATTAATACATCATAAGCTAGATAAGAAAGGATAAA
131 AAAATAGAAGCAATTATGGATATGAGATTTATTAATACATCATAAGCTAGATAAGAAAAGATAAA
*
6251442 AACCAATGGTTATTGAGTTTCTACCAAGTTA
196 AACCAATGGTTATTGAATTTCTACCAAGTTA
*
6251473 AAACATC
1 AATCATC
6251480 AAAGTCATCA
Statistics
Matches: 219, Mismatches: 14, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
226 36 0.16
227 183 0.84
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.28
Consensus pattern (226 bp):
AATCATCTTCAAGTTGAAATAAATCAAGATTAAAAGATCCAAGTAGCCAATCTTAAGCATAAATA
AGGGATTACACCATCTTAAGAGTTAAGAACTCTTATATACATCAAGCACATGACCACTACTGTTA
AAAATAGAAGCAATTATGGATATGAGATTTATTAATACATCATAAGCTAGATAAGAAAAGATAAA
AACCAATGGTTATTGAATTTCTACCAAGTTA
Found at i:6252293 original size:67 final size:67
Alignment explanation
Indices: 6252196--6252327 Score: 255
Period size: 67 Copynumber: 2.0 Consensus size: 67
6252186 AAATTGAAGC
6252196 AAATATAGGAACTAGGATACATATTGTTGTTCAAAGAAGTCATATTATCTTGATAAAAAATACAC
1 AAATATAGGAACTAGGATACATATTGTTGTTCAAAGAAGTCATATTATCTTGATAAAAAATACAC
6252261 TA
66 TA
*
6252263 AAATATAGGAACTAGGATACATATTGTTGTTCAAAGAAGTCATATTATCTTGATAACAAATACAC
1 AAATATAGGAACTAGGATACATATTGTTGTTCAAAGAAGTCATATTATCTTGATAAAAAATACAC
6252328 GAAACTAGGA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
67 64 1.00
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.31
Consensus pattern (67 bp):
AAATATAGGAACTAGGATACATATTGTTGTTCAAAGAAGTCATATTATCTTGATAAAAAATACAC
TA
Found at i:6255058 original size:22 final size:22
Alignment explanation
Indices: 6255033--6255074 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
6255023 TGTGCATGAC
*
6255033 TAATTATTGTATTTTAAATTTA
1 TAATTATTATATTTTAAATTTA
* *
6255055 TAATTTTTATGTTTTAAATT
1 TAATTATTATATTTTAAATT
6255075 AGAGCTTTCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (22 bp):
TAATTATTATATTTTAAATTTA
Found at i:6264732 original size:22 final size:20
Alignment explanation
Indices: 6264703--6264757 Score: 65
Period size: 23 Copynumber: 2.6 Consensus size: 20
6264693 GTTGGATTGA
*
6264703 TAAAATTTTTATAATTTTATT
1 TAAAATTTTTATAATTGTA-T
6264724 TAAAGATTTTTTATAATTGTAT
1 TAAA-A-TTTTTATAATTGTAT
*
6264746 TAAAAATTTTAT
1 TAAAATTTTTAT
6264758 TCTAAACTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
20 6 0.20
21 5 0.17
22 6 0.20
23 13 0.43
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (20 bp):
TAAAATTTTTATAATTGTAT
Found at i:6264738 original size:23 final size:22
Alignment explanation
Indices: 6264704--6264755 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
6264694 TTGGATTGAT
*
6264704 AAAA-TTTTTATAATTTTATTTA
1 AAAATTTTTTATAATTGTA-TTA
*
6264726 AAGATTTTTTATAATTGTATTA
1 AAAATTTTTTATAATTGTATTA
6264748 AAAATTTT
1 AAAATTTT
6264756 ATTCTAAACT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 13 0.50
23 13 0.50
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (22 bp):
AAAATTTTTTATAATTGTATTA
Found at i:6265039 original size:56 final size:57
Alignment explanation
Indices: 6264970--6265087 Score: 211
Period size: 56 Copynumber: 2.1 Consensus size: 57
6264960 TATTATTGTT
*
6264970 TTTATTTATTTTAATTTTGTGAAATTTTATAGCATTTATATA-TTTTATTATATATA
1 TTTATTTATTTTAATTTTGTGAAATTTTATAACATTTATATATTTTTATTATATATA
6265026 TTTATTTATTTTAATTTTGTGAAATTTTATAACATTTATATATTTTTTATTATATATA
1 TTTATTTATTTTAATTTTGTGAAATTTTATAACATTTATATA-TTTTTATTATATATA
6265084 TTTA
1 TTTA
6265088 CTTAAGAATA
Statistics
Matches: 59, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
56 41 0.69
58 18 0.31
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (57 bp):
TTTATTTATTTTAATTTTGTGAAATTTTATAACATTTATATATTTTTATTATATATA
Found at i:6265272 original size:22 final size:22
Alignment explanation
Indices: 6265247--6265289 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
6265237 TTCTCAAGTT
*
6265247 TAATTTTTATT-TTATTATTTTG
1 TAATCTTTATTGTT-TTATTTTG
*
6265269 TAATCTTTGTTGTTTTATTTT
1 TAATCTTTATTGTTTTATTTT
6265290 ATTTTTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.19, C:0.02, G:0.07, T:0.72
Consensus pattern (22 bp):
TAATCTTTATTGTTTTATTTTG
Found at i:6265430 original size:24 final size:24
Alignment explanation
Indices: 6265393--6265453 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 24
6265383 AGTTTTTATG
6265393 TTTATTTA-TTTTTTTATCTTTTGT
1 TTTATTTATTTTTTTTAT-TTTTGT
6265417 TTTA-TTATTATTTTTTATTTTTGT
1 TTTATTTATT-TTTTTTATTTTTGT
**
6265441 TTTAAATATTTTT
1 TTTATTTATTTTT
6265454 AGAATTTTCT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
23 3 0.09
24 18 0.55
25 12 0.36
ACGTcount: A:0.18, C:0.02, G:0.03, T:0.77
Consensus pattern (24 bp):
TTTATTTATTTTTTTTATTTTTGT
Found at i:6265450 original size:25 final size:25
Alignment explanation
Indices: 6265402--6265453 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 25
6265392 GTTTATTTAT
*
6265402 TTTTTTATCTTTTGTTTTATTATTA
1 TTTTTTATCTTTTGTTTTAATATTA
6265427 TTTTTTAT-TTTTGTTTTAA-A-TA
1 TTTTTTATCTTTTGTTTTAATATTA
6265449 TTTTT
1 TTTTT
6265454 AGAATTTTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 7 0.27
23 1 0.04
24 10 0.38
25 8 0.31
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.77
Consensus pattern (25 bp):
TTTTTTATCTTTTGTTTTAATATTA
Found at i:6265559 original size:11 final size:11
Alignment explanation
Indices: 6265543--6265588 Score: 51
Period size: 11 Copynumber: 4.1 Consensus size: 11
6265533 CAAAAATTTA
6265543 TTATTATTATT
1 TTATTATTATT
6265554 TTATTATTAATT
1 TTATTATT-ATT
6265566 TTA-TATTTATAT
1 TTATTA-TTAT-T
6265578 TTATT-TTATT
1 TTATTATTATT
6265588 T
1 T
6265589 ATTCCTTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
10 2 0.06
11 16 0.52
12 12 0.39
13 1 0.03
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TTATTATTATT
Found at i:6265562 original size:17 final size:16
Alignment explanation
Indices: 6265540--6265588 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 16
6265530 GTTCAAAAAT
6265540 TTATTATTATTATTTTA
1 TTATTATT-TTATTTTA
6265557 TTATTAATTTTATATTTA
1 TTATT-ATTTTAT-TTTA
6265575 -TATTTATTTTATTT
1 TTA-TTATTTTATTT
6265589 ATTCCTTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
16 2 0.07
17 18 0.62
18 9 0.31
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTATTATTTTATTTTA
Found at i:6265709 original size:16 final size:16
Alignment explanation
Indices: 6265663--6265711 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
6265653 AAATTATGTA
* *
6265663 AATAAATTTTAATTTA
1 AATAAATTTAAATTTT
* *
6265679 AAT-ATTTTATATTTT
1 AATAAATTTAAATTTT
6265694 AATAAATTTAAATTTT
1 AATAAATTTAAATTTT
6265710 AA
1 AA
6265712 ACATGCATAT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
15 11 0.42
16 15 0.58
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
AATAAATTTAAATTTT
Found at i:6267412 original size:14 final size:14
Alignment explanation
Indices: 6267395--6267422 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6267385 AAATATATAA
6267395 CTTGTATATGATAC
1 CTTGTATATGATAC
6267409 CTTGTATATGATAC
1 CTTGTATATGATAC
6267423 AAATTGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (14 bp):
CTTGTATATGATAC
Found at i:6272526 original size:24 final size:24
Alignment explanation
Indices: 6272499--6272570 Score: 69
Period size: 24 Copynumber: 3.0 Consensus size: 24
6272489 TATTATTTCA
6272499 TTATTTTTGTTATTTATTTTTATT
1 TTATTTTTGTTATTTATTTTTATT
*
6272523 TTATTTTTCAGTT-TCTA-TTTTAGTT
1 TTATTTTT--GTTATTTATTTTTA-TT
*
6272548 TCTATTTGTGTTA-TTATTTTTAT
1 T-TATTTTTGTTATTTATTTTTAT
6272571 GTTCTTTGGT
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
24 19 0.49
25 11 0.28
26 9 0.23
ACGTcount: A:0.17, C:0.04, G:0.07, T:0.72
Consensus pattern (24 bp):
TTATTTTTGTTATTTATTTTTATT
Found at i:6273491 original size:5 final size:6
Alignment explanation
Indices: 6273472--6273570 Score: 78
Period size: 6 Copynumber: 16.5 Consensus size: 6
6273462 AGATCATAGG
* * * *
6273472 TTTATT TTTATT TTTATT TTTATT ATAAGAT TTTATTT TTTATT TTGATT
1 TTTATT TTTATT TTTATT TTTATT TTTA-TT TTTA-TT TTTATT TTTATT
* * * *
6273522 TTAATT TTAATT TTT-TGT TTTATT TTGATT TTT-TT GTT-TT TTTATT
1 TTTATT TTTATT TTTAT-T TTTATT TTTATT TTTATT TTTATT TTTATT
6273568 TTT
1 TTT
6273571 TATTAATTGT
Statistics
Matches: 75, Mismatches: 14, Indels: 8
0.77 0.14 0.08
Matches are distributed among these distances:
5 9 0.12
6 57 0.76
7 9 0.12
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (6 bp):
TTTATT
Found at i:6273555 original size:19 final size:18
Alignment explanation
Indices: 6273502--6273571 Score: 74
Period size: 19 Copynumber: 3.9 Consensus size: 18
6273492 TATTATAAGA
*
6273502 TTTTATTTT-TTATTTTG
1 TTTTATTTTATTTTTTTG
*
6273519 ATTTTAATTTTAATTTTTTG
1 -TTTT-ATTTTATTTTTTTG
6273539 TTTTATTTTGATTTTTTTG
1 TTTTATTTT-ATTTTTTTG
6273558 -TTT-TTTTATTTTTT
1 TTTTATTTTATTTTTT
6273572 ATTAATTGTG
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
16 7 0.15
17 4 0.09
18 12 0.26
19 17 0.37
20 6 0.13
ACGTcount: A:0.14, C:0.00, G:0.06, T:0.80
Consensus pattern (18 bp):
TTTTATTTTATTTTTTTG
Found at i:6281079 original size:36 final size:36
Alignment explanation
Indices: 6281039--6281111 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
6281029 GTGTTGTTAA
*
6281039 AAATCAAAGAAGAAATAAAAAAAGTAATATAACACT
1 AAATCAAAGAAGAAATAAAAAAAGCAATATAACACT
6281075 AAATCAAAGAAGAAATAAAAAAAGCAATATAACACT
1 AAATCAAAGAAGAAATAAAAAAAGCAATATAACACT
6281111 A
1 A
6281112 TTTTTCTCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.67, C:0.10, G:0.08, T:0.15
Consensus pattern (36 bp):
AAATCAAAGAAGAAATAAAAAAAGCAATATAACACT
Found at i:6284180 original size:22 final size:21
Alignment explanation
Indices: 6284155--6284198 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
6284145 GTGAAAACCC
*
6284155 AAAAGGATAGTTTAAGTAAAAA
1 AAAAGGATA-TCTAAGTAAAAA
*
6284177 AAAAGGATATCTAAGTTAAAA
1 AAAAGGATATCTAAGTAAAAA
6284198 A
1 A
6284199 CCTGAAAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.59, C:0.02, G:0.16, T:0.23
Consensus pattern (21 bp):
AAAAGGATATCTAAGTAAAAA
Found at i:6284895 original size:18 final size:18
Alignment explanation
Indices: 6284869--6284967 Score: 58
Period size: 18 Copynumber: 5.3 Consensus size: 18
6284859 AATTGCATGT
*
6284869 ATTGTATTCATTACATTC
1 ATTGCATTCATTACATTC
*
6284887 ATTGCATTCATCACATTTTGC
1 ATTGCATTCATTACA--TT-C
* * *
6284908 A-TGCATTGTATTAAATAC
1 ATTGCATT-CATTACATTC
* * *
6284926 ATAGCATTCATCATATTC
1 ATTGCATTCATTACATTC
*
6284944 ATT-CATTACATTTCATTC
1 ATTGCATT-CATTACATTC
6284962 ATTGCA
1 ATTGCA
6284968 CATGTTTGAA
Statistics
Matches: 59, Mismatches: 15, Indels: 13
0.68 0.17 0.15
Matches are distributed among these distances:
17 4 0.07
18 33 0.56
19 8 0.14
20 8 0.14
21 6 0.10
ACGTcount: A:0.30, C:0.19, G:0.07, T:0.43
Consensus pattern (18 bp):
ATTGCATTCATTACATTC
Found at i:6285560 original size:43 final size:41
Alignment explanation
Indices: 6285433--6285575 Score: 106
Period size: 44 Copynumber: 3.3 Consensus size: 41
6285423 ATGAATTTTT
* *
6285433 AAAGTTTCAAAGCCTATGTTGAGGGGGAGCCTTTTCAATTTCC
1 AAAGTTTCAAAG-TTATGTTGAGGGGGAG-CTTTTAAATTTCC
* * * ** * *
6285476 TAAAGTTTCAAACCTTTTATTGAAAGGAAGCTATTTTAATTTCC
1 -AAAGTTTCAAA-GTTATGTTGAGGGGGAGCT-TTTAAATTTCC
*
6285520 AAAGTTTCAAAGTATCTGTTGAGGGGGAGTCTTTTAAATTTCTC
1 AAAGTTTCAAAGT-TATGTTGAGGGGGAG-CTTTTAAATTTC-C
**
6285564 AGTGTTTCAAAG
1 AAAGTTTCAAAG
6285576 CCTTTTGAGG
Statistics
Matches: 77, Mismatches: 17, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
42 1 0.01
43 32 0.42
44 44 0.57
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (41 bp):
AAAGTTTCAAAGTTATGTTGAGGGGGAGCTTTTAAATTTCC
Found at i:6285782 original size:8 final size:8
Alignment explanation
Indices: 6285769--6285796 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
6285759 TTGATAATGG
6285769 ATTGTGCA
1 ATTGTGCA
6285777 ATTGTGCA
1 ATTGTGCA
6285785 ATTGTGCA
1 ATTGTGCA
6285793 ATTG
1 ATTG
6285797 GACTTTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.25, C:0.11, G:0.25, T:0.39
Consensus pattern (8 bp):
ATTGTGCA
Found at i:6285895 original size:18 final size:19
Alignment explanation
Indices: 6285869--6285951 Score: 73
Period size: 19 Copynumber: 4.4 Consensus size: 19
6285859 TATTATTTCA
*
6285869 TTATCTTGTTTTTTA-TTT
1 TTATTTTGTTTTTTAGTTT
6285887 TTATTTTGTTTTTTAGTTT
1 TTATTTTGTTTTTTAGTTT
* *
6285906 CTATTTTAG-TTTTTAGGTT
1 TTATTTT-GTTTTTTAGTTT
* *
6285925 TTATTATT-TTTATATATTTT
1 TTATT-TTGTTT-TTTAGTTT
6285945 TTATTTT
1 TTATTTT
6285952 TATCATGCGG
Statistics
Matches: 53, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
18 14 0.26
19 26 0.49
20 13 0.25
ACGTcount: A:0.16, C:0.02, G:0.07, T:0.75
Consensus pattern (19 bp):
TTATTTTGTTTTTTAGTTT
Found at i:6285929 original size:19 final size:18
Alignment explanation
Indices: 6285869--6285929 Score: 70
Period size: 18 Copynumber: 3.3 Consensus size: 18
6285859 TATTATTTCA
* *
6285869 TTATCTTGTTTTTTATTT
1 TTATTTTGTTTTTTAGTT
6285887 TTATTTTGTTTTTTAGTT
1 TTATTTTGTTTTTTAGTT
6285905 TCTATTTTAG-TTTTTAGGTT
1 T-TATTTT-GTTTTTTA-GTT
6285925 TTATT
1 TTATT
6285930 ATTTTTATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
18 17 0.45
19 16 0.42
20 5 0.13
ACGTcount: A:0.13, C:0.03, G:0.10, T:0.74
Consensus pattern (18 bp):
TTATTTTGTTTTTTAGTT
Found at i:6287018 original size:26 final size:26
Alignment explanation
Indices: 6286989--6287064 Score: 107
Period size: 26 Copynumber: 2.9 Consensus size: 26
6286979 CATGATTTTT
* *
6286989 ATTATGACATTTTTGTATAATTTTGG
1 ATTATGATATTTTTGTATAATTTTGC
*
6287015 ATTATGATATTTTTGTATGATTTTGC
1 ATTATGATATTTTTGTATAATTTTGC
*
6287041 ATTATGATATTTTTGCATGAATTT
1 ATTATGATATTTTTGTAT-AATTT
6287065 AATTTATTCG
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
26 40 0.91
27 4 0.09
ACGTcount: A:0.26, C:0.04, G:0.14, T:0.55
Consensus pattern (26 bp):
ATTATGATATTTTTGTATAATTTTGC
Found at i:6287071 original size:26 final size:26
Alignment explanation
Indices: 6286971--6287068 Score: 85
Period size: 26 Copynumber: 3.8 Consensus size: 26
6286961 TTTTATAGTT
* **
6286971 TATTTTTTCATG-ATTTTTATTATGA
1 TATTTTTGCATGAATTTGAATTATGA
* * *
6286996 CATTTTTGTAT-AATTTTGGATTATGA
1 TATTTTTGCATGAA-TTTGAATTATGA
* * *
6287022 TATTTTTGTATGATTTTGCATTATGA
1 TATTTTTGCATGAATTTGAATTATGA
6287048 TATTTTTGCATGAATTT-AATT
1 TATTTTTGCATGAATTTGAATT
6287069 TATTCGCATG
Statistics
Matches: 59, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
25 12 0.20
26 46 0.78
27 1 0.02
ACGTcount: A:0.26, C:0.04, G:0.12, T:0.58
Consensus pattern (26 bp):
TATTTTTGCATGAATTTGAATTATGA
Found at i:6295430 original size:21 final size:20
Alignment explanation
Indices: 6295404--6295452 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
6295394 CGCCAACACG
* *
6295404 CTTCTTCTTTATCACCATCAT
1 CTTCTTCTCT-TCAACATCAT
6295425 CTTCTTCCTCTTCAACATCAT
1 CTTCTT-CTCTTCAACATCAT
6295446 CTTCTTC
1 CTTCTTC
6295453 AAGCTCACTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 1 0.04
21 21 0.84
22 3 0.12
ACGTcount: A:0.16, C:0.37, G:0.00, T:0.47
Consensus pattern (20 bp):
CTTCTTCTCTTCAACATCAT
Found at i:6297382 original size:21 final size:19
Alignment explanation
Indices: 6297343--6297391 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 19
6297333 ATTCAAAAGC
6297343 TTAATTAAATTTTTATATT
1 TTAATTAAATTTTTATATT
*
6297362 TTAATGTATATTTTTATTATT
1 TTAAT-TAAATTTTTA-TATT
6297383 TTAATTAAA
1 TTAATTAAA
6297392 AAAACTATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 5 0.19
20 12 0.46
21 9 0.35
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (19 bp):
TTAATTAAATTTTTATATT
Found at i:6297641 original size:25 final size:25
Alignment explanation
Indices: 6297592--6297640 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
6297582 ATCGAGTTCA
6297592 AATCGAATTTCGAACAATAAATTTTG
1 AATCGAATTTCGAAC-ATAAATTTTG
6297618 AATCGAA-TTCGAAC-TCAAATTTT
1 AATCGAATTTCGAACAT-AAATTTT
6297641 TCGTTATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 1 0.05
24 7 0.32
25 7 0.32
26 7 0.32
ACGTcount: A:0.41, C:0.14, G:0.10, T:0.35
Consensus pattern (25 bp):
AATCGAATTTCGAACATAAATTTTG
Found at i:6302717 original size:20 final size:19
Alignment explanation
Indices: 6302688--6302727 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
6302678 TTTATTATGA
6302688 TTTATATATTTGAATAAAT
1 TTTATATATTTGAATAAAT
*
6302707 TTTATTATATTTTAATAAAT
1 TTTA-TATATTTGAATAAAT
6302727 T
1 T
6302728 AATACTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (19 bp):
TTTATATATTTGAATAAAT
Found at i:6310886 original size:2 final size:2
Alignment explanation
Indices: 6310873--6310908 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
6310863 TTAGTGTATG
*
6310873 TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6310909 ACTTTTTATC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6312786 original size:68 final size:66
Alignment explanation
Indices: 6312658--6312789 Score: 178
Period size: 68 Copynumber: 2.0 Consensus size: 66
6312648 GTGATAATTG
**
6312658 ATTTTTTGAGCTTTCTTTACCGTTTTTTTTTCTTCAATTTAAAAGTAATATTTATCAATTAATTA
1 ATTTTTTGAGCTTTCTTTACCGTTTTTTTTTCTTCAATTTAAAAACAATATTTATCAATTAATTA
6312723 T
66 T
* *
6312724 ATTTTCTTG-GCTTTCTTTAACC-TTTTTGTTTTCTTCGATTTTAAAAACAATATTTATTAATTA
1 ATTTT-TTGAGCTTTCTTT-ACCGTTTTT-TTTTCTTC-AATTTAAAAACAATATTTATCAATTA
6312787 ATT
62 ATT
6312790 GTTTATCTTT
Statistics
Matches: 58, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
66 19 0.33
67 14 0.24
68 25 0.43
ACGTcount: A:0.27, C:0.11, G:0.06, T:0.56
Consensus pattern (66 bp):
ATTTTTTGAGCTTTCTTTACCGTTTTTTTTTCTTCAATTTAAAAACAATATTTATCAATTAATTA
T
Found at i:6317456 original size:33 final size:33
Alignment explanation
Indices: 6317409--6317485 Score: 127
Period size: 33 Copynumber: 2.3 Consensus size: 33
6317399 TAATTTGTTA
* *
6317409 ATAATCAAATTTAAACTACAAAAAAATAACATG
1 ATAAACAAATTTAAACTACAAAAAAATAACACG
6317442 ATAAACAAATTTAAACTACAAAAAAATAACACG
1 ATAAACAAATTTAAACTACAAAAAAATAACACG
*
6317475 ATAAAAAAATT
1 ATAAACAAATT
6317486 ATTAAAAGGC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.64, C:0.12, G:0.03, T:0.22
Consensus pattern (33 bp):
ATAAACAAATTTAAACTACAAAAAAATAACACG
Found at i:6317482 original size:16 final size:16
Alignment explanation
Indices: 6317428--6317484 Score: 53
Period size: 16 Copynumber: 3.5 Consensus size: 16
6317418 TTTAAACTAC
*
6317428 AAAAAAATAACATGAT
1 AAAAAAATAACACGAT
* * *
6317444 AAACAAATTTAA-ACTAC
1 AAA-AAA-ATAACACGAT
6317461 AAAAAAATAACACGAT
1 AAAAAAATAACACGAT
6317477 AAAAAAAT
1 AAAAAAAT
6317485 TATTAAAAGG
Statistics
Matches: 31, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
15 3 0.10
16 17 0.55
17 8 0.26
18 3 0.10
ACGTcount: A:0.68, C:0.11, G:0.04, T:0.18
Consensus pattern (16 bp):
AAAAAAATAACACGAT
Found at i:6320595 original size:2 final size:2
Alignment explanation
Indices: 6320588--6320617 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
6320578 ATAAATTCAA
6320588 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6320618 ACAAACCCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6323027 original size:2 final size:2
Alignment explanation
Indices: 6323020--6323063 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
6323010 TATCAAATTC
*
6323020 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6323062 TA
1 TA
6323064 GAACTGCTGA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6329043 original size:21 final size:21
Alignment explanation
Indices: 6329019--6329064 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
6329009 TTTATATAAT
6329019 TAAAAT-TTATAAATAATTTTA
1 TAAAATATTAT-AATAATTTTA
* *
6329040 TAAAATATTATTATATTTTTA
1 TAAAATATTATAATAATTTTA
6329061 TAAA
1 TAAA
6329065 TGAAATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TAAAATATTATAATAATTTTA
Found at i:6329203 original size:19 final size:21
Alignment explanation
Indices: 6329179--6329222 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
6329169 AATATGATTA
6329179 AAAATA-AA-TATTACCAATG
1 AAAATAGAATTATTACCAATG
*
6329198 AAAATAGTAATTATTATCAATG
1 AAAATAG-AATTATTACCAATG
6329220 AAA
1 AAA
6329223 TTTTAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 6 0.29
21 2 0.10
22 13 0.62
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.30
Consensus pattern (21 bp):
AAAATAGAATTATTACCAATG
Found at i:6329229 original size:21 final size:22
Alignment explanation
Indices: 6329187--6329236 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
6329177 TAAAAATAAA
*
6329187 TATTACCAATGAAAATAGTAAT
1 TATTATCAATGAAAATAGTAAT
**
6329209 TATTATCAATG-AAATTTTAAT
1 TATTATCAATGAAAATAGTAAT
6329230 TATTATC
1 TATTATC
6329237 GACGGATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.42
Consensus pattern (22 bp):
TATTATCAATGAAAATAGTAAT
Found at i:6330993 original size:18 final size:16
Alignment explanation
Indices: 6330951--6330993 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
6330941 AAAATAATAA
6330951 TTAATATTTTAAGTAT
1 TTAATATTTTAAGTAT
* *
6330967 TAAAAATTTTAAAAGTAT
1 TTAATATTTT--AAGTAT
6330985 TTAATATTT
1 TTAATATTT
6330994 AAAGAAATAA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
16 8 0.38
18 13 0.62
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (16 bp):
TTAATATTTTAAGTAT
Found at i:6332708 original size:7 final size:7
Alignment explanation
Indices: 6332696--6332739 Score: 72
Period size: 7 Copynumber: 6.4 Consensus size: 7
6332686 AAGAACATAT
6332696 AAAAATA
1 AAAAATA
6332703 AAAAATA
1 AAAAATA
6332710 AAAAAT-
1 AAAAATA
6332716 AAAAATA
1 AAAAATA
*
6332723 AAAAATT
1 AAAAATA
6332730 AAAAATA
1 AAAAATA
6332737 AAA
1 AAA
6332740 TTATAGAAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
6 6 0.18
7 28 0.82
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (7 bp):
AAAAATA
Found at i:6332719 original size:20 final size:20
Alignment explanation
Indices: 6332694--6332739 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
6332684 ATAAGAACAT
6332694 ATAAAAATAAAAAATAAAAA
1 ATAAAAATAAAAAATAAAAA
*
6332714 ATAAAAATAAAAAATTAAAA
1 ATAAAAATAAAAAATAAAAA
6332734 ATAAAA
1 ATAAAA
6332740 TTATAGAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (20 bp):
ATAAAAATAAAAAATAAAAA
Found at i:6334943 original size:22 final size:22
Alignment explanation
Indices: 6334915--6334958 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
6334905 CTAAATCTTC
*
6334915 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
6334937 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
6334959 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:6338822 original size:22 final size:22
Alignment explanation
Indices: 6338794--6338837 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
6338784 CTAAATCTTC
* *
6338794 CTTAATTTTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
6338816 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
6338838 TAAATATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.34
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:6341909 original size:66 final size:66
Alignment explanation
Indices: 6341803--6341992 Score: 308
Period size: 66 Copynumber: 2.9 Consensus size: 66
6341793 TACCATTAAA
*
6341803 ATCTTTATTTATCATATTTTCTGTTTCGACTACAGACAGACCTAGCTCTGTGATGCTCACTGTTA
1 ATCTTTATTTATCATATTTTCTGTTTCGACTACAGACAGACCTAGCTCTGTGATGCTCACCGTTA
6341868 C
66 C
* * * *
6341869 ATCTTTATTTATCATATTTTCTGTTTGGACTACAGACAGACATATCTCTGTGATGCTTACCGTTA
1 ATCTTTATTTATCATATTTTCTGTTTCGACTACAGACAGACCTAGCTCTGTGATGCTCACCGTTA
6341934 C
66 C
* * *
6341935 ATCTTTATTTATCATATTTTCTGTTTTGAATACAGACAGACCTAGCTTTGTGATGCTC
1 ATCTTTATTTATCATATTTTCTGTTTCGACTACAGACAGACCTAGCTCTGTGATGCTC
6341993 TTCTATCTTT
Statistics
Matches: 113, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
66 113 1.00
ACGTcount: A:0.24, C:0.20, G:0.14, T:0.43
Consensus pattern (66 bp):
ATCTTTATTTATCATATTTTCTGTTTCGACTACAGACAGACCTAGCTCTGTGATGCTCACCGTTA
C
Found at i:6350454 original size:18 final size:18
Alignment explanation
Indices: 6350427--6350461 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6350417 AGCAAATTTT
* *
6350427 TGTTTTATCATTTCAAAA
1 TGTTTCATCAATTCAAAA
6350445 TGTTTCATCAATTCAAA
1 TGTTTCATCAATTCAAA
6350462 GCTAATAGTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.14, G:0.06, T:0.46
Consensus pattern (18 bp):
TGTTTCATCAATTCAAAA
Found at i:6357677 original size:41 final size:41
Alignment explanation
Indices: 6357632--6357711 Score: 160
Period size: 41 Copynumber: 2.0 Consensus size: 41
6357622 AATATGAGTA
6357632 GTTATCACCAACAAAAAGAAGAGGTTTTACAATTGAATGTG
1 GTTATCACCAACAAAAAGAAGAGGTTTTACAATTGAATGTG
6357673 GTTATCACCAACAAAAAGAAGAGGTTTTACAATTGAATG
1 GTTATCACCAACAAAAAGAAGAGGTTTTACAATTGAATG
6357712 ACCTTCTGCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.26
Consensus pattern (41 bp):
GTTATCACCAACAAAAAGAAGAGGTTTTACAATTGAATGTG
Found at i:6362126 original size:28 final size:29
Alignment explanation
Indices: 6362071--6362135 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
6362061 AATTTTTCAT
* *
6362071 ATTTTTTAATTTTTATGTTTTTAGAAAA-
1 ATTTTATAATTTTTATGTTTTGAGAAAAG
6362099 ATTTTATAATATTTTATGTTTTGA-AAAAG
1 ATTTTATAAT-TTTTATGTTTTGAGAAAAG
*
6362128 AGTTTATA
1 ATTTTATA
6362136 TGTTTTAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 13 0.41
29 19 0.59
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.55
Consensus pattern (29 bp):
ATTTTATAATTTTTATGTTTTGAGAAAAG
Found at i:6362158 original size:20 final size:20
Alignment explanation
Indices: 6362109--6362161 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
6362099 ATTTTATAAT
*
6362109 ATTTTATGTTTTGAAAAAGA
1 ATTTTATGTTTTGAAAAAAA
*
6362129 GTTTATATGTTTT-AAAAAAA
1 ATTT-TATGTTTTGAAAAAAA
6362149 ATTTTCATGTTTT
1 ATTTT-ATGTTTT
6362162 TTTTTTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 1 0.04
20 19 0.68
21 8 0.29
ACGTcount: A:0.36, C:0.02, G:0.11, T:0.51
Consensus pattern (20 bp):
ATTTTATGTTTTGAAAAAAA
Found at i:6362539 original size:27 final size:27
Alignment explanation
Indices: 6362508--6362565 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
6362498 AAAAGACTCA
6362508 AAAATTTCTAAAAAAATTCAAAATATT
1 AAAATTTCTAAAAAAATTCAAAATATT
* * *
6362535 AAAATTTCTAGAAAATTTCTAAATATT
1 AAAATTTCTAAAAAAATTCAAAATATT
6362562 AAAA
1 AAAA
6362566 AATAAAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.34
Consensus pattern (27 bp):
AAAATTTCTAAAAAAATTCAAAATATT
Found at i:6364693 original size:99 final size:99
Alignment explanation
Indices: 6364511--6364700 Score: 281
Period size: 99 Copynumber: 1.9 Consensus size: 99
6364501 TATTATCTTC
* * * *
6364511 TAGTAGAGTGAGTTTTAACACCTTTAATAATGTATTGAAAGATTTATTTGCCCAGCCATTAAAGC
1 TAGTAAAGTGAGTTTCAACACCTTTAATAATGTATTAAAAGATTTATTTGCCCAGCCATTAAAAC
* * *
6364576 ATTTAATTGGAACCAATAGATTACAATTACCCTA
66 ACTTAATTAGAACAAATAGATTACAATTACCCTA
* **
6364610 TAGTAAAGTGAGTTTCAACACCTTTGATAATGTATTAAAAGATTTATTTGTTCAGCCATTAAAAC
1 TAGTAAAGTGAGTTTCAACACCTTTAATAATGTATTAAAAGATTTATTTGCCCAGCCATTAAAAC
*
6364675 ACTTACTTAGAACAAATAGATTACAA
66 ACTTAATTAGAACAAATAGATTACAA
6364701 ATGAGAATTT
Statistics
Matches: 80, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
99 80 1.00
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.34
Consensus pattern (99 bp):
TAGTAAAGTGAGTTTCAACACCTTTAATAATGTATTAAAAGATTTATTTGCCCAGCCATTAAAAC
ACTTAATTAGAACAAATAGATTACAATTACCCTA
Found at i:6368052 original size:3 final size:3
Alignment explanation
Indices: 6368046--6368089 Score: 70
Period size: 3 Copynumber: 14.7 Consensus size: 3
6368036 ACAATAATAA
* *
6368046 TAG TAG TAG TAG TAG TAG TAG TAG TAG CAG TAG TAG TAA TAG TA
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
6368090 ATACAATATA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.36, C:0.02, G:0.30, T:0.32
Consensus pattern (3 bp):
TAG
Found at i:6368693 original size:114 final size:114
Alignment explanation
Indices: 6368509--6368722 Score: 304
Period size: 114 Copynumber: 1.9 Consensus size: 114
6368499 TGATGCCATA
* * * ** * * * *
6368509 AGTCTAAAAGTGACCAAAACCTAGTTGAGGTCGTAAATGAATGACTGGGACGATATTGTGAGTTT
1 AGTCTAAAAGTGACCAAAACCGAGTCGAGGTCATAAATGAATGACTAAGACAATATCGCGAGTCT
*
6368574 GAAAATGATCTGACCTGAGCCAAAATTGAATGACTAGGATAATGTTGTG
66 AAAAATGATCTGACCTGAGCCAAAATTGAATGACTAGGATAATGTTGTG
*
6368623 AGTCTAAAAGTGACCAAAACCGAGTCGAGGTCATAAATGAATGA-TCAAGACAATGTCGCGAGTC
1 AGTCTAAAAGTGACCAAAACCGAGTCGAGGTCATAAATGAATGACT-AAGACAATATCGCGAGTC
*
6368687 TAAAAATGATCTGACCTGAGCCAAGATTGAATGACT
65 TAAAAATGATCTGACCTGAGCCAAAATTGAATGACT
6368723 GGGACAATAT
Statistics
Matches: 87, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
113 1 0.01
114 86 0.99
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (114 bp):
AGTCTAAAAGTGACCAAAACCGAGTCGAGGTCATAAATGAATGACTAAGACAATATCGCGAGTCT
AAAAATGATCTGACCTGAGCCAAAATTGAATGACTAGGATAATGTTGTG
Found at i:6368744 original size:114 final size:115
Alignment explanation
Indices: 6368512--6368781 Score: 292
Period size: 114 Copynumber: 2.4 Consensus size: 115
6368502 TGCCATAAGT
* * ** * * * * *
6368512 CTAAAAGTGACCAAAACCTAGTTGAGGTCGTAAATGAATGA-CTGGGACGATATTGTGAGTTTGA
1 CTAAAAGTGACCAAAACCAAGTCGAGGTCGTAAATGAATGATCTAAGACAATATCGCGAGTCTAA
* * **** *
6368576 AAATGATCTGACCTGAGCCAAAATTGAATGACTAGGATAATGTTGTGAGT
66 AAATGATCTGACCTGAGCCAAAATTGAATGACTAGGACAATATCACAAGC
* * *
6368626 CTAAAAGTGACCAAAACCGAGTCGAGGTCATAAATGAATGATC-AAGACAATGTCGCGAGTCTAA
1 CTAAAAGTGACCAAAACCAAGTCGAGGTCGTAAATGAATGATCTAAGACAATATCGCGAGTCTAA
* *
6368690 AAATGATCTGACCTGAGCCAAGATTGAATGACTGGGACAATATCACAAGC
66 AAATGATCTGACCTGAGCCAAAATTGAATGACTAGGACAATATCACAAGC
** * * *
6368740 CTAAAAGCAACCAAGACCAAGTCGATGTGGTAAATGAATGAT
1 CTAAAAGTGACCAAAACCAAGTCGAGGTCGTAAATGAATGAT
6368782 TGAGATGATG
Statistics
Matches: 128, Mismatches: 27, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
114 127 0.99
115 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (115 bp):
CTAAAAGTGACCAAAACCAAGTCGAGGTCGTAAATGAATGATCTAAGACAATATCGCGAGTCTAA
AAATGATCTGACCTGAGCCAAAATTGAATGACTAGGACAATATCACAAGC
Found at i:6368800 original size:114 final size:114
Alignment explanation
Indices: 6368575--6368840 Score: 262
Period size: 114 Copynumber: 2.3 Consensus size: 114
6368565 TGTGAGTTTG
* * * * **** * **
6368575 AAAATGATCTGACCTGAGCCAAAATTGAATGACTAGGATAATGTTGTGAGTCTAAAAGTGACCAA
1 AAAATGATCTGACCTGAGCCAAGATTGAATGACTGGGACAATATCACAAGCCTAAAAGCAACCAA
* * *
6368640 AACCGAGTCGAGGTCATAAATGAATGATCAAGACAATGTCGCGAGTCTA
66 AACCAAGTCGAGGTCATAAATGAATGATCAAGACAATGCCACGAGTCTA
6368689 AAAATGATCTGACCTGAGCCAAGATTGAATGACTGGGACAATATCACAAGCCTAAAAGCAACCAA
1 AAAATGATCTGACCTGAGCCAAGATTGAATGACTGGGACAATATCACAAGCCTAAAAGCAACCAA
* * ** ** ** * *
6368754 GACCAAGTCGATGTGGTAAATGAATGATTGAGATGATGCCATGAGTCTG
66 AACCAAGTCGAGGTCATAAATGAATGATCAAGACAATGCCACGAGTCTA
* * * * * *
6368803 AAAATAATCTAACTTGAGTCGAGATCGAATGACTGGGA
1 AAAATGATCTGACCTGAGCCAAGATTGAATGACTGGGA
6368841 TGATGTCGTG
Statistics
Matches: 122, Mismatches: 30, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
114 122 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.22
Consensus pattern (114 bp):
AAAATGATCTGACCTGAGCCAAGATTGAATGACTGGGACAATATCACAAGCCTAAAAGCAACCAA
AACCAAGTCGAGGTCATAAATGAATGATCAAGACAATGCCACGAGTCTA
Found at i:6378874 original size:14 final size:15
Alignment explanation
Indices: 6378848--6378877 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
6378838 ATGAATATGC
6378848 ATAAAAGGAAAACAA
1 ATAAAAGGAAAACAA
6378863 ATAAAA-GAAAACAA
1 ATAAAAGGAAAACAA
6378877 A
1 A
6378878 AAGATTAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.77, C:0.07, G:0.10, T:0.07
Consensus pattern (15 bp):
ATAAAAGGAAAACAA
Found at i:6379379 original size:37 final size:36
Alignment explanation
Indices: 6379324--6379396 Score: 94
Period size: 37 Copynumber: 2.0 Consensus size: 36
6379314 AAAGAAAGAC
6379324 AAAGCAAATATACACAATGAAAAGGAAAATAAATAAT
1 AAAGCAAATATACACAATGAAAAGGAAAA-AAATAAT
* * *
6379361 AAAGCAAGTATA-AGCAATGAATAGGAATAAAATAAT
1 AAAGCAAATATACA-CAATGAAAAGGAAAAAAATAAT
6379397 TTCATATTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
36 8 0.25
37 24 0.75
ACGTcount: A:0.62, C:0.07, G:0.14, T:0.18
Consensus pattern (36 bp):
AAAGCAAATATACACAATGAAAAGGAAAAAAATAAT
Found at i:6381183 original size:3 final size:3
Alignment explanation
Indices: 6381123--6381166 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
6381113 TCACAAATTG
6381123 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
6381167 CAATTTAGTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:6385384 original size:23 final size:22
Alignment explanation
Indices: 6385325--6385386 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 22
6385315 AACGTGGTAC
*
6385325 TTTTATTTG-ACTTTCTCTTTT
1 TTTTATTTGAACTTTTTCTTTT
*
6385346 TTTT-TTCTTAAGCTTTTTCTTTT
1 TTTTATT-TGAA-CTTTTTCTTTT
6385369 TTTTAGTTTGAACTTTTT
1 TTTTA-TTTGAACTTTTT
6385387 TTGTGTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
20 2 0.06
21 5 0.15
22 1 0.03
23 20 0.61
24 3 0.09
25 2 0.06
ACGTcount: A:0.11, C:0.11, G:0.06, T:0.71
Consensus pattern (22 bp):
TTTTATTTGAACTTTTTCTTTT
Found at i:6386340 original size:9 final size:9
Alignment explanation
Indices: 6386328--6386361 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
6386318 TAAAATTAAT
6386328 AAATTATTC
1 AAATTATTC
6386337 AAATTATTC
1 AAATTATTC
6386346 AAATATATT-
1 AAAT-TATTC
6386355 AAATTAT
1 AAATTAT
6386362 ACTTTTATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 3 0.12
9 17 0.71
10 4 0.17
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (9 bp):
AAATTATTC
Found at i:6387140 original size:19 final size:20
Alignment explanation
Indices: 6387088--6387143 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 20
6387078 TTATATTATT
* *
6387088 AATTATAATAT-AATTAATA
1 AATTTTAATATAAAATAATA
*
6387107 AACTTTACATA-AAAATAA-A
1 AATTTTA-ATATAAAATAATA
6387126 AATTTTAATATAAAATAA
1 AATTTTAATATAAAATAA
6387144 GTAAGGGAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
18 3 0.10
19 19 0.63
20 8 0.27
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.36
Consensus pattern (20 bp):
AATTTTAATATAAAATAATA
Found at i:6387825 original size:22 final size:23
Alignment explanation
Indices: 6387800--6387842 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
6387790 ATGTAGAAAG
* *
6387800 AAAAAAA-TCAAATAAAAATTAC
1 AAAAAAACTAAAAAAAAAATTAC
6387822 AAAAAAACTAAAAAAAAAATT
1 AAAAAAACTAAAAAAAAAATT
6387843 TAACAATGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.16
Consensus pattern (23 bp):
AAAAAAACTAAAAAAAAAATTAC
Found at i:6392010 original size:3 final size:3
Alignment explanation
Indices: 6392002--6392044 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
6391992 CTTAAAATAT
6392002 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
6392045 ACTTGGTTTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:6394274 original size:26 final size:25
Alignment explanation
Indices: 6394218--6394276 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 25
6394208 AGAATTTAAA
*
6394218 TTAATTTGGA-TTAATCAATTCATT
1 TTAATTTGGATTTAATCAACTCATT
6394242 TT-A---GGATTTAATCAAGCTCATT
1 TTAATTTGGATTTAATCAA-CTCATT
6394264 TTAATTTGGATTT
1 TTAATTTGGATTT
6394277 GAAATTAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 10
0.72 0.03 0.26
Matches are distributed among these distances:
20 3 0.11
21 8 0.29
22 7 0.25
23 2 0.07
24 2 0.07
26 6 0.21
ACGTcount: A:0.31, C:0.08, G:0.12, T:0.49
Consensus pattern (25 bp):
TTAATTTGGATTTAATCAACTCATT
Found at i:6399487 original size:27 final size:24
Alignment explanation
Indices: 6399470--6399519 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 24
6399460 ATATTTATTG
6399470 TTTATATTAAAAATAATAAATATAT
1 TTTATA-TAAAAATAATAAATATAT
*
6399495 TTTCTATAAAAATAATAAATATAT
1 TTTATATAAAAATAATAAATATAT
6399519 T
1 T
6399520 AAAAATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 19 0.79
25 5 0.21
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (24 bp):
TTTATATAAAAATAATAAATATAT
Found at i:6399527 original size:24 final size:24
Alignment explanation
Indices: 6399477--6399529 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
6399467 TTGTTTATAT
****
6399477 TAAAAATAATAAATATATTTTCTA
1 TAAAAATAATAAATATATTAAAAA
6399501 TAAAAATAATAAATATATTAAAAA
1 TAAAAATAATAAATATATTAAAAA
6399525 TAAAA
1 TAAAA
6399530 TTTGACAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (24 bp):
TAAAAATAATAAATATATTAAAAA
Found at i:6415429 original size:13 final size:14
Alignment explanation
Indices: 6415406--6415438 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
6415396 TTAATTTGAA
6415406 AAAATAAAATATAG-
1 AAAA-AAAATATAGT
6415420 AAAAAAAATATAGT
1 AAAAAAAATATAGT
6415434 AAAAA
1 AAAAA
6415439 GTAAGGAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (14 bp):
AAAAAAAATATAGT
Found at i:6425970 original size:4 final size:4
Alignment explanation
Indices: 6425926--6426070 Score: 58
Period size: 4 Copynumber: 36.8 Consensus size: 4
6425916 TCTTTTGTAT
* *
6425926 TTTA -TTA TTTA -TTA -TTA TTATA TGTA TATT- TTTA CTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TT-TA TTTA T-TTA TTTA TTTA TTTA TTTA
** * *
6425972 TTTA TTTA TTT- TTCC TTTG TTAATA TTTA TATGTA TTTTA TTTA TATA
1 TTTA TTTA TTTA TTTA TTTA TT--TA TTTA T-T-TA -TTTA TTTA TTTA
* * * *
6426020 GTTC TATA TTTA TATTA -TAA TTTA TTTA TTTA -TTA -TTA TTT- TTTA
1 TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
6426065 -TTA TTT
1 TTTA TTT
6426071 TTTTTCTTGT
Statistics
Matches: 107, Mismatches: 18, Indels: 32
0.68 0.11 0.20
Matches are distributed among these distances:
3 27 0.25
4 63 0.59
5 10 0.09
6 6 0.06
7 1 0.01
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.68
Consensus pattern (4 bp):
TTTA
Found at i:6426065 original size:28 final size:28
Alignment explanation
Indices: 6426034--6426113 Score: 74
Period size: 29 Copynumber: 2.8 Consensus size: 28
6426024 TATATTTATA
6426034 TTATAATTTATTTATT-TATTATTATTTT
1 TTATAATTTATTTATTGTATTATT-TTTT
* * * *
6426062 TTATTATTTTTTTTCTTGTAATATTTTTT
1 TTA-TAATTTATTTATTGTATTATTTTTT
*
6426091 TT-TGATTTATCTTATTGTATTAT
1 TTATAATTTAT-TTATTGTATTAT
6426114 CTGTTAATAA
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
27 5 0.12
28 13 0.32
29 16 0.40
30 6 0.15
ACGTcount: A:0.23, C:0.03, G:0.04, T:0.71
Consensus pattern (28 bp):
TTATAATTTATTTATTGTATTATTTTTT
Found at i:6426071 original size:10 final size:10
Alignment explanation
Indices: 6426040--6426073 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
6426030 TATATTATAA
6426040 TTTATTTATTT
1 TTTA-TTATTT
*
6426051 ATTATTATTT
1 TTTATTATTT
6426061 TTTATTATTT
1 TTTATTATTT
6426071 TTT
1 TTT
6426074 TTCTTGTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 18 0.86
11 3 0.14
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTATTATTT
Found at i:6427120 original size:13 final size:13
Alignment explanation
Indices: 6427073--6427127 Score: 56
Period size: 13 Copynumber: 4.2 Consensus size: 13
6427063 TCTCCAGGTG
*
6427073 TTTTTTTTTTAATA
1 TTTTTTTTTT-TTA
* *
6427087 TTTTTTATTTTCA
1 TTTTTTTTTTTTA
*
6427100 TTTATTTTTTTTA
1 TTTTTTTTTTTTA
*
6427113 TTTTTTTTATTTA
1 TTTTTTTTTTTTA
6427126 TT
1 TT
6427128 AGATTAGGTT
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
13 24 0.73
14 9 0.27
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTTTTTTTTTA
Found at i:6427170 original size:17 final size:16
Alignment explanation
Indices: 6427074--6427175 Score: 56
Period size: 16 Copynumber: 6.6 Consensus size: 16
6427064 CTCCAGGTGT
*
6427074 TTTTTTTTTAATA-T-
1 TTTTTATTTAATATTA
*
6427088 TTTTTATTTTCAT-TTA
1 TTTTTA-TTTAATATTA
6427104 TTTTT-TTT-AT-TT-
1 TTTTTATTTAATATTA
*
6427116 TTTTTATTTATTAGATTA
1 TTTTTATTTA--ATATTA
** *
6427134 GGTTTATTTAATATTC
1 TTTTTATTTAATATTA
*
6427150 TTTTTATCTTAATTTTA
1 TTTTTAT-TTAATATTA
6427167 TTTTTATTT
1 TTTTTATTT
6427176 TTGTTTTACT
Statistics
Matches: 67, Mismatches: 11, Indels: 18
0.70 0.11 0.19
Matches are distributed among these distances:
12 5 0.07
13 7 0.10
14 8 0.12
15 6 0.09
16 17 0.25
17 16 0.24
18 8 0.12
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (16 bp):
TTTTTATTTAATATTA
Found at i:6427305 original size:59 final size:57
Alignment explanation
Indices: 6427240--6427885 Score: 723
Period size: 59 Copynumber: 10.9 Consensus size: 57
6427230 TTTCTTTAAA
* *
6427240 TGAAAATCAAAGTTTCCAAAAAATATTTTTAGGGAAGAGTTGAAAATATCAATTTTCCT
1 TGAAAATCAAA-TTTCCAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCT
* * *
6427299 TGAAAATCAAAATTTTCAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTTCT
1 TGAAAATC-AAA-TTTCCAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCT
* * **
6427359 TAAAAAT-AAATTTCAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
1 TGAAAATCAAATTTCCAAAAAA-TATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCT
*
6427417 TGAAAATCAAAATTTCTAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCT
1 TGAAAATC-AAATTTCCAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCT
* **
6427476 TGAAAATCAAAATTTCCAAAAAAGAATATTTTTAGGGAAAA-TTAAAAGTATCAATTTTTGT
1 TGAAAATC-AAATTTCC--AAAA-AATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCT
* * * *
6427537 TAAAAAT-AAATTTTCAAAAAAGGATTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCT
1 TGAAAATCAAATTTCCAAAAAA-TATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCT
* *
6427595 TGGAAATCAAAGTTT-CAAAAAATTATTTTTGAGGAAAAGTTGAAAGTATCAATTTTACT
1 TGAAAATCAAA-TTTCCAAAAAA-TATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCT
* *
6427654 T-AGAAAT-AAATTTTCAAAAAAGGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
1 TGA-AAATCAAATTTCCAAAAAA--TATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCT
* *
6427713 TGGAAATCAAAGTTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
1 TGAAAATCAAA-TTTC-CAAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCT
* * *
6427773 TAAAAAT-AAATTTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCT
1 TGAAAATCAAA-TTTC-CAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCT
*
6427832 TAAAAAT-AAATTTCCAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTT
1 TGAAAATCAAATTTCCAAAAAATATTTTTGGG-AAAAGTTGAAAGTATCAATTTT
6427886 TCCTACACAA
Statistics
Matches: 521, Mismatches: 43, Indels: 48
0.85 0.07 0.08
Matches are distributed among these distances:
56 6 0.01
57 66 0.13
58 76 0.15
59 208 0.40
60 112 0.21
61 30 0.06
62 23 0.04
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.35
Consensus pattern (57 bp):
TGAAAATCAAATTTCCAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCT
Found at i:6427604 original size:178 final size:173
Alignment explanation
Indices: 6427240--6427887 Score: 858
Period size: 178 Copynumber: 3.7 Consensus size: 173
6427230 TTTCTTTAAA
* *
6427240 TGAAAATCAAAGTTTCCAAAAAATATTTTTAGGGAAGAGTTGAAAATATCAATTTTCCTTGAAAA
1 TGAAAATCAAAGTTT-CAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAA
* *
6427305 TCAAAATTTTCAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAT
65 T--AAATTTCCAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAT
*
6427370 TTCAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
127 TTCAAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
*
6427417 TGAAAATCAAAATTTCTAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAA
1 TGAAAATCAAAGTTTC-AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAA
* *
6427482 TCAAAATTTCCAAAAAAGAATATTTTTAGGGAAAA-TTAAAAGTATCAATTTTTGTTAAAAATAA
65 T--AAATTTCC-AAAAA-AATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAA
*
6427546 ATTTTC-AAAAAAGGATTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCT
125 A-TTTCAAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
* *
6427595 TGGAAATCAAAGTTTCAAAAAATTATTTTT-GAGGAAAAGTTGAAAGTATCAATTTTACTT-AGA
1 TGAAAATCAAAGTTTCAAAAAA-TATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTGA-A
* ** * **
6427658 AATAAATTTTCAAAAAAGGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAATCAA
63 AATAAATTTCCAAAAAA-ATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AA
**
6427723 AGTTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
125 A-TTTCAAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
* * * *
6427773 TAAAAAT-AAATTTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAA
1 TGAAAATCAAAGTTTC--AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAA
6427837 ATAAATTTCC-AAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTC
64 ATAAATTTCCAAAAAAATATTTTTGGG-AAAAGTTGAAAGTATCAATTTTTC
6427888 CTACACAAGA
Statistics
Matches: 422, Mismatches: 32, Indels: 35
0.86 0.07 0.07
Matches are distributed among these distances:
174 2 0.00
175 19 0.05
176 60 0.14
177 97 0.23
178 216 0.51
179 28 0.07
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.35
Consensus pattern (173 bp):
TGAAAATCAAAGTTTCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT
AAATTTCCAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTCA
AAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
Found at i:6429584 original size:1 final size:1
Alignment explanation
Indices: 6429580--6429615 Score: 54
Period size: 1 Copynumber: 36.0 Consensus size: 1
6429570 TTTATTGGAG
* *
6429580 TTTTTTTGTTTTGTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
6429616 AAGAATGAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.00, C:0.00, G:0.06, T:0.94
Consensus pattern (1 bp):
T
Found at i:6432408 original size:15 final size:15
Alignment explanation
Indices: 6432388--6432421 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
6432378 AGTTATGTCT
*
6432388 ATGTATGGAATTATA
1 ATGTATGGAATTAGA
*
6432403 ATGTATGTAATTAGA
1 ATGTATGGAATTAGA
6432418 ATGT
1 ATGT
6432422 CAAAAAGATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (15 bp):
ATGTATGGAATTAGA
Found at i:6435370 original size:2 final size:2
Alignment explanation
Indices: 6435359--6435400 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
6435349 ACACATACAG
*
6435359 AT AT AG AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6435401 TACTCTGCGC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6437485 original size:30 final size:31
Alignment explanation
Indices: 6437443--6437505 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 31
6437433 ATGAGGGCAT
* *
6437443 AATTAGGGTGAAAATAGATGTTTAACGGTTC
1 AATTAGGGTGAAAATAGATATTAAACGGTTC
*
6437474 AATTA-GGTGAAAATAGATATTAAAGGGTTC
1 AATTAGGGTGAAAATAGATATTAAACGGTTC
6437504 AA
1 AA
6437506 CTGATCCGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 24 0.83
31 5 0.17
ACGTcount: A:0.41, C:0.05, G:0.24, T:0.30
Consensus pattern (31 bp):
AATTAGGGTGAAAATAGATATTAAACGGTTC
Found at i:6443262 original size:19 final size:20
Alignment explanation
Indices: 6443220--6443267 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
6443210 AAACAAAAAA
*
6443220 AAAAATCACAGAAAAAGGCAC
1 AAAATTCACAGAAAAA-GCAC
* *
6443241 AAATTTCACAGAAAAA-CTC
1 AAAATTCACAGAAAAAGCAC
6443260 AAAATTCA
1 AAAATTCA
6443268 TAATAATTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 9 0.39
21 14 0.61
ACGTcount: A:0.58, C:0.19, G:0.08, T:0.15
Consensus pattern (20 bp):
AAAATTCACAGAAAAAGCAC
Found at i:6443264 original size:20 final size:21
Alignment explanation
Indices: 6443225--6443265 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
6443215 AAAAAAAAAA
*
6443225 TCACAGAAAAAGGCACAAATT
1 TCACAGAAAAACGCACAAATT
*
6443246 TCACAGAAAAACTCA-AAATT
1 TCACAGAAAAACGCACAAATT
6443266 CATAATAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.54, C:0.20, G:0.10, T:0.17
Consensus pattern (21 bp):
TCACAGAAAAACGCACAAATT
Found at i:6444653 original size:21 final size:21
Alignment explanation
Indices: 6444627--6444666 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6444617 ATGAACAGAT
6444627 ATAAATTTCTATTCAAATGAC
1 ATAAATTTCTATTCAAATGAC
* *
6444648 ATAAATTTTTATTTAAATG
1 ATAAATTTCTATTCAAATG
6444667 GTTATAACAA
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:0.42, C:0.07, G:0.05, T:0.45
Consensus pattern (21 bp):
ATAAATTTCTATTCAAATGAC
Found at i:6451244 original size:46 final size:46
Alignment explanation
Indices: 6451145--6451279 Score: 153
Period size: 46 Copynumber: 2.9 Consensus size: 46
6451135 TTAATGCTAC
* * * **
6451145 AAAAGCTCCTCTAAATAAAGGTTTTGAAACTTTTAAAAAAATTTTGG
1 AAAAGCTCTTATAAATAAAGGCTTTGAAAC-TTTAAAAATTTTTTGG
* * *
6451192 AGAAGCTCTTATAAGTAAAGGCTTTGAAACTTTAAAATTTTTTTGG
1 AAAAGCTCTTATAAATAAAGGCTTTGAAACTTTAAAAATTTTTTGG
* * * *
6451238 AAAAGCTCTTTTAAACAAAGGCCTTGAAACTTAAAAAATTTT
1 AAAAGCTCTTATAAATAAAGGCTTTGAAACTTTAAAAATTTT
6451280 AAAAATATTT
Statistics
Matches: 73, Mismatches: 15, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
46 48 0.66
47 25 0.34
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (46 bp):
AAAAGCTCTTATAAATAAAGGCTTTGAAACTTTAAAAATTTTTTGG
Found at i:6451727 original size:76 final size:76
Alignment explanation
Indices: 6451608--6451849 Score: 249
Period size: 76 Copynumber: 3.2 Consensus size: 76
6451598 TGAGTGCCGA
* * * * * ** *
6451608 CTAAATTGGGCTTAGATCTCTTCTGTGCCAGCTAAATTGGGCTTAGGTGCCATTTAATCTAGG-C
1 CTAATTTGGGCTTAGATCTCATCTATGCCAGCTAAACTAGGCTTAGGTGCCAGCTAATAT-GGAC
6451672 TTAAAGTG-CTAG
65 TTAAAGTGTC-AG
6451684 -TCAATTTGGGCTTAGATCTCATCTATGCCAGCTAAACTAGGCTTAGGTGCCAGCTAATATGGAC
1 CT-AATTTGGGCTTAGATCTCATCTATGCCAGCTAAACTAGGCTTAGGTGCCAGCTAATATGGAC
6451748 TTAAAGTGTCAG
65 TTAAAGTGTCAG
* * * * * * * * *
6451760 CTAATTCGGGCTTATATCTCATCCATGCTATCTAAACTAGGCTTAGTTGTCAGCTAAT-TAGAGT
1 CTAATTTGGGCTTAGATCTCATCTATGCCAGCTAAACTAGGCTTAGGTGCCAGCTAATATGGA-C
*
6451824 TTAAAGTGCCAG
65 TTAAAGTGTCAG
*
6451836 CTAATTTGAGCTTA
1 CTAATTTGGGCTTA
6451850 AAGTGCTTTG
Statistics
Matches: 141, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
75 6 0.04
76 133 0.94
77 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.33
Consensus pattern (76 bp):
CTAATTTGGGCTTAGATCTCATCTATGCCAGCTAAACTAGGCTTAGGTGCCAGCTAATATGGACT
TAAAGTGTCAG
Found at i:6451750 original size:22 final size:24
Alignment explanation
Indices: 6451709--6451764 Score: 57
Period size: 22 Copynumber: 2.5 Consensus size: 24
6451699 ATCTCATCTA
*
6451709 TGCCAGCTAA-ACTAGGCTT-AGG
1 TGCCAGCTAATACTAGGCTTAAAG
6451731 TGCCAGCTAATA-T-GGACTTAAAG
1 TGCCAGCTAATACTAGG-CTTAAAG
*
6451754 TGTCAGCTAAT
1 TGCCAGCTAAT
6451765 TCGGGCTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
21 2 0.07
22 14 0.48
23 13 0.45
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (24 bp):
TGCCAGCTAATACTAGGCTTAAAG
Found at i:6451836 original size:23 final size:23
Alignment explanation
Indices: 6451810--6451855 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
6451800 GCTTAGTTGT
*
6451810 CAGCTAATTAGAGTTTAAAGTGC
1 CAGCTAATTAGAGCTTAAAGTGC
*
6451833 CAGCTAATTTGAGCTTAAAGTGC
1 CAGCTAATTAGAGCTTAAAGTGC
6451856 TTTGGGTGTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (23 bp):
CAGCTAATTAGAGCTTAAAGTGC
Found at i:6451996 original size:23 final size:23
Alignment explanation
Indices: 6451969--6452014 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
6451959 CTAAGCTTAG
* *
6451969 GTGCCAACTAATTTGGGTTTAAA
1 GTGCCAACTAATCTAGGTTTAAA
*
6451992 GTGCCAGCTAATCTAGGTTTAAA
1 GTGCCAACTAATCTAGGTTTAAA
6452015 ATGCTTTAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (23 bp):
GTGCCAACTAATCTAGGTTTAAA
Found at i:6452047 original size:163 final size:162
Alignment explanation
Indices: 6451758--6452123 Score: 398
Period size: 163 Copynumber: 2.2 Consensus size: 162
6451748 TTAAAGTGTC
* * * * * * *
6451758 AGCTAATTCGGGCTTATATCTCATCCATGCTATCTAAACTAGGCTTAGTTGTCAGCTAATTAGAG
1 AGCTAATT-GGGCTTAAATCTCATCCATGCCAGCTAAACTAAGCTTAGGTGCCAACTAATTAGAG
* * *
6451823 TTTAAAGTGCCAGCTAATTTGAGCTTAAAGTGCTTTGGGTGTCAACTAAACTAGACTTAATTTTC
65 TTTAAAGTGCCAGCTAATTAGAGCTTAAAATGCTTTAGGTGTCAACTAAACTAGACTTAATTTTC
* * *
6451888 TCTGGGCGCCAATTAGACTGTGCTTAAAATGCT
130 TCTGGGCGCCAACTAAACTGAGCTTAAAATGCT
* * * * * *
6451921 AGCTAATATGGGCTTAGATCTTATCTATGCCAGCTAATCTAAGCTTAGGTGCCAACTAATTTGGG
1 AGCTAAT-TGGGCTTAAATCTCATCCATGCCAGCTAAACTAAGCTTAGGTGCCAACTAATTAGAG
* * * *
6451986 TTTAAAGTGCCAGCTAATCTAG-GTTTAAAATGCTTTAGGTG-CTAGCTAAATTAGGCTTAATTT
65 TTTAAAGTGCCAGCTAAT-TAGAGCTTAAAATGCTTTAGGTGTC-AACTAAACTAGACTTAATTT
* * * *
6452049 TTTTTGGGTGCCAACTAAACTGAGCTTAAAGTGCT
128 TCTCTGGGCGCCAACTAAACTGAGCTTAAAATGCT
6452084 AGCTAATTTGGGCTTAAATCTCAT--ATGTACCAGCTAAACT
1 AGCTAA-TTGGGCTTAAATCTCATCCATG--CCAGCTAAACT
6452124 GGACTTAATC
Statistics
Matches: 168, Mismatches: 29, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
161 3 0.02
162 1 0.01
163 160 0.95
164 4 0.02
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.34
Consensus pattern (162 bp):
AGCTAATTGGGCTTAAATCTCATCCATGCCAGCTAAACTAAGCTTAGGTGCCAACTAATTAGAGT
TTAAAGTGCCAGCTAATTAGAGCTTAAAATGCTTTAGGTGTCAACTAAACTAGACTTAATTTTCT
CTGGGCGCCAACTAAACTGAGCTTAAAATGCT
Found at i:6452373 original size:15 final size:14
Alignment explanation
Indices: 6452355--6452404 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
6452345 CTCTCATTTT
6452355 TTTTTTCTTTTCCTC
1 TTTTTTCTTTT-CTC
* *
6452370 TTTTATCTTTTCTT
1 TTTTTTCTTTTCTC
*
6452384 TTTATTTTTTTTCTC
1 TTT-TTTCTTTTCTC
6452399 TTTTTT
1 TTTTTT
6452405 TTTCAAACTT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
14 8 0.28
15 21 0.72
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTTTCTTTTCTC
Found at i:6452382 original size:20 final size:21
Alignment explanation
Indices: 6452330--6452385 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 21
6452320 TATGCTATAC
6452330 TTTCTTGTCTCTTTTCTCTCATT
1 TTTCTT-T-TCTTTTCTCTCATT
*
6452353 TTTTTTTTCTTTTC-CTC-TT
1 TTTCTTTTCTTTTCTCTCATT
6452372 TTATCTTTTCTTTT
1 TT-TCTTTTCTTTT
6452386 TATTTTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
19 4 0.13
20 13 0.43
21 7 0.23
22 1 0.03
23 5 0.17
ACGTcount: A:0.04, C:0.21, G:0.02, T:0.73
Consensus pattern (21 bp):
TTTCTTTTCTTTTCTCTCATT
Found at i:6453234 original size:17 final size:17
Alignment explanation
Indices: 6453201--6453249 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
6453191 TTTTCCTTTT
*
6453201 TTTTTTC-TTTTTATCA
1 TTTTTTCTTTTTTTTCA
6453217 TTTTTTCTTTTTTTTCA
1 TTTTTTCTTTTTTTTCA
6453234 TTGCTTTT-TTTTTTTT
1 TT--TTTTCTTTTTTTT
6453250 GCACTTTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 7 0.24
17 10 0.34
18 8 0.28
19 4 0.14
ACGTcount: A:0.06, C:0.10, G:0.02, T:0.82
Consensus pattern (17 bp):
TTTTTTCTTTTTTTTCA
Found at i:6457568 original size:16 final size:17
Alignment explanation
Indices: 6457539--6457573 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
6457529 AGCCACTTCC
6457539 TTCTGTTTTGTTTTTGT
1 TTCTGTTTTGTTTTTGT
*
6457556 TTCT-TTTTTTTTTTGT
1 TTCTGTTTTGTTTTTGT
6457572 TT
1 TT
6457574 TCTTGCATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.00, C:0.06, G:0.11, T:0.83
Consensus pattern (17 bp):
TTCTGTTTTGTTTTTGT
Found at i:6464677 original size:19 final size:19
Alignment explanation
Indices: 6464641--6464707 Score: 93
Period size: 19 Copynumber: 3.6 Consensus size: 19
6464631 AAAATTGAAG
*
6464641 TCGATAAT-A-ATCTTCCA
1 TCGATAATAATATATTCCA
6464658 TCGATAATAATATATTCCA
1 TCGATAATAATATATTCCA
* *
6464677 TTGATAATGATATATTCCA
1 TCGATAATAATATATTCCA
6464696 TCGATAATAATA
1 TCGATAATAATA
6464708 AAGGTATTAA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
17 8 0.19
18 1 0.02
19 34 0.79
ACGTcount: A:0.40, C:0.15, G:0.07, T:0.37
Consensus pattern (19 bp):
TCGATAATAATATATTCCA
Found at i:6465197 original size:223 final size:226
Alignment explanation
Indices: 6464771--6465217 Score: 697
Period size: 223 Copynumber: 2.0 Consensus size: 226
6464761 AGATATTTTT
*
6464771 TCCTAAAAATATTATCATTAAATCTAAAATTCTGCGCTATTGTCCATTAGTGACAGAACTTTCGT
1 TCCTAAAAATATAATCATTAAATCTAAAATTCTGCGCTATTGTCCATTAGTGACAGAACTTTCGT
*
6464836 CAATGATGTGGTTTTTTTTTTTTTTTTTCTAAAAAGTAACAAATAACTTCTATCGCTAATAACTA
66 CAATGATGTGG---TTATTTTTTTTTTTCTAAAAAGTAACAAATAACTTCTATCGCTAATAACTA
* * *
6464901 TTACCAACAAAAATTTCGTTGGTAATATGTCTTTTATTATGTTTTTTAAAAAAGAACAAATAAAT
128 TTACCAACAAAAAATTCGTTGGAAATATGTCTTTTATTATGTTTTTTAAAAAAGAACAAAAAAAT
6464966 TCCATTGTTAATGAGCATTATTGACAAAAGTTTC
193 TCCATTGTTAATGAGCATTATTGACAAAAGTTTC
*
6465000 TCCTAAAAATATAATCATTAAATCTAAAATTCTGTGCTATTGTCCATTAGTGACAGAACTTTCGT
1 TCCTAAAAATATAATCATTAAATCTAAAATTCTGCGCTATTGTCCATTAGTGACAGAACTTTCGT
* * * *
6465065 CAGTGATGTGG-TATTTTTTTTTTT-T-GAAAGTAACAAATTAA-TTCTATCGCTATTAAGTATT
66 CAATGATGTGGTTATTTTTTTTTTTCTAAAAAGTAACAAA-TAACTTCTATCGCTAATAACTATT
* *
6465126 ACCAACAAAAAAATT-GTTGGAAATATGTCTTTTATTTTTTTTTTTAAAAAAGAACAAAAAAATT
130 ACCAAC-AAAAAATTCGTTGGAAATATGTCTTTTATTATGTTTTTTAAAAAAGAACAAAAAAATT
*
6465190 TCATTGTTAATGAGCATTATTGACAAAA
194 CCATTGTTAATGAGCATTATTGACAAAA
6465218 ATTTTTGTTG
Statistics
Matches: 203, Mismatches: 13, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
223 107 0.53
224 11 0.05
225 12 0.06
229 73 0.36
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.40
Consensus pattern (226 bp):
TCCTAAAAATATAATCATTAAATCTAAAATTCTGCGCTATTGTCCATTAGTGACAGAACTTTCGT
CAATGATGTGGTTATTTTTTTTTTTCTAAAAAGTAACAAATAACTTCTATCGCTAATAACTATTA
CCAACAAAAAATTCGTTGGAAATATGTCTTTTATTATGTTTTTTAAAAAAGAACAAAAAAATTCC
ATTGTTAATGAGCATTATTGACAAAAGTTTC
Found at i:6466460 original size:251 final size:251
Alignment explanation
Indices: 6466017--6466511 Score: 882
Period size: 251 Copynumber: 2.0 Consensus size: 251
6466007 CAAAATAAGC
* * *
6466017 ATATATATATATATATTATGCATATACAGAGGTCATGAGGCGAATCTTGTTTAACACTTTGCGGT
1 ATATATATATATATATTATGCATATACAGAGGTCATAAGGCAAATCCTGTTTAACACTTTGCGGT
* *
6466082 GTACCAAATGCTAGATGCACGGTTTTGAGGTGGAAGAGAAGTACCTTTTTAGAATGAAATTGTGG
66 GTACCAAATGCTAGATGCACGGTTTTGAGGTGAAAGAGAAGTACCTTTTTAAAATGAAATTGTGG
6466147 AGAATCCCCATTGCTTAAAGATTTTTTCTTCGGTAAGAGTGCCTCCAATCTGGAATATAGCCTTA
131 AGAATCCCCATTGCTTAAAGATTTTTTCTTCGGTAAGAGTGCCTCCAATCTGGAATATAGCCTTA
* *
6466212 CTAGTCCGAGAGCTTTAAGATCCTACATTGAGTTTTATTGAATCATAAGCATATAT
196 CTAGTCCAAGAGCTTTAAGATCCTACATTGAATTTTATTGAATCATAAGCATATAT
*
6466268 ATATATATATGTATATTATGCATATACAGAGGTCATAAGGCAAATCCTGTTTAACACTTTGCGGT
1 ATATATATATATATATTATGCATATACAGAGGTCATAAGGCAAATCCTGTTTAACACTTTGCGGT
* * *
6466333 GTACCAAATGCTAGATGCACGGTTTTGAGGTGAAAGAGAGGTACCTTTTTAAAATGGAATTGTGT
66 GTACCAAATGCTAGATGCACGGTTTTGAGGTGAAAGAGAAGTACCTTTTTAAAATGAAATTGTGG
*
6466398 AGAATCCCCATTGCTTAAAGATTTTTTCTTCGGTAAGAGTGCCTTCAATCTGGAATATAGCCTTA
131 AGAATCCCCATTGCTTAAAGATTTTTTCTTCGGTAAGAGTGCCTCCAATCTGGAATATAGCCTTA
6466463 CTAGTCCAAGAGCTTTAAGATCCTACATTGAATTTTATTGAATCATAAG
196 CTAGTCCAAGAGCTTTAAGATCCTACATTGAATTTTATTGAATCATAAG
6466512 ATACTGTTCA
Statistics
Matches: 232, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
251 232 1.00
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (251 bp):
ATATATATATATATATTATGCATATACAGAGGTCATAAGGCAAATCCTGTTTAACACTTTGCGGT
GTACCAAATGCTAGATGCACGGTTTTGAGGTGAAAGAGAAGTACCTTTTTAAAATGAAATTGTGG
AGAATCCCCATTGCTTAAAGATTTTTTCTTCGGTAAGAGTGCCTCCAATCTGGAATATAGCCTTA
CTAGTCCAAGAGCTTTAAGATCCTACATTGAATTTTATTGAATCATAAGCATATAT
Found at i:6468472 original size:54 final size:54
Alignment explanation
Indices: 6468390--6468495 Score: 203
Period size: 54 Copynumber: 2.0 Consensus size: 54
6468380 CACTATCTTA
6468390 TCTATTATGTTCATAATCGTGATAAAAGCAATGTGACCGTATTTTAATTCCCCG
1 TCTATTATGTTCATAATCGTGATAAAAGCAATGTGACCGTATTTTAATTCCCCG
*
6468444 TCTATTATGTTCATAATCGTGATAAAAGCAATGTGACCTTATTTTAATTCCC
1 TCTATTATGTTCATAATCGTGATAAAAGCAATGTGACCGTATTTTAATTCCC
6468496 TAGATGAAGG
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (54 bp):
TCTATTATGTTCATAATCGTGATAAAAGCAATGTGACCGTATTTTAATTCCCCG
Found at i:6468537 original size:6 final size:6
Alignment explanation
Indices: 6468526--6468556 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
6468516 TGAGTAGGGA
*
6468526 TTGGCT TTGGCT TTGGCT TCGGCT TTGGCT T
1 TTGGCT TTGGCT TTGGCT TTGGCT TTGGCT T
6468557 CCTTTCAAGT
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:0.32, T:0.48
Consensus pattern (6 bp):
TTGGCT
Found at i:6469349 original size:7 final size:7
Alignment explanation
Indices: 6469300--6469347 Score: 78
Period size: 7 Copynumber: 6.9 Consensus size: 7
6469290 TCATTTGTAC
6469300 TCAAATT
1 TCAAATT
6469307 TCAAATT
1 TCAAATT
6469314 TCAAATT
1 TCAAATT
6469321 TCAAATT
1 TCAAATT
*
6469328 CCAAATT
1 TCAAATT
*
6469335 TCAAATC
1 TCAAATT
6469342 TCAAAT
1 TCAAAT
6469348 CTACTCTACT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.38
Consensus pattern (7 bp):
TCAAATT
Found at i:6477182 original size:201 final size:199
Alignment explanation
Indices: 6476797--6477332 Score: 601
Period size: 201 Copynumber: 2.7 Consensus size: 199
6476787 ATGATTTATT
6476797 TTTCATCACTAATATATC-AGA-TTTATCATTTATTTTATGACGATTATAGCCTTTAATGACATT
1 TTTCATCACTAATATATCTA-ATTTTATCATTTATTTTATGACGATTATAGCCTTTAATGACATT
* * * * *
6476860 TTTTCATAAATAGCTAATGAAAACTAATGTCACAAAAAATAAAGCATAATGTGACATTTAATTTT
65 TTTTTATAAATAGCTAA-AAAAACTAATGTCACAAAAAA-AAAGCATAAAGTGACGTTTGATTTT
* * ** * ** *
6476925 ATTCTTACGTTTGATGTTATCTTACAATCATTTTTGACAATAATTGTGTTACTAATATTGCGACG
128 ATTGTCACGTTTGACATTATCTCACAATCATTGATGACAATAATTGTGTCACTAATATTGCGACG
*
6476990 ATTTACC
193 ATTCACC
* * * ** * * **
6476997 TTTCGTCATTAATATATCTAATTTTATAATTTATTTGGTGATGATTATAACCTTTAATGATGTTT
1 TTTCATCACTAATATATCTAATTTTATCATTTATTTTATGACGATTATAGCCTTTAATGA-CATT
** * *
6477062 TTCTTTATAAATAGCTAAAAAAACTAACATCACAAAAAAAAAGCATAAAGTAATGTTTGATTTTA
65 TT-TTTATAAATAGCTAAAAAAACTAATGTCACAAAAAAAAAGCATAAAGTGACGTTTGATTTTA
* ** * * *
6477127 TTGTCACGTTTGACATTATCTCATAATCATTGATGATGATAATTTTGTCACTAATATTGTGATGA
129 TTGTCACGTTTGACATTATCTCACAATCATTGATGACAATAATTGTGTCACTAATATTGCGACGA
*
6477192 TTCATC
194 TTCACC
* * *
6477198 TTTCATCACTAATATATCTGATTTCATCATTTATTTTATGACAATTATAGCCTTTAATGACATTT
1 TTTCATCACTAATATATCTAATTTTATCATTTATTTTATGACGATTATAGCCTTTAATGACATTT
* ** *
6477263 TGTTTATAAATAACTGACCAAAACTAATGTCACAAAAACTAAAA-CATAAGGTGACGTTTGATTT
66 T-TTTATAAATAGCT-AAAAAAACTAATGTCACAAAAA--AAAAGCATAAAGTGACGTTTGATTT
6477327 TATTGT
127 TATTGT
6477333 TATGATAGAC
Statistics
Matches: 274, Mismatches: 55, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
200 33 0.12
201 178 0.65
202 45 0.16
203 18 0.07
ACGTcount: A:0.36, C:0.13, G:0.10, T:0.41
Consensus pattern (199 bp):
TTTCATCACTAATATATCTAATTTTATCATTTATTTTATGACGATTATAGCCTTTAATGACATTT
TTTTATAAATAGCTAAAAAAACTAATGTCACAAAAAAAAAGCATAAAGTGACGTTTGATTTTATT
GTCACGTTTGACATTATCTCACAATCATTGATGACAATAATTGTGTCACTAATATTGCGACGATT
CACC
Found at i:6477355 original size:31 final size:31
Alignment explanation
Indices: 6477317--6477379 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
6477307 CATAAGGTGA
*
6477317 CGTTTGATTTTATTGTTATGATAGACATTAT
1 CGTTTGATTTTATTGTCATGATAGACATTAT
6477348 CGTTTGATTTTATTGTCATGATAGACATTAT
1 CGTTTGATTTTATTGTCATGATAGACATTAT
6477379 C
1 C
6477380 TTACAATCAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.25, C:0.10, G:0.16, T:0.49
Consensus pattern (31 bp):
CGTTTGATTTTATTGTCATGATAGACATTAT
Found at i:6478349 original size:12 final size:12
Alignment explanation
Indices: 6478332--6478366 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
6478322 AAAAATGATG
6478332 AAAGAAAAAAAA
1 AAAGAAAAAAAA
*
6478344 AAAGAAGAAAAA
1 AAAGAAAAAAAA
*
6478356 AATGAAAAAAA
1 AAAGAAAAAAA
6478367 TGAAGGAGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (12 bp):
AAAGAAAAAAAA
Found at i:6480046 original size:18 final size:17
Alignment explanation
Indices: 6480023--6480061 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
6480013 AAATTCTTAC
6480023 AAACTTGAAACTCTTGCT
1 AAACTTGAAACTCTTG-T
*
6480041 AAACTTGAAATTCTTGT
1 AAACTTGAAACTCTTGT
6480058 AAAC
1 AAAC
6480062 CTTTGTGAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.33
Consensus pattern (17 bp):
AAACTTGAAACTCTTGT
Found at i:6481222 original size:3 final size:3
Alignment explanation
Indices: 6481214--6481251 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
6481204 GATTTATTTG
*
6481214 TTA TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
6481252 CTTTTGGTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:6481314 original size:20 final size:20
Alignment explanation
Indices: 6481286--6481324 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6481276 AAAAAAAGTT
6481286 AAAAAAAAAGTTAGAAAATG
1 AAAAAAAAAGTTAGAAAATG
* *
6481306 AAAAGAAAAGTTTGAAAAT
1 AAAAAAAAAGTTAGAAAAT
6481325 CTTGGATTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.15, T:0.18
Consensus pattern (20 bp):
AAAAAAAAAGTTAGAAAATG
Found at i:6484183 original size:26 final size:26
Alignment explanation
Indices: 6484122--6484183 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 26
6484112 TTTAGTTTAG
* * *
6484122 GCCCATATTTGAGTTGGTTAGTCCAA
1 GCCCAAATTTGAGCTGGTTACTCCAA
* *
6484148 GCCTAAATTTGAGCTGGTTACTCTAA
1 GCCCAAATTTGAGCTGGTTACTCCAA
*
6484174 GCCCAGATTT
1 GCCCAAATTT
6484184 AAGTTGATCA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (26 bp):
GCCCAAATTTGAGCTGGTTACTCCAA
Found at i:6485000 original size:11 final size:10
Alignment explanation
Indices: 6484978--6485111 Score: 55
Period size: 11 Copynumber: 12.8 Consensus size: 10
6484968 TAAGTTACTC
6484978 AATAAAAATA
1 AATAAAAATA
6484988 AATAAATAATA
1 AATAAA-AATA
* *
6484999 AA-AATCAGTCA
1 AATAA-AAAT-A
6485010 AAT-AAAATA
1 AATAAAAATA
*
6485019 CATGAAAAA-A
1 AAT-AAAAATA
*
6485029 ACTAAAAATAA
1 AATAAAAAT-A
6485040 AATAAAAAT-
1 AATAAAAATA
* *
6485049 AA-AAATATG
1 AATAAAAATA
6485058 AATATAAAATA
1 AATA-AAAATA
*
6485069 AATAAAATTAA
1 AATAAAAAT-A
6485080 AATCAAAAAATAA
1 AAT--AAAAAT-A
6485093 AATTAAAATATA
1 AA-TAAAA-ATA
6485105 AA-AAAAA
1 AATAAAAA
6485112 AACCTACGAT
Statistics
Matches: 95, Mismatches: 13, Indels: 33
0.67 0.09 0.23
Matches are distributed among these distances:
8 5 0.05
9 13 0.14
10 23 0.24
11 35 0.37
12 7 0.07
13 11 0.12
14 1 0.01
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.21
Consensus pattern (10 bp):
AATAAAAATA
Found at i:6485012 original size:18 final size:17
Alignment explanation
Indices: 6484978--6485074 Score: 57
Period size: 17 Copynumber: 5.9 Consensus size: 17
6484968 TAAGTTACTC
6484978 AATAAAAATAAATAAAT
1 AATAAAAATAAATAAAT
* *
6484995 AATAAAAATCAGTCAAAT
1 AATAAAAATAAAT-AAAT
*
6485013 AA-AATACATGAAA-AAA-
1 AATAA-AAAT-AAATAAAT
*
6485029 ACTAAAAATAAAATAAA-
1 AATAAAAAT-AAATAAAT
*
6485046 AATAAAAAT--ATGAAT
1 AATAAAAATAAATAAAT
6485061 -AT-AAAATAAATAAA
1 AATAAAAATAAATAAA
6485075 ATTAAAATCA
Statistics
Matches: 61, Mismatches: 11, Indels: 18
0.68 0.12 0.20
Matches are distributed among these distances:
13 5 0.08
14 6 0.10
15 4 0.07
16 7 0.11
17 29 0.48
18 9 0.15
19 1 0.02
ACGTcount: A:0.72, C:0.04, G:0.03, T:0.21
Consensus pattern (17 bp):
AATAAAAATAAATAAAT
Found at i:6485040 original size:6 final size:6
Alignment explanation
Indices: 6485025--6485113 Score: 62
Period size: 6 Copynumber: 14.8 Consensus size: 6
6485015 AATACATGAA
**
6485025 AAAAACT AAAAAT -AAAAT AAAAAT AAAAAT ATGAAT ATAAAAT --AAAT
1 AAAAA-T AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT A-AAAAT AAAAAT
* *
6485072 -AAAAT TAAAAT CAAAAAAT AAAATT AAAATAT AAAAA- AAAAA
1 AAAAAT AAAAAT --AAAAAT AAAAAT AAAA-AT AAAAAT AAAAA
6485114 CCTACGATCA
Statistics
Matches: 68, Mismatches: 7, Indels: 16
0.75 0.08 0.18
Matches are distributed among these distances:
4 4 0.06
5 14 0.21
6 32 0.47
7 13 0.19
8 5 0.07
ACGTcount: A:0.76, C:0.02, G:0.01, T:0.20
Consensus pattern (6 bp):
AAAAAT
Found at i:6485046 original size:19 final size:18
Alignment explanation
Indices: 6485024--6485113 Score: 76
Period size: 19 Copynumber: 4.7 Consensus size: 18
6485014 AAATACATGA
6485024 AAAAAACTAAAAATAAAAT
1 AAAAAA-TAAAAATAAAAT
6485043 -AAAAATAAAAATATGAATAT
1 AAAAAATAAAAATA--AA-AT
*
6485063 AAAATAAATAAAATTAAAAT
1 -AAA-AAATAAAAATAAAAT
*
6485083 CAAAAAATAAAATTAAAAT
1 -AAAAAATAAAAATAAAAT
6485102 ATAAAAA-AAAAA
1 A-AAAAATAAAAA
6485114 CCTACGATCA
Statistics
Matches: 61, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
17 8 0.13
18 10 0.16
19 22 0.36
20 7 0.11
21 2 0.03
22 2 0.03
23 10 0.16
ACGTcount: A:0.77, C:0.02, G:0.01, T:0.20
Consensus pattern (18 bp):
AAAAAATAAAAATAAAAT
Found at i:6485100 original size:34 final size:34
Alignment explanation
Indices: 6485034--6485102 Score: 88
Period size: 34 Copynumber: 2.0 Consensus size: 34
6485024 AAAAAACTAA
*
6485034 AAATAAAATAAAAATAAAAATATGAATATAAAAT
1 AAATAAAATAAAAATAAAAATATAAATATAAAAT
*
6485068 AAATAAAATTAAAATCAAAAA-ATAAA-ATTAAAAT
1 AAATAAAATAAAAAT-AAAAATATAAATA-TAAAAT
6485102 A
1 A
6485103 TAAAAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
33 1 0.03
34 25 0.81
35 5 0.16
ACGTcount: A:0.74, C:0.01, G:0.01, T:0.23
Consensus pattern (34 bp):
AAATAAAATAAAAATAAAAATATAAATATAAAAT
Found at i:6485920 original size:5 final size:5
Alignment explanation
Indices: 6485912--6486044 Score: 54
Period size: 5 Copynumber: 26.0 Consensus size: 5
6485902 AGGAAAAAAG
* * * *
6485912 AATAA AATAA AAT-A AATAT AATAA TAATAA TATAA TAATAT AATAT AAT-A
1 AATAA AATAA AATAA AATAA AATAA -AATAA AATAA -AATAA AATAA AATAA
* * * * * * * *
6485962 AATAT AATAT AATAA TATAA CATAA TATAA TATAA TTAATAC AATAC AATAA
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA --AATAA AATAA AATAA
* * * * *
6486014 TAATAT AATAT AATAT AATAC AATAT AATAA
1 -AATAA AATAA AATAA AATAA AATAA AATAA
6486045 TAATGTAATA
Statistics
Matches: 103, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
4 7 0.07
5 81 0.79
6 12 0.12
7 3 0.03
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (5 bp):
AATAA
Found at i:6486077 original size:5 final size:5
Alignment explanation
Indices: 6486067--6486123 Score: 69
Period size: 5 Copynumber: 10.6 Consensus size: 5
6486057 CCATATGATG
*
6486067 ATATA ATATA ATATA ATATA ATATA ATATA TTATA CTATAGTA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA --ATA-TA ATATA
6486115 ATAATA ATA
1 AT-ATA ATA
6486124 AAATGATAAC
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
5 34 0.74
6 8 0.17
7 2 0.04
8 2 0.04
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:6486082 original size:10 final size:10
Alignment explanation
Indices: 6485912--6486123 Score: 186
Period size: 10 Copynumber: 20.9 Consensus size: 10
6485902 AGGAAAAAAG
* *
6485912 AATAAAATAA
1 AATATAATAT
6485922 AATA-AATAT
1 AATATAATAT
6485931 AATAATAATA-
1 AAT-ATAATAT
6485941 ATATAATAATAT
1 A-AT-ATAATAT
6485953 AATATAATA-
1 AATATAATAT
6485962 AATATAATAT
1 AATATAATAT
6485972 -A-ATAATAT
1 AATATAATAT
*
6485980 AACATAATAT
1 AATATAATAT
6485990 AATATAAT-T
1 AATATAATAT
* *
6485999 AATACAATAC
1 AATATAATAT
6486009 AATAATAATAT
1 AAT-ATAATAT
6486020 AATATAATAT
1 AATATAATAT
*
6486030 AATACAATAT
1 AATATAATAT
*
6486040 AATAATAATGT
1 AAT-ATAATAT
**
6486051 AATATACCAT
1 AATATAATAT
*
6486061 -ATGATGATAT
1 AAT-ATAATAT
6486071 AATATAATAT
1 AATATAATAT
6486081 AATATAATAT
1 AATATAATAT
*
6486091 AATATATTAT
1 AATATAATAT
6486101 ACTATAGTAATAT
1 A--ATA-TAATAT
6486114 AATAATAATA
1 AAT-ATAATA
6486124 AAATGATAAC
Statistics
Matches: 168, Mismatches: 18, Indels: 31
0.77 0.08 0.14
Matches are distributed among these distances:
8 7 0.04
9 28 0.17
10 82 0.49
11 40 0.24
12 5 0.03
13 6 0.04
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.35
Consensus pattern (10 bp):
AATATAATAT
Found at i:6486171 original size:3 final size:3
Alignment explanation
Indices: 6485912--6486155 Score: 84
Period size: 3 Copynumber: 89.7 Consensus size: 3
6485902 AGGAAAAAAG
6485912 AAT AA- AAT AA- AAT AA- ATAT AAT AAT AAT AAT -AT AAT AAT -AT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
*
6485953 AAT -AT AAT AA- ATAT AAT -AT AAT AAT -AT AA- CAT AAT -AT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
6485993 -AT AATT AAT -AC AAT -AC AAT AAT AAT -AT AAT -AT AAT -AT AAT
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
6486033 -AC AAT -AT AAT AAT AAT -GT AAT -AT ACCAT -AT GAT GAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A--AT AAT AAT AAT AAT AAT
* * *
6486074 -AT AAT -AT AAT -AT AAT -AT AAT ATAT TAT ACT -AT AGT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT
* * *
6486114 AAT AAT AAT AA- AAT GAT AACA AAT AAT AAC AA- AA- AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AA
6486156 CAGTACTAGT
Statistics
Matches: 182, Mismatches: 21, Indels: 76
0.65 0.08 0.27
Matches are distributed among these distances:
2 56 0.31
3 115 0.63
4 9 0.05
5 2 0.01
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:6492816 original size:244 final size:244
Alignment explanation
Indices: 6492380--6492869 Score: 818
Period size: 244 Copynumber: 2.0 Consensus size: 244
6492370 CGTGTGAAAG
6492380 AGGGGTGAATACACAAGTAAGGGAAGCATATCTCAAAAGAGAGCAGAAGGGGGATTGTGAAAGGG
1 AGGGGTGAATACACAAGTAAGGGAAGCATATCTCAAAAGAGAGCAGAAGGGGGATTGTGAAAGGG
* * * *
6492445 TAAGAGGATACAAAGGGTGGGAAGAAGGGGAGTTTTGCTAGGTTTAGTCATGCTCAAAGGAGATC
66 TAAAAGGATACAAAGGGTGGGAAAAAAGGAAGTTTTGCTAGGTTTAGTCATGCTCAAAGGAGATC
* *
6492510 GATTAGCATGCCAAAAAATAAAGGTGAAAAAAGATGGTTTTGAGGGAATGGATAGAAAAAAATAA
131 AACTAGCATGCCAAAAAATAAAGGTGAAAAAAGATGGTTTTGAGGGAATGGATAGAAAAAAATAA
* * *
6492575 GCAATTTTGGGTTAGCTCTTGGTCAGAGAAGGCCTAAATGATGGCTAAA
196 GCAATTTTGGGCTAGCTCTAGGTCAGAGAAGGCCTAAATGATGACTAAA
*
6492624 AGGGGTGAATACACAAGTAAGGGAAGCATATCTCAAAAGAGAGCAGAAGGGGGATTGTGAAGGGG
1 AGGGGTGAATACACAAGTAAGGGAAGCATATCTCAAAAGAGAGCAGAAGGGGGATTGTGAAAGGG
* * *
6492689 TAAAAGGATGCAAATGGTGGGAAAAAAGGAAGTTTTGCTAGGTTTAGTCATGCTTAAAGGAGATC
66 TAAAAGGATACAAAGGGTGGGAAAAAAGGAAGTTTTGCTAGGTTTAGTCATGCTCAAAGGAGATC
* * **
6492754 AACTAGCATGCCAAAAAATGAAGGTGAAAAAAGATGGTTTTGAGGGAATGGATAGGAAAAAATGG
131 AACTAGCATGCCAAAAAATAAAGGTGAAAAAAGATGGTTTTGAGGGAATGGATAGAAAAAAATAA
*
6492819 GCAATTTTGGGCTAGCTCTAGGTCAGAGAAGGCCTAGATGATGACTAAA
196 GCAATTTTGGGCTAGCTCTAGGTCAGAGAAGGCCTAAATGATGACTAAA
6492868 AG
1 AG
6492870 TCTTTTCAAT
Statistics
Matches: 228, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
244 228 1.00
ACGTcount: A:0.39, C:0.09, G:0.32, T:0.21
Consensus pattern (244 bp):
AGGGGTGAATACACAAGTAAGGGAAGCATATCTCAAAAGAGAGCAGAAGGGGGATTGTGAAAGGG
TAAAAGGATACAAAGGGTGGGAAAAAAGGAAGTTTTGCTAGGTTTAGTCATGCTCAAAGGAGATC
AACTAGCATGCCAAAAAATAAAGGTGAAAAAAGATGGTTTTGAGGGAATGGATAGAAAAAAATAA
GCAATTTTGGGCTAGCTCTAGGTCAGAGAAGGCCTAAATGATGACTAAA
Found at i:6494822 original size:15 final size:15
Alignment explanation
Indices: 6494802--6494835 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
6494792 AAAAAATCTT
*
6494802 TTAATTTTCCTACAC
1 TTAATTTTCATACAC
*
6494817 TTAATTTTCATGCAC
1 TTAATTTTCATACAC
6494832 TTAA
1 TTAA
6494836 AGATTCTTGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.29, C:0.21, G:0.03, T:0.47
Consensus pattern (15 bp):
TTAATTTTCATACAC
Found at i:6504434 original size:13 final size:13
Alignment explanation
Indices: 6504416--6504476 Score: 61
Period size: 13 Copynumber: 4.6 Consensus size: 13
6504406 TTTACATTAT
6504416 GGTTTCAATTTAG
1 GGTTTCAATTTAG
6504429 GGTTTCAATTT-G
1 GGTTTCAATTTAG
* *
6504441 AAGTTTAAATTTTAG
1 -GGTTTCAA-TTTAG
* *
6504456 GGTTTCGATTTAA
1 GGTTTCAATTTAG
6504469 GGTTTCAA
1 GGTTTCAA
6504477 AAATTTATGA
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
12 1 0.03
13 28 0.74
14 8 0.21
15 1 0.03
ACGTcount: A:0.26, C:0.07, G:0.21, T:0.46
Consensus pattern (13 bp):
GGTTTCAATTTAG
Found at i:6504473 original size:27 final size:27
Alignment explanation
Indices: 6504416--6504473 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
6504406 TTTACATTAT
*
6504416 GGTTTCAATTTAGGGTTTCAATTTGAA
1 GGTTTAAATTTAGGGTTTCAATTTGAA
*
6504443 -GTTTAAATTTTAGGGTTTCGATTT-AA
1 GGTTTAAA-TTTAGGGTTTCAATTTGAA
6504469 GGTTT
1 GGTTT
6504474 CAAAAATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 8 0.30
27 19 0.70
ACGTcount: A:0.24, C:0.05, G:0.22, T:0.48
Consensus pattern (27 bp):
GGTTTAAATTTAGGGTTTCAATTTGAA
Found at i:6506820 original size:7 final size:7
Alignment explanation
Indices: 6506760--6506845 Score: 50
Period size: 7 Copynumber: 11.7 Consensus size: 7
6506750 TTTTTAAGAA
*
6506760 TTTTTCT
1 TTTTTAT
6506767 TTTTTGAT
1 TTTTT-AT
6506775 TTTTT-T
1 TTTTTAT
*
6506781 TTTTTAG
1 TTTTTAT
*
6506788 TTTTTAG
1 TTTTTAT
*
6506795 TTTTAAT
1 TTTTTAT
*
6506802 TTTTAAGTT
1 TTTTTA--T
6506811 TTTTTAT
1 TTTTTAT
6506818 TTTTT-T
1 TTTTTAT
6506824 GTTTTTCGAT
1 -TTTTT--AT
*
6506834 TTTTCAT
1 TTTTTAT
6506841 TTTTT
1 TTTTT
6506846 CGATGTTTTT
Statistics
Matches: 64, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
6 7 0.11
7 40 0.62
8 6 0.09
9 10 0.16
10 1 0.02
ACGTcount: A:0.12, C:0.03, G:0.07, T:0.78
Consensus pattern (7 bp):
TTTTTAT
Found at i:6506835 original size:16 final size:15
Alignment explanation
Indices: 6506816--6506861 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
6506806 AAGTTTTTTT
6506816 ATTTTTTTGTTTTTCG
1 ATTTTTTT-TTTTTCG
*
6506832 ATTTTTCATTTTTTCG
1 ATTTTT-TTTTTTTCG
*
6506848 ATGTTTTTTTTTTC
1 ATTTTTTTTTTTTC
6506862 TTAAGATGAC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
15 7 0.27
16 18 0.69
17 1 0.04
ACGTcount: A:0.09, C:0.09, G:0.09, T:0.74
Consensus pattern (15 bp):
ATTTTTTTTTTTTCG
Done.