Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 14 of 163
Found at i:4747089 original size:21 final size:20
Alignment explanation
Indices: 4747047--4747089 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
4747037 CAAAATCCAC
* **
4747047 AACCTTGAACTTAAACTTTA
1 AACCCTGAACTTAAACCATA
4747067 AACCCTGAACTCTAAACCATA
1 AACCCTGAACT-TAAACCATA
4747088 AA
1 AA
4747090 TTTAAATATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.44, C:0.26, G:0.05, T:0.26
Consensus pattern (20 bp):
AACCCTGAACTTAAACCATA
Found at i:4787686 original size:15 final size:15
Alignment explanation
Indices: 4787648--4787688 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
4787638 GTAGTTTTTG
4787648 TTATTATTATTGCTA
1 TTATTATTATTGCTA
*
4787663 TTATCATTATTG-TA
1 TTATTATTATTGCTA
4787677 TTATATATTATT
1 TTAT-TATTATT
4787689 ATTACATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 6 0.26
15 17 0.74
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.61
Consensus pattern (15 bp):
TTATTATTATTGCTA
Found at i:4787907 original size:13 final size:14
Alignment explanation
Indices: 4787889--4787919 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
4787879 TACCTATACA
4787889 TATTTTTAT-ATTT
1 TATTTTTATAATTT
4787902 TATTTTTATAATTT
1 TATTTTTATAATTT
4787916 TATT
1 TATT
4787920 ATATATGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TATTTTTATAATTT
Found at i:4791126 original size:15 final size:16
Alignment explanation
Indices: 4791097--4791128 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
4791087 TATATGATAA
4791097 AATTTTATGTTTTATT
1 AATTTTATGTTTTATT
4791113 AATTTTAT-TTTTATT
1 AATTTTATGTTTTATT
4791128 A
1 A
4791129 TATATTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (16 bp):
AATTTTATGTTTTATT
Found at i:4796093 original size:38 final size:39
Alignment explanation
Indices: 4796037--4796132 Score: 103
Period size: 38 Copynumber: 2.5 Consensus size: 39
4796027 ATTAATTAAT
* *
4796037 TTTAAAAATTTCCAAAAAATAGAAAGT-TATTA-AGATTA
1 TTTAAAAATTTCCAAAAAATAAAAAATATATTATA-ATTA
* *
4796075 TTTAAAAATTT-TATAAAAATAAAAAATATATTATAATTT
1 TTTAAAAATTTCCA-AAAAATAAAAAATATATTATAATTA
4796114 TTTAAAAA-TT-CAAAAAATA
1 TTTAAAAATTTCCAAAAAATA
4796133 TTAAAAATTA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
37 8 0.16
38 25 0.50
39 16 0.32
40 1 0.02
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (39 bp):
TTTAAAAATTTCCAAAAAATAAAAAATATATTATAATTA
Found at i:4796107 original size:39 final size:38
Alignment explanation
Indices: 4796037--4796147 Score: 104
Period size: 39 Copynumber: 2.9 Consensus size: 38
4796027 ATTAATTAAT
* *
4796037 TTTAAAAATTTCCAAAAAATAGAAAGTTATTA-AGATTA
1 TTTAAAAATTTCCAAAAAATAAAAAATTATTATA-ATTA
* *
4796075 TTTAAAAATTT-TATAAAAATAAAAAATATATTATAATTT
1 TTTAAAAATTTCCA-AAAAATAAAAAAT-TATTATAATTA
4796114 TTTAAAAA-TT-CAAAAAATATTAAAAATTAATTAT
1 TTTAAAAATTTCCAAAAAATA--AAAAATT-ATTAT
4796148 TTGTTCCACA
Statistics
Matches: 62, Mismatches: 5, Indels: 11
0.79 0.06 0.14
Matches are distributed among these distances:
37 8 0.13
38 26 0.42
39 27 0.44
40 1 0.02
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.39
Consensus pattern (38 bp):
TTTAAAAATTTCCAAAAAATAAAAAATTATTATAATTA
Found at i:4800357 original size:16 final size:16
Alignment explanation
Indices: 4800336--4800426 Score: 83
Period size: 16 Copynumber: 5.4 Consensus size: 16
4800326 AACACGAAAA
4800336 AATTTTAAAACACGAG
1 AATTTTAAAACACGAG
* * *
4800352 AATTTTAGAGACACAAA
1 AATTTTA-AAACACGAG
4800369 AATTCTTAAAAACACGAAG
1 AATT-TT-AAAACACG-AG
* *
4800388 ATTTTTGAAAACACGAC
1 AATTTT-AAAACACGAG
*
4800405 AATTTTGAAACACGAG
1 AATTTTAAAACACGAG
4800421 AATTTT
1 AATTTT
4800427 TTTTGAAAAC
Statistics
Matches: 59, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
16 21 0.36
17 16 0.27
18 17 0.29
19 5 0.08
ACGTcount: A:0.47, C:0.13, G:0.12, T:0.27
Consensus pattern (16 bp):
AATTTTAAAACACGAG
Found at i:4800372 original size:17 final size:16
Alignment explanation
Indices: 4800333--4800417 Score: 53
Period size: 17 Copynumber: 5.0 Consensus size: 16
4800323 GGAAACACGA
4800333 AAAAATTTTAAAACAC
1 AAAAATTTTAAAACAC
* * *
4800349 GAGAATTTTAGAGACAC
1 AAAAATTTTA-AAACAC
4800366 AAAAATTCTTAAAAACAC
1 AAAAATT-TT-AAAACAC
* *
4800384 GAAGATTTTTGAAAACAC
1 -AAAAATTTT-AAAACAC
* * *
4800402 GACAATTTTGAAACAC
1 AAAAATTTTAAAACAC
4800418 GAGAATTTTT
Statistics
Matches: 52, Mismatches: 13, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
16 14 0.27
17 16 0.31
18 16 0.31
19 6 0.12
ACGTcount: A:0.51, C:0.14, G:0.11, T:0.25
Consensus pattern (16 bp):
AAAAATTTTAAAACAC
Found at i:4800428 original size:18 final size:17
Alignment explanation
Indices: 4800318--4800427 Score: 78
Period size: 18 Copynumber: 6.4 Consensus size: 17
4800308 TACTATTATT
*
4800318 ATTTTGGAAACACGAAAA
1 ATTTTTGAAACACG-AAA
* * *
4800336 AATTTTAAAACACGAGA
1 ATTTTTGAAACACGAAA
* * *
4800353 ATTTTAGAGACACAAAA
1 ATTTTTGAAACACGAAA
** *
4800370 ATTCTTAAAAACACGAAG
1 ATT-TTTGAAACACGAAA
*
4800388 ATTTTTGAAAACACGACA
1 ATTTTTG-AAACACGAAA
*
4800406 A-TTTTGAAACACGAGA
1 ATTTTTGAAACACGAAA
4800422 ATTTTT
1 ATTTTT
4800428 TTTGAAAACG
Statistics
Matches: 70, Mismatches: 19, Indels: 7
0.73 0.20 0.07
Matches are distributed among these distances:
16 10 0.14
17 27 0.39
18 33 0.47
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.27
Consensus pattern (17 bp):
ATTTTTGAAACACGAAA
Found at i:4800487 original size:17 final size:18
Alignment explanation
Indices: 4800448--4800490 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
4800438 CAAAAAGTCA
4800448 AAAATTTTGAAATACGAG
1 AAAATTTTGAAATACGAG
4800466 AAAATTTTGAAA-AC-ATG
1 AAAATTTTGAAATACGA-G
4800483 AAAATTTT
1 AAAATTTT
4800491 TTAAAAACGA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 1 0.04
17 11 0.46
18 12 0.50
ACGTcount: A:0.51, C:0.05, G:0.12, T:0.33
Consensus pattern (18 bp):
AAAATTTTGAAATACGAG
Found at i:4800922 original size:19 final size:19
Alignment explanation
Indices: 4800882--4800923 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
4800872 AACACAATTT
*
4800882 AAATACATTAAATAAAATA
1 AAATACATTAAATAAAAAA
*
4800901 AAATAGATTAAA-AAGAAAA
1 AAATACATTAAATAA-AAAA
4800920 AAAT
1 AAAT
4800924 TACCAAAGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 2 0.10
19 18 0.90
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.21
Consensus pattern (19 bp):
AAATACATTAAATAAAAAA
Found at i:4801127 original size:11 final size:11
Alignment explanation
Indices: 4801107--4801157 Score: 66
Period size: 11 Copynumber: 4.5 Consensus size: 11
4801097 TATATATATA
*
4801107 TTTCTATTTTC
1 TTTCTTTTTTC
*
4801118 TTTCCCTTTTTC
1 TTT-CTTTTTTC
*
4801130 CTTCTTTTTTC
1 TTTCTTTTTTC
4801141 TTTCTTTTTTC
1 TTTCTTTTTTC
4801152 TTTCTT
1 TTTCTT
4801158 CTTCGGGTCA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
11 26 0.76
12 8 0.24
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.75
Consensus pattern (11 bp):
TTTCTTTTTTC
Found at i:4801262 original size:23 final size:23
Alignment explanation
Indices: 4801233--4801280 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
4801223 TCGGCCTCTC
*
4801233 CTCTTC-TCTCTTTCTTTCTTCTT
1 CTCTTCTTCTCTTTCTTCCTT-TT
*
4801256 CTCTTCTTTTCTTTCTTCCTTTT
1 CTCTTCTTCTCTTTCTTCCTTTT
4801279 CT
1 CT
4801281 TTTTGGTTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 10 0.45
24 12 0.55
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (23 bp):
CTCTTCTTCTCTTTCTTCCTTTT
Found at i:4801268 original size:20 final size:18
Alignment explanation
Indices: 4801234--4801273 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 18
4801224 CGGCCTCTCC
4801234 TCTTCTCTCTTTCTTTCT
1 TCTTCTCTCTTTCTTTCT
4801252 TCTTCTCTTCTTTTCTTTCT
1 TCTTCTC-TC-TTTCTTTCT
4801272 TC
1 TC
4801274 CTTTTCTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 7 0.35
19 2 0.10
20 11 0.55
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (18 bp):
TCTTCTCTCTTTCTTTCT
Found at i:4801277 original size:13 final size:12
Alignment explanation
Indices: 4801241--4801282 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
4801231 TCCTCTTCTC
*
4801241 TCTTTCTT-TCT
1 TCTTTCTTCTTT
4801252 TCTTCTCTTCTTT
1 TCTT-TCTTCTTT
4801265 TCTTTCTTCCTTT
1 TCTTTCTT-CTTT
4801278 TCTTT
1 TCTTT
4801283 TTGGTTGCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
11 4 0.15
12 8 0.30
13 15 0.56
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (12 bp):
TCTTTCTTCTTT
Found at i:4801784 original size:29 final size:30
Alignment explanation
Indices: 4801763--4801849 Score: 86
Period size: 30 Copynumber: 2.9 Consensus size: 30
4801753 GTAATTTACG
*
4801763 AAATATTAGGGGTCAAAGTGTAATTTAAAGA
1 AAAT-TTAGGGGTCAAAATGTAATTTAAAGA
* *
4801794 AAATTTTGGGGTCAAAATGTAAATTTTAA-A
1 AAATTTAGGGGTCAAAATGT-AATTTAAAGA
* ** *
4801824 AAGTAGAGGGGTTAAAATGTAATTTA
1 AAATTTAGGGGTCAAAATGTAATTTA
4801850 TATTTTTTTG
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
29 5 0.11
30 30 0.65
31 11 0.24
ACGTcount: A:0.44, C:0.02, G:0.22, T:0.32
Consensus pattern (30 bp):
AAATTTAGGGGTCAAAATGTAATTTAAAGA
Found at i:4805011 original size:129 final size:129
Alignment explanation
Indices: 4804781--4805038 Score: 453
Period size: 129 Copynumber: 2.0 Consensus size: 129
4804771 CTAGGACGCC
* *
4804781 TACATAGTACATAGTTAAAGTCTATGTATTAATTAGTTCATGCAAACAAATTTTATAATGGCGTC
1 TACATAGTACATAATTAAAGTCTATGGATTAATTAGTTCATGCAAACAAATTTTATAATGGCGTC
* * *
4804846 ATCTCGAAAGTTAACAATTTTCTGCAGCAGAAACCATAGACAATTCCTTTCATCATACAATCGT
66 ATCCCGAAAGTTAACAATTTTCTGCAGCAAAAACCATAGACAATGCCTTTCATCATACAATCGT
4804910 TACATAGTACATAATTAAAGTCTATGGATTAATTAGTTCATGCAAACAAATTTTATAATGGCGTC
1 TACATAGTACATAATTAAAGTCTATGGATTAATTAGTTCATGCAAACAAATTTTATAATGGCGTC
* *
4804975 ATCCCGAAAGTTAACAATTTTCTGCAGCAAAAACCATAGACAATGCCTTTTATCATATAATCGT
66 ATCCCGAAAGTTAACAATTTTCTGCAGCAAAAACCATAGACAATGCCTTTCATCATACAATCGT
4805039 CTTTAACTCC
Statistics
Matches: 122, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
129 122 1.00
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.33
Consensus pattern (129 bp):
TACATAGTACATAATTAAAGTCTATGGATTAATTAGTTCATGCAAACAAATTTTATAATGGCGTC
ATCCCGAAAGTTAACAATTTTCTGCAGCAAAAACCATAGACAATGCCTTTCATCATACAATCGT
Found at i:4806224 original size:30 final size:29
Alignment explanation
Indices: 4806190--4806280 Score: 96
Period size: 29 Copynumber: 3.1 Consensus size: 29
4806180 TAAATTACAC
4806190 TTTAATTCTTTAAAAATAATAAAAATTTAA
1 TTTAATTCTTTAAAAATAAT-AAAATTTAA
* *
4806220 TTTAATCCTTT-AAAATAATAAAATTATAT
1 TTTAATTCTTTAAAAATAATAAAATT-TAA
* * *
4806249 TTTTATTATCTTAAAAAT-ATATAATTTAA
1 TTTAATTCT-TTAAAAATAATAAAATTTAA
4806278 TTT
1 TTT
4806281 TCACATTTAA
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
28 6 0.12
29 21 0.41
30 19 0.37
31 5 0.10
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.48
Consensus pattern (29 bp):
TTTAATTCTTTAAAAATAATAAAATTTAA
Found at i:4806390 original size:18 final size:18
Alignment explanation
Indices: 4806367--4806407 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
4806357 CAGAGTAAGT
4806367 TTATCATCTCCAGAGCTG
1 TTATCATCTCCAGAGCTG
4806385 TTATCATCTCCAGAGCTG
1 TTATCATCTCCAGAGCTG
4806403 TTATC
1 TTATC
4806408 CATTGTAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.22, C:0.27, G:0.15, T:0.37
Consensus pattern (18 bp):
TTATCATCTCCAGAGCTG
Found at i:4808501 original size:14 final size:15
Alignment explanation
Indices: 4808482--4808510 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4808472 CAAGAAATGC
4808482 GAAGAAAAAT-TGTT
1 GAAGAAAAATGTGTT
4808496 GAAGAAAAATGTGTT
1 GAAGAAAAATGTGTT
4808511 AATGAACCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.48, C:0.00, G:0.24, T:0.28
Consensus pattern (15 bp):
GAAGAAAAATGTGTT
Found at i:4814301 original size:18 final size:18
Alignment explanation
Indices: 4814274--4814314 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
4814264 CAATGGAGTT
*
4814274 GATTATCTTGTAGGAATG
1 GATTACCTTGTAGGAATG
*
4814292 GATTACCTTGTAGGAGTG
1 GATTACCTTGTAGGAATG
4814310 GATTA
1 GATTA
4814315 TCTTTTTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (18 bp):
GATTACCTTGTAGGAATG
Found at i:4816406 original size:471 final size:471
Alignment explanation
Indices: 4815524--4816466 Score: 1886
Period size: 471 Copynumber: 2.0 Consensus size: 471
4815514 TTAGTCAACT
4815524 TCATGTCATGGTGGCTAATGGGGTGAGATTGACTACTGACCGGTTGCATGCGTGTGCTTAAAACA
1 TCATGTCATGGTGGCTAATGGGGTGAGATTGACTACTGACCGGTTGCATGCGTGTGCTTAAAACA
4815589 CTAAATTTATATAACTATTTTAAAAGCCCAATTTTACTGCAAGCGTACTGGTCAGTTTTAATATT
66 CTAAATTTATATAACTATTTTAAAAGCCCAATTTTACTGCAAGCGTACTGGTCAGTTTTAATATT
4815654 TATATTTATAGTGTAATAATGAAATGCAAAAGTATTCTAAGGATTGAACCCAAAGGAATAGGCAA
131 TATATTTATAGTGTAATAATGAAATGCAAAAGTATTCTAAGGATTGAACCCAAAGGAATAGGCAA
4815719 TTGAGTAATAACTAACATACACAATAGATGCTAAGTGTCTATTGATACAATTTTATATTACGGTG
196 TTGAGTAATAACTAACATACACAATAGATGCTAAGTGTCTATTGATACAATTTTATATTACGGTG
4815784 ATTCATAAAAGATAAGTTTGCAAGAAAATTAAATATTCTACTCTAGGGACTAAATTACAAGAAAT
261 ATTCATAAAAGATAAGTTTGCAAGAAAATTAAATATTCTACTCTAGGGACTAAATTACAAGAAAT
4815849 GTAAACTAGAAGGACTATCTAGCAAATGACTAATAGGGGTTGGTTGACTTCGATGTGGTTCACCA
326 GTAAACTAGAAGGACTATCTAGCAAATGACTAATAGGGGTTGGTTGACTTCGATGTGGTTCACCA
4815914 AATCTTGGACCAATGACATAAATCACATAATTACCAAGTGGCTCTATTTTATCTTCCGGTCTTAA
391 AATCTTGGACCAATGACATAAATCACATAATTACCAAGTGGCTCTATTTTATCTTCCGGTCTTAA
4815979 TTTTGCCAACTTAGAC
456 TTTTGCCAACTTAGAC
4815995 TCATGTCATGGTGGCTAATGGGGTGAGATTGACTACTGACCGGTTGCATGCGTGTGCTTAAAACA
1 TCATGTCATGGTGGCTAATGGGGTGAGATTGACTACTGACCGGTTGCATGCGTGTGCTTAAAACA
4816060 CTAAATTTATATAACTATTTTAAAAGCCCAATTTTACTGCAAGCGTACTGGTCAGTTTTAATATT
66 CTAAATTTATATAACTATTTTAAAAGCCCAATTTTACTGCAAGCGTACTGGTCAGTTTTAATATT
4816125 TATATTTATAGTGTAATAATGAAATGCAAAAGTATTCTAAGGATTGAACCCAAAGGAATAGGCAA
131 TATATTTATAGTGTAATAATGAAATGCAAAAGTATTCTAAGGATTGAACCCAAAGGAATAGGCAA
4816190 TTGAGTAATAACTAACATACACAATAGATGCTAAGTGTCTATTGATACAATTTTATATTACGGTG
196 TTGAGTAATAACTAACATACACAATAGATGCTAAGTGTCTATTGATACAATTTTATATTACGGTG
4816255 ATTCATAAAAGATAAGTTTGCAAGAAAATTAAATATTCTACTCTAGGGACTAAATTACAAGAAAT
261 ATTCATAAAAGATAAGTTTGCAAGAAAATTAAATATTCTACTCTAGGGACTAAATTACAAGAAAT
4816320 GTAAACTAGAAGGACTATCTAGCAAATGACTAATAGGGGTTGGTTGACTTCGATGTGGTTCACCA
326 GTAAACTAGAAGGACTATCTAGCAAATGACTAATAGGGGTTGGTTGACTTCGATGTGGTTCACCA
4816385 AATCTTGGACCAATGACATAAATCACATAATTACCAAGTGGCTCTATTTTATCTTCCGGTCTTAA
391 AATCTTGGACCAATGACATAAATCACATAATTACCAAGTGGCTCTATTTTATCTTCCGGTCTTAA
4816450 TTTTGCCAACTTAGAC
456 TTTTGCCAACTTAGAC
4816466 T
1 T
4816467 GATTAGGTCT
Statistics
Matches: 472, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
471 472 1.00
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (471 bp):
TCATGTCATGGTGGCTAATGGGGTGAGATTGACTACTGACCGGTTGCATGCGTGTGCTTAAAACA
CTAAATTTATATAACTATTTTAAAAGCCCAATTTTACTGCAAGCGTACTGGTCAGTTTTAATATT
TATATTTATAGTGTAATAATGAAATGCAAAAGTATTCTAAGGATTGAACCCAAAGGAATAGGCAA
TTGAGTAATAACTAACATACACAATAGATGCTAAGTGTCTATTGATACAATTTTATATTACGGTG
ATTCATAAAAGATAAGTTTGCAAGAAAATTAAATATTCTACTCTAGGGACTAAATTACAAGAAAT
GTAAACTAGAAGGACTATCTAGCAAATGACTAATAGGGGTTGGTTGACTTCGATGTGGTTCACCA
AATCTTGGACCAATGACATAAATCACATAATTACCAAGTGGCTCTATTTTATCTTCCGGTCTTAA
TTTTGCCAACTTAGAC
Found at i:4816961 original size:27 final size:27
Alignment explanation
Indices: 4816892--4816962 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
4816882 GGTCGAGGGT
* *
4816892 CTGCCATAGGCGGCACCAAAGGTGCCA
1 CTGCCACAGGCGGCACCAAAGATGCCA
* * * *
4816919 GTGGCAGAGGCAGCACCAAAGATGCCA
1 CTGCCACAGGCGGCACCAAAGATGCCA
*
4816946 CTGCCACAAGCGGCACC
1 CTGCCACAGGCGGCACC
4816963 TGTGCCATGT
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.28, C:0.34, G:0.30, T:0.08
Consensus pattern (27 bp):
CTGCCACAGGCGGCACCAAAGATGCCA
Found at i:4817269 original size:157 final size:157
Alignment explanation
Indices: 4816983--4817520 Score: 850
Period size: 157 Copynumber: 3.4 Consensus size: 157
4816973 TTTCCCGATT
* * * *
4816983 TTTTGGCCCTTTGTTCGTATTTTTCTTATTTTCAGATTTTATTACTTTCAAAAAATATACTATTT
1 TTTTGGCCATTTGTTCATATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAGATATACTATTT
*
4817048 TCGTATTTTATTATTTTATATTATTTTAGTACATAAAATTAGAAATGTATTAATTTGGTGTTTTT
66 TTGTATTTTATTATTTTATATTATTTTAGTACATAAAATTAGAAATGTATTAATTTGGTGTTTTT
4817113 TTATATAAATTTAATAAAAAACCCTTA
131 TTATATAAATTTAATAAAAAACCCTTA
4817140 TTTTGGCCATTTGTTCATATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAGATATACTATTT
1 TTTTGGCCATTTGTTCATATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAGATATACTATTT
4817205 TTGTATTTTATTATTTTATATTATTTTAGTACATAAAATTAGAAATGTATTAATTTGGTGTTTTT
66 TTGTATTTTATTATTTTATATTATTTTAGTACATAAAATTAGAAATGTATTAATTTGGTGTTTTT
4817270 TTATATAAATTTAATAAAAAACCCTTA
131 TTATATAAATTTAATAAAAAACCCTTA
4817297 TTTTGGCCATTTGTTCATATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAGATATACTATTT
1 TTTTGGCCATTTGTTCATATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAGATATACTATTT
** * *
4817362 TTGTATTTTATTATTTTATATTATTTTAGTACATAATGTCT-GAAATATATTATTTTTGTGTGTT
66 TTGTATTTTATTATTTTATATTATTTTAGTACATAAAAT-TAGAAATGTATTA-ATTTG-GTGTT
* *
4817426 TTTTT-TATAAATTTAGTAAAAAACCTTTA
128 TTTTTATATAAATTTAATAAAAAACCCTTA
* * * * * *
4817455 TTTTGACCCTTTGTTCGTAATTTTT-TTTTTTTCGAATTTTATTACTTTCAGTAA-ATATACTAT
1 TTTTGGCCATTTGTTCAT-ATTTTTCTTATTTTCGGATTTTATTACTTTCA-AAAGATATACTAT
4817518 TTT
64 TTT
4817521 CATTTTTATT
Statistics
Matches: 359, Mismatches: 17, Indels: 9
0.93 0.04 0.02
Matches are distributed among these distances:
157 264 0.74
158 77 0.21
159 18 0.05
ACGTcount: A:0.29, C:0.09, G:0.08, T:0.54
Consensus pattern (157 bp):
TTTTGGCCATTTGTTCATATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAGATATACTATTT
TTGTATTTTATTATTTTATATTATTTTAGTACATAAAATTAGAAATGTATTAATTTGGTGTTTTT
TTATATAAATTTAATAAAAAACCCTTA
Found at i:4817718 original size:30 final size:30
Alignment explanation
Indices: 4817684--4817818 Score: 157
Period size: 30 Copynumber: 4.4 Consensus size: 30
4817674 AAATTAAATA
*
4817684 AAATAATAAAACATAGAATGTAGATAACAT
1 AAATAATAAAACATAGAATGTACATAACAT
* *
4817714 AAATAATAAAACATA-AATAATAACATAAATGAT
1 AAATAATAAAACATAGAAT-GT-ACAT-AA-CAT
* *
4817747 AAAATAATAAGACATAGTATGTACATAACAT
1 -AAATAATAAAACATAGAATGTACATAACAT
4817778 AAATAATAAAACATAGAATGTACATAACAT
1 AAATAATAAAACATAGAATGTACATAACAT
4817808 AAA-AATTAAAA
1 AAATAA-TAAAA
4817819 TTAAATTATG
Statistics
Matches: 89, Mismatches: 9, Indels: 14
0.79 0.08 0.12
Matches are distributed among these distances:
29 5 0.06
30 52 0.58
31 5 0.06
32 4 0.04
33 6 0.07
34 15 0.17
35 2 0.02
ACGTcount: A:0.62, C:0.07, G:0.07, T:0.24
Consensus pattern (30 bp):
AAATAATAAAACATAGAATGTACATAACAT
Found at i:4817738 original size:12 final size:12
Alignment explanation
Indices: 4817707--4817753 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
4817697 TAGAATGTAG
4817707 ATAACATAAATA
1 ATAACATAAATA
4817719 ATAAAACATAAATA
1 AT--AACATAAATA
*
4817733 ATAACATAAATG
1 ATAACATAAATA
*
4817745 ATAAAATAA
1 ATAACATAA
4817754 TAAGACATAG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
12 19 0.61
14 12 0.39
ACGTcount: A:0.68, C:0.06, G:0.02, T:0.23
Consensus pattern (12 bp):
ATAACATAAATA
Found at i:4817762 original size:64 final size:67
Alignment explanation
Indices: 4817681--4817810 Score: 203
Period size: 64 Copynumber: 2.0 Consensus size: 67
4817671 AATAAATTAA
*
4817681 ATAAAATAATAAAACATAGAATGTAGATAACATAAATAATAAAACATA-AA-TA-ATAACATAAA
1 ATAAAATAATAAAACATAGAATGTACATAACATAAATAATAAAACATAGAAGTACATAACATAAA
4817743 TG
66 TG
* *
4817745 ATAAAATAATAAGACATAGTATGTACATAACATAAATAATAAAACATAGAATGTACATAACATAA
1 ATAAAATAATAAAACATAGAATGTACATAACATAAATAATAAAACATAGAA-GTACATAACATAA
4817810 A
65 A
4817811 AATTAAAATT
Statistics
Matches: 59, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
64 45 0.76
65 2 0.03
67 2 0.03
68 10 0.17
ACGTcount: A:0.62, C:0.08, G:0.07, T:0.24
Consensus pattern (67 bp):
ATAAAATAATAAAACATAGAATGTACATAACATAAATAATAAAACATAGAAGTACATAACATAAA
TG
Found at i:4817808 original size:16 final size:16
Alignment explanation
Indices: 4817758--4817808 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
4817748 AAATAATAAG
*
4817758 ACATAGTATGTACATA
1 ACATAGAATGTACATA
*
4817774 ACATA-AATAATA-A-A
1 ACATAGAAT-GTACATA
4817788 ACATAGAATGTACATA
1 ACATAGAATGTACATA
4817804 ACATA
1 ACATA
4817809 AAAATTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
14 8 0.29
15 7 0.25
16 13 0.46
ACGTcount: A:0.55, C:0.12, G:0.08, T:0.25
Consensus pattern (16 bp):
ACATAGAATGTACATA
Found at i:4821693 original size:146 final size:146
Alignment explanation
Indices: 4821454--4821728 Score: 480
Period size: 146 Copynumber: 1.9 Consensus size: 146
4821444 ATCGTTACCC
4821454 TTGTTAAAATTTTTCTATTAAATTCTCTTGCGTGACATTTTTAAATTTTTTTTAAAAAATTCACT
1 TTGTTAAAATTTTTCTATTAAATTCTCTTGCGTGACATTTTT-AATTTTTTTTAAAAAATTCACT
*
4821519 TGATAATCACGTAACACGTTTAGTTGAAAGTCAAAAAACGTCTAGGATTCGCTTAACCAAAAACT
65 TGATAATCACGTAACACGTTTAGTTGAAAATCAAAAAACGTCTAGGATTCGCTTAACCAAAAACT
4821584 CGTTTAGTTGAAAAATT
130 CGTTTAGTTGAAAAATT
**
4821601 TTGTTAAAATTTTTCTATTAAATTCTCTTGCGTGACATTTTT-ATTTTTATTTTTAAAATTCACT
1 TTGTTAAAATTTTTCTATTAAATTCTCTTGCGTGACATTTTTAATTTTT-TTTAAAAAATTCACT
* *
4821665 TGATAATCACGTAACTCGTTTAGTTGAAAATCGAAAAACGTCTAGGATTCGCTTAACCAAAAAC
65 TGATAATCACGTAACACGTTTAGTTGAAAATCAAAAAACGTCTAGGATTCGCTTAACCAAAAAC
4821729 ATAGGTATAA
Statistics
Matches: 122, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
145 6 0.05
146 74 0.61
147 42 0.34
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.40
Consensus pattern (146 bp):
TTGTTAAAATTTTTCTATTAAATTCTCTTGCGTGACATTTTTAATTTTTTTTAAAAAATTCACTT
GATAATCACGTAACACGTTTAGTTGAAAATCAAAAAACGTCTAGGATTCGCTTAACCAAAAACTC
GTTTAGTTGAAAAATT
Found at i:4829374 original size:14 final size:15
Alignment explanation
Indices: 4829355--4829383 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4829345 CAAGAAATGG
4829355 GAAGAAAAAT-TGTT
1 GAAGAAAAATGTGTT
4829369 GAAGAAAAATGTGTT
1 GAAGAAAAATGTGTT
4829384 AATGAACCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.48, C:0.00, G:0.24, T:0.28
Consensus pattern (15 bp):
GAAGAAAAATGTGTT
Found at i:4830460 original size:108 final size:109
Alignment explanation
Indices: 4830324--4830543 Score: 424
Period size: 108 Copynumber: 2.0 Consensus size: 109
4830314 ATCAGTGCAC
4830324 CAAACATAAATCAAAATATTAGTTCTAGATTTTTTAAGCTTAGGTAATTAAAGGTCGAATATAAG
1 CAAACATAAATCAAAATATTAGTTCTAGATTTTTTAAGCTTAGGTAATTAAAGGTCGAATATAAG
4830389 TGTTCTAATATGTTAATCATATCTCAATACCATATTCAGATATG
66 TGTTCTAATATGTTAATCATATCTCAATACCATATTCAGATATG
4830433 CAAACATAAATC-AAATATTAGTTCTAGATTTTTTAAGCTTAGGTAATTAAAGGTCGAATATAAG
1 CAAACATAAATCAAAATATTAGTTCTAGATTTTTTAAGCTTAGGTAATTAAAGGTCGAATATAAG
*
4830497 TGTTCTAATATGTTAATCATATCTCAATACCCTATTCAGATATG
66 TGTTCTAATATGTTAATCATATCTCAATACCATATTCAGATATG
4830541 CAA
1 CAA
4830544 TAGATATAAG
Statistics
Matches: 110, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
108 98 0.89
109 12 0.11
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.36
Consensus pattern (109 bp):
CAAACATAAATCAAAATATTAGTTCTAGATTTTTTAAGCTTAGGTAATTAAAGGTCGAATATAAG
TGTTCTAATATGTTAATCATATCTCAATACCATATTCAGATATG
Found at i:4842773 original size:14 final size:15
Alignment explanation
Indices: 4842754--4842784 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
4842744 CAAGAAATGG
4842754 GAAGAAAAAT-TGTT
1 GAAGAAAAATGTGTT
4842768 GAAGAAAAATGTGTT
1 GAAGAAAAATGTGTT
4842783 GA
1 GA
4842785 TGAACCTGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.48, C:0.00, G:0.26, T:0.26
Consensus pattern (15 bp):
GAAGAAAAATGTGTT
Found at i:4843249 original size:36 final size:36
Alignment explanation
Indices: 4843202--4843274 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
4843192 AAGTGATTGA
4843202 AGGTATGATCATCGACAATAAAAGGTAAGAAAACAT
1 AGGTATGATCATCGACAATAAAAGGTAAGAAAACAT
4843238 AGGTATGATCATCGACAATAAAAGGTAAGAAAACAT
1 AGGTATGATCATCGACAATAAAAGGTAAGAAAACAT
4843274 A
1 A
4843275 CATATAAATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.51, C:0.11, G:0.19, T:0.19
Consensus pattern (36 bp):
AGGTATGATCATCGACAATAAAAGGTAAGAAAACAT
Found at i:4843449 original size:20 final size:21
Alignment explanation
Indices: 4843411--4843451 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
4843401 AAACTGAGGG
*
4843411 GATGGAAAACTTGACTGGAAA
1 GATGGAAAACTTGAATGGAAA
4843432 GATGGAAAA-TTGAATGGAAA
1 GATGGAAAACTTGAATGGAAA
4843452 ATATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.46, C:0.05, G:0.29, T:0.20
Consensus pattern (21 bp):
GATGGAAAACTTGAATGGAAA
Found at i:4844772 original size:87 final size:87
Alignment explanation
Indices: 4844626--4845893 Score: 2518
Period size: 87 Copynumber: 14.6 Consensus size: 87
4844616 TCTTGGTGAA
4844626 TTAGAGCCATTAACTGCTTCAAATTGGCTGAGAATATCAATGCATTAACACTACGTGAAGTATGC
1 TTAGAGCCATTAACTGCTTCAAATTGGCTGAGAATATCAATGCATTAACACTACGTGAAGTATGC
4844691 AATTTAATAGGTTCGGGTGCCT
66 AATTTAATAGGTTCGGGTGCCT
4844713 TTAGAGCCATTAACTGCTTCAAATTGGCTGAGAATATCAATGCATTAACACTACGTGAAGTATGC
1 TTAGAGCCATTAACTGCTTCAAATTGGCTGAGAATATCAATGCATTAACACTACGTGAAGTATGC
4844778 AATTTAATAGGTTCGGGTGCCT
66 AATTTAATAGGTTCGGGTGCCT
4844800 TTAGAGCCATTAACTGCTTCAAATTGGCTGAGAATATCAATGCATTAACACTACGTGAAGTATGC
1 TTAGAGCCATTAACTGCTTCAAATTGGCTGAGAATATCAATGCATTAACACTACGTGAAGTATGC
4844865 AATTTAATAGGTTCGGGTGCCT
66 AATTTAATAGGTTCGGGTGCCT
4844887 TTAGAGCCATTAACTGCTTCAAATTGGCTGAGAATATCAATGCATTAACACTACGTGAAGTATGC
1 TTAGAGCCATTAACTGCTTCAAATTGGCTGAGAATATCAATGCATTAACACTACGTGAAGTATGC
4844952 AATTTAATAGGTTCGGGTGCCT
66 AATTTAATAGGTTCGGGTGCCT
4844974 TTAGAGCCATTAACTGCTTCAAATTGGCTGAGAATATCAATGCATTAACACTACGTGAAGTATGC
1 TTAGAGCCATTAACTGCTTCAAATTGGCTGAGAATATCAATGCATTAACACTACGTGAAGTATGC
4845039 AATTTAATAGGTTCGGGTGCCT
66 AATTTAATAGGTTCGGGTGCCT
4845061 TTAGAGCCATTAACTGCTTCAAATTGGCTGAGAATATCAATGCATTAACACTACGTGAAGTATGC
1 TTAGAGCCATTAACTGCTTCAAATTGGCTGAGAATATCAATGCATTAACACTACGTGAAGTATGC
4845126 AATTTAATAGGTTCGGGTGCCT
66 AATTTAATAGGTTCGGGTGCCT
4845148 TTAGAGCCATTAACTGCTTCAAATTGGCTGAGAATATCAATGCATTAACACTACGTGAAGTATGC
1 TTAGAGCCATTAACTGCTTCAAATTGGCTGAGAATATCAATGCATTAACACTACGTGAAGTATGC
4845213 AATTTAATAGGTTCGGGTGCCT
66 AATTTAATAGGTTCGGGTGCCT
4845235 TTAGAGCCATTAACTGCTTCAAATTGGCTGAGAATATCAATGCATTAACACTACGTGAAGTATGC
1 TTAGAGCCATTAACTGCTTCAAATTGGCTGAGAATATCAATGCATTAACACTACGTGAAGTATGC
4845300 AATTTAATAGGTTCGGGTGCCT
66 AATTTAATAGGTTCGGGTGCCT
4845322 TTAGAGCCATTAACTGCTTCAAATTGGCTGAGAATATCAATGCATTAACACTACGTGAAGTATGC
1 TTAGAGCCATTAACTGCTTCAAATTGGCTGAGAATATCAATGCATTAACACTACGTGAAGTATGC
4845387 AATTTAATAGGTTCGGGTGCCT
66 AATTTAATAGGTTCGGGTGCCT
4845409 TTAGAGCCATTAACTGCTTCAAATTGGCTGAGAATATCAATGCATTAACACTACGTGAAGTATGC
1 TTAGAGCCATTAACTGCTTCAAATTGGCTGAGAATATCAATGCATTAACACTACGTGAAGTATGC
4845474 AATTTAATAGGTTCGGGTGCCT
66 AATTTAATAGGTTCGGGTGCCT
4845496 TTAGAGCCATTAACTGCTTCAAATTGGCTGAGAATATCAATGCATTAACACTACGTGAAGTATGC
1 TTAGAGCCATTAACTGCTTCAAATTGGCTGAGAATATCAATGCATTAACACTACGTGAAGTATGC
4845561 AATTTAATAGGTTCGGGTGCCT
66 AATTTAATAGGTTCGGGTGCCT
4845583 TTAGAGCCATTAACTGCTTCAAATTGGCTGAGAATATCAATGCATTAACACTACGTGAAGTATGC
1 TTAGAGCCATTAACTGCTTCAAATTGGCTGAGAATATCAATGCATTAACACTACGTGAAGTATGC
4845648 AATTTAATAGGTTCGGGTGCCT
66 AATTTAATAGGTTCGGGTGCCT
4845670 TTAGAGCCATTAACTGCTTCAAATTGGCTGAGAATATCAATGCATTAACACTACGTGAAGTATGC
1 TTAGAGCCATTAACTGCTTCAAATTGGCTGAGAATATCAATGCATTAACACTACGTGAAGTATGC
4845735 AATTTAATAGGTTCGGGTGCCT
66 AATTTAATAGGTTCGGGTGCCT
4845757 TTAGAGCCATTAACTGCTTCAAATTGGCTGAGAATATCAATGCATTAACACTACGTGAAGTATGC
1 TTAGAGCCATTAACTGCTTCAAATTGGCTGAGAATATCAATGCATTAACACTACGTGAAGTATGC
4845822 AATTTAATAGGTTCGGGTGCCT
66 AATTTAATAGGTTCGGGTGCCT
* *
4845844 TTAGAGCCATTAACTGCTTCAAATTGGCCGAGAATATGAATGCATTAACA
1 TTAGAGCCATTAACTGCTTCAAATTGGCTGAGAATATCAATGCATTAACA
4845894 GTGCTGAGAA
Statistics
Matches: 1179, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 1179 1.00
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (87 bp):
TTAGAGCCATTAACTGCTTCAAATTGGCTGAGAATATCAATGCATTAACACTACGTGAAGTATGC
AATTTAATAGGTTCGGGTGCCT
Found at i:4857149 original size:14 final size:15
Alignment explanation
Indices: 4857130--4857160 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
4857120 CAAGAAATGG
4857130 GAAGAAAAAT-TGTT
1 GAAGAAAAATGTGTT
4857144 GAAGAAAAATGTGTT
1 GAAGAAAAATGTGTT
4857159 GA
1 GA
4857161 TGAACCTGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.48, C:0.00, G:0.26, T:0.26
Consensus pattern (15 bp):
GAAGAAAAATGTGTT
Found at i:4858689 original size:24 final size:24
Alignment explanation
Indices: 4858643--4858689 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
4858633 CTTATTTTAA
** *
4858643 TATAAACTATTAAGTTTTTAATAT
1 TATAAACTATTAAAATTTGAATAT
*
4858667 TATAAACTGTTAAAATTTGAATA
1 TATAAACTATTAAAATTTGAATA
4858690 AGATAATAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (24 bp):
TATAAACTATTAAAATTTGAATAT
Found at i:4867159 original size:18 final size:17
Alignment explanation
Indices: 4867133--4867179 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 17
4867123 GGCAAGCTAA
*
4867133 AAAAGTGCGAGCTCAGC
1 AAAAGTGCGAGCTCACC
4867150 AAAAGATGCGAGCTCACC
1 AAAAG-TGCGAGCTCACC
*
4867168 -AAAGTACGAGCT
1 AAAAGTGCGAGCT
4867180 ATCTCTACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 7 0.26
17 9 0.33
18 11 0.41
ACGTcount: A:0.38, C:0.23, G:0.26, T:0.13
Consensus pattern (17 bp):
AAAAGTGCGAGCTCACC
Found at i:4867179 original size:16 final size:17
Alignment explanation
Indices: 4867133--4867179 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
4867123 GGCAAGCTAA
4867133 AAAAGTGCGAGCTCAGC
1 AAAAGTGCGAGCTCAGC
4867150 AAAAGATGCGAGCTCA-C
1 AAAAG-TGCGAGCTCAGC
* *
4867167 CAAAGTACGAGCT
1 AAAAGTGCGAGCT
4867180 ATCTCTACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 7 0.26
17 10 0.37
18 10 0.37
ACGTcount: A:0.38, C:0.23, G:0.26, T:0.13
Consensus pattern (17 bp):
AAAAGTGCGAGCTCAGC
Found at i:4874339 original size:14 final size:15
Alignment explanation
Indices: 4874322--4874352 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
4874312 TAAAAAATGG
4874322 GAAGAAAAAT-TGTT
1 GAAGAAAAATGTGTT
4874336 GAAGAAAAATGTGTT
1 GAAGAAAAATGTGTT
4874351 GA
1 GA
4874353 TGAACCTGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.48, C:0.00, G:0.26, T:0.26
Consensus pattern (15 bp):
GAAGAAAAATGTGTT
Found at i:4874986 original size:20 final size:21
Alignment explanation
Indices: 4874948--4874988 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
4874938 AAACTGAGGG
*
4874948 GATGAAAAACTTGATTGGAAA
1 GATGAAAAACTTGAATGGAAA
*
4874969 GATGGAAAA-TTGAATGGAAA
1 GATGAAAAACTTGAATGGAAA
4874989 ATATATTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.49, C:0.02, G:0.27, T:0.22
Consensus pattern (21 bp):
GATGAAAAACTTGAATGGAAA
Found at i:4882633 original size:26 final size:26
Alignment explanation
Indices: 4882554--4882634 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 26
4882544 TTCGATCACG
*
4882554 TGTGTAGTACTATGTGTAGGCTACTA
1 TGTGTAGTACTATGTGAAGGCTACTA
* * *
4882580 CGTGTA-T-CAGATGTAAATGG-TCAC-A
1 TGTGTAGTAC-TATGTGAA-GGCT-ACTA
*
4882605 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGAAGGCTACTA
4882631 TGTG
1 TGTG
4882635 AACCGGGTAC
Statistics
Matches: 40, Mismatches: 8, Indels: 14
0.65 0.13 0.23
Matches are distributed among these distances:
24 1 0.03
25 17 0.43
26 21 0.52
27 1 0.03
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.35
Consensus pattern (26 bp):
TGTGTAGTACTATGTGAAGGCTACTA
Found at i:4882640 original size:102 final size:101
Alignment explanation
Indices: 4882448--4882632 Score: 284
Period size: 101 Copynumber: 1.8 Consensus size: 101
4882438 AAAGTGATGG
*
4882448 TCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTACCGGAATGATGGGTCACATGTGTAGTAC
1 TCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTACCAGAATGATGGGTCACATGTGTAGTAC
*
4882513 TATGTGCGGGCTACTATGAAAACCGGATAGCTTCGA
66 TATGTGCAGGCTACTATGAAAACCGGATAGCTTCGA
* * *
4882549 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATCAG-ATGTAAAT-GGTCACATGTGTAG
1 TCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTACCAGAATG---ATGGGTCACATGTGTAG
4882612 TACTATGTGCAGGCTACTATG
63 TACTATGTGCAGGCTACTATG
4882633 TGAACCGGGT
Statistics
Matches: 76, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
100 3 0.04
101 37 0.49
102 34 0.45
103 2 0.03
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.30
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTACCAGAATGATGGGTCACATGTGTAGTAC
TATGTGCAGGCTACTATGAAAACCGGATAGCTTCGA
Found at i:4882832 original size:102 final size:102
Alignment explanation
Indices: 4882656--4882988 Score: 542
Period size: 102 Copynumber: 3.3 Consensus size: 102
4882646 ATTAACTATT
*
4882656 AGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTG
1 AGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTG
*
4882721 GTTGCTAAGTGCTGATTCCACCATATCTTGAATATAA
66 GTTGCTAAGTGCTGATTCCACCATATCTTGAATGTAA
4882758 AGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTG
1 AGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTG
* * * * * *
4882823 GTTGCTAAGTGCTAATCCCACCGTATTTTAAATGTGA
66 GTTGCTAAGTGCTGATTCCACCATATCTTGAATGTAA
* *
4882860 AGGGGGGTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTG
1 AGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTG
*
4882925 GTTGCTAACTGCTGATTCCACCATATCTTTGAATGTGAA
66 GTTGCTAAGTGCTGATTCCACCATATC-TTGAATGT-AA
4882964 A-GGGGTTGCTAAGTGCTGATTCCCC
1 AGGGGGTTGCTAAGTGCTGATTCCCC
4882989 TAATCACTGG
Statistics
Matches: 211, Mismatches: 18, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
102 179 0.85
103 30 0.14
104 2 0.01
ACGTcount: A:0.20, C:0.21, G:0.28, T:0.30
Consensus pattern (102 bp):
AGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTG
GTTGCTAAGTGCTGATTCCACCATATCTTGAATGTAA
Found at i:4883873 original size:49 final size:49
Alignment explanation
Indices: 4883801--4883894 Score: 125
Period size: 49 Copynumber: 1.9 Consensus size: 49
4883791 CTTTCGATAA
* * * *
4883801 GTGATATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAT
1 GTGATAAGTGATTACATATAAGACCATAGCTGGACTATGGCATCGGTAT
* * *
4883850 GTGATAAGTGATTACATGTAAGACCATAGTTGGACTATGGTATCG
1 GTGATAAGTGATTACATATAAGACCATAGCTGGACTATGGCATCG
4883895 AGAAAAGTGT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
49 38 1.00
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.31
Consensus pattern (49 bp):
GTGATAAGTGATTACATATAAGACCATAGCTGGACTATGGCATCGGTAT
Found at i:4893184 original size:16 final size:16
Alignment explanation
Indices: 4893159--4893191 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
4893149 AGTGAATTTT
*
4893159 TAAAAGTATTATAAAA
1 TAAAACTATTATAAAA
4893175 TAAAACTATTATAAAA
1 TAAAACTATTATAAAA
4893191 T
1 T
4893192 TTATGAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (16 bp):
TAAAACTATTATAAAA
Found at i:4893921 original size:18 final size:18
Alignment explanation
Indices: 4893898--4893936 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
4893888 AACTAAGGTT
4893898 GAAGAAA-CAGAAAAGAAA
1 GAAGAAATC-GAAAAGAAA
*
4893916 GAAGAAATCGCAAAGAAA
1 GAAGAAATCGAAAAGAAA
4893934 GAA
1 GAA
4893937 AAAGTAGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 18 0.95
19 1 0.05
ACGTcount: A:0.67, C:0.08, G:0.23, T:0.03
Consensus pattern (18 bp):
GAAGAAATCGAAAAGAAA
Found at i:4896084 original size:14 final size:15
Alignment explanation
Indices: 4896065--4896095 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
4896055 CAAGAAATGG
4896065 GAAGAAAAAT-TGTT
1 GAAGAAAAATGTGTT
4896079 GAAGAAAAATGTGTT
1 GAAGAAAAATGTGTT
4896094 GA
1 GA
4896096 TGAACCTGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.48, C:0.00, G:0.26, T:0.26
Consensus pattern (15 bp):
GAAGAAAAATGTGTT
Found at i:4896715 original size:20 final size:21
Alignment explanation
Indices: 4896677--4896717 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
4896667 AAACTGTGGG
*
4896677 GATGGAAAACTTGATTGGAAA
1 GATGGAAAACTTGAATGGAAA
4896698 GATGGAAAA-TTGAATGGAAA
1 GATGGAAAACTTGAATGGAAA
4896718 ATATATTTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.46, C:0.02, G:0.29, T:0.22
Consensus pattern (21 bp):
GATGGAAAACTTGAATGGAAA
Found at i:4898089 original size:153 final size:153
Alignment explanation
Indices: 4897797--4898098 Score: 473
Period size: 153 Copynumber: 2.0 Consensus size: 153
4897787 TCTAAGGGAC
* * *
4897797 TGCAATCTTTGTGAAGGAGATATTCCACGTGATATTTCTGGTCTATCCTCTTTGGTACATCTTGG
1 TGCAATCTTGGTGAAGCAGATATTCCAAGTGATATTTCTGGTCTATCCTCTTTGGTACATCTTGG
* * **
4897862 TCTTTGTGGTAACAATGTCATCAGCATACCTGCATCTCTTACTCGACTCTCGAAGCTTGGGTTTC
66 TCTTTGTGGTAACAATGTCATCAGCATACCTGCATCTCTTACTCGACTATCCAAGCTTCAGTTTC
4897927 TTGACTTGTCAAATTGCAACATG
131 TTGACTTGTCAAATTGCAACATG
* *
4897950 TGCACTCTTGGTGAAGCAGATATT-CATAGTTATATTTCTGGTCTATCCTCTTTGGTACATCTTG
1 TGCAATCTTGGTGAAGCAGATATTCCA-AGTGATATTTCTGGTCTATCCTCTTTGGTACATCTTG
*
4898014 GTCTTTGTGGTAACAATGTCATCAGCATACCTGCATCTCTTACTGGACTATCCAAGCTTCAGTTT
65 GTCTTTGTGGTAACAATGTCATCAGCATACCTGCATCTCTTACTCGACTATCCAAGCTTCAGTTT
*
4898079 CTTGGA-TTGTCATATTGCAA
130 CTT-GACTTGTCAAATTGCAA
4898099 GATGCTTAAA
Statistics
Matches: 136, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
152 2 0.01
153 132 0.97
154 2 0.01
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.38
Consensus pattern (153 bp):
TGCAATCTTGGTGAAGCAGATATTCCAAGTGATATTTCTGGTCTATCCTCTTTGGTACATCTTGG
TCTTTGTGGTAACAATGTCATCAGCATACCTGCATCTCTTACTCGACTATCCAAGCTTCAGTTTC
TTGACTTGTCAAATTGCAACATG
Found at i:4903361 original size:17 final size:18
Alignment explanation
Indices: 4903331--4903370 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
4903321 TGGGCTACTG
*
4903331 ATTTTTATAATTTTAACA
1 ATTTTTATAATTTTAAAA
*
4903349 ATTTTT-TATTTTTAAAA
1 ATTTTTATAATTTTAAAA
4903366 ATTTT
1 ATTTT
4903371 GAAGTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTTTATAATTTTAAAA
Found at i:4903480 original size:29 final size:29
Alignment explanation
Indices: 4903408--4903481 Score: 89
Period size: 29 Copynumber: 2.5 Consensus size: 29
4903398 CTCTCATCAT
4903408 TTTTTTAATTTTTTATATATATTTTTTGAA
1 TTTTTT-ATTTTTTATATATATTTTTTGAA
*
4903438 -TTCTTACTTATTTT-TATATATTTTTTGAA
1 TTTTTTA-TT-TTTTATATATATTTTTTGAA
4903467 TTTTTTATTGTTTTA
1 TTTTTTATT-TTTTA
4903482 ATTTTTTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
28 1 0.03
29 27 0.73
30 9 0.24
ACGTcount: A:0.23, C:0.03, G:0.04, T:0.70
Consensus pattern (29 bp):
TTTTTTATTTTTTATATATATTTTTTGAA
Found at i:4903484 original size:16 final size:16
Alignment explanation
Indices: 4903456--4903488 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4903446 TATTTTTATA
4903456 TATTTTTTGAATTTTT
1 TATTTTTTGAATTTTT
4903472 TATTGTTTT-AATTTTT
1 TATT-TTTTGAATTTTT
4903488 T
1 T
4903489 TTATAACTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (16 bp):
TATTTTTTGAATTTTT
Found at i:4916520 original size:14 final size:15
Alignment explanation
Indices: 4916501--4916531 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
4916491 CAAGAAATGG
4916501 GAAGAAAAAT-TGTT
1 GAAGAAAAATGTGTT
4916515 GAAGAAAAATGTGTT
1 GAAGAAAAATGTGTT
4916530 GA
1 GA
4916532 TGAACCTGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.48, C:0.00, G:0.26, T:0.26
Consensus pattern (15 bp):
GAAGAAAAATGTGTT
Found at i:4921027 original size:13 final size:13
Alignment explanation
Indices: 4921011--4921036 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4921001 AAAAATATTT
4921011 TAAAAATAAAAAA
1 TAAAAATAAAAAA
4921024 TAAAAATAAAAAA
1 TAAAAATAAAAAA
4921037 ATTTTTACCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
TAAAAATAAAAAA
Found at i:4928448 original size:19 final size:21
Alignment explanation
Indices: 4928426--4928469 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
4928416 ATTAAAAGTT
4928426 TAAAATA-A-AATCCTTGATA
1 TAAAATACACAATCCTTGATA
4928445 T-AAATACGACAATCCTTGATA
1 TAAAATAC-ACAATCCTTGATA
4928466 TAAA
1 TAAA
4928470 TACGACACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 5 0.24
19 1 0.05
20 1 0.05
21 12 0.57
22 2 0.10
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.30
Consensus pattern (21 bp):
TAAAATACACAATCCTTGATA
Found at i:4928459 original size:21 final size:21
Alignment explanation
Indices: 4928434--4928476 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
4928424 TTTAAAATAA
4928434 AATCCTTGATATAAATACGAC
1 AATCCTTGATATAAATACGAC
4928455 AATCCTTGATATAAATACGAC
1 AATCCTTGATATAAATACGAC
4928476 A
1 A
4928477 CATTTAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.44, C:0.19, G:0.09, T:0.28
Consensus pattern (21 bp):
AATCCTTGATATAAATACGAC
Found at i:4935209 original size:14 final size:15
Alignment explanation
Indices: 4935190--4935220 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
4935180 CAAGAAATGG
4935190 GAAGAAAAAT-TGTT
1 GAAGAAAAATGTGTT
4935204 GAAGAAAAATGTGTT
1 GAAGAAAAATGTGTT
4935219 GA
1 GA
4935221 TGAACCCGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.48, C:0.00, G:0.26, T:0.26
Consensus pattern (15 bp):
GAAGAAAAATGTGTT
Found at i:4938860 original size:2 final size:2
Alignment explanation
Indices: 4938853--4938881 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4938843 TTTATTTCAC
4938853 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4938882 TCACTTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4941929 original size:26 final size:26
Alignment explanation
Indices: 4941900--4941950 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
4941890 TGAGCTTTCC
4941900 AATGTGCAAGCTGCAACCTCAGCAAA
1 AATGTGCAAGCTGCAACCTCAGCAAA
* * *
4941926 AATGTGCAAGGTGCAAGCTTAGCAA
1 AATGTGCAAGCTGCAACCTCAGCAA
4941951 GATGTCAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.18
Consensus pattern (26 bp):
AATGTGCAAGCTGCAACCTCAGCAAA
Found at i:4942090 original size:29 final size:29
Alignment explanation
Indices: 4942048--4942104 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
4942038 CTTGCAAGCC
*
4942048 TGTTGAAGACAGTAAGCAAAGTGCGAGCT
1 TGTTAAAGACAGTAAGCAAAGTGCGAGCT
*
4942077 TGTTAAAGACAGTAAGCAAAGTGTGAGC
1 TGTTAAAGACAGTAAGCAAAGTGCGAGC
4942105 CTGTCAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.37, C:0.12, G:0.30, T:0.21
Consensus pattern (29 bp):
TGTTAAAGACAGTAAGCAAAGTGCGAGCT
Found at i:4942855 original size:9 final size:9
Alignment explanation
Indices: 4942841--4942867 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
4942831 TACCTCTTGC
4942841 ATCTTGCTT
1 ATCTTGCTT
4942850 ATCTTGCTT
1 ATCTTGCTT
4942859 ATCTTGCTT
1 ATCTTGCTT
4942868 CATTGTTCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.11, C:0.22, G:0.11, T:0.56
Consensus pattern (9 bp):
ATCTTGCTT
Found at i:4952779 original size:22 final size:24
Alignment explanation
Indices: 4952736--4952779 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
4952726 TAACTGAGCT
4952736 TACTTACTTTTCTAGCTTAATTCA
1 TACTTACTTTTCTAGCTTAATTCA
4952760 TACTT-CTTTTCTA-CTTAATT
1 TACTTACTTTTCTAGCTTAATT
4952780 TCTTGCCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 8 0.40
24 5 0.25
ACGTcount: A:0.23, C:0.20, G:0.02, T:0.55
Consensus pattern (24 bp):
TACTTACTTTTCTAGCTTAATTCA
Found at i:4953184 original size:13 final size:13
Alignment explanation
Indices: 4953168--4953192 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4953158 TCTGTTCTTC
4953168 TTTTGTTTCTTTT
1 TTTTGTTTCTTTT
4953181 TTTTGTTTCTTT
1 TTTTGTTTCTTT
4953193 AATTTTTACT
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:0.00, C:0.08, G:0.08, T:0.84
Consensus pattern (13 bp):
TTTTGTTTCTTTT
Found at i:4953449 original size:3 final size:3
Alignment explanation
Indices: 4953443--4953492 Score: 84
Period size: 3 Copynumber: 16.7 Consensus size: 3
4953433 ATATTTTATT
4953443 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATTA AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA
4953488 ATA AT
1 ATA AT
4953493 TTATTATTTA
Statistics
Matches: 45, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 2 0.04
3 40 0.89
4 3 0.07
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:4954342 original size:20 final size:20
Alignment explanation
Indices: 4954324--4954376 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
4954314 AAATAATAAT
4954324 TAAATACACTAATTAATAAAA
1 TAAATACA-TAATTAATAAAA
* *
4954345 TAAATATATAATTAATGAAA
1 TAAATACATAATTAATAAAA
4954365 TAAA-A-ATAATTA
1 TAAATACATAATTA
4954377 GATGTATGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
18 7 0.23
19 1 0.03
20 15 0.50
21 7 0.23
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (20 bp):
TAAATACATAATTAATAAAA
Found at i:4955684 original size:23 final size:23
Alignment explanation
Indices: 4955633--4955685 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 23
4955623 ATATATGTTG
4955633 AATATGTTAAAAATTATTTTATTAT
1 AATAT-TTAAAAA-TATTTTATTAT
4955658 --TATTTAAAAA-ATTTCTATTAT
1 AATATTTAAAAATATTT-TATTAT
4955679 AATATTT
1 AATATTT
4955686 GTTTGAATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
20 4 0.16
21 6 0.24
22 7 0.28
23 8 0.32
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (23 bp):
AATATTTAAAAATATTTTATTAT
Found at i:4958339 original size:14 final size:15
Alignment explanation
Indices: 4958320--4958350 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
4958310 CAAGAAATGG
4958320 GAAGAAAAAT-TGTT
1 GAAGAAAAATGTGTT
4958334 GAAGAAAAATGTGTT
1 GAAGAAAAATGTGTT
4958349 GA
1 GA
4958351 TGAACCCGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.48, C:0.00, G:0.26, T:0.26
Consensus pattern (15 bp):
GAAGAAAAATGTGTT
Found at i:4967167 original size:2 final size:2
Alignment explanation
Indices: 4967160--4967188 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4967150 ATTTCCACAT
4967160 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4967189 TCACTTACAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4975503 original size:20 final size:20
Alignment explanation
Indices: 4975485--4975537 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
4975475 AAATAATAAT
4975485 TAAATACACTAATTAATAAAA
1 TAAATACA-TAATTAATAAAA
* *
4975506 TAAATATATAATTAATGAAA
1 TAAATACATAATTAATAAAA
4975526 TAAA-A-ATAATTA
1 TAAATACATAATTA
4975538 GGTGTATGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
18 7 0.23
19 1 0.03
20 15 0.50
21 7 0.23
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (20 bp):
TAAATACATAATTAATAAAA
Found at i:4976907 original size:23 final size:24
Alignment explanation
Indices: 4976856--4976908 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 24
4976846 ATATATGTTG
4976856 AATATGTTAAAAATTATTTAATTAT
1 AATAT-TTAAAAATTATTTAATTAT
4976881 --TATTTAAAAATT-TTCT-ATTAT
1 AATATTTAAAAATTATT-TAATTAT
4976902 AATATTT
1 AATATTT
4976909 GTTTGAATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
21 7 0.28
22 10 0.40
23 8 0.32
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (24 bp):
AATATTTAAAAATTATTTAATTAT
Found at i:4985906 original size:52 final size:53
Alignment explanation
Indices: 4985842--4985947 Score: 128
Period size: 52 Copynumber: 2.0 Consensus size: 53
4985832 GGAATGCATA
* *
4985842 AAAGTCTATTCAAATC-AATTTA-TCTGACCCAAACTGATGTAATCCCTTT-TAT
1 AAAGTCTATTCAAA-CAAACTTATTCAG-CCCAAACTGATGTAATCCCTTTATAT
* * *
4985894 AAAGTCTGTTCAAACAAACTTATTCAGTCGAAACTGATGTAATCCCTTTATAT
1 AAAGTCTATTCAAACAAACTTATTCAGCCCAAACTGATGTAATCCCTTTATAT
4985947 A
1 A
4985948 CATATCTAGA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
51 1 0.02
52 38 0.83
53 7 0.15
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (53 bp):
AAAGTCTATTCAAACAAACTTATTCAGCCCAAACTGATGTAATCCCTTTATAT
Found at i:4992541 original size:15 final size:16
Alignment explanation
Indices: 4992509--4992547 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
4992499 TTTTTTAGAG
*
4992509 TTAGGGTTTTATGTTT
1 TTAGGGTTTGATGTTT
4992525 TTAGGGTTTGA-GTTT
1 TTAGGGTTTGATGTTT
4992540 TTAGGGTT
1 TTAGGGTT
4992548 CAAGATTGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.13, C:0.00, G:0.31, T:0.56
Consensus pattern (16 bp):
TTAGGGTTTGATGTTT
Found at i:5002585 original size:224 final size:224
Alignment explanation
Indices: 5002195--5002635 Score: 882
Period size: 224 Copynumber: 2.0 Consensus size: 224
5002185 TTTGAGTGTG
5002195 CTAAAGTGCATTATCCTCTTATTTATGGGTTGAGGAGGAGTTATACTTATAGATAGTTTTAGACA
1 CTAAAGTGCATTATCCTCTTATTTATGGGTTGAGGAGGAGTTATACTTATAGATAGTTTTAGACA
5002260 TTGTGTTAAAAGTAGTAGATATAAGCAGAAATTATAATAGGATTGTTAAAAAAAATATTTTTGAA
66 TTGTGTTAAAAGTAGTAGATATAAGCAGAAATTATAATAGGATTGTTAAAAAAAATATTTTTGAA
5002325 TAAATTAAAAATTATTATGTACATATAATACTTACGAAGAATCCGTTGAAATATACGAAATGTAA
131 TAAATTAAAAATTATTATGTACATATAATACTTACGAAGAATCCGTTGAAATATACGAAATGTAA
5002390 GATAAATGAAGAAGATAATATAAATTTAA
196 GATAAATGAAGAAGATAATATAAATTTAA
5002419 CTAAAGTGCATTATCCTCTTATTTATGGGTTGAGGAGGAGTTATACTTATAGATAGTTTTAGACA
1 CTAAAGTGCATTATCCTCTTATTTATGGGTTGAGGAGGAGTTATACTTATAGATAGTTTTAGACA
5002484 TTGTGTTAAAAGTAGTAGATATAAGCAGAAATTATAATAGGATTGTTAAAAAAAATATTTTTGAA
66 TTGTGTTAAAAGTAGTAGATATAAGCAGAAATTATAATAGGATTGTTAAAAAAAATATTTTTGAA
5002549 TAAATTAAAAATTATTATGTACATATAATACTTACGAAGAATCCGTTGAAATATACGAAATGTAA
131 TAAATTAAAAATTATTATGTACATATAATACTTACGAAGAATCCGTTGAAATATACGAAATGTAA
5002614 GATAAATGAAGAAGATAATATA
196 GATAAATGAAGAAGATAATATA
5002636 TATATATATA
Statistics
Matches: 217, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
224 217 1.00
ACGTcount: A:0.43, C:0.06, G:0.16, T:0.34
Consensus pattern (224 bp):
CTAAAGTGCATTATCCTCTTATTTATGGGTTGAGGAGGAGTTATACTTATAGATAGTTTTAGACA
TTGTGTTAAAAGTAGTAGATATAAGCAGAAATTATAATAGGATTGTTAAAAAAAATATTTTTGAA
TAAATTAAAAATTATTATGTACATATAATACTTACGAAGAATCCGTTGAAATATACGAAATGTAA
GATAAATGAAGAAGATAATATAAATTTAA
Found at i:5004011 original size:20 final size:21
Alignment explanation
Indices: 5003973--5004011 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
5003963 TCAGTAAAAT
5003973 AAATAATTGTTAAAATATATC
1 AAATAATTGTTAAAATATATC
*
5003994 AAATAATT-TTAAAGTATA
1 AAATAATTGTTAAAATATA
5004012 AATTAGAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (21 bp):
AAATAATTGTTAAAATATATC
Found at i:5006040 original size:163 final size:161
Alignment explanation
Indices: 5005745--5006167 Score: 528
Period size: 163 Copynumber: 2.6 Consensus size: 161
5005735 TCTTTTTTTT
* * * * *
5005745 TTTTTTCTCACAATTGAGTTCGGAGGCTAGGCATGTTGATTTCTTATCTGAAATTTTC-GGGACA
1 TTTTATCTAACAATCGAGTTCGGAGGCTAGGCATGTTGGTTTCTTAGCTGAAATTTTCAGGG-C-
* * * * *
5005809 AGTTGTGGGGCAGTTCTAGATAAAATCCACCTTGCCCCGAACTTATATGGGAGAAACAATCGAAC
64 AGATG-GGGGCGGTTCTAGATAAAATCCACCTTGCCCCGAACATATATGGGAAAAACAACCGAAC
**
5005874 TTTTTGGGTTTCAACCTCACCCTATAGGGCTTTC
128 TTTTCAGGTTTCAACCTCACCCTATAGGGCTTTC
* * *
5005908 TTTTATCTGACAATCGAGTTCGGAGGCTAGGCATGTTGGTTTCATAGCTGAAATTTTCATGGCAG
1 TTTTATCTAACAATCGAGTTCGGAGGCTAGGCATGTTGGTTTCTTAGCTGAAATTTTCAGGGCA-
* * * *
5005973 GATGGGAGTGGTTCTAGATAAAATCCACCTTGCCCCGAACATATATGAGGAAAAATAACCTAACT
65 GATGGGGGCGGTTCTAGATAAAATCCACCTTGCCCCGAACATATATG-GGAAAAACAACCGAACT
* *
5006038 TTTCAGGTTTCAACCTCACCTTATAGGTCTTTC
129 TTTCAGGTTTCAACCTCACCCTATAGGGCTTTC
* * * * *
5006071 TTTTATCTAACAATCGAGTTCAGAGGCTAGGCATGTTAGTTACTTGGCTG-AATTTTCAGGGCAT
1 TTTTATCTAACAATCGAGTTCGGAGGCTAGGCATGTTGGTTTCTTAGCTGAAATTTTCAGGGCAG
*
5006135 ATTGGGGGCGGTTTTAGATAAAATCC-CCTTGCC
66 A-TGGGGGCGGTTCTAGATAAAATCCACCTTGCC
5006168 TCGACTCAAT
Statistics
Matches: 225, Mismatches: 31, Indels: 10
0.85 0.12 0.04
Matches are distributed among these distances:
161 8 0.04
162 73 0.32
163 142 0.63
164 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (161 bp):
TTTTATCTAACAATCGAGTTCGGAGGCTAGGCATGTTGGTTTCTTAGCTGAAATTTTCAGGGCAG
ATGGGGGCGGTTCTAGATAAAATCCACCTTGCCCCGAACATATATGGGAAAAACAACCGAACTTT
TCAGGTTTCAACCTCACCCTATAGGGCTTTC
Found at i:5006981 original size:21 final size:21
Alignment explanation
Indices: 5006940--5006981 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
5006930 TCGAGGTTCA
* * *
5006940 AATTTTATTTTATATTTTAAT
1 AATTTTATTATAGATTCTAAT
5006961 AATTTTATTATAGATTCTAAT
1 AATTTTATTATAGATTCTAAT
5006982 CATATCCGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (21 bp):
AATTTTATTATAGATTCTAAT
Found at i:5011833 original size:11 final size:11
Alignment explanation
Indices: 5011817--5011842 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
5011807 TATTTTTTAA
5011817 TTTTAAAATAT
1 TTTTAAAATAT
5011828 TTTTAAAATAT
1 TTTTAAAATAT
5011839 TTTT
1 TTTT
5011843 TTATTTTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:5011844 original size:37 final size:41
Alignment explanation
Indices: 5011792--5011870 Score: 121
Period size: 39 Copynumber: 2.0 Consensus size: 41
5011782 CCTGTTTGGA
5011792 TAAAATATATATTTTTATTTTTT-AATTTTAAAAT-ATTTT
1 TAAAATATATATTTTTATTTTTTCAATTTTAAAATAATTTT
*
5011831 TAAAATAT-T-TTTTTATTTTTTCATTTTTAAAATAATTTT
1 TAAAATATATATTTTTATTTTTTCAATTTTAAAATAATTTT
5011870 T
1 T
5011871 TAGTGTTTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
37 12 0.32
38 11 0.30
39 14 0.38
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.63
Consensus pattern (41 bp):
TAAAATATATATTTTTATTTTTTCAATTTTAAAATAATTTT
Found at i:5012601 original size:15 final size:14
Alignment explanation
Indices: 5012576--5012613 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
5012566 ATGTCAACTT
*
5012576 TAAAAA-AAAAAGC
1 TAAAAAGAAAAAAC
5012589 TAAAAAGAAAAAAC
1 TAAAAAGAAAAAAC
5012603 TAAAATAGAAA
1 TAAAA-AGAAA
5012614 TCAATCGGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 6 0.27
14 11 0.50
15 5 0.23
ACGTcount: A:0.76, C:0.05, G:0.08, T:0.11
Consensus pattern (14 bp):
TAAAAAGAAAAAAC
Found at i:5014774 original size:28 final size:29
Alignment explanation
Indices: 5014720--5014779 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
5014710 TTGAAATTTG
5014720 AAAAATAAAAGGAATAAATTCTTAAAAAT
1 AAAAATAAAAGGAATAAATTCTTAAAAAT
* * * *
5014749 AAAAGTAAATGGACTAAATTC-TAAAATT
1 AAAAATAAAAGGAATAAATTCTTAAAAAT
5014777 AAA
1 AAA
5014780 TATTTTCAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 9 0.33
29 18 0.67
ACGTcount: A:0.62, C:0.05, G:0.08, T:0.25
Consensus pattern (29 bp):
AAAAATAAAAGGAATAAATTCTTAAAAAT
Found at i:5023022 original size:2 final size:2
Alignment explanation
Indices: 5023015--5023048 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
5023005 GTTTTTACTG
5023015 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
5023049 TTAAAGATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:5025556 original size:41 final size:41
Alignment explanation
Indices: 5025511--5025592 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
5025501 TTTTTTATCT
*
5025511 AATTGAACAATTTTATATATTTATTGATTTACTTAAAATTA
1 AATTGAACAATTTTATATATTTATCGATTTACTTAAAATTA
5025552 AATTGAACAATTTTATATATTTATCGATTTACTTAAAATTA
1 AATTGAACAATTTTATATATTTATCGATTTACTTAAAATTA
5025593 GGACTAAACT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.48
Consensus pattern (41 bp):
AATTGAACAATTTTATATATTTATCGATTTACTTAAAATTA
Found at i:5027334 original size:1 final size:1
Alignment explanation
Indices: 5027328--5027352 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
5027318 CTTCTTCTTC
5027328 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
5027353 GCAAAATCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:5034422 original size:36 final size:36
Alignment explanation
Indices: 5034347--5034432 Score: 86
Period size: 36 Copynumber: 2.4 Consensus size: 36
5034337 TAGGAAAATT
* ** * *
5034347 AACAAT-AAACAAGAGTTATATAATATCCAAACAAT
1 AACAATAAAACAATAGCAATATAATAACCAAACAAC
* *
5034382 AACAATAAAACAATAGCAATATAATAACGAAATAAC
1 AACAATAAAACAATAGCAATATAATAACCAAACAAC
5034418 AACAA-AACAACAATA
1 AACAATAA-AACAATA
5034433 AAAAAAGAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
35 8 0.19
36 34 0.81
ACGTcount: A:0.63, C:0.15, G:0.05, T:0.17
Consensus pattern (36 bp):
AACAATAAAACAATAGCAATATAATAACCAAACAAC
Found at i:5035225 original size:18 final size:17
Alignment explanation
Indices: 5035194--5035228 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
5035184 TAGACCATCA
*
5035194 AAAATTTTTTTAATAAT
1 AAAATTTTTATAATAAT
5035211 AAAATATTTTATAATAAT
1 AAAAT-TTTTATAATAAT
5035229 CAATATCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
AAAATTTTTATAATAAT
Found at i:5035538 original size:22 final size:24
Alignment explanation
Indices: 5035512--5035555 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
5035502 GAAAAATATT
5035512 AAATAT-ATA-TTTTTTATTTTTA
1 AAATATAATAGTTTTTTATTTTTA
5035534 AAATATAATAGTTTTTTATTTT
1 AAATATAATAGTTTTTTATTTT
5035556 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.30
23 3 0.15
24 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AAATATAATAGTTTTTTATTTTTA
Found at i:5035667 original size:9 final size:9
Alignment explanation
Indices: 5035653--5035680 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
5035643 TTTTGTTACA
5035653 ACAATTAAT
1 ACAATTAAT
5035662 ACAATTAAT
1 ACAATTAAT
5035671 ACAATTAAT
1 ACAATTAAT
5035680 A
1 A
5035681 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:5035702 original size:68 final size:68
Alignment explanation
Indices: 5035625--5035913 Score: 551
Period size: 68 Copynumber: 4.2 Consensus size: 68
5035615 AAGTTTGTTT
*
5035625 TACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGATAA
1 TACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGATAA
5035690 ATA
66 ATA
5035693 TACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGATAA
1 TACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGATAA
*
5035758 ATT
66 ATA
5035761 TACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGATAA
1 TACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGATAA
5035826 ATA
66 ATA
5035829 TACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGATAA
1 TACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGATAA
*
5035894 ATT
66 ATA
5035897 TACTAATCAAATGTTAG
1 TACTAATCAAATGTTAG
5035914 GGGCCGGGCC
Statistics
Matches: 217, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
68 217 1.00
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.39
Consensus pattern (68 bp):
TACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGATAA
ATA
Found at i:5035733 original size:9 final size:9
Alignment explanation
Indices: 5035721--5035748 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
5035711 TTTTATTACA
5035721 ACAATTAAT
1 ACAATTAAT
5035730 ACAATTAAT
1 ACAATTAAT
5035739 ACAATTAAT
1 ACAATTAAT
5035748 A
1 A
5035749 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:5035801 original size:9 final size:9
Alignment explanation
Indices: 5035789--5035816 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
5035779 TTTTATTACA
5035789 ACAATTAAT
1 ACAATTAAT
5035798 ACAATTAAT
1 ACAATTAAT
5035807 ACAATTAAT
1 ACAATTAAT
5035816 A
1 A
5035817 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:5035869 original size:9 final size:9
Alignment explanation
Indices: 5035857--5035884 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
5035847 TTTTATTACA
5035857 ACAATTAAT
1 ACAATTAAT
5035866 ACAATTAAT
1 ACAATTAAT
5035875 ACAATTAAT
1 ACAATTAAT
5035884 A
1 A
5035885 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:5037978 original size:31 final size:31
Alignment explanation
Indices: 5037943--5038007 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
5037933 AGGTGCCAAT
*
5037943 TTGAACTAAGCAGCCAAGTTCATGTGCTTAA
1 TTGAACTAAGAAGCCAAGTTCATGTGCTTAA
*
5037974 TTGAACTAAGAAGCCGAGTTCATGTGCTTAA
1 TTGAACTAAGAAGCCAAGTTCATGTGCTTAA
5038005 TTG
1 TTG
5038008 GATCAAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.31
Consensus pattern (31 bp):
TTGAACTAAGAAGCCAAGTTCATGTGCTTAA
Found at i:5040750 original size:20 final size:21
Alignment explanation
Indices: 5040712--5040750 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
5040702 ATGAAAATGG
*
5040712 GAAAATAATTTAAATTTATAT
1 GAAAATAATTTAAAATTATAT
5040733 GAAAATAA-TTAAAATTAT
1 GAAAATAATTTAAAATTAT
5040751 TTTTAGAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (21 bp):
GAAAATAATTTAAAATTATAT
Found at i:5043184 original size:28 final size:29
Alignment explanation
Indices: 5043142--5043199 Score: 100
Period size: 28 Copynumber: 2.0 Consensus size: 29
5043132 CTATAATACT
*
5043142 TTTTATTTTTGGTAAAAAATCTTATAGAA
1 TTTTATTTTTGGTAAAAAATCCTATAGAA
5043171 TTTT-TTTTTGGTAAAAAATCCTATAGAA
1 TTTTATTTTTGGTAAAAAATCCTATAGAA
5043199 T
1 T
5043200 ATTAAAACTC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 24 0.86
29 4 0.14
ACGTcount: A:0.36, C:0.05, G:0.10, T:0.48
Consensus pattern (29 bp):
TTTTATTTTTGGTAAAAAATCCTATAGAA
Found at i:5056158 original size:8 final size:8
Alignment explanation
Indices: 5056147--5056173 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
5056137 CCTTTATTAA
5056147 TTTAAAAT
1 TTTAAAAT
5056155 TTTAAAAT
1 TTTAAAAT
5056163 TTTAAAAT
1 TTTAAAAT
5056171 TTT
1 TTT
5056174 CTAAAAGGCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (8 bp):
TTTAAAAT
Found at i:5057559 original size:20 final size:21
Alignment explanation
Indices: 5057534--5057584 Score: 72
Period size: 20 Copynumber: 2.5 Consensus size: 21
5057524 TAAAATTTAT
5057534 TTATATATATATTT-TCATA-C
1 TTATATATATATTTAT-ATACC
5057554 TTATATAT-TATTTATATACC
1 TTATATATATATTTATATACC
5057574 TTATATATATA
1 TTATATATATA
5057585 CACATATGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 8 0.29
20 18 0.64
21 2 0.07
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (21 bp):
TTATATATATATTTATATACC
Found at i:5061994 original size:59 final size:60
Alignment explanation
Indices: 5061898--5062011 Score: 153
Period size: 59 Copynumber: 1.9 Consensus size: 60
5061888 CCAACACACC
*
5061898 AATTTGGCACCCAGTGTCTCATCGAATAATCTAAAGT-AATAT-GCACCCAGTGCTATATA
1 AATTTGACACCCAGTGTCTCATCGAATAATCTAAAGTAAAT-TGGCACCCAGTGCTATATA
** *
5061957 AATTTGACACCCAGTGTCTCATCGGTTAAAT-TGAAGTAAATTGGCACCCAGTGCT
1 AATTTGACACCCAGTGTCTCATCGAAT-AATCTAAAGTAAATTGGCACCCAGTGCT
5062012 CATCGATTCG
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
59 30 0.62
60 18 0.38
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.29
Consensus pattern (60 bp):
AATTTGACACCCAGTGTCTCATCGAATAATCTAAAGTAAATTGGCACCCAGTGCTATATA
Found at i:5062205 original size:5 final size:5
Alignment explanation
Indices: 5062195--5062234 Score: 55
Period size: 5 Copynumber: 8.0 Consensus size: 5
5062185 TATATATATA
*
5062195 TCAAT TCAAT TCAAT TCAA- TCAACT TTAAT TCAAT TCAAT
1 TCAAT TCAAT TCAAT TCAAT TCAA-T TCAAT TCAAT TCAAT
5062235 ATTAAAGTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
4 4 0.13
5 24 0.77
6 3 0.10
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (5 bp):
TCAAT
Found at i:5073233 original size:23 final size:24
Alignment explanation
Indices: 5073206--5073267 Score: 67
Period size: 22 Copynumber: 2.7 Consensus size: 24
5073196 GCCAGGCCCG
* *
5073206 TTTTTAATTAAAATTAAAATTATT
1 TTTTTAATTAAAATTAAAACTATA
*
5073230 TTTTTAA-TAAAATTTAAACTA-A
1 TTTTTAATTAAAATTAAAACTATA
*
5073252 TTGTT-ATTAAAATTAA
1 TTTTTAATTAAAATTAA
5073268 TTGTTAGTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
21 1 0.03
22 12 0.38
23 12 0.38
24 7 0.22
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (24 bp):
TTTTTAATTAAAATTAAAACTATA
Found at i:5073270 original size:16 final size:16
Alignment explanation
Indices: 5073249--5073282 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
5073239 AAATTTAAAC
*
5073249 TAATTGTTATTAAAAT
1 TAATTGTTAGTAAAAT
5073265 TAATTGTTAGTAAAAT
1 TAATTGTTAGTAAAAT
5073281 TA
1 TA
5073283 TCAAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (16 bp):
TAATTGTTAGTAAAAT
Found at i:5075208 original size:11 final size:11
Alignment explanation
Indices: 5075162--5075209 Score: 53
Period size: 11 Copynumber: 4.3 Consensus size: 11
5075152 CACCATGGAG
5075162 ATATTGTATTT
1 ATATTGTATTT
5075173 ATAATTGTA-TT
1 AT-ATTGTATTT
**
5075184 ATATTTGTGGTT
1 ATA-TTGTATTT
5075196 ATATTGTATTT
1 ATATTGTATTT
5075207 ATA
1 ATA
5075210 CTTATAAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
10 1 0.03
11 19 0.61
12 11 0.35
ACGTcount: A:0.29, C:0.00, G:0.12, T:0.58
Consensus pattern (11 bp):
ATATTGTATTT
Found at i:5075214 original size:17 final size:17
Alignment explanation
Indices: 5075162--5075215 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
5075152 CACCATGGAG
5075162 ATATTGTATTTATAATT
1 ATATTGTATTTATAATT
* * * **
5075179 GTATTATATTTGTGGTT
1 ATATTGTATTTATAATT
*
5075196 ATATTGTATTTATACTT
1 ATATTGTATTTATAATT
5075213 ATA
1 ATA
5075216 AATGCTCAAA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (17 bp):
ATATTGTATTTATAATT
Found at i:5075749 original size:185 final size:186
Alignment explanation
Indices: 5075521--5075856 Score: 622
Period size: 185 Copynumber: 1.8 Consensus size: 186
5075511 TTTTTTAAAG
* *
5075521 TAATAATTAAAGATCTTGGTATTATTAATAAAGGTGAAAGTTATAGATTTTGAGTATCTAAGTTC
1 TAATAATTAAAGATCTTGGTATTATTAATAAAGGTGAAAGTTATAGATTTTGAGTATCTAAATCC
*
5075586 GGGATCCATAATATTTAATCAAAATATATAAATT-TTCAAGTTCTACCATGAGTTGTTATCATGT
66 GGGATCCATAATATTTAATCAAAATATATAAATTATT-AAGTTCTACCATGAGTTGTTATCATGC
5075650 GTGAGTTTTAGTTTTATTAATTTATTCATAGTTTGGATGATTTCAATTCGAGAGTTT
130 GTGAGTTTTAGTTTTATTAATTTATTCATAGTTTGGATGATTTCAATTCGAGAGTTT
5075707 TAATAATTAAAGATCTTGGTA-TATTAATAAAGGTGAAAGTTATAGATTTTGAGTATCTAAATCC
1 TAATAATTAAAGATCTTGGTATTATTAATAAAGGTGAAAGTTATAGATTTTGAGTATCTAAATCC
5075771 GGGATCCATAATATTTAATCAAAATATATAAATTATTAAGTTCTACCATGAGTTGTTATCATGCG
66 GGGATCCATAATATTTAATCAAAATATATAAATTATTAAGTTCTACCATGAGTTGTTATCATGCG
5075836 TGAGTTTTAGTTTTATTAATT
131 TGAGTTTTAGTTTTATTAATT
5075857 AATGGTAAAC
Statistics
Matches: 146, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
185 123 0.84
186 23 0.16
ACGTcount: A:0.35, C:0.08, G:0.15, T:0.42
Consensus pattern (186 bp):
TAATAATTAAAGATCTTGGTATTATTAATAAAGGTGAAAGTTATAGATTTTGAGTATCTAAATCC
GGGATCCATAATATTTAATCAAAATATATAAATTATTAAGTTCTACCATGAGTTGTTATCATGCG
TGAGTTTTAGTTTTATTAATTTATTCATAGTTTGGATGATTTCAATTCGAGAGTTT
Found at i:5076117 original size:10 final size:10
Alignment explanation
Indices: 5076102--5076126 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
5076092 TTCAGTTTAG
5076102 CTCTCCCTCT
1 CTCTCCCTCT
5076112 CTCTCCCTCT
1 CTCTCCCTCT
5076122 CTCTC
1 CTCTC
5076127 GCCAATTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.60, G:0.00, T:0.40
Consensus pattern (10 bp):
CTCTCCCTCT
Found at i:5080560 original size:32 final size:33
Alignment explanation
Indices: 5080516--5080582 Score: 93
Period size: 32 Copynumber: 2.1 Consensus size: 33
5080506 TTTTAATATG
* *
5080516 TATTTATTAAAATA-A-TTATAATTACTTATTTT
1 TATTAATTAAAATATAGTTAAAATTA-TTATTTT
5080548 TATTAATTAAAATATAGTTAAAATTATTATTTT
1 TATTAATTAAAATATAGTTAAAATTATTATTTT
5080581 TA
1 TA
5080583 AATCACAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
32 13 0.42
33 10 0.32
34 8 0.26
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (33 bp):
TATTAATTAAAATATAGTTAAAATTATTATTTT
Found at i:5083465 original size:30 final size:30
Alignment explanation
Indices: 5083431--5083487 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
5083421 GATCATCATA
5083431 GTATATGA-GTTCATTAATCTTATTCTTGAC
1 GTATAT-ACGTTCATTAATCTTATTCTTGAC
*
5083461 GTATATACGTTGATTAATCTTATTCTT
1 GTATATACGTTCATTAATCTTATTCTT
5083488 CTTATTTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.26, C:0.12, G:0.12, T:0.49
Consensus pattern (30 bp):
GTATATACGTTCATTAATCTTATTCTTGAC
Found at i:5110775 original size:1 final size:1
Alignment explanation
Indices: 5110769--5110806 Score: 76
Period size: 1 Copynumber: 38.0 Consensus size: 1
5110759 TGTTTGGGTG
5110769 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
5110807 GTCAGCTTAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:5115155 original size:80 final size:81
Alignment explanation
Indices: 5115020--5115172 Score: 299
Period size: 80 Copynumber: 1.9 Consensus size: 81
5115010 TTCCCCCAAA
5115020 ACCTTCCCTTTTTGCACATTCTTTTTTTTTTTTTTATCAAATACTCTAGGTGTTCATAATTAAGT
1 ACCTTCCCTTTTTGCACATTCTTTTTTTTTTTTTTATCAAATACTCTAGGTGTTCATAATTAAGT
5115085 CTAGAATTCCTTCCCC
66 CTAGAATTCCTTCCCC
5115101 ACCTTCCCTTTTTGCACATTC-TTTTTTTTTTTTTATCAAATACTCTAGGTGTTCATAATTAAGT
1 ACCTTCCCTTTTTGCACATTCTTTTTTTTTTTTTTATCAAATACTCTAGGTGTTCATAATTAAGT
5115165 CTAGAATT
66 CTAGAATT
5115173 AGAATTTTTG
Statistics
Matches: 72, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
80 51 0.71
81 21 0.29
ACGTcount: A:0.22, C:0.21, G:0.08, T:0.49
Consensus pattern (81 bp):
ACCTTCCCTTTTTGCACATTCTTTTTTTTTTTTTTATCAAATACTCTAGGTGTTCATAATTAAGT
CTAGAATTCCTTCCCC
Found at i:5115858 original size:26 final size:26
Alignment explanation
Indices: 5115803--5115859 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
5115793 TATGGACCTC
* * *
5115803 ATCAACTTAGTCCTATTATTAAATGG
1 ATCAACTTAGTCCTACTATTAAAAGA
*
5115829 ATCAATTTAGT-CTACTATTAAAAAGA
1 ATCAACTTAGTCCTACTATT-AAAAGA
5115855 ATCAA
1 ATCAA
5115860 ACAAGGCAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 7 0.27
26 19 0.73
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (26 bp):
ATCAACTTAGTCCTACTATTAAAAGA
Found at i:5116132 original size:31 final size:29
Alignment explanation
Indices: 5116077--5116140 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 29
5116067 TAATAGTATA
*
5116077 GGACTAAATTGATCCATTTAATAATAGAG
1 GGACTAAATTGATCCATTTAATAATACAG
*
5116106 GGACTAATTTGATCCAGTTCCT-ATAATACAG
1 GGACTAAATTGATCCA-TT--TAATAATACAG
5116137 GGAC
1 GGAC
5116141 CTCCCTGTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 15 0.50
30 2 0.07
31 12 0.40
32 1 0.03
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.30
Consensus pattern (29 bp):
GGACTAAATTGATCCATTTAATAATACAG
Found at i:5118591 original size:26 final size:26
Alignment explanation
Indices: 5118553--5118604 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
5118543 ATTTAATACA
* **
5118553 ATTTTAATTTTTATCATAAAAATAAAT
1 ATTTTAATATTTAAAATAAAAA-AAAT
5118580 ATTTT-ATATTTAAAATAAAAAAAAT
1 ATTTTAATATTTAAAATAAAAAAAAT
5118605 TAACTTTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 4 0.18
26 13 0.59
27 5 0.23
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (26 bp):
ATTTTAATATTTAAAATAAAAAAAAT
Found at i:5118778 original size:287 final size:288
Alignment explanation
Indices: 5118251--5118828 Score: 1140
Period size: 287 Copynumber: 2.0 Consensus size: 288
5118241 ATGTTATTTT
5118251 TTTATTTAATTTACAATTTTAATTTTTATCATAAAAATAAATATTTTATATTTAAAATAAAAAAA
1 TTTATTTAA-TTACAATTTTAATTTTTATCATAAAAATAAATATTTTATATTTAAAATAAAAAAA
5118316 ATTAACTTTAAAAATCTGTATATATAAAAAATACATTTATGAAAAATACCATATAAAAACTATTG
65 ATTAACTTTAAAAATCTGTATATATAAAAAATACATTTATGAAAAATACCATATAAAAACTATTG
5118381 ATTGTTTTTTATTTAGTTGAAAAATAATTTTTAAAAATTTTGAAAATTTTTCAAACATTATTCAA
130 ATTGTTTTTTATTTAGTTGAAAAATAATTTTTAAAAATTTTGAAAATTTTTCAAACATTATTCAA
5118446 AACGCATAAAACAAAATTCATTTTGTCAAAATCAATTTAAAAATAAAAAAATTAACATGAGAAAA
195 AACGCATAAAACAAAATTCATTTTGTCAAAATCAATTTAAAAATAAAAAAATTAACATGAGAAAA
5118511 CAGATATCACCCCAAATGGTTGTATCATA
260 CAGATATCACCCCAAATGGTTGTATCATA
5118540 TTTATTTAA-TACAATTTTAATTTTTATCATAAAAATAAATATTTTATATTTAAAATAAAAAAAA
1 TTTATTTAATTACAATTTTAATTTTTATCATAAAAATAAATATTTTATATTTAAAATAAAAAAAA
5118604 TTAACTTTAAAAATCTGTATATATAAAAAATACATTTATGAAAAATACCATATAAAAACTATTGA
66 TTAACTTTAAAAATCTGTATATATAAAAAATACATTTATGAAAAATACCATATAAAAACTATTGA
5118669 TTGTTTTTTATTTAGTTGAAAAATAATTTTTAAAAATTTTGAAAATTTTTCAAACATTATTCAAA
131 TTGTTTTTTATTTAGTTGAAAAATAATTTTTAAAAATTTTGAAAATTTTTCAAACATTATTCAAA
5118734 ACGCATAAAACAAAATTCATTTTGTCAAAATCAATTTAAAAATAAAAAAATTAACATGAGAAAAC
196 ACGCATAAAACAAAATTCATTTTGTCAAAATCAATTTAAAAATAAAAAAATTAACATGAGAAAAC
5118799 AGATATCACCCCAAATGGTTGTATCATA
261 AGATATCACCCCAAATGGTTGTATCATA
5118827 TT
1 TT
5118829 AAGAAATTTT
Statistics
Matches: 289, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
287 280 0.97
289 9 0.03
ACGTcount: A:0.48, C:0.09, G:0.05, T:0.38
Consensus pattern (288 bp):
TTTATTTAATTACAATTTTAATTTTTATCATAAAAATAAATATTTTATATTTAAAATAAAAAAAA
TTAACTTTAAAAATCTGTATATATAAAAAATACATTTATGAAAAATACCATATAAAAACTATTGA
TTGTTTTTTATTTAGTTGAAAAATAATTTTTAAAAATTTTGAAAATTTTTCAAACATTATTCAAA
ACGCATAAAACAAAATTCATTTTGTCAAAATCAATTTAAAAATAAAAAAATTAACATGAGAAAAC
AGATATCACCCCAAATGGTTGTATCATA
Found at i:5130051 original size:6 final size:7
Alignment explanation
Indices: 5130026--5130050 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
5130016 CTTGGAAAGC
5130026 AAAAATA
1 AAAAATA
5130033 AAAAATA
1 AAAAATA
5130040 AAAAATA
1 AAAAATA
5130047 AAAA
1 AAAA
5130051 TTGGAGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:5136515 original size:35 final size:35
Alignment explanation
Indices: 5136476--5136545 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
5136466 GAAGCCGATA
5136476 ACATTGAGATTGTAATTGAAATGATATTTGCTGTC
1 ACATTGAGATTGTAATTGAAATGATATTTGCTGTC
5136511 ACATTGAGATTGTAATTGAAATGATATTTGCTGTC
1 ACATTGAGATTGTAATTGAAATGATATTTGCTGTC
5136546 TTCCAAAATC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (35 bp):
ACATTGAGATTGTAATTGAAATGATATTTGCTGTC
Found at i:5140939 original size:18 final size:18
Alignment explanation
Indices: 5140918--5140963 Score: 74
Period size: 18 Copynumber: 2.5 Consensus size: 18
5140908 GTCTTCCATT
5140918 ATAAATTTTGTATTTTGG
1 ATAAATTTTGTATTTTGG
*
5140936 ATAAAGTTTGTATTTTGG
1 ATAAATTTTGTATTTTGG
5140954 ATAAAGTTTT
1 ATAAA-TTTT
5140964 TTTTAATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 22 0.88
19 3 0.12
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.52
Consensus pattern (18 bp):
ATAAATTTTGTATTTTGG
Found at i:5141063 original size:13 final size:13
Alignment explanation
Indices: 5141000--5141063 Score: 60
Period size: 13 Copynumber: 4.9 Consensus size: 13
5140990 TTCTTTATTG
**
5141000 CTTTTGAAATTTA
1 CTTTTGAAAAGTA
*
5141013 CTTTTGAAAATTA
1 CTTTTGAAAAGTA
*
5141026 C-TTTGTAAAAGTG
1 CTTTTG-AAAAGTA
5141039 CTTTT-AAGAAGTA
1 CTTTTGAA-AAGTA
5141052 CTTTTGAAAAGT
1 CTTTTGAAAAGT
5141064 TTGGTTTAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
12 6 0.14
13 32 0.74
14 5 0.12
ACGTcount: A:0.34, C:0.08, G:0.14, T:0.44
Consensus pattern (13 bp):
CTTTTGAAAAGTA
Found at i:5142574 original size:15 final size:15
Alignment explanation
Indices: 5142554--5142585 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
5142544 GAATGTGGGG
*
5142554 TGATGATGATTATTT
1 TGATGATGATGATTT
5142569 TGATGATGATGATTT
1 TGATGATGATGATTT
5142584 TG
1 TG
5142586 GAGATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (15 bp):
TGATGATGATGATTT
Found at i:5142784 original size:2 final size:2
Alignment explanation
Indices: 5142777--5142826 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
5142767 TGTTATCTTC
5142777 TA TA TA TA TA TA 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 TA TA TA
*
5142819 TA TG TA TA
1 TA TA TA TA
5142827 NNNNNNNNNN
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:5147356 original size:33 final size:32
Alignment explanation
Indices: 5147314--5147418 Score: 111
Period size: 33 Copynumber: 3.2 Consensus size: 32
5147304 GCGGGGTGGT
*
5147314 GATTATTTCGAAGATGCTCACGAGGATTTTGAA
1 GATTATTTCGAAGATGCTCAC-AAGATTTTGAA
* * *
5147347 GATTATTTCGAAGATGCTTATCAAAATTTTGCA
1 GATTATTTCGAAGATGCTCA-CAAGATTTTGAA
* * * *
5147380 GATTATTTCGCAGCTGCTCATAAAGATTTTCAA
1 GATTATTTCGAAGATGCTCA-CAAGATTTTGAA
5147413 GATTAT
1 GATTAT
5147419 ATTAGAAGGC
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
33 59 0.98
34 1 0.02
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.37
Consensus pattern (32 bp):
GATTATTTCGAAGATGCTCACAAGATTTTGAA
Done.