Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 93 of 171
Found at i:30255038 original size:30 final size:31
Alignment explanation
Indices: 30254989--30255066 Score: 88
Period size: 30 Copynumber: 2.5 Consensus size: 31
30254979 ATTAGTATTA
** *
30254989 TTATATTAAAAATCGAATTATATT-TTATTTT
1 TTATATTAAAAATTAAATTA-ATTATTAATTT
30255020 TTAT-TTAAAAATTAAATTAATTAATTAATTT
1 TTATATTAAAAATTAAATTAATT-ATTAATTT
30255051 TTATTATTAAAAATTA
1 TTA-TATTAAAAATTA
30255067 GTTTTTGCTT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
29 3 0.08
30 13 0.32
31 13 0.32
32 1 0.03
33 10 0.25
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (31 bp):
TTATATTAAAAATTAAATTAATTATTAATTT
Found at i:30258363 original size:20 final size:19
Alignment explanation
Indices: 30258324--30258363 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
30258314 TTTTTATAAA
**
30258324 TTTTATAATTTATTATGCT
1 TTTTATAATTTAAAATGCT
30258343 TTTTATAATTTCAAAATGCT
1 TTTTATAATTT-AAAATGCT
30258363 T
1 T
30258364 GACAAATGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.57
Consensus pattern (19 bp):
TTTTATAATTTAAAATGCT
Found at i:30260578 original size:30 final size:30
Alignment explanation
Indices: 30260544--30260600 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
30260534 ATTGATATTA
30260544 ATTAATAA-GGAGTGATTAAAATAAAAAATT
1 ATTAA-AATGGAGTGATTAAAATAAAAAATT
** *
30260574 ATTAAAATTTAGTGATTAAAATGAAAA
1 ATTAAAATGGAGTGATTAAAATAAAAA
30260601 CAATACTGAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 2 0.09
30 21 0.91
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (30 bp):
ATTAAAATGGAGTGATTAAAATAAAAAATT
Found at i:30269320 original size:30 final size:30
Alignment explanation
Indices: 30269286--30269349 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
30269276 AACAATAGTC
*
30269286 AAATTACATGTTGATCTTTT-AAAATAATAA
1 AAATTACATG-TAATCTTTTAAAAATAATAA
** *
30269316 AAATTTGATGTAATCTTTTAAAAATTATAA
1 AAATTACATGTAATCTTTTAAAAATAATAA
30269346 AAAT
1 AAAT
30269350 ATAAACTATC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 8 0.28
30 21 0.72
ACGTcount: A:0.48, C:0.05, G:0.06, T:0.41
Consensus pattern (30 bp):
AAATTACATGTAATCTTTTAAAAATAATAA
Found at i:30269882 original size:23 final size:23
Alignment explanation
Indices: 30269834--30269882 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
30269824 TGATCTAAGG
* *
30269834 AAAAATAAAAGAAACTGAATTAA
1 AAAAATAAAAGAAAATGAACTAA
30269857 AAAAATAAAAGAAAATAGAACTAA
1 AAAAATAAAAGAAAAT-GAACTAA
30269881 AA
1 AA
30269883 GAAGTAGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.73, C:0.04, G:0.08, T:0.14
Consensus pattern (23 bp):
AAAAATAAAAGAAAATGAACTAA
Found at i:30270722 original size:19 final size:19
Alignment explanation
Indices: 30270698--30270740 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
30270688 AAATATAAAT
30270698 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
30270717 TAAATAATATCTTAAATAT
1 TAAATAAAATCTTAAATAA
30270736 TAAAT
1 TAAAT
30270741 CCTAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:30271492 original size:103 final size:102
Alignment explanation
Indices: 30271310--30271500 Score: 278
Period size: 103 Copynumber: 1.9 Consensus size: 102
30271300 TTATTTTGTG
* *
30271310 AATTTTTTCCTTTTTTTTCTTTAAGAATACATTGGACCTTTTGACGCGAAATGAAATGACACCCA
1 AATTTTTTCCTTTTTTTTCTTTAAGAATACATTAGACCTTTTGACGCGAAATGAAATGACAACCA
30271375 AGCACTCCCTCCCGGTTACTCAGCCCAACATGCTCTC
66 AGCACTCCCTCCCGGTTACTCAGCCCAACATGCTCTC
* * * * *
30271412 AATTTTTTTCTTCTCTTTTT-TTTTAGAATGCATTAGCCCTTTTGACGCGAAGTGAAATGACAAC
1 AATTTTTTCCTT-T-TTTTTCTTTAAGAATACATTAGACCTTTTGACGCGAAATGAAATGACAAC
30271476 CAAGCACTCCAC-CCCGGTTACTCAG
64 CAAGCACTCC-CTCCCGGTTACTCAG
30271501 TCTAACACAT
Statistics
Matches: 79, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
102 11 0.14
103 62 0.78
104 6 0.08
ACGTcount: A:0.25, C:0.27, G:0.14, T:0.35
Consensus pattern (102 bp):
AATTTTTTCCTTTTTTTTCTTTAAGAATACATTAGACCTTTTGACGCGAAATGAAATGACAACCA
AGCACTCCCTCCCGGTTACTCAGCCCAACATGCTCTC
Found at i:30272202 original size:4 final size:4
Alignment explanation
Indices: 30272193--30272247 Score: 62
Period size: 4 Copynumber: 13.8 Consensus size: 4
30272183 TCCTGGACAA
30272193 AAAT AAAT AAAT AAAT AAAT AAAAT AAGAT AGAA- AAAT AAA- AAAT AAA-
1 AAAT AAAT AAAT AAAT AAAT -AAAT AA-AT A-AAT AAAT AAAT AAAT AAAT
30272241 AAAT AAA
1 AAAT AAA
30272248 AATAATTGGG
Statistics
Matches: 45, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
3 8 0.18
4 28 0.62
5 8 0.18
6 1 0.02
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (4 bp):
AAAT
Found at i:30272242 original size:13 final size:13
Alignment explanation
Indices: 30272191--30272252 Score: 56
Period size: 13 Copynumber: 4.6 Consensus size: 13
30272181 TTTCCTGGAC
30272191 AAAAATAAATAAAT
1 AAAAATAAA-AAAT
*
30272205 AAATAA-ATAAAAT
1 AAA-AATAAAAAAT
*
30272218 -AAGATAGAAAAAT
1 AAAAATA-AAAAAT
30272231 AAAAAATAAAAAAT
1 -AAAAATAAAAAAT
30272245 AAAAATAA
1 AAAAATAA
30272253 TTGGGTTGCC
Statistics
Matches: 39, Mismatches: 4, Indels: 11
0.72 0.07 0.20
Matches are distributed among these distances:
11 1 0.03
12 3 0.08
13 17 0.44
14 11 0.28
15 7 0.18
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:30272252 original size:6 final size:7
Alignment explanation
Indices: 30272191--30272249 Score: 64
Period size: 7 Copynumber: 7.6 Consensus size: 7
30272181 TTTCCTGGAC
30272191 AAAAATA
1 AAAAATA
30272198 AATAAATA
1 AA-AAATA
30272206 AATAAATAA
1 AA-AAAT-A
30272215 AATAAGATA
1 AA-AA-ATA
30272224 GAAAAATA
1 -AAAAATA
30272232 AAAAATA
1 AAAAATA
30272239 AAAAATA
1 AAAAATA
30272246 AAAA
1 AAAA
30272250 TAATTGGGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
7 20 0.42
8 15 0.31
9 9 0.19
10 4 0.08
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (7 bp):
AAAAATA
Found at i:30276315 original size:21 final size:21
Alignment explanation
Indices: 30276289--30276328 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
30276279 ATAGATGCCT
*
30276289 CAGTTTTCTTTTGAAAATCCA
1 CAGTTTGCTTTTGAAAATCCA
*
30276310 CAGTTTGCTTTTGGAAATC
1 CAGTTTGCTTTTGAAAATC
30276329 TATAGATTGC
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:0.25, C:0.17, G:0.15, T:0.42
Consensus pattern (21 bp):
CAGTTTGCTTTTGAAAATCCA
Found at i:30276338 original size:21 final size:21
Alignment explanation
Indices: 30276296--30276339 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
30276286 CCTCAGTTTT
*
30276296 CTTTTGAAAATCCACAGTTTG
1 CTTTTGAAAATCCACAGATTG
* * *
30276317 CTTTTGGAAATCTATAGATTG
1 CTTTTGAAAATCCACAGATTG
30276338 CT
1 CT
30276340 GCTGAAATTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (21 bp):
CTTTTGAAAATCCACAGATTG
Found at i:30278731 original size:19 final size:19
Alignment explanation
Indices: 30278707--30278749 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
30278697 AAATATAAAT
30278707 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
30278726 TAAATAATATCTTAAATAT
1 TAAATAAAATCTTAAATAA
30278745 TAAAT
1 TAAAT
30278750 CCTAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:30278789 original size:10 final size:10
Alignment explanation
Indices: 30278770--30278798 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
30278760 AATATTTTTT
30278770 AAAAAT-AAA
1 AAAAATAAAA
30278779 AAAAATAAAA
1 AAAAATAAAA
30278789 AAAAATAAAA
1 AAAAATAAAA
30278799 CCAAGTCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 6 0.32
10 13 0.68
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (10 bp):
AAAAATAAAA
Found at i:30288321 original size:6 final size:6
Alignment explanation
Indices: 30288310--30288344 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
30288300 AGCTTAAAGG
30288310 GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA GAGGG
1 GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA GAGGG
30288345 GGGAGCTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.69, T:0.00
Consensus pattern (6 bp):
GAGGGA
Found at i:30288588 original size:24 final size:25
Alignment explanation
Indices: 30288561--30288614 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
30288551 GGGGATAGGG
*
30288561 AAATATC-TGGTTCAGATAGTAATA
1 AAATATCAAGGTTCAGATAGTAATA
*
30288585 AAAT-TCAAGGTTCATATAGTAATA
1 AAATATCAAGGTTCAGATAGTAATA
*
30288609 ACATAT
1 AAATAT
30288615 ATATGTAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 2 0.08
24 22 0.88
25 1 0.04
ACGTcount: A:0.44, C:0.09, G:0.13, T:0.33
Consensus pattern (25 bp):
AAATATCAAGGTTCAGATAGTAATA
Found at i:30293090 original size:14 final size:14
Alignment explanation
Indices: 30293073--30293103 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
30293063 TTGAAAATGG
30293073 TTTTTGAAAAATAA
1 TTTTTGAAAAATAA
*
30293087 TTTTTGAAAAATGA
1 TTTTTGAAAAATAA
30293101 TTT
1 TTT
30293104 ACTTTTTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (14 bp):
TTTTTGAAAAATAA
Found at i:30293676 original size:13 final size:14
Alignment explanation
Indices: 30293658--30293698 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
30293648 TATGTGAAAA
30293658 TATTATTTAAAATT
1 TATTATTTAAAATT
30293672 T-TTATTTTTAAAATT
1 TATTA--TTTAAAATT
30293687 TATTA-TTAAAAT
1 TATTATTTAAAAT
30293699 AAAATTGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 10 0.42
16 3 0.12
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TATTATTTAAAATT
Found at i:30293683 original size:15 final size:17
Alignment explanation
Indices: 30293658--30293694 Score: 60
Period size: 15 Copynumber: 2.3 Consensus size: 17
30293648 TATGTGAAAA
30293658 TATTATTTAAAATTT-T
1 TATTATTTAAAATTTAT
30293674 TATT-TTTAAAATTTAT
1 TATTATTTAAAATTTAT
30293690 TATTA
1 TATTA
30293695 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TATTATTTAAAATTTAT
Found at i:30294312 original size:9 final size:9
Alignment explanation
Indices: 30294298--30294329 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
30294288 TTTCAAATAC
30294298 ATTTTTATA
1 ATTTTTATA
30294307 ATTTTTATA
1 ATTTTTATA
30294316 ATTTTTAATA
1 ATTTTT-ATA
30294326 ATTT
1 ATTT
30294330 ATTCAATTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 15 0.68
10 7 0.32
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (9 bp):
ATTTTTATA
Found at i:30299201 original size:13 final size:14
Alignment explanation
Indices: 30299183--30299215 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
30299173 AAAATTCGTA
30299183 AAATATAA-AAATT
1 AAATATAACAAATT
30299196 AAATATAATCAAATT
1 AAATATAA-CAAATT
30299211 AAATA
1 AAATA
30299216 ATATGTATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.44
15 10 0.56
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (14 bp):
AAATATAACAAATT
Found at i:30299352 original size:15 final size:14
Alignment explanation
Indices: 30299333--30299370 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
30299323 TAAAACATCT
30299333 AAAATTAAAAT-TA
1 AAAATTAAAATATA
30299346 ATTAAATTAAAATATA
1 A--AAATTAAAATATA
30299362 AAAATTAAA
1 AAAATTAAA
30299371 TCTACAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 1 0.05
14 8 0.36
15 10 0.45
16 3 0.14
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
AAAATTAAAATATA
Found at i:30299527 original size:38 final size:38
Alignment explanation
Indices: 30299485--30299560 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
30299475 AAATAACCAA
30299485 AATTGAGTATCTTTTATGTTTCCTTAAAAGCTCAAACT
1 AATTGAGTATCTTTTATGTTTCCTTAAAAGCTCAAACT
30299523 AATTGAGTATCTTTTATGTTTCCTTAAAAGCTCAAACT
1 AATTGAGTATCTTTTATGTTTCCTTAAAAGCTCAAACT
30299561 TGAGCTCAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.42
Consensus pattern (38 bp):
AATTGAGTATCTTTTATGTTTCCTTAAAAGCTCAAACT
Found at i:30299735 original size:23 final size:23
Alignment explanation
Indices: 30299686--30299735 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
30299676 TAATAATGAT
*
30299686 AAATTATGAAAATAAAATATATT
1 AAATTATGAAAATAAAATATATG
* *
30299709 AAATTACTGAAAA-AACATATCTG
1 AAATTA-TGAAAATAAAATATATG
30299732 AAAT
1 AAAT
30299736 GCATATGGAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.30
Consensus pattern (23 bp):
AAATTATGAAAATAAAATATATG
Found at i:30302821 original size:14 final size:14
Alignment explanation
Indices: 30302802--30302832 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
30302792 TACAATCTAA
*
30302802 AATAATAATAATAT
1 AATAATAATAACAT
30302816 AATAATAATAACAT
1 AATAATAATAACAT
30302830 AAT
1 AAT
30302833 CTAAAAATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (14 bp):
AATAATAATAACAT
Found at i:30308035 original size:20 final size:19
Alignment explanation
Indices: 30307932--30308031 Score: 95
Period size: 17 Copynumber: 5.3 Consensus size: 19
30307922 AAAAAGTCAT
*
30307932 TAAAAATATCTATAAAAATTG
1 TAAAAATAT-T-TAAAAATTA
30307953 TAAAAATATTT--AAATTA
1 TAAAAATATTTAAAAATTA
30307970 TAAAAATA-TTAAATAATT-
1 TAAAAATATTTAAA-AATTA
*
30307988 GAAAAAT-TTTAAAAATGTA
1 TAAAAATATTTAAAAAT-TA
30308007 -AACAAATATTTAAAAATTA
1 TAA-AAATATTTAAAAATTA
30308026 TAAAAA
1 TAAAAA
30308032 ATATCCAAGA
Statistics
Matches: 68, Mismatches: 2, Indels: 20
0.76 0.02 0.22
Matches are distributed among these distances:
16 2 0.03
17 16 0.24
18 15 0.22
19 14 0.21
20 12 0.18
21 9 0.13
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (19 bp):
TAAAAATATTTAAAAATTA
Found at i:30310447 original size:16 final size:17
Alignment explanation
Indices: 30310415--30310451 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
30310405 ATATCTATAA
*
30310415 AAATTGTAAAAATATTT
1 AAATTATAAAAATATTT
30310432 AAATTATAAAAA-ATTT
1 AAATTATAAAAATATTT
30310448 AAAT
1 AAAT
30310452 AACTGAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
AAATTATAAAAATATTT
Found at i:30316012 original size:23 final size:21
Alignment explanation
Indices: 30315982--30316028 Score: 76
Period size: 23 Copynumber: 2.1 Consensus size: 21
30315972 TAGGTCATTT
30315982 AAAATTTAAAGTTAGTAATAAAA
1 AAAATTTAAA-TTAGTAA-AAAA
30316005 AAAATTTAAATTAGTAAAAAA
1 AAAATTTAAATTAGTAAAAAA
30316026 AAA
1 AAA
30316029 TTTCAGTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 7 0.29
22 7 0.29
23 10 0.42
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (21 bp):
AAAATTTAAATTAGTAAAAAA
Found at i:30317063 original size:27 final size:26
Alignment explanation
Indices: 30317008--30317067 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 26
30316998 TTCACTATTT
* *
30317008 TAAATATAAAATATTTAAATTTATTAA
1 TAAAAATAAAATATTT-AATTTATAAA
30317035 TAAAAATAAAATTATTT-ATTTATAAAA
1 TAAAAATAAAA-TATTTAATTTAT-AAA
30317062 TAAAAA
1 TAAAAA
30317068 ATATAATTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 6 0.21
27 18 0.62
28 5 0.17
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (26 bp):
TAAAAATAAAATATTTAATTTATAAA
Found at i:30317067 original size:22 final size:22
Alignment explanation
Indices: 30317026--30317066 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
30317016 AAATATTTAA
30317026 ATTTATTAATAAAAATAAAATT
1 ATTTATTAATAAAAATAAAATT
*
30317048 ATTTATTTAT-AAAATAAAA
1 ATTTATTAATAAAAATAAAA
30317067 AATATAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
ATTTATTAATAAAAATAAAATT
Found at i:30334991 original size:30 final size:28
Alignment explanation
Indices: 30334922--30334997 Score: 73
Period size: 29 Copynumber: 2.6 Consensus size: 28
30334912 TATTTTTCGA
30334922 AAATTTAAAATTTAATCTCTGTATTTTT
1 AAATTTAAAATTTAATCTCTGTATTTTT
* * *
30334950 -ATTTATAAAAATTTAGTCTCTTTATTTTTT
1 AAATT-T-AAAATTTAATCTCTGTA-TTTTT
30334980 AAATTTCAAAATTCTAAT
1 AAATTT-AAAATT-TAAT
30334998 TCAATAGTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
27 3 0.08
28 1 0.03
29 15 0.41
30 12 0.32
31 6 0.16
ACGTcount: A:0.37, C:0.08, G:0.03, T:0.53
Consensus pattern (28 bp):
AAATTTAAAATTTAATCTCTGTATTTTT
Found at i:30335987 original size:3 final size:3
Alignment explanation
Indices: 30335981--30336009 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
30335971 CCTCCTCCTC
30335981 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
30336010 TAAATAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:30346151 original size:5 final size:5
Alignment explanation
Indices: 30346141--30346169 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
30346131 ATAAATTTAT
30346141 TAAAA TAAAA TAAAA TAAAA TAAAA TAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAA
30346170 TATTTTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
TAAAA
Found at i:30370475 original size:242 final size:241
Alignment explanation
Indices: 30370046--30370520 Score: 817
Period size: 242 Copynumber: 2.0 Consensus size: 241
30370036 TCTAGATGGC
*
30370046 CATATAGTGAAGGCGGGTGCTCCAGAAGAGACCCAAGACAACTAATAAGAAGAGATTCATGTACT
1 CATATAGTGAAGGCGGGTGCTCCAGAAGAGACCCAAGACAACTAATAAGAAGAGATTCAGGTACT
* * *
30370111 TGAATCTGAAGATTAAAATAATGAAAATAAGAGATCTTGATAAGTTATGTCAATTTGAGAAAATG
66 TGAAACTAAAGATTAAAATAATGAAAATAAGAGATCTCGATAAGTTATGTCAATTTGAGAAAATG
* * *
30370176 TCGAACCAATAATAAAAACGGTCGACAATGGTTTTGCATGGAATATTATTATGGAAATAGTGAAA
131 TCGAACCAATAATAAAAACGGTAGACAATGGTTTTGCATGCAATATTATTATGGAAATAATGAAA
30370241 TAAAAGGAGGATATTGAATAAATCTATTGGGAAATATAGATGTGGT
196 TAAAAGGAGGATATTGAATAAATCTATTGGGAAATATAGATGTGGT
*
30370287 CATATAGTGAAGGCGGGTGCTCCAGAAGAGACCTAAGACATAACTAATAAGAAGAGATTCAGGTA
1 CATATAGTGAAGGCGGGTGCTCCAGAAGAGACCCAAGAC--AACTAATAAGAAGAGATTCAGGTA
*
30370352 CTTGAAACTAAAGATTAAAATAGTG-AAATAAGAGATCTCGATAAGTTATGTCAATTTGAGAAAA
64 CTTGAAACTAAAGATTAAAATAATGAAAATAAGAGATCTCGATAAGTTATGTCAATTTGAGAAAA
** *
30370416 TGTCGAACCAATAATAAAAGTGGTAGACAATGGTTTTGCATGCAATATTATTGTGGAAATAATGA
129 TGTCGAACCAATAATAAAAACGGTAGACAATGGTTTTGCATGCAATATTATTATGGAAATAATGA
30370481 AATAAAAGGAGGATATTGAATAAATCTATTGGGAAATATA
194 AATAAAAGGAGGATATTGAATAAATCTATTGGGAAATATA
30370521 TATATATATA
Statistics
Matches: 220, Mismatches: 12, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
241 38 0.17
242 137 0.62
243 45 0.20
ACGTcount: A:0.43, C:0.09, G:0.22, T:0.26
Consensus pattern (241 bp):
CATATAGTGAAGGCGGGTGCTCCAGAAGAGACCCAAGACAACTAATAAGAAGAGATTCAGGTACT
TGAAACTAAAGATTAAAATAATGAAAATAAGAGATCTCGATAAGTTATGTCAATTTGAGAAAATG
TCGAACCAATAATAAAAACGGTAGACAATGGTTTTGCATGCAATATTATTATGGAAATAATGAAA
TAAAAGGAGGATATTGAATAAATCTATTGGGAAATATAGATGTGGT
Found at i:30372458 original size:20 final size:21
Alignment explanation
Indices: 30372435--30372483 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 21
30372425 TATTTTTTAA
*
30372435 TAAATTTATTTTTTAA-AATT
1 TAAATTTATTATTTAACAATT
30372455 TAAA-TT-TTATTTAACAATT
1 TAAATTTATTATTTAACAATT
30372474 TATAATTTAT
1 TA-AATTTAT
30372484 AATAATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
18 7 0.29
19 8 0.33
20 6 0.25
21 2 0.08
22 1 0.04
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (21 bp):
TAAATTTATTATTTAACAATT
Found at i:30372745 original size:3 final size:3
Alignment explanation
Indices: 30372737--30372821 Score: 106
Period size: 3 Copynumber: 29.3 Consensus size: 3
30372727 CATGGGCAGT
* *
30372737 AGA AGA AGA AG- AGA AAA AGA AGA ATA AG- AGA AGA A-A TAG- AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA -AGA AGA
*
30372779 AGA AGC AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
30372822 AATAATAAGA
Statistics
Matches: 71, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
2 7 0.10
3 64 0.90
ACGTcount: A:0.66, C:0.01, G:0.31, T:0.02
Consensus pattern (3 bp):
AGA
Found at i:30375067 original size:19 final size:19
Alignment explanation
Indices: 30375043--30375097 Score: 74
Period size: 19 Copynumber: 2.9 Consensus size: 19
30375033 AGTAATTCGT
* **
30375043 TCTTACGAGCTAGTATTTC
1 TCTTACGAGCCAGTATCGC
30375062 TCTTACGAGCCAGTATCGC
1 TCTTACGAGCCAGTATCGC
*
30375081 TCTTACGAGCCAATATC
1 TCTTACGAGCCAGTATC
30375098 TTATATTGCT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.33
Consensus pattern (19 bp):
TCTTACGAGCCAGTATCGC
Found at i:30377992 original size:17 final size:18
Alignment explanation
Indices: 30377970--30378007 Score: 69
Period size: 17 Copynumber: 2.2 Consensus size: 18
30377960 AGAAAAATAA
30377970 AAATAATTTTAAAT-TTT
1 AAATAATTTTAAATATTT
30377987 AAATAATTTTAAATATTT
1 AAATAATTTTAAATATTT
30378005 AAA
1 AAA
30378008 AGCTTTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
AAATAATTTTAAATATTT
Found at i:30378178 original size:20 final size:19
Alignment explanation
Indices: 30378134--30378182 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 19
30378124 ATTTTTAATA
*
30378134 AATATATATTTTAATTTTAT
1 AATA-ATATTTTAAATTTAT
*
30378154 -TTAATATTTTATAATTTAT
1 AATAATATTTTA-AATTTAT
30378173 AATAATATTT
1 AATAATATTT
30378183 CACAAATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 8 0.33
19 8 0.33
20 8 0.33
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
AATAATATTTTAAATTTAT
Found at i:30381039 original size:79 final size:80
Alignment explanation
Indices: 30380891--30381207 Score: 444
Period size: 80 Copynumber: 4.0 Consensus size: 80
30380881 GGATTAAACA
*
30380891 ACAAATATCCGTCAAATCTTAGCACCCAGTGCTTAGCGGATAAATCGCAAATGTGAGCCCAACTC
1 ACAAATATCCGTCAAATCTTAGCACCCAGTGCTTAGCGGATAAATCGCAAATGTGAGCCCAGCTC
30380956 TAGTCAGTTAAACCG
66 TAGTCAGTTAAACCG
* *
30380971 ACAAATATCCGTCAAATCTTAGCACCCAGTGCTTAACGGATAAA-CCCAAATGTGAGCCCAGCTC
1 ACAAATATCCGTCAAATCTTAGCACCCAGTGCTTAGCGGATAAATCGCAAATGTGAGCCCAGCTC
30381035 TAGTCAGTTAAACCG
66 TAGTCAGTTAAACCG
* * * *
30381050 ACAAATATCCATCAAATCTTAACACCCAATGCTTAGCGGATAAATCGAAAATGTGAGCCCAGCTC
1 ACAAATATCCGTCAAATCTTAGCACCCAGTGCTTAGCGGATAAATCGCAAATGTGAGCCCAGCTC
**
30381115 TAGTC-GATTAAATTG
66 TAGTCAG-TTAAACCG
* * * * *
30381130 ACAAATTTCCGTCAAATCTTGGCACCTAGTGCCTAGCGGATAAA-CTGCAATTGTGAGCCCAGCT
1 ACAAATATCCGTCAAATCTTAGCACCCAGTGCTTAGCGGATAAATC-GCAAATGTGAGCCCAGCT
*
30381194 -TGAGTCATTTAAAC
65 CT-AGTCAGTTAAAC
30381208 TGATAACATA
Statistics
Matches: 210, Mismatches: 22, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
79 76 0.36
80 134 0.64
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (80 bp):
ACAAATATCCGTCAAATCTTAGCACCCAGTGCTTAGCGGATAAATCGCAAATGTGAGCCCAGCTC
TAGTCAGTTAAACCG
Found at i:30381155 original size:159 final size:160
Alignment explanation
Indices: 30380891--30381207 Score: 460
Period size: 159 Copynumber: 2.0 Consensus size: 160
30380881 GGATTAAACA
* * * *
30380891 ACAAATATCCGTCAAATCTTAGCACCCAGTGCTTAGCGGATAAATCGCAAATGTGAGCCCAACTC
1 ACAAATATCCATCAAATCTTAACACCCAATGCTTAGCGGATAAATCGAAAATGTGAGCCCAACTC
*
30380956 TAGTCAGTTAAACCGACAAATATCCGTCAAATCTTAGCACCCAGTGCTTAACGGATAAAC-CCAA
66 TAGTCAGTTAAACCGACAAATATCCGTCAAATCTTAGCACCCAGTGCCTAACGGATAAACTCCAA
30381020 ATGTGAGCCCAGCTCT-AGTCAGTTAAACCG
131 ATGTGAGCCCAGCT-TGAGTCAGTTAAACCG
*
30381050 ACAAATATCCATCAAATCTTAACACCCAATGCTTAGCGGATAAATCGAAAATGTGAGCCCAGCTC
1 ACAAATATCCATCAAATCTTAACACCCAATGCTTAGCGGATAAATCGAAAATGTGAGCCCAACTC
** * * * * *
30381115 TAGTC-GATTAAATTGACAAATTTCCGTCAAATCTTGGCACCTAGTGCCTAGCGGATAAACTGCA
66 TAGTCAG-TTAAACCGACAAATATCCGTCAAATCTTAGCACCCAGTGCCTAACGGATAAACTCCA
* *
30381179 ATTGTGAGCCCAGCTTGAGTCATTTAAAC
130 AATGTGAGCCCAGCTTGAGTCAGTTAAAC
30381208 TGATAACATA
Statistics
Matches: 140, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
158 1 0.01
159 112 0.80
160 27 0.19
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (160 bp):
ACAAATATCCATCAAATCTTAACACCCAATGCTTAGCGGATAAATCGAAAATGTGAGCCCAACTC
TAGTCAGTTAAACCGACAAATATCCGTCAAATCTTAGCACCCAGTGCCTAACGGATAAACTCCAA
ATGTGAGCCCAGCTTGAGTCAGTTAAACCG
Found at i:30387969 original size:195 final size:194
Alignment explanation
Indices: 30387549--30387989 Score: 489
Period size: 194 Copynumber: 2.3 Consensus size: 194
30387539 CCGACCCTAT
* * * * * *
30387549 GCTGAGGTGCCACATATGTTGCGAGTCCTCGACAGCTCGTGTGAGTAGCATCATGAGTTGAGAAA
1 GCTGAGGTACCGCATATGTTGCAAGTCCTCGACAGCTCGTGTGAGCAGCATCATGACTCGAGAAA
* * * * **
30387614 GAGAAAAGAATCCAAGAATGGATTACAGGCTCTACGATGGTTGAGATTTATGCATAAGTGCATGT
66 GAGAAAAGAATCCAAGAATCGATTACAGGCCCTACGATGGCTGAGATCTATGCATAAGTGCATAC
* * * * *
30387679 TCTCGACATCTCGTGTTAGAAGCATCATTAGGAAACAGTTATATACACAGATACCGTATCGATG
131 TCTCGACAGCTCATGTGAGAAGCATCATTAGGAAACAGTTATATACACAGACACCGTACCGATG
* * *
30387743 GCTGAGGTACCGCATATGTTG-AGATTCCTCGATAGCTCGTGTGAGCAGCATCGTGACTCGAGAA
1 GCTGAGGTACCGCATATGTTGCA-AGTCCTCGACAGCTCGTGTGAGCAGCATCATGACTCGAGAA
* * * * * * * *
30387807 AGAGACATGGATCCTA-AATCGATTATAGGCCCTACGATGGCTGGGA-CTATGCTTTA-TGCATA
65 AGAGAAAAGAATCCAAGAATCGATTACAGGCCCTACGATGGCTGAGATCTATGCATAAGTGCATA
* * *
30387869 CTCTCGACAGCTCATGTGAGCAA-CATCGTTAAGG-AACAGTTTATAGTACAGACAGGCACTGTA
130 CTCTCGACAGCTCATGTGAG-AAGCATCATT-AGGAAACAG-TTATA-TAC--ACAGACACCGTA
30387932 CCGATG
189 CCGATG
*
30387938 GCTGGGGTACCGCATATGTTGCAAGTCCTCGACAGCTCGTGTGAGCAGCATC
1 GCTGAGGTACCGCATATGTTGCAAGTCCTCGACAGCTCGTGTGAGCAGCATC
30387990 TAGTACTGGT
Statistics
Matches: 205, Mismatches: 34, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
191 32 0.16
192 17 0.08
193 28 0.14
194 66 0.32
195 61 0.30
196 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.25
Consensus pattern (194 bp):
GCTGAGGTACCGCATATGTTGCAAGTCCTCGACAGCTCGTGTGAGCAGCATCATGACTCGAGAAA
GAGAAAAGAATCCAAGAATCGATTACAGGCCCTACGATGGCTGAGATCTATGCATAAGTGCATAC
TCTCGACAGCTCATGTGAGAAGCATCATTAGGAAACAGTTATATACACAGACACCGTACCGATG
Found at i:30392066 original size:80 final size:80
Alignment explanation
Indices: 30391944--30392310 Score: 468
Period size: 80 Copynumber: 4.6 Consensus size: 80
30391934 CTAGTGGAAT
* * * ** *
30391944 AACCACAAAAGTGAGCCCAGCTCTAGTTAGATT-AACTAACAAATATCTGTCAAATCTTAGCATC
1 AACCGCAAATGTGAGCCCAGCTCTAGTCAG-TTAAACCGACAAATATCCGTCAAATCTTAGCA-C
*
30392008 C-AGTGCTTAGCGGATA
64 CTAGTGCTTAACGGATA
* * *
30392024 AACTGCAAATGTGAGCCCATCTCTAGTCAGTTAAACCGACAAATATCCGTCAAATCTTAACACCT
1 AACCGCAAATGTGAGCCCAGCTCTAGTCAGTTAAACCGACAAATATCCGTCAAATCTTAGCACCT
*
30392089 AGTGCTTAATGGATA
66 AGTGCTTAACGGATA
* * * *
30392104 AACCGCAAATGTGAGCCCAACTCTAGTCAGTTAAACCGACAAGTATCTGTCAAATCTTAGCACCC
1 AACCGCAAATGTGAGCCCAGCTCTAGTCAGTTAAACCGACAAATATCCGTCAAATCTTAGCACCT
*
30392169 AGTGCTTAGCGGATA
66 AGTGCTTAACGGATA
* * *
30392184 AACCGCAAATGTGAGCCCAGCTCTAGTCGGTTAAATCGACAAATATCCGTCAAATCTTGGCACCT
1 AACCGCAAATGTGAGCCCAGCTCTAGTCAGTTAAACCGACAAATATCCGTCAAATCTTAGCACCT
*
30392249 AGTGCCTAACGGATA
66 AGTGCTTAACGGATA
** * * *
30392264 AACCATAATTGTGAGCCCAGCTCGAGTCAGTTAAACTGACAACATAT
1 AACCGCAAATGTGAGCCCAGCTCTAGTCAGTTAAACCGACAA-ATAT
30392311 ATTCATTAAA
Statistics
Matches: 249, Mismatches: 35, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
79 4 0.02
80 241 0.97
81 4 0.02
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (80 bp):
AACCGCAAATGTGAGCCCAGCTCTAGTCAGTTAAACCGACAAATATCCGTCAAATCTTAGCACCT
AGTGCTTAACGGATA
Found at i:30392226 original size:160 final size:160
Alignment explanation
Indices: 30391944--30392310 Score: 538
Period size: 160 Copynumber: 2.3 Consensus size: 160
30391934 CTAGTGGAAT
* * * *
30391944 AACCACAAAAGTGAGCCCAGCTCTAGTTAGATT-AACTAACAAATATCTGTCAAATCTTAGCATC
1 AACCACAAATGTGAGCCCAGCTCTAGTCAG-TTAAACTGACAAATATCTGTCAAATCTTAGCACC
* *
30392008 CAGTGCTTAGCGGATAAACTGCAAATGTGAGCCCATCTCTAGTCAGTTAAACCGACAAATATCCG
65 CAGTGCTTAGCGGATAAACCGCAAATGTGAGCCCAGCTCTAGTCAGTTAAACCGACAAATATCCG
* *
30392073 TCAAATCTTAACACCTAGTGCTTAATGGATA
130 TCAAATCTTAACACCTAGTGCCTAACGGATA
* * * *
30392104 AACCGCAAATGTGAGCCCAACTCTAGTCAGTTAAACCGACAAGTATCTGTCAAATCTTAGCACCC
1 AACCACAAATGTGAGCCCAGCTCTAGTCAGTTAAACTGACAAATATCTGTCAAATCTTAGCACCC
* *
30392169 AGTGCTTAGCGGATAAACCGCAAATGTGAGCCCAGCTCTAGTCGGTTAAATCGACAAATATCCGT
66 AGTGCTTAGCGGATAAACCGCAAATGTGAGCCCAGCTCTAGTCAGTTAAACCGACAAATATCCGT
**
30392234 CAAATCTTGGCACCTAGTGCCTAACGGATA
131 CAAATCTTAACACCTAGTGCCTAACGGATA
* * *
30392264 AACCATAATTGTGAGCCCAGCTCGAGTCAGTTAAACTGACAACATAT
1 AACCACAAATGTGAGCCCAGCTCTAGTCAGTTAAACTGACAA-ATAT
30392311 ATTCATTAAA
Statistics
Matches: 182, Mismatches: 23, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
159 2 0.01
160 177 0.97
161 3 0.02
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (160 bp):
AACCACAAATGTGAGCCCAGCTCTAGTCAGTTAAACTGACAAATATCTGTCAAATCTTAGCACCC
AGTGCTTAGCGGATAAACCGCAAATGTGAGCCCAGCTCTAGTCAGTTAAACCGACAAATATCCGT
CAAATCTTAACACCTAGTGCCTAACGGATA
Found at i:30393789 original size:11 final size:11
Alignment explanation
Indices: 30393773--30393797 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
30393763 ATGCTTAGTA
30393773 AATTTTCATAC
1 AATTTTCATAC
30393784 AATTTTCATAC
1 AATTTTCATAC
30393795 AAT
1 AAT
30393798 ACTCAAGTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (11 bp):
AATTTTCATAC
Found at i:30396543 original size:12 final size:12
Alignment explanation
Indices: 30396528--30396623 Score: 76
Period size: 12 Copynumber: 8.3 Consensus size: 12
30396518 GTTATTTTAC
30396528 TGTTATTTTTGT
1 TGTTATTTTTGT
*
30396540 TGTTTTTTTTGT
1 TGTTATTTTTGT
*
30396552 TGCTATTTTTGT
1 TGTTATTTTTGT
*
30396564 TGTT-TTTAATGT
1 TGTTATTT-TTGT
*
30396576 TG----TTTTGC
1 TGTTATTTTTGT
*
30396584 TGTTATTTTTGC
1 TGTTATTTTTGT
* *
30396596 TATTATTTTGGT
1 TGTTATTTTTGT
*
30396608 TGTTATTTTTAT
1 TGTTATTTTTGT
30396620 TGTT
1 TGTT
30396624 TAGATGTTAT
Statistics
Matches: 66, Mismatches: 13, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
8 4 0.06
9 2 0.03
11 3 0.05
12 57 0.86
ACGTcount: A:0.09, C:0.03, G:0.17, T:0.71
Consensus pattern (12 bp):
TGTTATTTTTGT
Found at i:30396587 original size:56 final size:56
Alignment explanation
Indices: 30396511--30396636 Score: 148
Period size: 56 Copynumber: 2.3 Consensus size: 56
30396501 TTGGTTGCTG
* * * * * *
30396511 TTTTCATGTTATTTTACTGTTATTTTTGTTGTTTTTTTTGTTGCTATTTTTGTTGT
1 TTTTAATGTTATTTTACTGTTATTTTTGCTATTATTTTGGTTGCTATTTTTATTGT
* * *
30396567 TTTTAATGTTGTTTTGCTGTTATTTTTGCTATTATTTTGGTTGTTATTTTTATTG-
1 TTTTAATGTTATTTTACTGTTATTTTTGCTATTATTTTGGTTGCTATTTTTATTGT
30396622 -TTTAGATGTTATTTT
1 TTTTA-ATGTTATTTT
30396637 TTATGCGTTT
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
54 4 0.07
55 9 0.15
56 46 0.78
ACGTcount: A:0.12, C:0.04, G:0.15, T:0.69
Consensus pattern (56 bp):
TTTTAATGTTATTTTACTGTTATTTTTGCTATTATTTTGGTTGCTATTTTTATTGT
Found at i:30396836 original size:38 final size:38
Alignment explanation
Indices: 30396753--30396837 Score: 102
Period size: 38 Copynumber: 2.2 Consensus size: 38
30396743 AATATAAAAT
* * *
30396753 TTTTTTAATGTATTTTAAATTTATTTATTTTTTAATGA
1 TTTTTTAATGTATTTTAAATGTATTTATATATTAATGA
30396791 TTGTTTTAATGT-TTTTAAATGTATTTGATATATTATAT-A
1 TT-TTTTAATGTATTTTAAATGTATTT-ATATATTA-ATGA
30396830 TTTTTTAA
1 TTTTTTAA
30396838 ATTTGTTGTA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
38 21 0.51
39 18 0.44
40 2 0.05
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (38 bp):
TTTTTTAATGTATTTTAAATGTATTTATATATTAATGA
Found at i:30397661 original size:17 final size:16
Alignment explanation
Indices: 30397625--30397679 Score: 67
Period size: 17 Copynumber: 3.4 Consensus size: 16
30397615 GAATTTGTTC
*
30397625 TAAAATTAAATTTA-T
1 TAAATTTAAATTTATT
30397640 TAAATTTAAATTTAATT
1 TAAATTTAAATTT-ATT
*
30397657 TAAATTTAAAATTATT
1 TAAATTTAAATTTATT
30397673 ATAAATT
1 -TAAATT
30397680 CAATAAAATG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 12 0.34
16 4 0.11
17 19 0.54
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TAAATTTAAATTTATT
Found at i:30398729 original size:16 final size:16
Alignment explanation
Indices: 30398704--30398735 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
30398694 AAGTTTTGAA
*
30398704 ATTTTTCCAGATCTGG
1 ATTTTCCCAGATCTGG
30398720 ATTTTCCCAGATCTGG
1 ATTTTCCCAGATCTGG
30398736 GTTTGGTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.22, G:0.19, T:0.41
Consensus pattern (16 bp):
ATTTTCCCAGATCTGG
Found at i:30399636 original size:30 final size:30
Alignment explanation
Indices: 30399590--30399905 Score: 222
Period size: 30 Copynumber: 10.7 Consensus size: 30
30399580 TAAAAATGGT
30399590 ATTTTAA-CCCTAAAACTTTTTAAAAATTAC
1 ATTTTAACCCCT-AAACTTTTTAAAAATTAC
* * *
30399620 ATTTTAACCCCTAAACTTCTCAAAAATTAT
1 ATTTTAACCCCTAAACTTTTTAAAAATTAC
* * * *
30399650 ATTTTGACCTC-AAATTTTTTTCAAAATTACC
1 ATTTTAACCCCTAAA-CTTTTTAAAAATTA-C
* *
30399681 A-TTT-ACCCCTAAACTTTCT-AAAATTAT
1 ATTTTAACCCCTAAACTTTTTAAAAATTAC
* **
30399708 ATTTTAACCCCAAAACTTACTAAAAATTAC
1 ATTTTAACCCCTAAACTTTTTAAAAATTAC
* *
30399738 ATTTTTTACCCCT-AA-TTTTTCCAAAATTAC
1 A-TTTTAACCCCTAAACTTTTT-AAAAATTAC
* *
30399768 ATTTTAACCCCCAAACTTTTCT-AAAATTAT
1 ATTTTAACCCCTAAACTTTT-TAAAAATTAC
* *
30399798 ATTTTAA-CACTAAAACTTTCTAAAAATTAC
1 ATTTTAACCCCT-AAACTTTTTAAAAATTAC
* * * ** * *
30399828 ATTTTGACCCTTAAAATTTTCCAAACTTAT
1 ATTTTAACCCCTAAACTTTTTAAAAATTAC
* * *
30399858 ATTTTGACCCATAAACTTTCT-AAAATTAC
1 ATTTTAACCCCTAAACTTTTTAAAAATTAC
* *
30399887 ATTTTTACCCC-AAAGTTTT
1 ATTTTAACCCCTAAACTTTT
30399906 CCATAATTTC
Statistics
Matches: 223, Mismatches: 48, Indels: 32
0.74 0.16 0.11
Matches are distributed among these distances:
27 1 0.00
28 16 0.07
29 54 0.24
30 131 0.59
31 20 0.09
32 1 0.00
ACGTcount: A:0.38, C:0.21, G:0.01, T:0.40
Consensus pattern (30 bp):
ATTTTAACCCCTAAACTTTTTAAAAATTAC
Found at i:30399814 original size:90 final size:87
Alignment explanation
Indices: 30399590--30400060 Score: 334
Period size: 89 Copynumber: 5.3 Consensus size: 87
30399580 TAAAAATGGT
* *
30399590 ATTTTAA-CCCTAAAACTTTTTAAAAATTACATTTTAACCCCT-AAACTTCTCAAAAATTATATT
1 ATTTTAACCCCT-AAACTTTCT-AAAATTACATTTTAA-CCCTAAAACTTCT-AAAAATTACATT
* * *
30399653 TTGACCTCAAATTTTTTTCAAAATTACC
62 TTGACCCCTAA-TTTTTCCAAAATTA-C
* *
30399681 A-TTT-ACCCCTAAACTTTCTAAAATTATATTTTAACCCCAAAACTTACTAAAAATTACATTTTT
1 ATTTTAACCCCTAAACTTTCTAAAATTACATTTTAACCCTAAAACTT-CTAAAAATTACA-TTTT
*
30399744 TACCCCTAATTTTTCCAAAATTAC
64 GACCCCTAATTTTTCCAAAATTAC
* * *
30399768 ATTTTAACCCCCAAACTTTTCTAAAATTATATTTTAACACTAAAACTTTCTAAAAATTACATTTT
1 ATTTTAACCCCTAAAC-TTTCTAAAATTACATTTTAACCCTAAAAC-TTCTAAAAATTACATTTT
* * * *
30399833 GACCCTTAAAATTTTCCAAACTTAT
64 GACCCCT-AATTTTTCCAAAATTAC
* * * * * * * * * *
30399858 ATTTTGACCCATAAACTTTCTAAAATTACATTTTTACCC-CAAAGTTTTCCATAATTTCATTTTT
1 ATTTTAACCCCTAAACTTTCTAAAATTACATTTTAACCCTAAAACTTCT-AAAAATTACATTTTG
* * * *
30399922 A-ACCTCGATTTTACTAAAATTTACC
65 ACCCCT-AATTTTTCCAAAA-TTA-C
* * * * * *
30399947 ATTTT-ACCCCCAAACTTTCCAAAATTACTATTTTACCCCTCAAACTTTCT-TAAATTCCATCTT
1 ATTTTAACCCCTAAACTTTCTAAAATTAC-ATTTTAACCCTAAAAC-TTCTAAAAATTACAT-TT
* *
30400010 TGACCCC-GATTTTACCAAAAATTACC
63 TGACCCCTAATTTTTCC-AAAATTA-C
*
30400036 ATTTT-A-CCCTCAAACTTTCCAAAAT
1 ATTTTAACCCCT-AAACTTTCTAAAAT
30400061 CCCGTTTTGG
Statistics
Matches: 309, Mismatches: 52, Indels: 40
0.77 0.13 0.10
Matches are distributed among these distances:
87 18 0.06
88 86 0.28
89 112 0.36
90 85 0.28
91 8 0.03
ACGTcount: A:0.36, C:0.23, G:0.01, T:0.39
Consensus pattern (87 bp):
ATTTTAACCCCTAAACTTTCTAAAATTACATTTTAACCCTAAAACTTCTAAAAATTACATTTTGA
CCCCTAATTTTTCCAAAATTAC
Found at i:30399971 original size:30 final size:28
Alignment explanation
Indices: 30399612--30400060 Score: 199
Period size: 30 Copynumber: 15.2 Consensus size: 28
30399602 AAACTTTTTA
* *
30399612 AAAATTACATTTTAACCCCTAAACTTCTCA
1 AAAATTACATTTT-ACCCCCAAACTT-TCC
* * * *
30399642 AAAATTATATTTTGA-CCTCAAATTTTTTTC
1 AAAATTACATTTT-ACCCCCAAA--CTTTCC
* *
30399672 AAAATTACCA-TTTACCCCTAAACTTTCT
1 AAAATTA-CATTTTACCCCCAAACTTTCC
* * * *
30399700 AAAATTATATTTTAACCCCAAAACTTACTA
1 AAAATTACATTTT-ACCCCCAAACTTTC-C
* **
30399730 AAAATTACATTTTTTACCCCTAATTTTTCC
1 AAAATTACA--TTTTACCCCCAAACTTTCC
*
30399760 AAAATTACATTTTAACCCCCAAACTTTTCT
1 AAAATTACATTTT-ACCCCCAAAC-TTTCC
* * ** *
30399790 AAAATTATATTTTAACACTAAAACTTTCTA
1 AAAATTACATTTT-ACCCCCAAACTTTC-C
** *
30399820 AAAATTACATTTTGACCCTTAAAATTTTCC
1 AAAATTACATTTT-ACCC-CCAAACTTTCC
* * ** *
30399850 AAACTTATATTTTGACCCATAAACTTTCT
1 AAAATTACATTTT-ACCCCCAAACTTTCC
*
30399879 AAAATTACATTTTTA-CCCCAAAGTTTTCC
1 AAAATTACA-TTTTACCCCCAAA-CTTTCC
* * * * * * *
30399908 ATAATTTCATTTTTAACCTC-GATTTTACT
1 AAAATTACA-TTTTACCCCCAAACTTT-CC
30399937 AAAATTTACCATTTTACCCCCAAACTTTCC
1 AAAA-TTA-CATTTTACCCCCAAACTTTCC
*
30399967 AAAATTACTATTTTACCCCTCAAACTTTCT
1 AAAATTAC-ATTTTACCCC-CAAACTTTCC
* * * *
30399997 TAAATTCCATCTTTGA-CCCC-GATTTTACC
1 AAAATTACAT-TTT-ACCCCCAAACTTT-CC
*
30400026 AAAAATTACCATTTTACCCTCAAACTTTCC
1 -AAAATTA-CATTTTACCCCCAAACTTTCC
30400056 AAAAT
1 AAAAT
30400061 CCCGTTTTGG
Statistics
Matches: 318, Mismatches: 72, Indels: 59
0.71 0.16 0.13
Matches are distributed among these distances:
27 1 0.00
28 31 0.10
29 89 0.28
30 157 0.49
31 36 0.11
32 4 0.01
ACGTcount: A:0.36, C:0.23, G:0.02, T:0.39
Consensus pattern (28 bp):
AAAATTACATTTTACCCCCAAACTTTCC
Found at i:30400002 original size:60 final size:58
Alignment explanation
Indices: 30399612--30400060 Score: 274
Period size: 60 Copynumber: 7.6 Consensus size: 58
30399602 AAACTTTTTA
* * * * * *
30399612 AAAATTAC-ATTTTAACCCCTAAACTTCTCAAAAATTATATTTTGA-CCTCAAATTTTTTTC
1 AAAATTACTATTTT-ACCCCTAAACTT-TCTAAAATTACATTTTAACCCCCAAA--CTTTCC
* * * * *
30399672 AAAATTACCA-TTTACCCCTAAACTTTCTAAAATTATATTTTAACCCCAAAACTTACTA
1 AAAATTACTATTTTACCCCTAAACTTTCTAAAATTACATTTTAACCCCCAAACTTTC-C
* ** * *
30399730 AAAATTACATTTTTTACCCCTAATTTTTCCAAAATTACATTTTAACCCCCAAACTTTTCT
1 AAAATTAC-TATTTTACCCCTAAACTTTCTAAAATTACATTTTAACCCCCAAAC-TTTCC
* * * ** *
30399790 AAAATTA-TATTTTAACACTAAAACTTTCTAAAAATTACATTTTGACCCTTAAAATTTTCC
1 AAAATTACTATTTTACCCCT-AAACTTTCT-AAAATTACATTTTAACCC-CCAAACTTTCC
* * * *
30399850 AAACTTA-TATTTTGACCCATAAACTTTCTAAAATTACATTTTTA-CCCCAAAGTTTTCC
1 AAAATTACTATTTT-ACCCCTAAACTTTCTAAAATTACATTTTAACCCCCAAA-CTTTCC
* * * ** *
30399908 ATAATTTC-ATTTTTA-ACCTCGATTTTACTAAAATTTACCATTTT-ACCCCCAAACTTTCC
1 AAAATTACTA-TTTTACCCCTAAACTTT-CTAAAA-TTA-CATTTTAACCCCCAAACTTTCC
* * * * *
30399967 AAAATTACTATTTTACCCCTCAAACTTTCTTAAATTCCATCTTTGA-CCCC-GATTTTACC
1 AAAATTACTATTTTACCCCT-AAACTTTCTAAAATTACAT-TTTAACCCCCAAACTTT-CC
* *
30400026 AAAAATTACCATTTTA-CCCTCAAACTTTCCAAAAT
1 -AAAATTACTATTTTACCCCT-AAACTTTCTAAAAT
30400061 CCCGTTTTGG
Statistics
Matches: 308, Mismatches: 57, Indels: 49
0.74 0.14 0.12
Matches are distributed among these distances:
57 11 0.04
58 60 0.19
59 89 0.29
60 134 0.44
61 14 0.05
ACGTcount: A:0.36, C:0.23, G:0.02, T:0.39
Consensus pattern (58 bp):
AAAATTACTATTTTACCCCTAAACTTTCTAAAATTACATTTTAACCCCCAAACTTTCC
Found at i:30400461 original size:94 final size:96
Alignment explanation
Indices: 30400319--30400503 Score: 225
Period size: 95 Copynumber: 1.9 Consensus size: 96
30400309 AAAACTTTAA
* * * * **
30400319 AATCAAGGCAATATTCTTTTATTTCGAGTTTCGAAATCTTGCGCCTTAACT-TCTAGGTGCGATT
1 AATCAAGGCAATATTCTTATATTTCGAGTTCCGAAATCTTGCGCCTTAACTCACTAGGTGCAACC
30400383 TTTCTTCAAACCGAAATAATCGAATACCCTT
66 TTTCTTCAAACCGAAATAATCGAATACCCTT
* *
30400414 AATCAAGGCGATATTTCTTATA-TTCGA-TTCCGAAAAT-TTGCGTCTTAACTCACTAGGTGCAA
1 AATCAAGGCAATA-TTCTTATATTTCGAGTTCCG-AAATCTTGCGCCTTAACTCACTAGGTGCAA
* * *
30400476 CCTTTCTTTAAATCGAGATAATCGAATA
64 CCTTTCTTCAAACCGAAATAATCGAATA
30400504 TTCTTTTTCC
Statistics
Matches: 76, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
94 16 0.21
95 53 0.70
96 7 0.09
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (96 bp):
AATCAAGGCAATATTCTTATATTTCGAGTTCCGAAATCTTGCGCCTTAACTCACTAGGTGCAACC
TTTCTTCAAACCGAAATAATCGAATACCCTT
Found at i:30409037 original size:53 final size:53
Alignment explanation
Indices: 30408971--30409084 Score: 205
Period size: 53 Copynumber: 2.2 Consensus size: 53
30408961 ATGTGTTTGA
30408971 TTAA-TTA-CTAAATTATTACATTTTATAATCCTATTTTTTAAGGTTTAATGT
1 TTAATTTATCTAAATTATTACATTTTATAATCCTATTTTTTAAGGTTTAATGT
*
30409022 TTAATTTATCTAAATTATTACATTTTATAATCCTATTTTTTGAGGTTTAATGT
1 TTAATTTATCTAAATTATTACATTTTATAATCCTATTTTTTAAGGTTTAATGT
30409075 TTAATTTATC
1 TTAATTTATC
30409085 ATAGAATTTT
Statistics
Matches: 60, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
51 4 0.07
52 3 0.05
53 53 0.88
ACGTcount: A:0.32, C:0.08, G:0.06, T:0.54
Consensus pattern (53 bp):
TTAATTTATCTAAATTATTACATTTTATAATCCTATTTTTTAAGGTTTAATGT
Found at i:30421288 original size:16 final size:16
Alignment explanation
Indices: 30421263--30421300 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
30421253 ACACAAACAC
30421263 AAAA-AAATTAAATTT
1 AAAATAAATTAAATTT
30421278 AAAATAAATTAAATTT
1 AAAATAAATTAAATTT
30421294 AACAATA
1 AA-AATA
30421301 TTCAAATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 4 0.19
16 13 0.62
17 4 0.19
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (16 bp):
AAAATAAATTAAATTT
Found at i:30423233 original size:21 final size:22
Alignment explanation
Indices: 30423187--30423247 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
30423177 TGATCTAAGG
* *
30423187 AAAAATAAAAG-AAACAGAATT
1 AAAAATAAAAGAAAATAGAACT
30423208 AAAAATAAAAGAAAATAGAACT
1 AAAAATAAAAGAAAATAGAACT
*
30423230 AAAAGA-AATAGAAAATAG
1 AAAA-ATAAAAGAAAATAG
30423248 GGAAGTAGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
21 11 0.31
22 23 0.66
23 1 0.03
ACGTcount: A:0.72, C:0.03, G:0.11, T:0.13
Consensus pattern (22 bp):
AAAAATAAAAGAAAATAGAACT
Found at i:30423238 original size:15 final size:16
Alignment explanation
Indices: 30423213--30423242 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
30423203 GAATTAAAAA
30423213 TAAAAGAAAATAGAAC
1 TAAAAGAAAATAGAAC
30423229 TAAAAG-AAATAGAA
1 TAAAAGAAAATAGAA
30423243 AATAGGGAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.70, C:0.03, G:0.13, T:0.13
Consensus pattern (16 bp):
TAAAAGAAAATAGAAC
Found at i:30424071 original size:19 final size:19
Alignment explanation
Indices: 30424047--30424089 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
30424037 AAACATAAAT
30424047 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
30424066 TAAATAATATCTTAAATAT
1 TAAATAAAATCTTAAATAA
30424085 TAAAT
1 TAAAT
30424090 CCTAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:30424868 original size:109 final size:109
Alignment explanation
Indices: 30424689--30424888 Score: 240
Period size: 109 Copynumber: 1.8 Consensus size: 109
30424679 ATACATTGGA
* * ** * * *
30424689 CCTTTTGACGCGAAATGAAATGATACCCAAGTACTTCATCCCGGTTACTCAGCCCAACATACTCT
1 CCTTTTGACGCGAAATGAAATGACAACCAAACACTCCACCCCGGTTACTCAGCCCAACACACTCT
* * * *
30424754 AAATTTTTTTCTTTTTTTTTTTTTTTTTTGTAGAATGCATTAGC
66 AAATTTATTTATTATTTTCTTTTTTTTTTGTAGAATGCATTAGC
* * * *
30424798 CCTTTTGACGCGAAGTGAAATGACAACCAAACACTCCACCCCGGTTACTCAGTCTAACACA-TTT
1 CCTTTTGACGCGAAATGAAATGACAACCAAACACTCCACCCCGGTTACTCAGCCCAACACACTCT
*
30424862 CGAATTTATTTATTATTTTCTTTTTTT
66 -AAATTTATTTATTATTTTCTTTTTTT
30424889 ATTCGGGTTA
Statistics
Matches: 74, Mismatches: 16, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
108 2 0.03
109 72 0.97
ACGTcount: A:0.26, C:0.23, G:0.12, T:0.40
Consensus pattern (109 bp):
CCTTTTGACGCGAAATGAAATGACAACCAAACACTCCACCCCGGTTACTCAGCCCAACACACTCT
AAATTTATTTATTATTTTCTTTTTTTTTTGTAGAATGCATTAGC
Found at i:30425572 original size:14 final size:13
Alignment explanation
Indices: 30425535--30425590 Score: 53
Period size: 14 Copynumber: 4.2 Consensus size: 13
30425525 TCCTGGACAA
30425535 AAATAAAT-AAAT
1 AAATAAATAAAAT
30425547 AAATAAATAAAAT
1 AAATAAATAAAAT
30425560 AAGATAACA-AAAAT
1 AA-ATAA-ATAAAAT
*
30425574 AAAAATAATAATAAT
1 AAATA-AATAA-AAT
30425589 AA
1 AA
30425591 TTGGGTTGCC
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
12 8 0.22
13 9 0.24
14 14 0.38
15 6 0.16
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (13 bp):
AAATAAATAAAAT
Found at i:30429603 original size:21 final size:21
Alignment explanation
Indices: 30429577--30429616 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
30429567 ATAGATGCCT
*
30429577 CAGTTTTCTTTTGAAAATCCA
1 CAGTTTACTTTTGAAAATCCA
*
30429598 CAGTTTACTTTTGGAAATC
1 CAGTTTACTTTTGAAAATC
30429617 TATAGATTGC
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:0.28, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
CAGTTTACTTTTGAAAATCCA
Found at i:30431212 original size:21 final size:22
Alignment explanation
Indices: 30431166--30431226 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
30431156 TGATCTAAGG
* *
30431166 AAAAATAAAAG-AAACAGAATT
1 AAAAATAAAAGAAAATAGAACT
30431187 AAAAATAAAAGAAAATAGAACT
1 AAAAATAAAAGAAAATAGAACT
*
30431209 AAAAGA-AATAGAAAATAG
1 AAAA-ATAAAAGAAAATAG
30431227 GGAAGTCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
21 11 0.31
22 23 0.66
23 1 0.03
ACGTcount: A:0.72, C:0.03, G:0.11, T:0.13
Consensus pattern (22 bp):
AAAAATAAAAGAAAATAGAACT
Found at i:30431217 original size:15 final size:16
Alignment explanation
Indices: 30431192--30431221 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
30431182 GAATTAAAAA
30431192 TAAAAGAAAATAGAAC
1 TAAAAGAAAATAGAAC
30431208 TAAAAG-AAATAGAA
1 TAAAAGAAAATAGAA
30431222 AATAGGGAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.70, C:0.03, G:0.13, T:0.13
Consensus pattern (16 bp):
TAAAAGAAAATAGAAC
Found at i:30432049 original size:19 final size:19
Alignment explanation
Indices: 30432025--30432067 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
30432015 AAACATAAAT
30432025 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
30432044 TAAATAATATCTTAAATAT
1 TAAATAAAATCTTAAATAA
30432063 TAAAT
1 TAAAT
30432068 CCTAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:30432938 original size:20 final size:20
Alignment explanation
Indices: 30432915--30432956 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
30432905 TTAATGTAAA
*
30432915 ATTCTTTTATTTAATATTTT
1 ATTCTTCTATTTAATATTTT
*
30432935 ATTCTTCTATTTAATTTTTT
1 ATTCTTCTATTTAATATTTT
30432955 AT
1 AT
30432957 ATTACACTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (20 bp):
ATTCTTCTATTTAATATTTT
Found at i:30436134 original size:12 final size:12
Alignment explanation
Indices: 30436117--30436149 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
30436107 ATTTACCCCC
30436117 GGGGGGGGGCAG
1 GGGGGGGGGCAG
*
30436129 GGGGGGGGCCAG
1 GGGGGGGGGCAG
30436141 GGGGGGGGG
1 GGGGGGGGG
30436150 GTTAAAGGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.06, C:0.09, G:0.85, T:0.00
Consensus pattern (12 bp):
GGGGGGGGGCAG
Found at i:30436546 original size:117 final size:115
Alignment explanation
Indices: 30436367--30436651 Score: 276
Period size: 114 Copynumber: 2.5 Consensus size: 115
30436357 AACTATTTGA
** * * *
30436367 CTAAGTTTTCCTATATATTTAGAA-GACCCTTAGAGATCAA-ATTCCAATATTTATGTCCGAATA
1 CTAAGTTTTTTTATATATTTAGAAGGATCCTTAGAGAT-AATATTCCTATATCTATGTCCGAATA
* * * *
30436430 TGTGTTGGATATGGACATC-GTATACATATACTTCAAAAAGAACAAA-GGTTTTT
65 --TGTCGGACATGGACATCTG-ATACAAATA-TTCAAAAAGAACAAATCGTTTTT
* * * **
30436483 CTAAGTTTTTTTATATATTTTGAAGGATCCTTAGAAATAATATTCTTATATCTATGTTTGAATAT
1 CTAAGTTTTTTTATATATTTAGAAGGATCCTTAGAGATAATATTCCTATATCTATGTCCGAATAT
* * ** * *
30436548 GTCGGACGTGGATATCTGATACAAATATTTTAAAAGAATAAATCTTTTTT
66 GTCGGACATGGACATCTGATACAAATATTCAAAAAGAACAAATCGTTTTT
* *
30436598 CT-AGTTTTTTCTATATATTTAG-AGGATCCTTAGGGATTATATTCCTATATCTAT
1 CTAAGTTTTTT-TATATATTTAGAAGGATCCTTAGAGATAATATTCCTATATCTAT
30436652 ATTTTGATAT
Statistics
Matches: 139, Mismatches: 25, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
114 48 0.35
115 38 0.27
116 24 0.17
117 29 0.21
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (115 bp):
CTAAGTTTTTTTATATATTTAGAAGGATCCTTAGAGATAATATTCCTATATCTATGTCCGAATAT
GTCGGACATGGACATCTGATACAAATATTCAAAAAGAACAAATCGTTTTT
Found at i:30436684 original size:114 final size:115
Alignment explanation
Indices: 30436478--30436696 Score: 255
Period size: 114 Copynumber: 1.9 Consensus size: 115
30436468 AGAACAAAGG
* *
30436478 TTTTTCTAAGTTTTTTTATATATTTTGAAGGATCCTTAGAAATAATATTCTTATATCTATGTTTG
1 TTTTTCTAAGTTTTTTTATATATTTAGAAGGATCCTTAGAAATAATATTCCTATATCTATGTTTG
* ** ** * ** *
30436543 AATATGTCGGACGTGGATATCTGATACAAATATTTTAAAAGAATAAATCT
66 AATATATCAAACAAGGATAACAAATACAAATATTTCAAAAGAATAAATCT
** * *
30436593 TTTTTCT-AGTTTTTTCTATATATTTAG-AGGATCCTTAGGGATTATATTCCTATATCTATATTT
1 TTTTTCTAAGTTTTTT-TATATATTTAGAAGGATCCTTAGAAATAATATTCCTATATCTAT-GTT
*
30436656 TG-ATATATCAAACAAGGATAACAAATACAGATATTTCAAAA
64 TGAATATATCAAACAAGGATAACAAATACAAATATTTCAAAA
30436697 AAAAAACAAA
Statistics
Matches: 86, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
114 65 0.76
115 21 0.24
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.43
Consensus pattern (115 bp):
TTTTTCTAAGTTTTTTTATATATTTAGAAGGATCCTTAGAAATAATATTCCTATATCTATGTTTG
AATATATCAAACAAGGATAACAAATACAAATATTTCAAAAGAATAAATCT
Found at i:30443352 original size:23 final size:23
Alignment explanation
Indices: 30443278--30443468 Score: 132
Period size: 23 Copynumber: 8.5 Consensus size: 23
30443268 TAAACGGAAC
* * *
30443278 AAACAGAGAGTAC-CGAAGTACT
1 AAACAGAGAGCACACAAAGTGCT
* *
30443300 GAACAGAGAGCACA-TAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
*
30443322 GGGCAACAGAGAGCACACAAAGTGCT
1 ---AAACAGAGAGCACACAAAGTGCT
*
30443348 AAACAGAGAGTACACAAA--G-T
1 AAACAGAGAGCACACAAAGTGCT
*
30443368 --AC--TGAGCACACAAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
30443387 AATCAGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
30443410 AATAACAGAGAGCACGA-GACGTGCT
1 -A-AACAGAGAGCAC-ACAAAGTGCT
*
30443435 AAACAGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
*
30443458 AATCAGAGAGC
1 AAACAGAGAGC
30443469 GCGCTAGTGT
Statistics
Matches: 132, Mismatches: 21, Indels: 31
0.72 0.11 0.17
Matches are distributed among these distances:
16 10 0.08
18 3 0.02
19 1 0.01
20 1 0.01
21 2 0.02
22 18 0.14
23 58 0.44
24 2 0.02
25 29 0.22
26 8 0.06
ACGTcount: A:0.42, C:0.21, G:0.25, T:0.12
Consensus pattern (23 bp):
AAACAGAGAGCACACAAAGTGCT
Found at i:30443418 original size:25 final size:23
Alignment explanation
Indices: 30443371--30443468 Score: 135
Period size: 23 Copynumber: 4.2 Consensus size: 23
30443361 ACAAAGTACT
*
30443371 GAGCACACAAAGTGCTAATCAGA
1 GAGCACACACAGTGCTAATCAGA
30443394 GAGCACACACAGTGCTAATAACAGA
1 GAGCACACACAGTGCTAAT--CAGA
* *
30443419 GAGCACGAGAC-GTGCTAAACAGA
1 GAGCAC-ACACAGTGCTAATCAGA
30443442 GAGCACACACAGTGCTAATCAGA
1 GAGCACACACAGTGCTAATCAGA
30443465 GAGC
1 GAGC
30443469 GCGCTAGTGT
Statistics
Matches: 66, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
22 3 0.05
23 43 0.65
25 17 0.26
26 3 0.05
ACGTcount: A:0.41, C:0.23, G:0.24, T:0.11
Consensus pattern (23 bp):
GAGCACACACAGTGCTAATCAGA
Found at i:30448266 original size:11 final size:9
Alignment explanation
Indices: 30448241--30448308 Score: 57
Period size: 9 Copynumber: 7.2 Consensus size: 9
30448231 TTTATATTTT
30448241 TTAAAAAAA
1 TTAAAAAAA
30448250 TTAAAAAAA
1 TTAAAAAAA
30448259 TTCAAAAAAAA
1 TT--AAAAAAA
***
30448270 TCTAAAATTG
1 T-TAAAAAAA
*
30448280 TATAAAAAAG
1 T-TAAAAAAA
30448290 TT-AAAAAA
1 TTAAAAAAA
30448298 TTAAAAAAA
1 TTAAAAAAA
30448307 TT
1 TT
30448309 CTAGAAGAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
8 7 0.15
9 20 0.42
10 12 0.25
11 8 0.17
12 1 0.02
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (9 bp):
TTAAAAAAA
Found at i:30450552 original size:15 final size:16
Alignment explanation
Indices: 30450532--30450561 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
30450522 TCATATGAAA
30450532 TTAACTTAAC-TTACC
1 TTAACTTAACATTACC
30450547 TTAACTTAACATTAC
1 TTAACTTAACATTAC
30450562 AACTATTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.37, C:0.23, G:0.00, T:0.40
Consensus pattern (16 bp):
TTAACTTAACATTACC
Found at i:30451082 original size:71 final size:71
Alignment explanation
Indices: 30450916--30451093 Score: 221
Period size: 71 Copynumber: 2.5 Consensus size: 71
30450906 CGGTAAAGGA
* * * * * **
30450916 TAATTCGATGATGCTCACATAAGCATCAAAGAATCCGCACAAGTGTTGGACCTCAAGCCATCGAT
1 TAATTCGATGATACTCACACAAGCTTCAAAGAATCCACACAAGTATTAAACCTCAAGCCATCGAT
*
30450981 ATCCAG
66 ACCCAG
* * **
30450987 TAATTTGATGCTACTCACACAAGCTTCAAAGAATCCACACAAGTATTAAACCTTGAGCCATCGAT
1 TAATTCGATGATACTCACACAAGCTTCAAAGAATCCACACAAGTATTAAACCTCAAGCCATCGAT
30451052 ACCCAG
66 ACCCAG
* * *
30451058 TGATTCGATGATACTCACACAAGCTTTAGAGAATCC
1 TAATTCGATGATACTCACACAAGCTTCAAAGAATCC
30451094 GTAACACATG
Statistics
Matches: 90, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
71 90 1.00
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (71 bp):
TAATTCGATGATACTCACACAAGCTTCAAAGAATCCACACAAGTATTAAACCTCAAGCCATCGAT
ACCCAG
Found at i:30459625 original size:3 final size:3
Alignment explanation
Indices: 30459613--30459671 Score: 57
Period size: 3 Copynumber: 19.7 Consensus size: 3
30459603 CTGCTGTTGC
* * * *
30459613 TGG TGT TGG TGG TGG TGG TGG TGG TGG T-G AGG AGG AGGG TGG TGG
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG -TGG TGG TGG
*
30459658 GGG TGG TGG TGG TG
1 TGG TGG TGG TGG TG
30459672 AGGTGGCAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
2 1 0.02
3 44 0.94
4 2 0.04
ACGTcount: A:0.05, C:0.00, G:0.66, T:0.29
Consensus pattern (3 bp):
TGG
Found at i:30459805 original size:3 final size:3
Alignment explanation
Indices: 30459797--30459826 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
30459787 TTTTGAATCT
30459797 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
30459827 AGCGTAGAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:30461134 original size:23 final size:25
Alignment explanation
Indices: 30461108--30461163 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 25
30461098 AAATAATGTG
30461108 TAAAAATATAATAAAATA-TT-TTA
1 TAAAAATATAATAAAATATTTATTA
* *
30461131 T-AAATTA-AATATAATATTTATTA
1 TAAAAATATAATAAAATATTTATTA
30461154 TAAAAATATA
1 TAAAAATATA
30461164 TATTCTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
21 8 0.31
22 7 0.27
23 5 0.19
24 5 0.19
25 1 0.04
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (25 bp):
TAAAAATATAATAAAATATTTATTA
Found at i:30462265 original size:96 final size:95
Alignment explanation
Indices: 30462085--30462266 Score: 224
Period size: 96 Copynumber: 1.9 Consensus size: 95
30462075 AAGGATGGTT
** * * * **
30462085 GATTATCTCGATTTGAAGAAAGGTTGCACCTAGTAAGTTAAGGCGCAAATTTTCGTAACCGAAGA
1 GATTATCTCGATTTGAAGAAAAATTACACCTAGTAAGTTAAAGCGCAAAATTTCAAAACCGAAGA
*
30462150 TAAGGAAACATTGCATCGATTAAGGGTATTC
66 TAAAGAAACA-TGCATCGATTAAGGGTATTC
*
30462181 GATTATTTCGATTTGAAGAAAAATTACACCTAGTAAGTTAAAGCGCAAAATTTCAAAACTCGAA-
1 GATTATCTCGATTTGAAGAAAAATTACACCTAGTAAGTTAAAGCGCAAAATTTCAAAAC-CGAAG
*
30462245 ATAAAAGAATAC-TGCCTCGATT
65 AT-AAAGAA-ACATGCATCGATT
30462267 TTAAAGTTTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
96 62 0.85
97 9 0.12
98 2 0.03
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (95 bp):
GATTATCTCGATTTGAAGAAAAATTACACCTAGTAAGTTAAAGCGCAAAATTTCAAAACCGAAGA
TAAAGAAACATGCATCGATTAAGGGTATTC
Found at i:30462660 original size:29 final size:29
Alignment explanation
Indices: 30462628--30462725 Score: 92
Period size: 29 Copynumber: 3.3 Consensus size: 29
30462618 AAAAAAAGAG
*
30462628 TTTTTGGACATCCGAGGGT-AAAATGGTAA
1 TTTTTGGACATTCGAGGGTAAAAAT-GTAA
** *
30462657 TTTTTGTGAGTTTTG-GGGTTAAAAATGTAA
1 TTTTTG-GACATTCGAGGG-TAAAAATGTAA
* *
30462687 TTTTTGGAAATTCGAGGGTCAAAATGTAA
1 TTTTTGGACATTCGAGGGTAAAAATGTAA
*
30462716 TTTTTAGACA
1 TTTTTGGACA
30462726 GTTTAGGGAC
Statistics
Matches: 55, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
29 32 0.58
30 18 0.33
31 5 0.09
ACGTcount: A:0.31, C:0.06, G:0.24, T:0.39
Consensus pattern (29 bp):
TTTTTGGACATTCGAGGGTAAAAATGTAA
Found at i:30465391 original size:207 final size:200
Alignment explanation
Indices: 30465026--30465630 Score: 854
Period size: 200 Copynumber: 3.0 Consensus size: 200
30465016 TCTGATTTCA
* * * * * *
30465026 TTGACTTGGCCTTCTTCTCAGTGTCTCATCAGGAAGGTGATCGCGTCGTTTGTTTCAATCCGCTT
1 TTGACTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGATCGCATCGCTTGTTTCAATTCGCTT
* * *
30465091 CTCTGTATCTTATCAAGAAGACGAATTTGGTCCACTTCTCAATATCTCATCAGGAAGCTAACCAT
66 CTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCAT
* *
30465156 TTTATTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTCAAGTTTGAAGATTTTGCTCGCA
131 TTTATTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCT-AGGTTCGAAGA-TTTGCTCGCA
30465221 TTGAGCCTGAG
194 TTGAG-C---G
* * * *
30465232 TTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGTATCACTTGTTTCAATTCGCT
1 -TTGACTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGATCGCATCGCTTGTTTCAATTCGCT
* *
30465297 TCTCTGTATCTCATCAGGAAGACTAATTTAGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCA
65 TCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCA
* *
30465362 TTTTATTGCTTCGACCCGCTTCTCAGTGTCTCATCAGGAAGCTAGGTTCGAAGGTTTGCTCGCAT
130 TTTTATTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTAGGTTCGAAGATTTGCTCGCAT
30465427 TGAGCG
195 TGAGCG
* * * * * *
30465433 TTGAGTTGGTATACTTCTCTGTATCTCA-CTAAGAAGATGATCGCCTCGCTTGTTTCAATTCGCT
1 TTGACTTGGTCTTCTTCTCAGTATCTCATC-AGGAAGATGATCGCATCGCTTGTTTCAATTCGCT
* *
30465497 TCTCTGTGTCTCATCAGGAAGACGAATTTGGTCCACTTCTCTGTAT-TACATCAGGAAGCTAACC
65 TCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCT-CATCAGGAAGCTAACC
* *
30465561 ATTTTATTGCTTCGACTTGCTTCTCAGTGTCTCATCAGGAAGCTAGGTTCGAAGATTTGCTCGCG
129 ATTTTATTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTAGGTTCGAAGATTTGCTCGCA
30465626 TTGAG
194 TTGAG
30465631 TTGGTATTCT
Statistics
Matches: 360, Mismatches: 36, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
199 2 0.01
200 177 0.49
201 1 0.00
204 1 0.00
205 15 0.04
206 8 0.02
207 156 0.43
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.35
Consensus pattern (200 bp):
TTGACTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGATCGCATCGCTTGTTTCAATTCGCTT
CTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCAT
TTTATTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTAGGTTCGAAGATTTGCTCGCATT
GAGCG
Found at i:30466784 original size:43 final size:44
Alignment explanation
Indices: 30466692--30466786 Score: 163
Period size: 44 Copynumber: 2.2 Consensus size: 44
30466682 ACCCTGAACT
*
30466692 TTTTTTTTTGAGACGTCCTTTACCGGTTTTCATCTCAATTTCCC
1 TTTTTTTTTGAGACGCCCTTTACCGGTTTTCATCTCAATTTCCC
* *
30466736 TTTTTTTTTGAGACGCCCTTTGCGGGTTTTCATCTCAATTTCCC
1 TTTTTTTTTGAGACGCCCTTTACCGGTTTTCATCTCAATTTCCC
30466780 TTTTTTT
1 TTTTTTT
30466787 GGGCGAAGTA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.12, C:0.23, G:0.13, T:0.53
Consensus pattern (44 bp):
TTTTTTTTTGAGACGCCCTTTACCGGTTTTCATCTCAATTTCCC
Found at i:30477397 original size:96 final size:96
Alignment explanation
Indices: 30477225--30477404 Score: 220
Period size: 96 Copynumber: 1.9 Consensus size: 96
30477215 GGATGTTTGA
** * ** * **
30477225 TTATCTCGATTTGAAGAAAGGTTGCACCTAGTAAGTTAAGGTGCAAATTTTCGTAAGCGAAGATA
1 TTATCTCGATTTGAAGAAAAATTACACCTAGTAAGTTAAGGCACAAAATTTCAAAAGCGAAGATA
*
30477290 AGGAAACATTGCCTCGATTAAGGGTATTCGG
66 AAGAAACATTGCCTCGATTAAGGGTATTCGG
* *
30477321 TTATTTCGATTTGAAGAAAAATTACACCTAGTAAGTTAAGGCACAAAATTTCAAAACTCGAA-AT
1 TTATCTCGATTTGAAGAAAAATTACACCTAGTAAGTTAAGGCACAAAATTTCAAAA-GCGAAGAT
*
30477385 AAA-AGAATATTGCCTCGATT
65 AAAGA-AACATTGCCTCGATT
30477405 TTAAAGTTTT
Statistics
Matches: 70, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
95 1 0.01
96 65 0.93
97 4 0.06
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.29
Consensus pattern (96 bp):
TTATCTCGATTTGAAGAAAAATTACACCTAGTAAGTTAAGGCACAAAATTTCAAAAGCGAAGATA
AAGAAACATTGCCTCGATTAAGGGTATTCGG
Found at i:30477786 original size:29 final size:28
Alignment explanation
Indices: 30477720--30477857 Score: 93
Period size: 29 Copynumber: 4.8 Consensus size: 28
30477710 TTGAACATCT
* *
30477720 AGGGGTAAAACA-GTAATTTTTAGAAAAATC
1 AGGGGTAAAA-ATGGAATTTTTAG--AATTC
* *
30477750 -GGGATAAAAATGGAGTTTTTAGACATTC
1 AGGGGTAAAAATGGAATTTTTAGA-ATTC
* * *
30477778 GGGGGT-AAAATGGTAATTTTTATGAGTTT
1 AGGGGTAAAAATGG-AATTTTTA-GAATTC
*
30477807 TGGGGTCAAAAATGGAATTTTTAGAAGTTC
1 AGGGGT-AAAAATGGAATTTTTAGAA-TTC
**
30477837 AGGGGTAAAAATATAATTTTT
1 AGGGGTAAAAATGGAATTTTT
30477858 GGAAGTTTTG
Statistics
Matches: 86, Mismatches: 14, Indels: 17
0.74 0.12 0.15
Matches are distributed among these distances:
27 1 0.01
28 11 0.13
29 50 0.58
30 17 0.20
31 7 0.08
ACGTcount: A:0.37, C:0.04, G:0.25, T:0.34
Consensus pattern (28 bp):
AGGGGTAAAAATGGAATTTTTAGAATTC
Found at i:30477828 original size:30 final size:30
Alignment explanation
Indices: 30477784--30477948 Score: 194
Period size: 29 Copynumber: 5.6 Consensus size: 30
30477774 ATTCGGGGGT
*
30477784 AAAATGGTAATTTTTATG-AGTTTTGGGGTCA
1 AAAAT-GTAATTTTT-GGAAGTTTTGGGGTCA
* * **
30477815 AAAATGGAATTTTTAGAAGTTCAGGGGT-A
1 AAAATGTAATTTTTGGAAGTTTTGGGGTCA
* *
30477844 AAAATATAATTTTTGGAAGTTTTGGGGTTA
1 AAAATGTAATTTTTGGAAGTTTTGGGGTCA
* * *
30477874 AAAATGTAAATTTTGGAAG-TTTGAGGTTA
1 AAAATGTAATTTTTGGAAGTTTTGGGGTCA
30477903 AAAATGTAATTTTTGGAAGTTTTGGGGTC-
1 AAAATGTAATTTTTGGAAGTTTTGGGGTCA
30477932 AAAATGTAATTTTTGGA
1 AAAATGTAATTTTTGGA
30477949 TATTTTAGGG
Statistics
Matches: 116, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
29 69 0.59
30 42 0.36
31 5 0.04
ACGTcount: A:0.34, C:0.02, G:0.25, T:0.39
Consensus pattern (30 bp):
AAAATGTAATTTTTGGAAGTTTTGGGGTCA
Found at i:30477842 original size:59 final size:59
Alignment explanation
Indices: 30477755--30477945 Score: 212
Period size: 59 Copynumber: 3.3 Consensus size: 59
30477745 AAATCGGGAT
* * *
30477755 AAAAATGGAGTTTTTAGACA-TTCGGGGGT-AAAATGGTAATTTTTATG-AGTTTTGGGGTC
1 AAAAATGGAATTTTTAGA-AGTTCAGGGGTAAAAAT-GTAATTTTT-GGAAGTTTTGGGGTC
* *
30477814 AAAAATGGAATTTTTAGAAGTTCAGGGGTAAAAATATAATTTTTGGAAGTTTTGGGGTT
1 AAAAATGGAATTTTTAGAAGTTCAGGGGTAAAAATGTAATTTTTGGAAGTTTTGGGGTC
* * * * *
30477873 AAAAATGTAAATTTTGGAAGTT-TGAGGTTAAAAATGTAATTTTTGGAAGTTTTGGGGTC
1 AAAAATGGAATTTTTAGAAGTTCAG-GGGTAAAAATGTAATTTTTGGAAGTTTTGGGGTC
*
30477932 -AAAATGTAATTTTT
1 AAAAATGGAATTTTT
30477946 GGATATTTTA
Statistics
Matches: 115, Mismatches: 13, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
58 16 0.14
59 94 0.82
60 5 0.04
ACGTcount: A:0.34, C:0.03, G:0.25, T:0.39
Consensus pattern (59 bp):
AAAAATGGAATTTTTAGAAGTTCAGGGGTAAAAATGTAATTTTTGGAAGTTTTGGGGTC
Found at i:30481678 original size:18 final size:18
Alignment explanation
Indices: 30481655--30481704 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
30481645 TTTTAAGTAA
30481655 AACCGAATTAATTCGATT
1 AACCGAATTAATTCGATT
* *
30481673 AACCG-ATCGAATTCGGTT
1 AACCGAAT-TAATTCGATT
30481691 AACCGAATTAATTC
1 AACCGAATTAATTC
30481705 AGTCAGGAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 2 0.07
18 23 0.85
19 2 0.07
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.30
Consensus pattern (18 bp):
AACCGAATTAATTCGATT
Found at i:30482306 original size:6 final size:6
Alignment explanation
Indices: 30482295--30482329 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
30482285 CTATCTACAA
* *
30482295 GAAGAC GAAGAC GAAGAC GAAGAA GAAGAA GAAGA
1 GAAGAC GAAGAC GAAGAC GAAGAC GAAGAC GAAGA
30482330 TAATGATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.57, C:0.09, G:0.34, T:0.00
Consensus pattern (6 bp):
GAAGAC
Found at i:30483811 original size:383 final size:381
Alignment explanation
Indices: 30482878--30483898 Score: 1427
Period size: 383 Copynumber: 2.7 Consensus size: 381
30482868 GACCTTAGGT
* * * * *
30482878 GAAAAATGAGAATTTTCAAGAAAAATTCTCTAAGACACCAAAATAAAGCGAAAGCAACTTAAAAG
1 GAAAAATGAGAATTTTCAAGAAAAATTCTCTAAGGCATCGAAATAAAGAGAAAGCAACTCAAAAG
* * *
30482943 ACAAAGTAACTCGAATTGAACA-AAAAAACTAAAATAAGACAATACATACAAGATGTTTGAGTAA
66 ACAAAGGAACTCGAATTGAACAGAAAAAAC-ATAA-AAGACAATACACACAAGATGTTTGAGTAA
*
30483007 ATGCTCTTAAATATATTATTTAACTCAAGAATGAGATCATTACAAAATGAGGGGAAGACCTCTAT
129 ATGCTCTTAAATATATTATTTAACTCAAGAATGAGATAATTAC-AAATGAGGGGAAGACCTCTAT
* *
30483072 TTATAGTCAAACTCCTTTAAATCCAACGATACAATTTAAATTACATCAACGATCAAGATTCTCTA
193 TTATAGTCGAACTCC-TTAAATCCAACGGTACAATTTAAATTACATCAACG-TCAAGATTCTCTA
* * * *
30483137 TTCGAAAATTGCAGATATCCAACCCACTACTACTCCTAGGTATTAGTGTCACAGGGTTAAGACTA
256 TTCGAAAATTACAGATATCCAACCCACTAATACTCCTAGGTACTAGTGTCACAGGGCTAAGACTA
* * * * *
30483202 TAGTTTGGCAAACTGTGAGATCTTCCTTTATTTCAAATTCGCCTAAATCAATTTAAATCTC
321 TAGTCTAGCAAACTGCGAGACCTTCCTTTATTTCAAATTCACCTAAATCAATTTAAATCTC
* *
30483263 GAAAAAATGAGAATTTTCAAGAAAAATTCTCCAAGGCATCGAAATAAAGCAAAAAGCAACTCAAA
1 G-AAAAATGAGAATTTTCAAGAAAAATTCTCTAAGGCATCGAAATAAAG-AGAAAGCAACTCAAA
* * * * *
30483328 AGACAAAGGAACTC-AAATGAATAGAAAAACCATACAAAGACAATGCACACAAGATGTTTAAGTA
64 AGACAAAGGAACTCGAATTGAACAGAAAAAACATA-AAAGACAATACACACAAGATGTTTGAGTA
* * * * *
30483392 AATGCTCTTAAAGATATTATTTAACTCAAAAATGAGATAACTACAAATGAGGGGAAGATCTCTGT
128 AATGCTCTTAAATATATTATTTAACTCAAGAATGAGATAATTACAAATGAGGGGAAGACCTCTAT
* *
30483457 TTATGGTCGAACTCTCTTAAATCCAACGGTACAATTTAAATTACATCAACAGTCAATATTCTCTA
193 TTATAGTCGAACTC-CTTAAATCCAACGGTACAATTTAAATTACATCAAC-GTCAAGATTCTCTA
* * * *
30483522 TTTG-AAATTACAGATATCCAACCCACTAATATTCCTAGGTACTAGTGTCATAGGGCTAGGACTA
256 TTCGAAAATTACAGATATCCAACCCACTAATACTCCTAGGTACTAGTGTCACAGGGCTAAGACTA
* *
30483586 TAGTCTAGCAAACTGCGCGACCTTCCTTTGTTTCAAATTCACCTAAATCAATTTAAATCTC
321 TAGTCTAGCAAACTGCGAGACCTTCCTTTATTTCAAATTCACCTAAATCAATTTAAATCTC
* * * * *
30483647 GAAAAATGAGAATTTTAAAGGAAAATTCTCTAAGGCATTGAAATAAAGTGAAAGCAACTCAATAG
1 GAAAAATGAGAATTTTCAAGAAAAATTCTCTAAGGCATCGAAATAAAGAGAAAGCAACTCAAAAG
*
30483712 ACAAAGGAACTCGAATTGAACAGAAAAAACATAAGAAGACAATACACACAAGGTGTTTGAGTAAA
66 ACAAAGGAACTCGAATTGAACAGAAAAAACATAA-AAGACAATACACACAAGATGTTTGAGTAAA
* * *
30483777 TGCTCTTAAATATATTATTTAACTCAAGAATGAGATAATTACGATTGAGGGGAATACCTCTATTT
130 TGCTCTTAAATATATTATTTAACTCAAGAATGAGATAATTACAAATGAGGGGAAGACCTCTATTT
* * * * *
30483842 ATAGTTGAACTCCTTAAATTCAACGGTGCAGTTTAAATTACATAAACGGTCAAGATT
195 ATAGTCGAACTCCTTAAATCCAACGGTACAATTTAAATTACATCAAC-GTCAAGATT
30483899 AAAGTTTATG
Statistics
Matches: 559, Mismatches: 69, Indels: 19
0.86 0.11 0.03
Matches are distributed among these distances:
382 66 0.12
383 154 0.28
384 108 0.19
385 80 0.14
386 119 0.21
387 32 0.06
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (381 bp):
GAAAAATGAGAATTTTCAAGAAAAATTCTCTAAGGCATCGAAATAAAGAGAAAGCAACTCAAAAG
ACAAAGGAACTCGAATTGAACAGAAAAAACATAAAAGACAATACACACAAGATGTTTGAGTAAAT
GCTCTTAAATATATTATTTAACTCAAGAATGAGATAATTACAAATGAGGGGAAGACCTCTATTTA
TAGTCGAACTCCTTAAATCCAACGGTACAATTTAAATTACATCAACGTCAAGATTCTCTATTCGA
AAATTACAGATATCCAACCCACTAATACTCCTAGGTACTAGTGTCACAGGGCTAAGACTATAGTC
TAGCAAACTGCGAGACCTTCCTTTATTTCAAATTCACCTAAATCAATTTAAATCTC
Found at i:30484545 original size:20 final size:19
Alignment explanation
Indices: 30484521--30484570 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
30484511 AAGAAATATA
*
30484521 TAAAAATACATAA-ATATCT
1 TAAAAATACATAATAAAT-T
*
30484540 TAAAAATATAATAATAAATT
1 TAAAAATA-CATAATAAATT
30484560 TAAAAATACAT
1 TAAAAATACAT
30484571 TATTGCGTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 10 0.38
20 13 0.50
21 3 0.12
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAAAATACATAATAAATT
Found at i:30487485 original size:3 final size:3
Alignment explanation
Indices: 30487472--30487503 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
30487462 GTTTTGTTTC
30487472 CTT CTTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT C-TT CTT CTT CTT CTT CTT CTT CTT CTT C
30487504 CCTCAACCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:30487879 original size:30 final size:30
Alignment explanation
Indices: 30487837--30487911 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
30487827 TCGTGAGAAT
* * *
30487837 TTTAGGGATTAATTTGGTAA-TTT-TAAGAG
1 TTTAGGGTTTAATTTAGAAATTTTGTAA-AG
30487866 TTTAAGGGTTTAATTTAGAAATTTTGGTAAAG
1 TTT-AGGGTTTAATTTAGAAATTTT-GTAAAG
30487898 TTTAGGGTTTAATT
1 TTTAGGGTTTAATT
30487912 CATCAATACA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
29 3 0.08
30 14 0.36
31 14 0.36
32 5 0.13
33 3 0.08
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.47
Consensus pattern (30 bp):
TTTAGGGTTTAATTTAGAAATTTTGTAAAG
Found at i:30488772 original size:25 final size:25
Alignment explanation
Indices: 30488726--30488774 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
30488716 CCCATTAACT
*
30488726 TTGATTGATCGTTGATCGTTGACCA
1 TTGATTGATCGTTGAACGTTGACCA
*
30488751 TTGATTGACTCGTT-AACTTTGACC
1 TTGATTGA-TCGTTGAACGTTGACC
30488775 GAACGTTGAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.41
Consensus pattern (25 bp):
TTGATTGATCGTTGAACGTTGACCA
Found at i:30488808 original size:19 final size:19
Alignment explanation
Indices: 30488780--30488819 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
30488770 TGACCGAACG
*
30488780 TTGACCATTGATCGCTGAC
1 TTGACCATTGACCGCTGAC
* *
30488799 TTGACTATTGACCGTTGAC
1 TTGACCATTGACCGCTGAC
30488818 TT
1 TT
30488820 TTTCGTTTGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.38
Consensus pattern (19 bp):
TTGACCATTGACCGCTGAC
Found at i:30492657 original size:25 final size:26
Alignment explanation
Indices: 30492612--30492665 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
30492602 AATTCTCCAT
** *
30492612 AAATTTTTTATTTATTATTTATTTTA
1 AAATTTTAAATTTATTATTTAATTTA
30492638 AAATTTTAAATTTATT-TTTAATTTA
1 AAATTTTAAATTTATTATTTAATTTA
30492663 AAA
1 AAA
30492666 ATATTATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 11 0.44
26 14 0.56
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (26 bp):
AAATTTTAAATTTATTATTTAATTTA
Found at i:30492666 original size:26 final size:26
Alignment explanation
Indices: 30492612--30492698 Score: 77
Period size: 31 Copynumber: 3.2 Consensus size: 26
30492602 AATTCTCCAT
** *
30492612 AAATTTTTTATTTATTATTT-ATTTTA
1 AAATTTTAAATTTATT-TTTAATTTAA
30492638 AAATTTTAAATTTATTTTTAATTTAAAA
1 AAATTTTAAATTTATTTTTAATTT--AA
*
30492666 ATATTATTTTAAATTTATTTCTAATTTAA
1 A-A--ATTTTAAATTTATTTTTAATTTAA
30492695 AAAT
1 AAAT
30492699 ATTATTTTGG
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
25 3 0.06
26 20 0.39
28 3 0.06
29 4 0.08
31 21 0.41
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (26 bp):
AAATTTTAAATTTATTTTTAATTTAA
Found at i:30492672 original size:20 final size:19
Alignment explanation
Indices: 30492628--30492682 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 19
30492618 TTTATTTATT
*
30492628 ATTTATTTTAAAATTT-TAA
1 ATTTATTTT-AAATTTAAAA
*
30492647 ATTTATTTTTAATTTAAAA
1 ATTTATTTTAAATTTAAAA
30492666 ATATTATTTTAAATTTA
1 AT-TTATTTTAAATTTA
30492683 TTTCTAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
18 5 0.16
19 13 0.42
20 13 0.42
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
ATTTATTTTAAATTTAAAA
Found at i:30492678 original size:31 final size:31
Alignment explanation
Indices: 30492640--30492706 Score: 125
Period size: 31 Copynumber: 2.2 Consensus size: 31
30492630 TTATTTTAAA
*
30492640 ATTTTAAATTTATTTTTAATTTAAAAATATT
1 ATTTTAAATTTATTTCTAATTTAAAAATATT
30492671 ATTTTAAATTTATTTCTAATTTAAAAATATT
1 ATTTTAAATTTATTTCTAATTTAAAAATATT
30492702 ATTTT
1 ATTTT
30492707 GGAGAAGAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.58
Consensus pattern (31 bp):
ATTTTAAATTTATTTCTAATTTAAAAATATT
Found at i:30509075 original size:21 final size:21
Alignment explanation
Indices: 30509049--30509096 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
30509039 TTGGCAACTA
*
30509049 GTTTTCCAAGAGTGACTGCTG
1 GTTTTCCAAGAGAGACTGCTG
* **
30509070 GTTTTCTAAGAGAGGTTGCTG
1 GTTTTCCAAGAGAGACTGCTG
30509091 GTTTTC
1 GTTTTC
30509097 TTTGGTTGGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.17, C:0.15, G:0.29, T:0.40
Consensus pattern (21 bp):
GTTTTCCAAGAGAGACTGCTG
Found at i:30527591 original size:4 final size:4
Alignment explanation
Indices: 30527582--30527645 Score: 53
Period size: 4 Copynumber: 16.2 Consensus size: 4
30527572 AAATTTAATG
* * * *
30527582 ATAA ATAA ATAA ATAA ATAA ACAA GATAA TAAAA ATAA ATGA A-AA TTAA
1 ATAA ATAA ATAA ATAA ATAA ATAA -ATAA -ATAA ATAA ATAA ATAA ATAA
30527631 ATAA A-AA AT-A ATAA A
1 ATAA ATAA ATAA ATAA A
30527646 AGAGATAACT
Statistics
Matches: 47, Mismatches: 9, Indels: 8
0.73 0.14 0.12
Matches are distributed among these distances:
3 7 0.15
4 34 0.72
5 6 0.13
ACGTcount: A:0.73, C:0.02, G:0.03, T:0.22
Consensus pattern (4 bp):
ATAA
Found at i:30527597 original size:12 final size:11
Alignment explanation
Indices: 30527582--30527713 Score: 67
Period size: 12 Copynumber: 11.5 Consensus size: 11
30527572 AAATTTAATG
30527582 ATAAATAAATAA
1 ATAAATAAA-AA
30527594 ATAAATAAACAA
1 ATAAATAAA-AA
30527606 GAT-AAT-AAAA
1 -ATAAATAAAAA
*
30527616 ATAAATGAAAA
1 ATAAATAAAAA
*
30527627 TTAAATAAAAA
1 ATAAATAAAAA
30527638 AT-AATAAAAGA
1 ATAAATAAAA-A
* *
30527649 GATAACTATAAA
1 -ATAAATAAAAA
*
30527661 ATGACATGAAAATA
1 AT-AAAT-AAAA-A
*
30527675 A-ATAATAACAAT
1 ATA-AATAA-AAA
30527687 ATAAATAAACAA
1 ATAAATAAA-AA
*
30527699 AAAAAT-AAAA
1 ATAAATAAAAA
30527709 ATAAA
1 ATAAA
30527714 AATTGAATGC
Statistics
Matches: 93, Mismatches: 14, Indels: 28
0.69 0.10 0.21
Matches are distributed among these distances:
9 2 0.02
10 18 0.19
11 22 0.24
12 34 0.37
13 15 0.16
14 2 0.02
ACGTcount: A:0.71, C:0.04, G:0.05, T:0.20
Consensus pattern (11 bp):
ATAAATAAAAA
Found at i:30527636 original size:10 final size:10
Alignment explanation
Indices: 30527582--30527713 Score: 56
Period size: 11 Copynumber: 12.5 Consensus size: 10
30527572 AAATTTAATG
30527582 ATAAATAAATAA
1 ATAAAT-AA-AA
30527594 ATAAATAAACA
1 ATAAATAAA-A
*
30527605 AGATAATAAAA
1 ATA-AATAAAA
30527616 ATAAATGAAAA
1 ATAAAT-AAAA
*
30527627 TTAAATAAAA
1 ATAAATAAAA
30527637 A-ATAATAAAAGA
1 ATA-AAT-AAA-A
*
30527649 GATAACTATAAA
1 -ATAAATA-AAA
* *
30527661 ATGACATGAAA
1 AT-AAATAAAA
*
30527672 ATAAATAATA
1 ATAAATAAAA
* *
30527682 A-CAATATAA
1 ATAAATAAAA
*
30527691 ATAAA-CAAA
1 ATAAATAAAA
30527700 A-AAATAAAA
1 ATAAATAAAA
30527709 ATAAA
1 ATAAA
30527714 AATTGAATGC
Statistics
Matches: 89, Mismatches: 18, Indels: 28
0.66 0.13 0.21
Matches are distributed among these distances:
8 3 0.03
9 14 0.16
10 22 0.25
11 27 0.30
12 17 0.19
13 5 0.06
14 1 0.01
ACGTcount: A:0.71, C:0.04, G:0.05, T:0.20
Consensus pattern (10 bp):
ATAAATAAAA
Found at i:30527691 original size:46 final size:43
Alignment explanation
Indices: 30527583--30527679 Score: 117
Period size: 45 Copynumber: 2.2 Consensus size: 43
30527573 AATTTAATGA
30527583 TAAATAAATAAATAAATAAACA-AGATAATAAAAATAAATGAAAAT
1 TAAATAAA-AAAT-AATAAA-AGAGATAATAAAAATAAATGAAAAT
*
30527628 TAAATAAAAAATAATAAAAGAGATAACTATAAAATGACATGAAAA-
1 TAAATAAAAAATAATAAAAGAGATAA-TA-AAAAT-AAATGAAAAT
30527673 TAAATAA
1 TAAATAA
30527680 TAACAATATA
Statistics
Matches: 47, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
42 1 0.02
43 12 0.26
44 6 0.13
45 20 0.43
46 8 0.17
ACGTcount: A:0.69, C:0.03, G:0.06, T:0.22
Consensus pattern (43 bp):
TAAATAAAAAATAATAAAAGAGATAATAAAAATAAATGAAAAT
Found at i:30527732 original size:5 final size:6
Alignment explanation
Indices: 30527669--30527716 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
30527659 AAATGACATG
* *
30527669 AAAATA AATAATA ACAATA TAAATA AACAA-A AAAATA AAAATA AAAAT
1 AAAATA AA-AATA AAAATA AAAATA AA-AATA AAAATA AAAATA AAAAT
30527717 TGAATGCTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
5 2 0.06
6 26 0.74
7 7 0.20
ACGTcount: A:0.77, C:0.04, G:0.00, T:0.19
Consensus pattern (6 bp):
AAAATA
Found at i:30529946 original size:23 final size:23
Alignment explanation
Indices: 30529920--30530022 Score: 134
Period size: 23 Copynumber: 4.5 Consensus size: 23
30529910 TATTAATATA
* *
30529920 ATACATTTACGCTCGTCAGCGTG
1 ATACGTTTACGCTCGTCAGCATG
* *
30529943 ATACGTTTAAGCTCATCAGCATG
1 ATACGTTTACGCTCGTCAGCATG
30529966 ATACGTTTACGCTCGTCAGCATG
1 ATACGTTTACGCTCGTCAGCATG
* * *
30529989 ATACGCTTATGCTTGTCAGCATG
1 ATACGTTTACGCTCGTCAGCATG
*
30530012 ATACATTTACG
1 ATACGTTTACG
30530023 AGTATACATT
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 68 1.00
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.32
Consensus pattern (23 bp):
ATACGTTTACGCTCGTCAGCATG
Found at i:30529992 original size:46 final size:46
Alignment explanation
Indices: 30529920--30530022 Score: 152
Period size: 46 Copynumber: 2.2 Consensus size: 46
30529910 TATTAATATA
* *
30529920 ATACATTTACGCTCGTCAGCGTGATACGTTTAAGCTCATCAGCATG
1 ATACATTTACGCTCGTCAGCATGATACGCTTAAGCTCATCAGCATG
* * **
30529966 ATACGTTTACGCTCGTCAGCATGATACGCTTATGCTTGTCAGCATG
1 ATACATTTACGCTCGTCAGCATGATACGCTTAAGCTCATCAGCATG
30530012 ATACATTTACG
1 ATACATTTACG
30530023 AGTATACATT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 50 1.00
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.32
Consensus pattern (46 bp):
ATACATTTACGCTCGTCAGCATGATACGCTTAAGCTCATCAGCATG
Found at i:30532769 original size:18 final size:18
Alignment explanation
Indices: 30532746--30532784 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
30532736 AAAAATGAAA
*
30532746 TTTCACTTCAATTCT-ATT
1 TTTCACGTC-ATTCTCATT
30532764 TTTCACGTCATTCTCATT
1 TTTCACGTCATTCTCATT
30532782 TTT
1 TTT
30532785 GGTCTCATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.18, C:0.23, G:0.03, T:0.56
Consensus pattern (18 bp):
TTTCACGTCATTCTCATT
Found at i:30533817 original size:15 final size:15
Alignment explanation
Indices: 30533799--30533850 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
30533789 CTTTCTTTTC
30533799 TTATATTTTATAATA
1 TTATATTTTATAATA
** *
30533814 TTATATAATAAAATA
1 TTATATTTTATAATA
30533829 TTATTATTTATTATAATA
1 TTA-TA-TT-TTATAATA
30533847 TTAT
1 TTAT
30533851 TATTAATTAA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
15 15 0.54
16 2 0.07
17 2 0.07
18 9 0.32
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TTATATTTTATAATA
Found at i:30533859 original size:18 final size:18
Alignment explanation
Indices: 30533806--30533859 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 18
30533796 TTCTTATATT
30533806 TTATAATATTA-TA-TAA
1 TTATAATATTATTATTAA
* *
30533822 -TAAAATATTATTATTTA
1 TTATAATATTATTATTAA
30533839 TTATAATATTATTATTAA
1 TTATAATATTATTATTAA
30533857 TTA
1 TTA
30533860 ATATATCTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
15 9 0.29
16 2 0.06
17 2 0.06
18 18 0.58
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TTATAATATTATTATTAA
Found at i:30533865 original size:18 final size:18
Alignment explanation
Indices: 30533807--30533865 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
30533797 TCTTATATTT
*
30533807 TATAATATTATATAA-TAA
1 TATATTATTAT-TAATTAA
* *
30533825 AATATTATTATTTATT-A
1 TATATTATTATTAATTAA
30533842 TAATATTATTATTAATTAA
1 T-ATATTATTATTAATTAA
30533861 TATAT
1 TATAT
30533866 CTTTTGAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
17 3 0.09
18 28 0.85
19 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TATATTATTATTAATTAA
Found at i:30535176 original size:542 final size:542
Alignment explanation
Indices: 30534154--30535242 Score: 2124
Period size: 542 Copynumber: 2.0 Consensus size: 542
30534144 ATGGTTATAT
*
30534154 GTTTATTGACGTTTAGTTTAACATACGACATATTTGAAAATGTTCTGCATCACTAAGCTTTGTCG
1 GTTTATTGACGTTTAGTTTAACATACGACATATTTGAAAATGTTCTGCACCACTAAGCTTTGTCG
30534219 CTCAATGTGTAGTTTGTTACCATGCATAGGTACGTGAGGCTTCAGAAGGTTGCTTTAGGGGTCAA
66 CTCAATGTGTAGTTTGTTACCATGCATAGGTACGTGAGGCTTCAGAAGGTTGCTTTAGGGGTCAA
30534284 GTTAAGTTGCTTGGGCTATTCGATTCCTGAAAATCTGCTGTTGTAATGAATTCTCTCTTTAGTAG
131 GTTAAGTTGCTTGGGCTATTCGATTCCTGAAAATCTGCTGTTGTAATGAATTCTCTCTTTAGTAG
30534349 TTGTTTGGAGATGTATTAGGATCCTATAATGTTATTTGGTTAAGTGTTGGTATATAAATGGTTTT
196 TTGTTTGGAGATGTATTAGGATCCTATAATGTTATTTGGTTAAGTGTTGGTATATAAATGGTTTT
* *
30534414 AGTATTGTACTTAGTGTATTTTTGTAATAGTCCGATTTTCAGTGGTATCGGAAACAGTGGTTTTG
261 AGTATTGTACTTAGTGTATTTTTGTAACAGTCCGATTTTCAGTGGTATCGAAAACAGTGGTTTTG
30534479 AGACCACAACTCCGACGAGTGAAGTCATAAATTTAATTATTTTGAATGTTTCTGGTGATACATGC
326 AGACCACAACTCCGACGAGTGAAGTCATAAATTTAATTATTTTGAATGTTTCTGGTGATACATGC
30534544 ATCGTATGAATTATGATTCAAAAATAGCATTGATTAGATAGTTAATTGAATAGAAAGGACTAAAT
391 ATCGTATGAATTATGATTCAAAAATAGCATTGATTAGATAGTTAATTGAATAGAAAGGACTAAAT
30534609 CATAAAAAATGTAAAAGTATAGATGTTTAATTAGAAGGACCAAGTGAATAAAATAACCAAATGAA
456 CATAAAAAATGTAAAAGTATAGATGTTTAATTAGAAGGACCAAGTGAATAAAATAACCAAATGAA
30534674 TATTAGTTAGTGGATTGGCATG
521 TATTAGTTAGTGGATTGGCATG
*
30534696 GTTTATTGACGTTTAGTTTAACATACGACATATTTGAAAATGTTTTGCACCACTAAGCTTTGTCG
1 GTTTATTGACGTTTAGTTTAACATACGACATATTTGAAAATGTTCTGCACCACTAAGCTTTGTCG
30534761 CTCAATGTGTAGTTTGTTACCATGCATAGGTACGTGAGGCTTCAGAAGGTTGCTTTAGGGGTCAA
66 CTCAATGTGTAGTTTGTTACCATGCATAGGTACGTGAGGCTTCAGAAGGTTGCTTTAGGGGTCAA
30534826 GTTAAGTTGCTTGGGCTATTCGATTCCTGAAAATCTGCTGTTGTAATGAATTCTCTCTTTAGTAG
131 GTTAAGTTGCTTGGGCTATTCGATTCCTGAAAATCTGCTGTTGTAATGAATTCTCTCTTTAGTAG
*
30534891 TTGTTTGGAGATGTATTAGGATCCTATAATGTTATTTGGTTAAGTGTTGGTATATAGATGGTTTT
196 TTGTTTGGAGATGTATTAGGATCCTATAATGTTATTTGGTTAAGTGTTGGTATATAAATGGTTTT
*
30534956 AGTATTGTACTTAGTGTATTTTTGTAACAGTCCGATTTTCAGTGGTATCGAAAATAGTGGTTTTG
261 AGTATTGTACTTAGTGTATTTTTGTAACAGTCCGATTTTCAGTGGTATCGAAAACAGTGGTTTTG
30535021 AGACCACAACTCCGACGAGTGAAGTCATAAATTTAATTATTTTGAATGTTTCTGGTGATACATGC
326 AGACCACAACTCCGACGAGTGAAGTCATAAATTTAATTATTTTGAATGTTTCTGGTGATACATGC
30535086 ATCGTATGAATTATGATTCAAAAATAGCATTGATTAGATAGTTAATTGAATAGAAAGGACTAAAT
391 ATCGTATGAATTATGATTCAAAAATAGCATTGATTAGATAGTTAATTGAATAGAAAGGACTAAAT
30535151 CATAAAAAATGTAAAAGTATAGATGTTTAATTAGAAGGACCAAGTGAATAAAATAACCAAATGAA
456 CATAAAAAATGTAAAAGTATAGATGTTTAATTAGAAGGACCAAGTGAATAAAATAACCAAATGAA
30535216 TATTAGTTAGTGGATTGGCATG
521 TATTAGTTAGTGGATTGGCATG
30535238 GTTTA
1 GTTTA
30535243 AATTAAGTAT
Statistics
Matches: 541, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
542 541 1.00
ACGTcount: A:0.31, C:0.11, G:0.21, T:0.37
Consensus pattern (542 bp):
GTTTATTGACGTTTAGTTTAACATACGACATATTTGAAAATGTTCTGCACCACTAAGCTTTGTCG
CTCAATGTGTAGTTTGTTACCATGCATAGGTACGTGAGGCTTCAGAAGGTTGCTTTAGGGGTCAA
GTTAAGTTGCTTGGGCTATTCGATTCCTGAAAATCTGCTGTTGTAATGAATTCTCTCTTTAGTAG
TTGTTTGGAGATGTATTAGGATCCTATAATGTTATTTGGTTAAGTGTTGGTATATAAATGGTTTT
AGTATTGTACTTAGTGTATTTTTGTAACAGTCCGATTTTCAGTGGTATCGAAAACAGTGGTTTTG
AGACCACAACTCCGACGAGTGAAGTCATAAATTTAATTATTTTGAATGTTTCTGGTGATACATGC
ATCGTATGAATTATGATTCAAAAATAGCATTGATTAGATAGTTAATTGAATAGAAAGGACTAAAT
CATAAAAAATGTAAAAGTATAGATGTTTAATTAGAAGGACCAAGTGAATAAAATAACCAAATGAA
TATTAGTTAGTGGATTGGCATG
Found at i:30535275 original size:20 final size:20
Alignment explanation
Indices: 30535243--30535288 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
30535233 GCATGGTTTA
*
30535243 AATTAAGTATAAATA-GATTT
1 AATTAAGTATAAAAATGA-TT
30535263 AATTAAG-ATTAAAAATGATT
1 AATTAAGTA-TAAAAATGATT
30535283 AATTAA
1 AATTAA
30535289 AGCTTAATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 1 0.04
20 20 0.87
21 2 0.09
ACGTcount: A:0.54, C:0.00, G:0.09, T:0.37
Consensus pattern (20 bp):
AATTAAGTATAAAAATGATT
Found at i:30545010 original size:58 final size:57
Alignment explanation
Indices: 30544901--30545065 Score: 168
Period size: 58 Copynumber: 2.9 Consensus size: 57
30544891 AATTTGACAT
* * * * *
30544901 TTTTTTTAATTTAGTATTTAAACTTTTTTTATTCAATTTGGTGCCTAAACTTGATAC
1 TTTTTTTAATTTAGTACTTAAACTTTTTTGATTCAATTTGGTACCTAAACTTAACAC
* * ** * *
30544958 TTTTTTTAATTTGGTACTTAAACTTTTATTGACTCAATTTGGTATTTGAACTTAACAT
1 TTTTTTTAATTTAGTACTTAAACTTTT-TTGATTCAATTTGGTACCTAAACTTAACAC
* ** * *
30545016 TTTTTCTTAATTTAGTACCTAATTTTTTTTGATTCAATTTGATACTTAAA
1 TTTTT-TTAATTTAGTACTTAAACTTTTTTGATTCAATTTGGTACCTAAA
30545066 TTTATTAAAT
Statistics
Matches: 87, Mismatches: 19, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
57 25 0.29
58 44 0.51
59 18 0.21
ACGTcount: A:0.27, C:0.10, G:0.08, T:0.54
Consensus pattern (57 bp):
TTTTTTTAATTTAGTACTTAAACTTTTTTGATTCAATTTGGTACCTAAACTTAACAC
Found at i:30545262 original size:58 final size:59
Alignment explanation
Indices: 30545168--30545280 Score: 142
Period size: 58 Copynumber: 1.9 Consensus size: 59
30545158 TTAATATTAA
* * *
30545168 AAAAAGATTATGTATCAAATTAGAAAAAAGAGTCAAGTTT-GGATATCAAATTAGACTCC
1 AAAAAGATTAAGTACCAAATTAGAAAAAAGAGTCAAGTTTAAG-TATCAAATTAGACTCC
* *
30545227 AAAAAGTTTAAGTACCAACTTA-AAAAAAGTA-TCAAGTTTAAGTATCAAATTAGA
1 AAAAAGATTAAGTACCAAATTAGAAAAAAG-AGTCAAGTTTAAGTATCAAATTAGA
30545281 AAAAAGTGTC
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
58 27 0.57
59 20 0.43
ACGTcount: A:0.50, C:0.10, G:0.13, T:0.27
Consensus pattern (59 bp):
AAAAAGATTAAGTACCAAATTAGAAAAAAGAGTCAAGTTTAAGTATCAAATTAGACTCC
Found at i:30545266 original size:30 final size:31
Alignment explanation
Indices: 30545230--30545366 Score: 131
Period size: 31 Copynumber: 4.5 Consensus size: 31
30545220 AGACTCCAAA
*
30545230 AAGTTTAAGTACCAACTTA-AAAAAAGTATC
1 AAGTTTAAGTACCAAATTAGAAAAAAGTATC
* *
30545260 AAGTTTAAGTATCAAATTAGAAAAAAGTGTC
1 AAGTTTAAGTACCAAATTAGAAAAAAGTATC
* *
30545291 AAGTTTGAGTACTAAATTAGACAAAAA--A--
1 AAGTTTAAGTACCAAATTAGA-AAAAAGTATC
* * * *
30545319 AAGTTTAGGTACCAAAATAGAAAAAAATGTC
1 AAGTTTAAGTACCAAATTAGAAAAAAGTATC
* *
30545350 ACGTTCAAGTACCAAAT
1 AAGTTTAAGTACCAAAT
30545367 GTTATATTAA
Statistics
Matches: 85, Mismatches: 16, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
27 5 0.06
28 17 0.20
30 17 0.20
31 41 0.48
32 5 0.06
ACGTcount: A:0.50, C:0.11, G:0.14, T:0.26
Consensus pattern (31 bp):
AAGTTTAAGTACCAAATTAGAAAAAAGTATC
Found at i:30545330 original size:28 final size:27
Alignment explanation
Indices: 30545291--30545345 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
30545281 AAAAAGTGTC
* *
30545291 AAGTTTGAGTACTAAATTAGACAAAAAA
1 AAGTTTGAGTACCAAAATAGA-AAAAAA
30545319 AAGTTT-AGGTACCAAAATAGAAAAAAA
1 AAGTTTGA-GTACCAAAATAGAAAAAAA
30545346 TGTCACGTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 7 0.29
28 17 0.71
ACGTcount: A:0.56, C:0.07, G:0.15, T:0.22
Consensus pattern (27 bp):
AAGTTTGAGTACCAAAATAGAAAAAAA
Found at i:30545343 original size:89 final size:89
Alignment explanation
Indices: 30545179--30545344 Score: 228
Period size: 89 Copynumber: 1.9 Consensus size: 89
30545169 AAAAGATTAT
***
30545179 GTATCAAATTAGAAAAAAGAGTCAAGTTTGGATATCAAATTAGACTCCAAAAAGTTTAAGTACCA
1 GTATCAAATTAGAAAAAAGAGTCAAGTTTGGATATCAAATTAGACAAAAAAAAGTTTAAGTACCA
**
30545244 ACTTAAAAAAAGTATCAAGTTTAA
66 AAATAAAAAAAGTATCAAGTTTAA
* *
30545268 GTATCAAATTAGAAAAAAGTGTCAAGTTT-GAGTA-CTAAATTAGACAAAAAAAAGTTTAGGTAC
1 GTATCAAATTAGAAAAAAGAGTCAAGTTTGGA-TATC-AAATTAGACAAAAAAAAGTTTAAGTAC
30545331 CAAAATAGAAAAAA
64 CAAAATA-AAAAAA
30545345 ATGTCACGTT
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
88 3 0.04
89 58 0.87
90 6 0.09
ACGTcount: A:0.51, C:0.10, G:0.14, T:0.25
Consensus pattern (89 bp):
GTATCAAATTAGAAAAAAGAGTCAAGTTTGGATATCAAATTAGACAAAAAAAAGTTTAAGTACCA
AAATAAAAAAAGTATCAAGTTTAA
Found at i:30546314 original size:12 final size:12
Alignment explanation
Indices: 30546297--30546321 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30546287 ATCAAATTTT
30546297 TTTACGAAAAAA
1 TTTACGAAAAAA
30546309 TTTACGAAAAAA
1 TTTACGAAAAAA
30546321 T
1 T
30546322 ACGAAAAGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.08, G:0.08, T:0.28
Consensus pattern (12 bp):
TTTACGAAAAAA
Found at i:30546448 original size:2 final size:2
Alignment explanation
Indices: 30546437--30546481 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
30546427 TATTTATTTC
*
30546437 AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30546478 AT AT
1 AT AT
30546482 TTCTATTTCC
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:30546482 original size:10 final size:10
Alignment explanation
Indices: 30546427--30546483 Score: 69
Period size: 10 Copynumber: 5.5 Consensus size: 10
30546417 TCTATTTGTT
*
30546427 TATTTATTTCA
1 TATTTATAT-A
30546438 TATATTATATA
1 TAT-TTATATA
*
30546449 TATATATATA
1 TATTTATATA
*
30546459 TATATATATA
1 TATTTATATA
30546469 TATTTATATA
1 TATTTATATA
30546479 TATTT
1 TATTT
30546484 CTATTTCCAA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
10 30 0.71
11 7 0.17
12 5 0.12
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (10 bp):
TATTTATATA
Done.