Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 47 of 378
Found at i:11669177 original size:30 final size:30
Alignment explanation
Indices: 11669108--11669178 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
11669098 TTTTATAGTC
* * *
11669108 TATATTTTTATAATTTTTAAAGAATTAAAT
1 TATAATTTTATAATTTTTAAAGAATCAAAG
11669138 TA-AATTTTTATAA-TTTTAAAGAGATCAAAG
1 TATAA-TTTTATAATTTTTAAAGA-ATCAAAG
11669168 TATAATTTTAT
1 TATAATTTTAT
11669179 TTTTATTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
29 10 0.29
30 23 0.66
31 2 0.06
ACGTcount: A:0.44, C:0.01, G:0.06, T:0.49
Consensus pattern (30 bp):
TATAATTTTATAATTTTTAAAGAATCAAAG
Found at i:11673481 original size:17 final size:17
Alignment explanation
Indices: 11673459--11673492 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
11673449 ACATACCAAT
11673459 TTTTATTTTATAAAATA
1 TTTTATTTTATAAAATA
*
11673476 TTTTATTTTATGAAATA
1 TTTTATTTTATAAAATA
11673493 ATATCATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (17 bp):
TTTTATTTTATAAAATA
Found at i:11673767 original size:18 final size:18
Alignment explanation
Indices: 11673681--11673767 Score: 54
Period size: 18 Copynumber: 4.7 Consensus size: 18
11673671 TCACATCATC
*
11673681 AATTAGTTAATTTTTAAAA
1 AATTAATTAA-TTTTAAAA
11673700 AATTAA--AATTATTAAAAA
1 AATTAATTAATT-TT-AAAA
** *
11673718 AATTATAAGAATTATAAAGA
1 AATTA-ATTAATTTTAAA-A
*
11673738 ATATT-TTTAATTTTAAAA
1 A-ATTAATTAATTTTAAAA
11673756 AATTAATTAATT
1 AATTAATTAATT
11673768 GCTAACGGGC
Statistics
Matches: 53, Mismatches: 7, Indels: 17
0.69 0.09 0.22
Matches are distributed among these distances:
16 2 0.04
17 7 0.13
18 17 0.32
19 17 0.32
20 3 0.06
21 7 0.13
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (18 bp):
AATTAATTAATTTTAAAA
Found at i:11677533 original size:31 final size:31
Alignment explanation
Indices: 11677484--11677596 Score: 111
Period size: 31 Copynumber: 3.6 Consensus size: 31
11677474 TAAAAAATAT
* * *
11677484 TTTAAA-AATTAAATATAATAACAAATGAGA
1 TTTAAATAATTTAATATAATAATAAATGAAA
* * *
11677514 TTTAAATAATTTAATATAATGATAAATTATA
1 TTTAAATAATTTAATATAATAATAAATGAAA
* * * *
11677545 TTTAAATAATTTCATTTAATCATATATGAAAA
1 TTTAAATAATTTAATATAATAATAAATG-AAA
*
11677577 TTTAAATAATTCAATATAAT
1 TTTAAATAATTTAATATAAT
11677597 GGAATATAAA
Statistics
Matches: 67, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
30 6 0.09
31 42 0.63
32 19 0.28
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.41
Consensus pattern (31 bp):
TTTAAATAATTTAATATAATAATAAATGAAA
Found at i:11678195 original size:15 final size:16
Alignment explanation
Indices: 11678174--11678227 Score: 74
Period size: 15 Copynumber: 3.3 Consensus size: 16
11678164 TTAGAATTGC
11678174 TATTTTTAGTGTTTGT
1 TATTTTTAGTGTTTGT
*
11678190 TATTTTTA-TGTTTGC
1 TATTTTTAGTGTTTGT
11678205 TATTTTTAAGTGTTTTGT
1 TATTTTT-AGTG-TTTGT
11678223 TATTT
1 TATTT
11678228 GAATTTATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 13 0.39
16 9 0.27
17 2 0.06
18 9 0.27
ACGTcount: A:0.15, C:0.02, G:0.15, T:0.69
Consensus pattern (16 bp):
TATTTTTAGTGTTTGT
Found at i:11682434 original size:93 final size:93
Alignment explanation
Indices: 11682322--11682490 Score: 284
Period size: 93 Copynumber: 1.8 Consensus size: 93
11682312 ACCCATAAGT
****
11682322 GAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
11682387 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
*
11682415 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
11682480 CGAGTTCGGAT
66 CGAGCTCGGAT
11682491 ACTCAACCAT
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:11682508 original size:46 final size:46
Alignment explanation
Indices: 11682314--11682494 Score: 197
Period size: 46 Copynumber: 3.9 Consensus size: 46
11682304 TGTAACCCAC
* **
11682314 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATACTCGCAT
* *
11682360 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAT-ACTCG---CAT
* * * * * *
11682410 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATACTCGCAT
*
11682453 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATACTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATACTC
11682495 AACCATCCTA
Statistics
Matches: 111, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 70 0.63
47 29 0.26
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATACTCGCAT
Found at i:11684811 original size:197 final size:196
Alignment explanation
Indices: 11684466--11684860 Score: 727
Period size: 197 Copynumber: 2.0 Consensus size: 196
11684456 ACATCTTCGC
*
11684466 ACCAGTTGTTCATTTGGACACCATAAGACTTTTAAGTGTATCAGCTTGATGTAAAATTAGCTTTT
1 ACCAGTTGTTCATTTGGACACCATAAGACTTTTAAGTGTATCAGCTTGATATAAAATTAGCTTTT
11684531 TTAAATGGCACTTTGTAGGAAGAAATTTATGTTGAGTAGCCTAAAGGTTTTACGAAGAAAATGAG
66 TTAAATGGCACTTTGTAGGAAGAAATTTATGTTGAGTAGCCTAAAGGTTTTACGAAGAAAATGAG
11684596 AAGAAGACAAGCTGTTTCTTCTTAATAAGGCTCTTTATAGGCTGAAACAAGCTCCAAGGAGCTTG
131 AAGAAGACAAGCTGTTTCTTCTTAATAAGGCTCTTTATAGGCTGAAACAAGCTCCAA-GAGCTTG
11684661 GT
195 GT
11684663 ACCAGTTGTTCATTTGGACACCATAAGACTTTTAAGTGTATCAGCTTGATATAAAATTAGCTTTT
1 ACCAGTTGTTCATTTGGACACCATAAGACTTTTAAGTGTATCAGCTTGATATAAAATTAGCTTTT
11684728 TTAAATGGCACTTTGTAGGAAGAAATTTATGTTGAGTAGCCTAAAGGTTTTACGAAGAAAATGAG
66 TTAAATGGCACTTTGTAGGAAGAAATTTATGTTGAGTAGCCTAAAGGTTTTACGAAGAAAATGAG
* * * * *
11684793 AGGAAGAGAAGTTGTTTCTTCTTAATAAGGCTCTTTATGGGCTGAAATAAGCTCCAAGAGCTTGG
131 AAGAAGACAAGCTGTTTCTTCTTAATAAGGCTCTTTATAGGCTGAAACAAGCTCCAAGAGCTTGG
11684858 T
196 T
11684859 AC
1 AC
11684861 AGTAAGATAG
Statistics
Matches: 192, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
196 11 0.06
197 181 0.94
ACGTcount: A:0.32, C:0.13, G:0.22, T:0.33
Consensus pattern (196 bp):
ACCAGTTGTTCATTTGGACACCATAAGACTTTTAAGTGTATCAGCTTGATATAAAATTAGCTTTT
TTAAATGGCACTTTGTAGGAAGAAATTTATGTTGAGTAGCCTAAAGGTTTTACGAAGAAAATGAG
AAGAAGACAAGCTGTTTCTTCTTAATAAGGCTCTTTATAGGCTGAAACAAGCTCCAAGAGCTTGG
T
Found at i:11685913 original size:16 final size:17
Alignment explanation
Indices: 11685892--11685923 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
11685882 TTTAGGACTC
11685892 CTATTTTTA-GTGTTTG
1 CTATTTTTAGGTGTTTG
11685908 CTATTTTTAGGTGTTT
1 CTATTTTTAGGTGTTT
11685924 TGTTATTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.12, C:0.06, G:0.19, T:0.62
Consensus pattern (17 bp):
CTATTTTTAGGTGTTTG
Found at i:11688389 original size:2 final size:2
Alignment explanation
Indices: 11688382--11688412 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
11688372 TTTATGTGAT
11688382 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11688413 TTGTATTCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11688475 original size:46 final size:46
Alignment explanation
Indices: 11688408--11688498 Score: 155
Period size: 46 Copynumber: 2.0 Consensus size: 46
11688398 TATATATATA
*
11688408 TATATTTGTATTCTTGTTTTGGTCATCTAATTTTAAAAATTTTAAG
1 TATATTTGTATTCTTGTTTTGGTCATCTAATTTTAAAAAATTTAAG
* *
11688454 TATATTTGTGTTCTTGTTTTGGTCATCTCATTTTAAAAAATTTAA
1 TATATTTGTATTCTTGTTTTGGTCATCTAATTTTAAAAAATTTAA
11688499 TTTAGGTACT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.27, C:0.08, G:0.11, T:0.54
Consensus pattern (46 bp):
TATATTTGTATTCTTGTTTTGGTCATCTAATTTTAAAAAATTTAAG
Found at i:11688850 original size:20 final size:19
Alignment explanation
Indices: 11688817--11688854 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
11688807 TTTTAATTTA
11688817 ATAATAATTAAAATATTTTT
1 ATAATAATTAAAAT-TTTTT
11688837 ATAACTAATT-AAATTTTT
1 ATAA-TAATTAAAATTTTT
11688855 ATTATTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.24
20 8 0.47
21 5 0.29
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (19 bp):
ATAATAATTAAAATTTTTT
Found at i:11689253 original size:21 final size:21
Alignment explanation
Indices: 11689211--11689269 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
11689201 ATGATTTATT
11689211 ATCATATACATAAATTATACC
1 ATCATATACATAAATTATACC
11689232 ATCA-ATACATCAAATT-TAACC
1 ATCATATACAT-AAATTAT-ACC
11689253 AT-ATATATCAT-AATTAT
1 ATCATATA-CATAAATTAT
11689270 TTTTCTTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
20 12 0.36
21 18 0.55
22 3 0.09
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.36
Consensus pattern (21 bp):
ATCATATACATAAATTATACC
Found at i:11700251 original size:12 final size:12
Alignment explanation
Indices: 11700234--11700258 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11700224 GGGAAGAAAG
11700234 TTGATGGCCAGA
1 TTGATGGCCAGA
11700246 TTGATGGCCAGA
1 TTGATGGCCAGA
11700258 T
1 T
11700259 AATTCTTTAC
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:0.24, C:0.16, G:0.32, T:0.28
Consensus pattern (12 bp):
TTGATGGCCAGA
Found at i:11704624 original size:53 final size:49
Alignment explanation
Indices: 11704424--11704688 Score: 279
Period size: 52 Copynumber: 5.3 Consensus size: 49
11704414 TGATGGAATA
*
11704424 GATGTGATATGTGTGCCCGTATAAGACCATAGCTGGGCTATGGCATCGGT
1 GATGTGATATGTG-CCCCGTATAAGACCATAGCTGGGCTATGGCATCGGT
11704474 GCATTGTGATATGTGCACCCGTATAAGACCATAGCTGGGCTATGGCATCGGT
1 G-A-TGTGATATGTGC-CCCGTATAAGACCATAGCTGGGCTATGGCATCGGT
* *
11704526 GCATTGTGATATGTACTCCCGTATAAGACCATGGCTGGGCTATGGCATCGGTAT
1 G-A-TGTGATATGTGC-CCCGTATAAGACCATAGCTGGGCTATGGCATCGG--T
** *
11704580 GATGTGATAATGTGCCTCCGTATAAGACCATATATGGGATATGGCATCGGT
1 GATGTGAT-ATGTGCC-CCGTATAAGACCATAGCTGGGCTATGGCATCGGT
** * * * *
11704631 -A--TGATATGTGATCCGTGTAAGACCAT-GATAGGGCTCTGGCTTCGGT
1 GATGTGATATGTGCCCCGTATAAGACCATAGCT-GGGCTATGGCATCGGT
11704677 G-TGTGATATGTG
1 GATGTGATATGTG
11704689 ACTATGTGCA
Statistics
Matches: 188, Mismatches: 16, Indels: 24
0.82 0.07 0.11
Matches are distributed among these distances:
45 2 0.01
46 26 0.14
47 5 0.03
48 13 0.07
50 2 0.01
51 2 0.01
52 101 0.54
53 35 0.19
54 2 0.01
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (49 bp):
GATGTGATATGTGCCCCGTATAAGACCATAGCTGGGCTATGGCATCGGT
Found at i:11710272 original size:31 final size:31
Alignment explanation
Indices: 11710237--11710301 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
11710227 CGTGAAAGAA
11710237 AGTTTTACGGTTTGGTAGAAAGGGAAAGCTT
1 AGTTTTACGGTTTGGTAGAAAGGGAAAGCTT
11710268 AGTTTTACGGTTTGGTAGAAAGGGAAAGCTT
1 AGTTTTACGGTTTGGTAGAAAGGGAAAGCTT
11710299 AGT
1 AGT
11710302 CCATGATTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.29, C:0.06, G:0.32, T:0.32
Consensus pattern (31 bp):
AGTTTTACGGTTTGGTAGAAAGGGAAAGCTT
Found at i:11712077 original size:52 final size:51
Alignment explanation
Indices: 11711999--11712204 Score: 225
Period size: 52 Copynumber: 3.9 Consensus size: 51
11711989 ACGGAGTAGA
* * *
11711999 TGTGATATGTGCACCCTTATAAGACCATAGCTGAGCTATGGCATTGGTACAT
1 TGTGATATGTGC-CCCGTATAAGACCATAGCTGGGCTATGGCATCGGTACAT
*
11712051 TGTGATATGTGCGCCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGCAT
1 TGTGATATGTGC-CCCGTATAAGACCATAGCTGGGCTATGGCATCGGTACAT
* ** * * * * *
11712103 TGTGATATATATTCCTGTATAAGACCATGGTTGGGCTATGGCTTCGGTATGA-
1 TGTGATATGT-GCCCCGTATAAGACCATAGCTGGGCTATGGCATCGGTA-CAT
* *
11712155 TGTGATAATGTGCCTCCGTATAAGACCATATCTGGGATATGGCATCGGTA
1 TGTGAT-ATGTGCC-CCGTATAAGACCATAGCTGGGCTATGGCATCGGTA
11712205 TGATATGTGA
Statistics
Matches: 127, Mismatches: 23, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
52 94 0.74
53 33 0.26
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (51 bp):
TGTGATATGTGCCCCGTATAAGACCATAGCTGGGCTATGGCATCGGTACAT
Found at i:11712907 original size:13 final size:13
Alignment explanation
Indices: 11712889--11712921 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
11712879 ATACACGGGT
*
11712889 GTGTGTCTCGGCC
1 GTGTGTCTAGGCC
11712902 GTGTGTCTAGGCC
1 GTGTGTCTAGGCC
11712915 GTGTGTC
1 GTGTGTC
11712922 CCCTGCAGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.03, C:0.24, G:0.39, T:0.33
Consensus pattern (13 bp):
GTGTGTCTAGGCC
Found at i:11716198 original size:16 final size:16
Alignment explanation
Indices: 11716179--11716211 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
11716169 TTTCATATAA
11716179 TTCTATGTAAATATTT
1 TTCTATGTAAATATTT
*
11716195 TTCTATGTATATATTT
1 TTCTATGTAAATATTT
11716211 T
1 T
11716212 CCTCTAAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.27, C:0.06, G:0.06, T:0.61
Consensus pattern (16 bp):
TTCTATGTAAATATTT
Found at i:11716928 original size:13 final size:13
Alignment explanation
Indices: 11716910--11716943 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
11716900 TGCCATGTTA
11716910 ATTATTGTTGTAT
1 ATTATTGTTGTAT
*
11716923 ATTATTTTTGTAT
1 ATTATTGTTGTAT
11716936 -TTATTGTT
1 ATTATTGTT
11716944 CACCATCCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.21, C:0.00, G:0.12, T:0.68
Consensus pattern (13 bp):
ATTATTGTTGTAT
Found at i:11726806 original size:15 final size:16
Alignment explanation
Indices: 11726786--11726815 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
11726776 TCTTCTTGAA
11726786 TTTTGAAT-TTTTATT
1 TTTTGAATATTTTATT
11726801 TTTTGAATATTTTAT
1 TTTTGAATATTTTAT
11726816 GGTTTTAAAA
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:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (16 bp):
TTTTGAATATTTTATT
Found at i:11727610 original size:26 final size:25
Alignment explanation
Indices: 11727567--11727622 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 25
11727557 TCATTATTTT
11727567 ATATTATTTTTTTGTTTT-TTAATAAA
1 ATATTATTTTTTTGTTTTATT-A-AAA
11727593 ATATTATTTTTTAT-TTTTATTAAAA
1 ATATTATTTTTT-TGTTTTATTAAAA
11727618 ATATT
1 ATATT
11727623 TAAATATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
25 8 0.29
26 17 0.61
27 3 0.11
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (25 bp):
ATATTATTTTTTTGTTTTATTAAAA
Found at i:11728159 original size:33 final size:32
Alignment explanation
Indices: 11728116--11728222 Score: 82
Period size: 33 Copynumber: 3.4 Consensus size: 32
11728106 GTTTTTTATA
*
11728116 ATTATTTTAAAAATAATTTGTTAGTAATTTAGG
1 ATTATGTTAAAAATAATTT-TTAGTAATTTAGG
* *
11728149 ATTATGTT-AAAAT--TTTTT-GT-GTTT-GTA
1 ATTATGTTAAAAATAATTTTTAGTAATTTAG-G
* *
11728176 ATTATATTAAAATTAATTTATTAGTAATTTAGG
1 ATTATGTTAAAAATAATTT-TTAGTAATTTAGG
* *
11728209 ATTAAGTTATAAAT
1 ATTATGTTAAAAAT
11728223 TGTTGTGTTT
Statistics
Matches: 55, Mismatches: 11, Indels: 16
0.67 0.13 0.20
Matches are distributed among these distances:
26 1 0.02
27 10 0.18
28 6 0.11
29 2 0.04
30 6 0.11
31 2 0.04
32 7 0.13
33 20 0.36
34 1 0.02
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.50
Consensus pattern (32 bp):
ATTATGTTAAAAATAATTTTTAGTAATTTAGG
Found at i:11728193 original size:60 final size:61
Alignment explanation
Indices: 11728100--11728233 Score: 182
Period size: 60 Copynumber: 2.2 Consensus size: 61
11728090 GAATGTAATT
* * * *
11728100 TTTTTTGTTTTTTATAATTATTTTAAAAATAATTTGTTAGTAATTTAGGATTATGTTA-AAA
1 TTTTTTG-TGTTTATAATTATATTAAAAATAATTTATTAGTAATTTAGGATTAAGTTATAAA
* *
11728161 TTTTTTGTGTTTGTAATTATATTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAA
1 TTTTTTGTGTTTATAATTATATTAAAAATAATTTATTAGTAATTTAGGATTAAGTTATAAA
*
11728222 -TTGTTGTGTTTA
1 TTTTTTGTGTTTA
11728234 GTTTAGTATT
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
60 54 0.84
61 10 0.16
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (61 bp):
TTTTTTGTGTTTATAATTATATTAAAAATAATTTATTAGTAATTTAGGATTAAGTTATAAA
Found at i:11733636 original size:132 final size:132
Alignment explanation
Indices: 11733445--11733733 Score: 384
Period size: 132 Copynumber: 2.2 Consensus size: 132
11733435 TAAGTATCCA
*
11733445 TTTAAAAATTCTTTAAAACGAAGGCGAAATCTGATATTTGACAATTCGCGAAATAGTGCCCTAAC
1 TTTAAAAATTCTTTAAAACGAAGGCGAAATCTGATATTTGACAATCCGCGAAATAGTGCCCTAAC
* ** * **
11733510 GTGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCCTTTCAGTATTTCATTCATGC
66 GTGTTGGGTTGCAATTCCGCGTTCACTCAAAATAATCGAATATCCCTTCAAAATTTCATTCATGC
11733575 CT
131 CT
** * *
11733577 TTTAAAAATTCTTTAAAACGAAGGCGATGTGC-GATATTT-AGCAATCCGCGGAATCGTGCCCTA
1 TTTAAAAATTCTTTAAAACGAAGGCGAAAT-CTGATATTTGA-CAATCCGCGAAATAGTGCCCTA
* * *
11733640 ACGTGTTGGGTTGCAATTCCGTGTTCACTTAAAATAATCGAATATCCCTTCAAAATTTCATTTAT
64 ACGTGTTGGGTTGCAATTCCGCGTTCACTCAAAATAATCGAATATCCCTTCAAAATTTCATTCAT
*
11733705 GTCT
129 GCCT
* * *
11733709 TCTAAAAATTATTTAAAACAAAGGC
1 TTTAAAAATTCTTTAAAACGAAGGC
11733734 AATATTCAGC
Statistics
Matches: 137, Mismatches: 18, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
131 1 0.01
132 135 0.99
133 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (132 bp):
TTTAAAAATTCTTTAAAACGAAGGCGAAATCTGATATTTGACAATCCGCGAAATAGTGCCCTAAC
GTGTTGGGTTGCAATTCCGCGTTCACTCAAAATAATCGAATATCCCTTCAAAATTTCATTCATGC
CT
Found at i:11734042 original size:130 final size:130
Alignment explanation
Indices: 11733859--11734097 Score: 327
Period size: 130 Copynumber: 1.8 Consensus size: 130
11733849 ATATACTTAA
* * * *
11733859 AAAACGAATACGATGTTCAATGTTTGGCAATTTGAGAATCGTGCCCTACCGTGCTGGGTCGCGCT
1 AAAACGAAGACGATATTCAATGTTTGGCAATTTGAGAATCGAGCCCTACCGTGCTGGGTCACGCT
* * *
11733924 TTTTCATTGGTCCGAAACAATTGAAGATC-CCTTCGGAATTTCACTCACATTTTCTAAAATCTTT
66 TTTTCATTGGTCCAAAACAATCGAAGATCTCC-TCGGAAGTTCACTCACATTTTCTAAAATCTTT
11733988 C
130 C
* * * * *
11733989 AAAATGAAGACGATATTCGATGTTTGGCGATTTGAGAATCGAGCCCTATCGTGCTGGGTTACGCT
1 AAAACGAAGACGATATTCAATGTTTGGCAATTTGAGAATCGAGCCCTACCGTGCTGGGTCACGCT
* * *
11734054 TTTTCATTTGTCCAAAATAATCGAATATCTCCTCGGAAGTTCAC
66 TTTTCATTGGTCCAAAACAATCGAAGATCTCCTCGGAAGTTCAC
11734098 ACGTATTTTA
Statistics
Matches: 93, Mismatches: 15, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
130 91 0.98
131 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.33
Consensus pattern (130 bp):
AAAACGAAGACGATATTCAATGTTTGGCAATTTGAGAATCGAGCCCTACCGTGCTGGGTCACGCT
TTTTCATTGGTCCAAAACAATCGAAGATCTCCTCGGAAGTTCACTCACATTTTCTAAAATCTTTC
Found at i:11743362 original size:53 final size:53
Alignment explanation
Indices: 11743282--11743389 Score: 198
Period size: 53 Copynumber: 2.0 Consensus size: 53
11743272 CCTAAGTTGA
11743282 TTGATTATCGAAAACTGGTCCTTGAATTAGTCAAAGACTTCGACGACATTACC
1 TTGATTATCGAAAACTGGTCCTTGAATTAGTCAAAGACTTCGACGACATTACC
* *
11743335 TTGATTATCGAAAACTGGTCCTTGAATTGGTCAAAGAGTTCGACGACATTACC
1 TTGATTATCGAAAACTGGTCCTTGAATTAGTCAAAGACTTCGACGACATTACC
11743388 TT
1 TT
11743390 CCACTACCTT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (53 bp):
TTGATTATCGAAAACTGGTCCTTGAATTAGTCAAAGACTTCGACGACATTACC
Found at i:11745794 original size:44 final size:44
Alignment explanation
Indices: 11745726--11746128 Score: 549
Period size: 44 Copynumber: 9.2 Consensus size: 44
11745716 TGGCGAATCC
* * * *
11745726 AGCAAATTTGGCGTCTCTGTATTGGCGGAGAACAGATCAAAGAT
1 AGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGAT
*
11745770 AGCAGATTTGGCATCTCTGTATTGGCTGAGAGCAGATCAAAGAT
1 AGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGAT
* * * *
11745814 AGCAAATTTGGCATCTCTGTGTTGACAGAGAGCAGATCGAAGAT
1 AGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGAT
* *
11745858 AGCAGATTTGGCGTCTCTATATTGGCAGAGAGCAGATCAAAGAT
1 AGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGAT
* * *
11745902 AACAGATTTGGCATCTCTGTATTGACGGAGAGCAGATCAAAGAT
1 AGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGAT
* * *
11745946 AGCAGATTTGGCATCTCTGTGTTGACAGAGAGCAGATCGAAGAT
1 AGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGAT
* * *
11745990 AGCAAATTTGGCGTCTCTGTATTGGC-GAAGAGCAGATCAAATAT
1 AGCAGATTTGGCATCTCTGTATTGGCAG-AGAGCAGATCAAAGAT
*
11746034 AGCAGATTTGGCATATCTGTATTGGCAGAGAGCAGATCAAAGAT
1 AGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGAT
* * * *
11746078 AGCAGATTTGACATCTCTG-ATGGGCGGAGAACAGATCAAAGAT
1 AGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGAT
*
11746121 AACAGATT
1 AGCAGATT
11746129 GGTGTTCCCG
Statistics
Matches: 317, Mismatches: 40, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
43 29 0.09
44 287 0.91
45 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.25
Consensus pattern (44 bp):
AGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGAT
Found at i:11745968 original size:132 final size:131
Alignment explanation
Indices: 11745726--11746096 Score: 616
Period size: 132 Copynumber: 2.8 Consensus size: 131
11745716 TGGCGAATCC
*
11745726 AGCAAATTTGGCGTCTCTGTATTGGCGGAGAACAGATCAAAGATAGCAGATTTGGCATCTCTGTA
1 AGCAAATTTGGCGTCTCTGTATTGGC-GAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGTA
* *
11745791 TTGGCTGAGAGCAGATCAAAGATAGCAAATTTGGCATCTCTGTGTTGACAGAGAGCAGATCGAAG
65 TTGGCAGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGTGTTGACAGAGAGCAGATCGAAG
11745856 AT
130 AT
* * *
11745858 AGCAGATTTGGCGTCTCTATATTGGCAGAGAGCAGATCAAAGATAACAGATTTGGCATCTCTGTA
1 AGCAAATTTGGCGTCTCTGTATTGGC-GAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGTA
* *
11745923 TTGACGGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGTGTTGACAGAGAGCAGATCGAAG
65 TTGGCAGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGTGTTGACAGAGAGCAGATCGAAG
11745988 AT
130 AT
* *
11745990 AGCAAATTTGGCGTCTCTGTATTGGCGAAGAGCAGATCAAATATAGCAGATTTGGCATATCTGTA
1 AGCAAATTTGGCGTCTCTGTATTGGCG-AGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGTA
*
11746055 TTGGCAGAGAGCAGATCAAAGATAGCAGATTTGACATCTCTG
65 TTGGCAGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTG
11746097 ATGGGCGGAG
Statistics
Matches: 222, Mismatches: 16, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
131 1 0.00
132 221 1.00
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.26
Consensus pattern (131 bp):
AGCAAATTTGGCGTCTCTGTATTGGCGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGTAT
TGGCAGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGTGTTGACAGAGAGCAGATCGAAGA
T
Found at i:11749210 original size:132 final size:132
Alignment explanation
Indices: 11748973--11749263 Score: 397
Period size: 132 Copynumber: 2.2 Consensus size: 132
11748963 TAAGTATCCA
11748973 TTTAAAAATTCTTTAAAACGAAGGCAAAATCCGATATTTGACAATTCGCAGAATAGTGCCCTAAC
1 TTTAAAAATTCTTTAAAACGAAGGCAAAATCCGATATTTGACAATTCGCAGAATAGTGCCCTAAC
* * * * *
11749038 GTGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATGTCCCTTCAAGATTTCATTCATGC
66 GTGTTGGGTTGCAATTCCGCGTTCGCTCAAAATAATCGAATATCCCTTAAAAATTTCATTCATGC
11749103 CT
131 CT
* ** * * *
11749105 TTTAAAAATTCTTTAAAACGAAGGCGATGTGCGATATTT-AGCAATTCGCGGAATCGTGCCCTAA
1 TTTAAAAATTCTTTAAAACGAAGGCAAAATCCGATATTTGA-CAATTCGCAGAATAGTGCCCTAA
* * *
11749169 CGTGTTGGGTTGCAATTCCGTGTTCGCTTAAAATAATCGAATATCCCTTAAAAATTTCATTTATG
65 CGTGTTGGGTTGCAATTCCGCGTTCGCTCAAAATAATCGAATATCCCTTAAAAATTTCATTCATG
*
11749234 TCT
130 CCT
* *
11749237 TCTAAAAATTATTTAAAA-GAAAGGCAA
1 TTTAAAAATTCTTTAAAACG-AAGGCAA
11749264 TATTCGGCGT
Statistics
Matches: 139, Mismatches: 18, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
131 2 0.01
132 137 0.99
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
Consensus pattern (132 bp):
TTTAAAAATTCTTTAAAACGAAGGCAAAATCCGATATTTGACAATTCGCAGAATAGTGCCCTAAC
GTGTTGGGTTGCAATTCCGCGTTCGCTCAAAATAATCGAATATCCCTTAAAAATTTCATTCATGC
CT
Found at i:11749637 original size:130 final size:130
Alignment explanation
Indices: 11749390--11749637 Score: 291
Period size: 130 Copynumber: 1.9 Consensus size: 130
11749380 AAATACTTAA
* * *
11749390 AAAACGAAGACAATGTTCAATGTTTGGCAATTTGAGAATCGTGCCCTACCATGCTGGGTCGCGCT
1 AAAACGAAGACAATATTCAATGTTTGGCAATTTGAGAATCGAGCCCTACCATGCTGGGTCACGCT
** * * * *
11749455 TTTTCATTGGTCCGCAGCAATTGAAGATCCCTTCGGAATTTCACTCACATTTTCTAAAATCTTTC
66 TTTTCATTGGTCCAAAACAATCGAAGATCCCTTCGAAATTTCACACACATTTTCTAAAATCTTTC
* * * * * * *
11749520 AAAATGAAGACGATATTCAATGTTTGGCGATTTGAGAATCGAGCCCTATCGTGCTTGGTTACGCT
1 AAAACGAAGACAATATTCAATGTTTGGCAATTTGAGAATCGAGCCCTACCATGCTGGGTCACGCT
* * * * *
11749585 TTTTCATTTGTCCAAAATAATCGAATATCTCC-TCGAAATTTTACACATATTTT
66 TTTTCATTGGTCCAAAACAATCGAAGATC-CCTTCGAAATTTCACACACATTTT
11749638 ATAAGGTAAG
Statistics
Matches: 96, Mismatches: 21, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
130 94 0.98
131 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (130 bp):
AAAACGAAGACAATATTCAATGTTTGGCAATTTGAGAATCGAGCCCTACCATGCTGGGTCACGCT
TTTTCATTGGTCCAAAACAATCGAAGATCCCTTCGAAATTTCACACACATTTTCTAAAATCTTTC
Found at i:11762366 original size:15 final size:14
Alignment explanation
Indices: 11762347--11762381 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
11762337 TCAAAAATAG
*
11762347 AAAATTCAAAGAAA
1 AAAATTAAAAGAAA
11762361 ATAAATTAAAAGAAA
1 A-AAATTAAAAGAAA
11762376 AAAATT
1 AAAATT
11762382 TATTTTGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.71, C:0.03, G:0.06, T:0.20
Consensus pattern (14 bp):
AAAATTAAAAGAAA
Found at i:11764165 original size:129 final size:136
Alignment explanation
Indices: 11764010--11764357 Score: 426
Period size: 147 Copynumber: 2.5 Consensus size: 136
11764000 TTTACATTCC
**
11764010 AACACCACTTATTTACCTCATAAAACAATCATAAGAAATCATCACACTTTCAACTATTATTAAAC
1 AACACCACTTATTTACCTTGTAAAACAATCATAAGAAATCATCACACTTTCAACTATTATTAAAC
*** *
11764075 TT-T-T-A-GAGTTTG-A-T-TTTT-ATCCATCTAATTTTATCACTAGCTATAAATTTACATCAG
66 TTCTCTCAGGAGGCAGAATTATTTTGATCCATCTAATTTTATCACTAGCTATAAATTTACATCAA
11764132 CTGGTCA
131 CT-GTCA
* *
11764139 AACACCAAC-TATTTGCCTTGTAAAACAATCATAAAAAATCATCACACTTTCAACTATTATTAAA
1 AACACC-ACTTATTTACCTTGTAAAACAATCATAAGAAATCATCACACTTTCAACTATTATTAAA
*
11764203 CTTATCTCCCTCCAACGTGGAGGCAGAATTTGATTTTGATGCATCTAATTTTATCACTAGCTATA
65 C-T-TCT--CT-C-A---GGAGGCAGAA-TT-ATTTTGATCCATCTAATTTTATCACTAGCTATA
11764268 AATTTACATCAACTGTCA
119 AATTTACATCAACTGTCA
11764286 AACACCACTTATTTACCTTGTAAAACAATCATAAGAAATCATCACACTTTCAACTATTATTAAAC
1 AACACCACTTATTTACCTTGTAAAACAATCATAAGAAATCATCACACTTTCAACTATTATTAAAC
*
11764351 TTATCTC
66 TTCTCTC
11764358 CCTCCAATGT
Statistics
Matches: 186, Mismatches: 12, Indels: 29
0.82 0.05 0.13
Matches are distributed among these distances:
129 58 0.31
130 3 0.02
131 1 0.01
132 1 0.01
135 1 0.01
138 1 0.01
142 5 0.03
143 3 0.02
145 3 0.02
146 3 0.02
147 68 0.37
148 39 0.21
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.35
Consensus pattern (136 bp):
AACACCACTTATTTACCTTGTAAAACAATCATAAGAAATCATCACACTTTCAACTATTATTAAAC
TTCTCTCAGGAGGCAGAATTATTTTGATCCATCTAATTTTATCACTAGCTATAAATTTACATCAA
CTGTCA
Found at i:11764351 original size:147 final size:148
Alignment explanation
Indices: 11764083--11764453 Score: 540
Period size: 147 Copynumber: 2.6 Consensus size: 148
11764073 ACTTTTAGAG
* *
11764083 TTTGATTTTTATCCATCTAATTTTATCACTAGCTATAAATTTACATCAGCTGGTCAAACACCAAC
1 TTTGATTTTGATCCATCTAATTTTATCACTAGCTATAAATTTACATCAACTGGTCAAACACCAAC
*
11764148 TATTTGCCTTGTAAAACAATCATAAAAAATCATCACACTTTCAACTATTATTAAACTTATCTCCC
66 TATTTACCTTGTAAAACAATCATAAAAAATCATCACACTTTCAACTATTATTAAACTTATCTCCC
11764213 TCCAACGTGGAGGCAGAA
131 TCCAACGTGGAGGCAGAA
*
11764231 TTTGATTTTGATGCATCTAATTTTATCACTAGCTATAAATTTACATCAACT-GTCAAACACC-AC
1 TTTGATTTTGATCCATCTAATTTTATCACTAGCTATAAATTTACATCAACTGGTCAAACACCAAC
*
11764294 TTATTTACCTTGTAAAACAATCATAAGAAATCATCACACTTTCAACTATTATTAAACTTATCTCC
66 -TATTTACCTTGTAAAACAATCATAAAAAATCATCACACTTTCAACTATTATTAAACTTATCTCC
*
11764359 CTCCAATGTGGAGGCAGAA
130 CTCCAACGTGGAGGCAGAA
* *
11764378 TTTGATTTTG---------A---TA-CACTAGCTATAAATTTACATCAGCTGGTCAAACACCACC
1 TTTGATTTTGATCCATCTAATTTTATCACTAGCTATAAATTTACATCAACTGGTCAAACACCAAC
*
11764430 TATTTACCTCGTAAAA-AATCATAA
66 TATTTACCTTGTAAAACAATCATAA
11764454 GACCACCTAT
Statistics
Matches: 211, Mismatches: 9, Indels: 20
0.88 0.04 0.08
Matches are distributed among these distances:
134 32 0.15
135 27 0.13
136 1 0.00
138 1 0.00
146 2 0.01
147 100 0.47
148 48 0.23
ACGTcount: A:0.36, C:0.22, G:0.09, T:0.34
Consensus pattern (148 bp):
TTTGATTTTGATCCATCTAATTTTATCACTAGCTATAAATTTACATCAACTGGTCAAACACCAAC
TATTTACCTTGTAAAACAATCATAAAAAATCATCACACTTTCAACTATTATTAAACTTATCTCCC
TCCAACGTGGAGGCAGAA
Found at i:11764460 original size:31 final size:32
Alignment explanation
Indices: 11764424--11764487 Score: 121
Period size: 31 Copynumber: 2.0 Consensus size: 32
11764414 CTGGTCAAAC
11764424 ACCACCTATTTACCTCGTAAAA-AATCATAAG
1 ACCACCTATTTACCTCGTAAAACAATCATAAG
11764455 ACCACCTATTTACCTCGTAAAACAATCATAAG
1 ACCACCTATTTACCTCGTAAAACAATCATAAG
11764487 A
1 A
11764488 AATCATCACA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 22 0.69
32 10 0.31
ACGTcount: A:0.42, C:0.27, G:0.06, T:0.25
Consensus pattern (32 bp):
ACCACCTATTTACCTCGTAAAACAATCATAAG
Found at i:11765996 original size:62 final size:62
Alignment explanation
Indices: 11765865--11766000 Score: 184
Period size: 62 Copynumber: 2.2 Consensus size: 62
11765855 AAGTGTGTGT
* * * *
11765865 TCGGGCCGTATAACTCACTGTTTATGGTATAATACCACACGACCAGGGACACGGGCGTGTGC
1 TCGGGCCGTGTAACTCACTATTTATGGTATAAAACCACACGACCAGGGACACGGGCGTGTAC
* * **
11765927 -CTTGGCCGTGTAACTCACTATTTATGGTATAAAACCATACGGTCAGGGACACGGGCGTGTAC
1 TC-GGGCCGTGTAACTCACTATTTATGGTATAAAACCACACGACCAGGGACACGGGCGTGTAC
11765989 TCGGGCCGTGTA
1 TCGGGCCGTGTA
11766001 CCTGGGCCGT
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
61 1 0.02
62 61 0.97
63 1 0.02
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (62 bp):
TCGGGCCGTGTAACTCACTATTTATGGTATAAAACCACACGACCAGGGACACGGGCGTGTAC
Found at i:11768235 original size:26 final size:24
Alignment explanation
Indices: 11768204--11768252 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
11768194 AATAAAAAAT
*
11768204 TTTAAAAATATAATAAATCAAATATA
1 TTTAAAAACATAA-AAAT-AAATATA
11768230 TTTAAAAACATAAAAATAAATAT
1 TTTAAAAACATAAAAATAAATAT
11768253 TAAGACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.27
25 4 0.18
26 12 0.55
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (24 bp):
TTTAAAAACATAAAAATAAATATA
Found at i:11770790 original size:40 final size:40
Alignment explanation
Indices: 11770735--11770856 Score: 183
Period size: 40 Copynumber: 3.0 Consensus size: 40
11770725 AGTTTTGTAC
* * *
11770735 ATAGCCGAAGCTATCTCAAATCGCACACTTAGTGCCATAT
1 ATAGCCGAAGTTATCTCGAATCGCACACTAAGTGCCATAT
* *
11770775 ATAGCTGAAGTTATCTCGAATCGCATACTAAGTGCCATAT
1 ATAGCCGAAGTTATCTCGAATCGCACACTAAGTGCCATAT
11770815 ATAGCCGAA-TCTATCTCGAATCGCACACTAAGTGCCATAT
1 ATAGCCGAAGT-TATCTCGAATCGCACACTAAGTGCCATAT
11770855 AT
1 AT
11770857 TGTCGATTTG
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.27
Consensus pattern (40 bp):
ATAGCCGAAGTTATCTCGAATCGCACACTAAGTGCCATAT
Found at i:11774099 original size:21 final size:21
Alignment explanation
Indices: 11774034--11774100 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
11774024 GAGGACAAGG
*
11774034 TCGTGTGACTAAAACACA-GC
1 TCGTGTGGCTAAAACACACGC
* * * * *
11774054 CCGTGTGGCTAAGATATACGG
1 TCGTGTGGCTAAAACACACGC
11774075 TCGTGTGGCTAAAACACACGC
1 TCGTGTGGCTAAAACACACGC
11774096 TCGTG
1 TCGTG
11774101 CGCGATTGAA
Statistics
Matches: 35, Mismatches: 11, Indels: 1
0.74 0.23 0.02
Matches are distributed among these distances:
20 13 0.37
21 22 0.63
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (21 bp):
TCGTGTGGCTAAAACACACGC
Found at i:11775857 original size:14 final size:15
Alignment explanation
Indices: 11775825--11775863 Score: 55
Period size: 13 Copynumber: 2.7 Consensus size: 15
11775815 ATAGCTGTGG
11775825 GTAACTAATTACAAA
1 GTAACTAATTACAAA
*
11775840 -TAAC-AATTATAAA
1 GTAACTAATTACAAA
11775853 GTAACTAATTA
1 GTAACTAATTA
11775864 AAATTGATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 8 0.38
14 8 0.38
15 5 0.24
ACGTcount: A:0.54, C:0.10, G:0.05, T:0.31
Consensus pattern (15 bp):
GTAACTAATTACAAA
Found at i:11784746 original size:33 final size:32
Alignment explanation
Indices: 11784707--11784770 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
11784697 TAGCAAAATT
* *
11784707 AACAACAGAATAATAATTATACAATATCCAAAC
1 AACAACAAAATAATAATAATACAATA-CCAAAC
* *
11784740 AACAACAAAATAGTAATAATATAATACCAAA
1 AACAACAAAATAATAATAATACAATACCAAA
11784771 ATGACAGCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 5 0.19
33 22 0.81
ACGTcount: A:0.61, C:0.16, G:0.03, T:0.20
Consensus pattern (32 bp):
AACAACAAAATAATAATAATACAATACCAAAC
Found at i:11795842 original size:16 final size:16
Alignment explanation
Indices: 11795806--11795842 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
11795796 TTGCATTTAA
11795806 ATAA-TAATATAAAAT
1 ATAATTAATATAAAAT
11795821 -TAAATTAATATAAAAT
1 AT-AATTAATATAAAAT
11795837 ATAATT
1 ATAATT
11795843 GTTGAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 5
0.79 0.00 0.21
Matches are distributed among these distances:
14 1 0.05
15 2 0.11
16 15 0.79
17 1 0.05
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
ATAATTAATATAAAAT
Found at i:11806695 original size:20 final size:20
Alignment explanation
Indices: 11806670--11806707 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
11806660 ATTATTAAAA
*
11806670 TTATAAAAATATAAAAAATT
1 TTATAAAAATACAAAAAATT
*
11806690 TTATAAAATTACAAAAAA
1 TTATAAAAATACAAAAAA
11806708 AATATGAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (20 bp):
TTATAAAAATACAAAAAATT
Found at i:11806698 original size:37 final size:37
Alignment explanation
Indices: 11806629--11806700 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
11806619 AAATTGTGAA
**
11806629 AAAATTAAAATAAATATTTAAAATTTACAAAATTATT
1 AAAATTAAAATAAATATAAAAAATTTACAAAATTATT
* *
11806666 AAAATTATAA-AAATATAAAAAATTTTATAAAATTA
1 AAAATTAAAATAAATATAAAAAA-TTTACAAAATTA
11806701 CAAAAAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 10 0.33
37 20 0.67
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.36
Consensus pattern (37 bp):
AAAATTAAAATAAATATAAAAAATTTACAAAATTATT
Found at i:11806706 original size:9 final size:9
Alignment explanation
Indices: 11806648--11806706 Score: 50
Period size: 9 Copynumber: 6.4 Consensus size: 9
11806638 ATAAATATTT
11806648 AAAATT-TA
1 AAAATTATA
*
11806656 CAAAATTATT
1 -AAAATTATA
11806666 AAAATTATA
1 AAAATTATA
11806675 AAAA-TATAA
1 AAAATTAT-A
*
11806684 AAAATTTTA
1 AAAATTATA
*
11806693 TAAAATTACA
1 -AAAATTATA
11806703 AAAA
1 AAAA
11806707 AAATATGAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
8 3 0.07
9 28 0.68
10 10 0.24
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.32
Consensus pattern (9 bp):
AAAATTATA
Found at i:11807079 original size:17 final size:18
Alignment explanation
Indices: 11807054--11807106 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
11807044 TATTAAAATT
* *
11807054 ATTAAAAAATAGAAAAA-
1 ATTATAAAATACAAAAAC
11807071 ATTATAAAATTACAAAAAC
1 ATTATAAAA-TACAAAAAC
* *
11807090 AATATAAAATATAAAAA
1 ATTATAAAATACAAAAA
11807107 TTTCTAATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
17 8 0.27
18 14 0.47
19 8 0.27
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.23
Consensus pattern (18 bp):
ATTATAAAATACAAAAAC
Found at i:11807093 original size:29 final size:29
Alignment explanation
Indices: 11807026--11807098 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
11807016 AAAAAATCTT
* *
11807026 CAAAAAATTACAAAAAATTATTAAAATTA
1 CAAAAAAATAGAAAAAATTATTAAAATTA
**
11807055 TTAAAAAATAGAAAAAATTA-TAAAATTA
1 CAAAAAAATAGAAAAAATTATTAAAATTA
*
11807083 CAAAAACAATATAAAA
1 CAAAAA-AATAGAAAA
11807099 TATAAAAATT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
28 12 0.33
29 24 0.67
ACGTcount: A:0.68, C:0.05, G:0.01, T:0.25
Consensus pattern (29 bp):
CAAAAAAATAGAAAAAATTATTAAAATTA
Found at i:11807454 original size:19 final size:19
Alignment explanation
Indices: 11807432--11807470 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
11807422 ATATTTAGCA
*
11807432 TTTTTATACTTTTATAATT
1 TTTTTATAATTTTATAATT
*
11807451 TTTTTGTAATTTTATAATT
1 TTTTTATAATTTTATAATT
11807470 T
1 T
11807471 ATCCATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (19 bp):
TTTTTATAATTTTATAATT
Found at i:11807576 original size:12 final size:11
Alignment explanation
Indices: 11807549--11807578 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
11807539 ATTTTTTTGT
11807549 AATTTTTAAAG
1 AATTTTTAAAG
11807560 AATTTTTAAAG
1 AATTTTTAAAG
11807571 ATATTTTT
1 A-ATTTTT
11807579 GGATGATGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.67
12 6 0.33
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (11 bp):
AATTTTTAAAG
Found at i:11807756 original size:27 final size:27
Alignment explanation
Indices: 11807718--11807779 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
11807708 GGATTGGAAT
*
11807718 GGGTAAAAGAACTTTAAGGACTAAAGC
1 GGGTAAAAGAACTTTAAGGACCAAAGC
*
11807745 GGGTAAAAGAACTTTAAGGACCAAAGT
1 GGGTAAAAGAACTTTAAGGACCAAAGC
*
11807772 GGGAAAAA
1 GGGTAAAA
11807780 CAGTATATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.47, C:0.10, G:0.27, T:0.16
Consensus pattern (27 bp):
GGGTAAAAGAACTTTAAGGACCAAAGC
Found at i:11818087 original size:13 final size:13
Alignment explanation
Indices: 11818063--11818136 Score: 55
Period size: 13 Copynumber: 5.9 Consensus size: 13
11818053 ACACTTAAAT
*
11818063 TTTTCCAAAGCAC
1 TTTTCAAAAGCAC
* *
11818076 TTCTCAAAAGCAT
1 TTTTCAAAAGCAC
* *
11818089 TTTTCCACAGCAC
1 TTTTCAAAAGCAC
11818102 TTTTC-AAA--AC
1 TTTTCAAAAGCAC
* * *
11818112 TTTTCCACAGCAT
1 TTTTCAAAAGCAC
11818125 TTTTCAAAAGCA
1 TTTTCAAAAGCA
11818137 ATGAAGAACT
Statistics
Matches: 46, Mismatches: 12, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
10 7 0.15
11 2 0.04
12 2 0.04
13 35 0.76
ACGTcount: A:0.32, C:0.27, G:0.07, T:0.34
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:11818094 original size:26 final size:26
Alignment explanation
Indices: 11818061--11818136 Score: 104
Period size: 26 Copynumber: 3.0 Consensus size: 26
11818051 GAACACTTAA
* *
11818061 ATTTTTCCAAAGCACTTCTCAAAAGC
1 ATTTTTCCACAGCACTTTTCAAAAGC
11818087 ATTTTTCCACAGCACTTTTCAAAA-C
1 ATTTTTCCACAGCACTTTTCAAAAGC
*
11818112 --TTTTCCACAGCATTTTTCAAAAGC
1 ATTTTTCCACAGCACTTTTCAAAAGC
11818136 A
1 A
11818137 ATGAAGAACT
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
23 21 0.47
24 1 0.02
25 1 0.02
26 22 0.49
ACGTcount: A:0.33, C:0.26, G:0.07, T:0.34
Consensus pattern (26 bp):
ATTTTTCCACAGCACTTTTCAAAAGC
Found at i:11818119 original size:23 final size:25
Alignment explanation
Indices: 11818063--11818136 Score: 98
Period size: 23 Copynumber: 3.0 Consensus size: 25
11818053 ACACTTAAAT
* *
11818063 TTTTCCAAAGCACTTCTCAAAAGCA
1 TTTTCCACAGCACTTTTCAAAAGCA
11818088 TTTTTCCACAGCACTTTTCAAAA-C-
1 -TTTTCCACAGCACTTTTCAAAAGCA
*
11818112 TTTTCCACAGCATTTTTCAAAAGCA
1 TTTTCCACAGCACTTTTCAAAAGCA
11818137 ATGAAGAACT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
23 21 0.49
24 1 0.02
25 1 0.02
26 20 0.47
ACGTcount: A:0.32, C:0.27, G:0.07, T:0.34
Consensus pattern (25 bp):
TTTTCCACAGCACTTTTCAAAAGCA
Found at i:11828985 original size:83 final size:83
Alignment explanation
Indices: 11828846--11829011 Score: 332
Period size: 83 Copynumber: 2.0 Consensus size: 83
11828836 TTTGGCCTTT
11828846 GTTTTCTTTGATTCAGGTATGAATTTTGTTCAGTTTTTGATAATTTCTACATTTTTGTAATCGTT
1 GTTTTCTTTGATTCAGGTATGAATTTTGTTCAGTTTTTGATAATTTCTACATTTTTGTAATCGTT
11828911 GCTTTGTATTCTATCATG
66 GCTTTGTATTCTATCATG
11828929 GTTTTCTTTGATTCAGGTATGAATTTTGTTCAGTTTTTGATAATTTCTACATTTTTGTAATCGTT
1 GTTTTCTTTGATTCAGGTATGAATTTTGTTCAGTTTTTGATAATTTCTACATTTTTGTAATCGTT
11828994 GCTTTGTATTCTATCATG
66 GCTTTGTATTCTATCATG
11829012 CCCATGTCTC
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 83 1.00
ACGTcount: A:0.19, C:0.11, G:0.16, T:0.54
Consensus pattern (83 bp):
GTTTTCTTTGATTCAGGTATGAATTTTGTTCAGTTTTTGATAATTTCTACATTTTTGTAATCGTT
GCTTTGTATTCTATCATG
Found at i:11839200 original size:13 final size:13
Alignment explanation
Indices: 11839182--11839206 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11839172 GGTTTGTTTA
11839182 TTAAACTAATTAT
1 TTAAACTAATTAT
11839195 TTAAACTAATTA
1 TTAAACTAATTA
11839207 ACTAATTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTAAACTAATTAT
Found at i:11842039 original size:5 final size:5
Alignment explanation
Indices: 11842029--11842121 Score: 66
Period size: 5 Copynumber: 17.8 Consensus size: 5
11842019 TATGTCTTTC
* *
11842029 AAAAT AAAAT --AAT AAAATT GAAAT GAAAAT AAAAAT CAAAAG AAAA-
1 AAAAT AAAAT AAAAT AAAA-T AAAAT -AAAAT -AAAAT -AAAAT AAAAT
* *
11842075 AAAAA ATAAAT AAAAT AAAAT AGATAT AAAAT AAAAAT AAAAT AAAA
1 AAAAT A-AAAT AAAAT AAAAT A-AAAT AAAAT -AAAAT AAAAT AAAA
11842122 AAATAGGAGG
Statistics
Matches: 72, Mismatches: 8, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
3 3 0.04
4 4 0.06
5 35 0.49
6 30 0.42
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:11842061 original size:17 final size:16
Alignment explanation
Indices: 11842039--11842121 Score: 71
Period size: 17 Copynumber: 5.1 Consensus size: 16
11842029 AAAATAAAAT
*
11842039 AATAAAATTGAAATGAA
1 AATAAAAATGAAAT-AA
* *
11842056 AATAAAAATCAAAAGAA
1 AATAAAAAT-GAAATAA
*
11842073 AAAAAAAAT-AAATAA
1 AATAAAAATGAAATAA
*
11842088 AAT-AAAATAGATATAA
1 AATAAAAAT-GAAATAA
*
11842104 AATAAAAATAAAATAA
1 AATAAAAATGAAATAA
11842120 AA
1 AA
11842122 AAATAGGAGG
Statistics
Matches: 53, Mismatches: 9, Indels: 9
0.75 0.13 0.13
Matches are distributed among these distances:
14 5 0.09
15 7 0.13
16 15 0.28
17 23 0.43
18 3 0.06
ACGTcount: A:0.76, C:0.01, G:0.05, T:0.18
Consensus pattern (16 bp):
AATAAAAATGAAATAA
Found at i:11842081 original size:48 final size:47
Alignment explanation
Indices: 11842029--11842124 Score: 131
Period size: 48 Copynumber: 2.0 Consensus size: 47
11842019 TATGTCTTTC
* *
11842029 AAAATAAA-ATAATAAAATTGAAATGAAAATAAAAATCAAAAGAAAAAA
1 AAAATAAATAAAATAAAATAGAAAT-AAAATAAAAAT-AAAAGAAAAAA
* *
11842077 AAAATAAATAAAATAAAATAGATATAAAATAAAAATAAAATAAAAAA
1 AAAATAAATAAAATAAAATAGAAATAAAATAAAAATAAAAGAAAAAA
11842124 A
1 A
11842125 TAGGAGGATT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
47 11 0.26
48 19 0.44
49 13 0.30
ACGTcount: A:0.77, C:0.01, G:0.04, T:0.18
Consensus pattern (47 bp):
AAAATAAATAAAATAAAATAGAAATAAAATAAAAATAAAAGAAAAAA
Found at i:11845213 original size:31 final size:31
Alignment explanation
Indices: 11845172--11845235 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
11845162 CCTTTTCATA
*
11845172 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
11845203 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
11845234 TT
1 TT
11845236 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:11845484 original size:23 final size:23
Alignment explanation
Indices: 11845428--11845569 Score: 196
Period size: 23 Copynumber: 6.0 Consensus size: 23
11845418 TGCTTTATCA
*
11845428 TATAACTGGAGGCCT-AGCCTCTTT
1 TATAACTGG-GGCATAAGCC-CTTT
*
11845452 TAATAACTGGGGCAAAAGCCCTTT
1 T-ATAACTGGGGCATAAGCCCTTT
11845476 TATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
* *
11845499 AATAACTGGGGCGTAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
11845522 TGATAACTGGGGCATAAGCCCTTT
1 T-ATAACTGGGGCATAAGCCCTTT
*
11845546 AATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
11845569 T
1 T
11845570 TCACTTCCTC
Statistics
Matches: 106, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
23 64 0.60
24 30 0.28
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.29
Consensus pattern (23 bp):
TATAACTGGGGCATAAGCCCTTT
Found at i:11845528 original size:70 final size:71
Alignment explanation
Indices: 11845429--11845568 Score: 221
Period size: 70 Copynumber: 2.0 Consensus size: 71
11845419 GCTTTATCAT
*
11845429 ATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTATAACTGGGGCATAAGC
1 ATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTAATAACTGGGGCATAAGC
11845494 CCTTTA
66 CCTTTA
* * *
11845500 ATAACTGG-GGCGTAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAG
1 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTAATAACTGGGGCATAAG
11845563 CCCTTT
65 CCCTTT
11845569 TTCACTTCCT
Statistics
Matches: 64, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
70 52 0.81
71 12 0.19
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (71 bp):
ATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTAATAACTGGGGCATAAGC
CCTTTA
Found at i:11845546 original size:47 final size:46
Alignment explanation
Indices: 11845428--11845569 Score: 214
Period size: 47 Copynumber: 3.0 Consensus size: 46
11845418 TGCTTTATCA
* *
11845428 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTT
1 TATAACTGG-GGCATAAGCC-C-TTTAATAACTGGGGCATAAGCCCTTT
*
11845476 TATAACTGGGGCATAAGCCCTTTAATAACTGGGGCGTAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTT
11845522 TGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTT
1 T-ATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTT
11845569 T
1 T
11845570 TCACTTCCTC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
46 25 0.28
47 50 0.57
48 13 0.15
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.29
Consensus pattern (46 bp):
TATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTT
Found at i:11845644 original size:20 final size:20
Alignment explanation
Indices: 11845619--11845685 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
11845609 TTATGAATAC
11845619 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
11845639 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
11845659 GTCATGTGCATACCATACAT
1 ATCATGTGCATATCATACAT
*
11845679 ACCATGT
1 ATCATGT
11845686 TTATCAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:11845754 original size:25 final size:25
Alignment explanation
Indices: 11845722--11845769 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
11845712 ATACATAAAC
* * *
11845722 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
11845747 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
11845770 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:11853314 original size:31 final size:31
Alignment explanation
Indices: 11853273--11853336 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
11853263 CCTTTTCATA
*
11853273 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
11853304 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
11853335 TT
1 TT
11853337 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:11853581 original size:24 final size:24
Alignment explanation
Indices: 11853529--11853670 Score: 182
Period size: 24 Copynumber: 6.0 Consensus size: 24
11853519 GCTTTATCAT
*
11853529 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
11853554 ATAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
*
11853578 ATAACTGGGGAATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
11853601 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
11853625 ATAACTAGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
11853648 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
11853671 TCACTTCCTC
Statistics
Matches: 101, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
23 41 0.41
24 48 0.48
25 12 0.12
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:11853605 original size:47 final size:47
Alignment explanation
Indices: 11853550--11853671 Score: 199
Period size: 47 Copynumber: 2.6 Consensus size: 47
11853540 CCTAGCCTCT
* *
11853550 TTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGAATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTTATAACTAGGGAATAAGCCC
* * *
11853597 TTTAATAACTGGGGCGTAAGCCCTTTTGATAACTAGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTTATAACTAGGGAATAAGCCC
11853644 TTTAATAACTGGGGCATAAGCCCTTTTT
1 TTTAATAACTGGGGCATAAGCCCTTTTT
11853672 CACTTCCTCC
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 68 1.00
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTTATAACTAGGGAATAAGCCC
Found at i:11853608 original size:23 final size:23
Alignment explanation
Indices: 11853550--11853669 Score: 168
Period size: 23 Copynumber: 5.1 Consensus size: 23
11853540 CCTAGCCTCT
*
11853550 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
* *
11853573 TTTTTATAACTGGGGAATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
11853597 TTTAATAACTGGGGCGTAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
* *
11853620 TTTTGATAACTAGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
11853644 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
11853667 TTT
1 TTT
11853670 TTCACTTCCT
Statistics
Matches: 84, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
23 44 0.52
24 40 0.48
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:11853745 original size:20 final size:20
Alignment explanation
Indices: 11853720--11853786 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
11853710 TTATGAATAC
11853720 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
11853740 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
11853760 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
11853780 ACCATGT
1 ATCATGT
11853787 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:11853751 original size:11 final size:11
Alignment explanation
Indices: 11853720--11853775 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
11853710 TTATGAATAC
11853720 ATCATGTGCAT
1 ATCATGTGCAT
*
11853731 ATCA--TACAT
1 ATCATGTGCAT
11853740 ATCATGTGCAT
1 ATCATGTGCAT
*
11853751 ATCA--TACAT
1 ATCATGTGCAT
*
11853760 GTCATGTGCAT
1 ATCATGTGCAT
11853771 ATCAT
1 ATCAT
11853776 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:11853855 original size:25 final size:25
Alignment explanation
Indices: 11853823--11853870 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
11853813 ATGCATAAAC
* * *
11853823 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
11853848 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
11853871 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:11864815 original size:34 final size:34
Alignment explanation
Indices: 11864776--11864842 Score: 134
Period size: 34 Copynumber: 2.0 Consensus size: 34
11864766 TGTCCAAATC
11864776 ATTCAGTTTTCCAAAAAGTTATTTCCCCAATTTT
1 ATTCAGTTTTCCAAAAAGTTATTTCCCCAATTTT
11864810 ATTCAGTTTTCCAAAAAGTTATTTCCCCAATTT
1 ATTCAGTTTTCCAAAAAGTTATTTCCCCAATTT
11864843 ACTTTCTGTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.30, C:0.21, G:0.06, T:0.43
Consensus pattern (34 bp):
ATTCAGTTTTCCAAAAAGTTATTTCCCCAATTTT
Found at i:11867743 original size:30 final size:30
Alignment explanation
Indices: 11867708--11867765 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
11867698 TAGGCAGTTC
**
11867708 CACACGGGTA-ATCCACATGCCCGTGTGTGA
1 CACACGGGTAGA-CCACACACCCGTGTGTGA
11867738 CACACGGGTAGACCACACACCCGTGTGT
1 CACACGGGTAGACCACACACCCGTGTGT
11867766 CATGGCCGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.24, C:0.33, G:0.26, T:0.17
Consensus pattern (30 bp):
CACACGGGTAGACCACACACCCGTGTGTGA
Found at i:11869269 original size:21 final size:21
Alignment explanation
Indices: 11869245--11869286 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
11869235 AATAAGCTAA
*
11869245 CAAATCTAC-CTAGGACTTAGT
1 CAAATCT-CTCTAAGACTTAGT
11869266 CAAATCTCTCTAAGACTTAGT
1 CAAATCTCTCTAAGACTTAGT
11869287 TTTATTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.31
Consensus pattern (21 bp):
CAAATCTCTCTAAGACTTAGT
Found at i:11870924 original size:17 final size:17
Alignment explanation
Indices: 11870875--11870966 Score: 66
Period size: 17 Copynumber: 5.5 Consensus size: 17
11870865 AGTAAATGAA
*
11870875 AGAAAAAGGAATGAAAT
1 AGAAAAAGGAAAGAAAT
*
11870892 A-AAAGAAAGAAAGAAAT
1 AGAAA-AAGGAAAGAAAT
* * *
11870909 AGAATAAGGAACGAAAC
1 AGAAAAAGGAAAGAAAT
* * *
11870926 AG-AGAAGGAAGGAAAG
1 AGAAAAAGGAAAGAAAT
11870942 A-AAGAAAGGAAAGAAA-
1 AGAA-AAAGGAAAGAAAT
11870958 AGAAAAAGG
1 AGAAAAAGG
11870967 GAAAATTAAG
Statistics
Matches: 59, Mismatches: 11, Indels: 11
0.73 0.14 0.14
Matches are distributed among these distances:
16 22 0.37
17 35 0.59
18 2 0.03
ACGTcount: A:0.66, C:0.02, G:0.27, T:0.04
Consensus pattern (17 bp):
AGAAAAAGGAAAGAAAT
Found at i:11871672 original size:26 final size:24
Alignment explanation
Indices: 11871642--11871691 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
11871632 AAATAAAAAA
*
11871642 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
11871668 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
11871692 TAAAATAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:11871711 original size:21 final size:20
Alignment explanation
Indices: 11871631--11871720 Score: 67
Period size: 21 Copynumber: 4.2 Consensus size: 20
11871621 CTTATTTCAT
11871631 TAAATAAAAAAAT-TTAAAAA
1 TAAATAAAAAAATATT-AAAA
11871651 TATAATAAATCAAATATATTTAAAA
1 TA-AATAAA--AAA-ATA-TTAAAA
*
11871676 -ACATAAAAACAAATATTAAAA
1 TAAAT-AAAA-AAATATTAAAA
*
11871697 TAAATAAAAATAATACTAAAA
1 TAAATAAAAA-AATATTAAAA
11871718 TAA
1 TAA
11871721 TTCTTAAAAC
Statistics
Matches: 57, Mismatches: 3, Indels: 19
0.72 0.04 0.24
Matches are distributed among these distances:
20 3 0.05
21 28 0.49
22 7 0.12
23 7 0.12
24 6 0.11
25 4 0.07
26 2 0.04
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (20 bp):
TAAATAAAAAAATATTAAAA
Found at i:11872715 original size:18 final size:18
Alignment explanation
Indices: 11872692--11872739 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
11872682 CAAAAAAAGG
11872692 TACTGAAAAATTGACTAC
1 TACTGAAAAATTGACTAC
* * **
11872710 TACTGAATATTTGACTGT
1 TACTGAAAAATTGACTAC
11872728 TACTGAATAAAT
1 TACTGAA-AAAT
11872740 GATTGACTGA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
18 21 0.91
19 2 0.09
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (18 bp):
TACTGAAAAATTGACTAC
Found at i:11872774 original size:24 final size:22
Alignment explanation
Indices: 11872728--11872774 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 22
11872718 ATTTGACTGT
* *
11872728 TACTGAATAAATGATTGACTGA
1 TACTGAATAAATGATTAAATGA
11872750 TACTGAATAATAATGATTAAATGA
1 TACTGAAT-A-AATGATTAAATGA
11872774 T
1 T
11872775 TGTTATTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 8 0.38
23 1 0.05
24 12 0.57
ACGTcount: A:0.45, C:0.06, G:0.15, T:0.34
Consensus pattern (22 bp):
TACTGAATAAATGATTAAATGA
Found at i:11880776 original size:47 final size:48
Alignment explanation
Indices: 11880621--11880798 Score: 211
Period size: 49 Copynumber: 3.7 Consensus size: 48
11880611 GGATAAGTTA
*
11880621 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTATCATCATCGAGG
1 CCGATG-CATGTCCCAGACATGGTCTTACACTGGCTATCATCATCGAGG
* * * * * *
11880670 CCGATGCCATGACCCTGACATGGTCTTGCACTAGCTGTCTTAT-ATACG-TG
1 CCGATG-CATGTCCCAGACATGGTCTTACACTGGCTATC--ATCAT-CGAGG
11880720 CCGATGCATGTCCCAGACAT-GTCTTACACTGGCTATCATCATCGAGG
1 CCGATGCATGTCCCAGACATGGTCTTACACTGGCTATCATCATCGAGG
*
11880767 CCTATGCATGTCCCAGACAT-GTCTTACACTGG
1 CCGATGCATGTCCCAGACATGGTCTTACACTGG
11880799 TACACAATCA
Statistics
Matches: 110, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
46 4 0.04
47 34 0.31
48 14 0.13
49 45 0.41
50 9 0.08
51 4 0.04
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (48 bp):
CCGATGCATGTCCCAGACATGGTCTTACACTGGCTATCATCATCGAGG
Found at i:11892354 original size:35 final size:35
Alignment explanation
Indices: 11892315--11892476 Score: 193
Period size: 35 Copynumber: 4.6 Consensus size: 35
11892305 CATGGAAAAG
* * *
11892315 TGTGAAACTTAGGTATGGTATCATCCATGCCGAGT
1 TGTGAAACGTAGGTATGGTATTATCCATACCGAGT
*
11892350 TGTGAAACGT-GGATATGGTATTAACCATACCGAGT
1 TGTGAAACGTAGG-TATGGTATTATCCATACCGAGT
* *
11892385 TGTGAAAAGTAGGTATGGTATTATCCATACTGAGT
1 TGTGAAACGTAGGTATGGTATTATCCATACCGAGT
** * *
11892420 TAAGAAACATAGGTATGGCATT-TCCCATACCGAGT
1 TGTGAAACGTAGGTATGGTATTAT-CCATACCGAGT
*
11892455 TGTGAAATGTAGGTATGGTATT
1 TGTGAAACGTAGGTATGGTATT
11892477 TCAATGAGGA
Statistics
Matches: 106, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
34 3 0.03
35 101 0.95
36 2 0.02
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.31
Consensus pattern (35 bp):
TGTGAAACGTAGGTATGGTATTATCCATACCGAGT
Found at i:11892610 original size:31 final size:31
Alignment explanation
Indices: 11892572--11892632 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
11892562 ATAAGTAATT
11892572 TGATCAGTGAGA-AGTGGTAGCTCCGGCTACC
1 TGATCAGTGA-ATAGTGGTAGCTCCGGCTACC
*
11892603 TGATCAGTGAATAGTGGTAGCTTCGGCTAC
1 TGATCAGTGAATAGTGGTAGCTCCGGCTAC
11892633 AAGTGACAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 1 0.04
31 27 0.96
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.26
Consensus pattern (31 bp):
TGATCAGTGAATAGTGGTAGCTCCGGCTACC
Found at i:11896963 original size:5 final size:5
Alignment explanation
Indices: 11896953--11896980 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
11896943 ATCTTGTAAA
11896953 GATTT GATTT GATTT GATTT GATTT GAT
1 GATTT GATTT GATTT GATTT GATTT GAT
11896981 GTAATCTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.57
Consensus pattern (5 bp):
GATTT
Found at i:11904327 original size:13 final size:13
Alignment explanation
Indices: 11904311--11904343 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
11904301 TTTAATTAAA
*
11904311 TTAGTTAATTAGT
1 TTAGATAATTAGT
11904324 TTAGATAATTAGT
1 TTAGATAATTAGT
11904337 TTA-ATAA
1 TTAGATAA
11904344 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:11905678 original size:85 final size:86
Alignment explanation
Indices: 11905509--11905751 Score: 278
Period size: 84 Copynumber: 2.8 Consensus size: 86
11905499 AACCAAATGG
* * * *
11905509 TGGCGCCATTTAGAATGGCTACACCAAATAAAATATTATTTTTCAAAAATTTTAAATAAAA-AAA
1 TGGCGCCATTTAGAATGGCTCCA-CAAAAAAAATA-TATATTT--AAAATATT--ATAAAACAAA
11905573 TAAATTTAAAAAACATTTAAATGAACT-AA
60 T-AA--TAAAAAACATTTAAATGAACTGAA
*
11905602 TGGCGCCATTTAGAATGGCTCCACAAAAAAAAATATACATTTAAAATATTATAAAACAAATAATA
1 TGGCGCCATTTAGAATGGCTCCAC-AAAAAAAATATATATTTAAAATATTATAAAACAAATAATA
* * *
11905667 AAAAA-GTTTAAATTAACTGGA
65 AAAAACATTTAAATGAACTGAA
* *
11905688 -GGCGCCATTTAGAATGGCTCCACAAAATATATATATATTTAAAATATTATAAAACAAATAATAA
1 TGGCGCCATTTAGAATGGCTCCACAAAAAAAATATATATTTAAAATATTATAAAACAAATAATAA
11905752 TAATAAAAAA
Statistics
Matches: 136, Mismatches: 11, Indels: 15
0.84 0.07 0.09
Matches are distributed among these distances:
84 38 0.28
85 34 0.25
86 8 0.06
88 8 0.06
89 4 0.03
90 7 0.05
92 6 0.04
93 31 0.23
ACGTcount: A:0.50, C:0.12, G:0.09, T:0.29
Consensus pattern (86 bp):
TGGCGCCATTTAGAATGGCTCCACAAAAAAAATATATATTTAAAATATTATAAAACAAATAATAA
AAAACATTTAAATGAACTGAA
Found at i:11907357 original size:43 final size:43
Alignment explanation
Indices: 11907309--11907395 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
11907299 ATATAAAGAA
11907309 AACCCAAAACTTCTAAAGGGAAATTGAGGAGAGATCTTCAGTC
1 AACCCAAAACTTCTAAAGGGAAATTGAGGAGAGATCTTCAGTC
*
11907352 AACCCAAAACTTCTGAAGGGAAATTGAGGAGAGATCTTCAGTC
1 AACCCAAAACTTCTAAAGGGAAATTGAGGAGAGATCTTCAGTC
11907395 A
1 A
11907396 TGATGATGAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.39, C:0.18, G:0.22, T:0.21
Consensus pattern (43 bp):
AACCCAAAACTTCTAAAGGGAAATTGAGGAGAGATCTTCAGTC
Found at i:11908291 original size:12 final size:12
Alignment explanation
Indices: 11908274--11908304 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
11908264 CATTTATAGT
*
11908274 CAAATACATCGC
1 CAAATACATCAC
11908286 CAAATACATCAC
1 CAAATACATCAC
11908298 CAAATAC
1 CAAATAC
11908305 TACCTACTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.48, C:0.32, G:0.03, T:0.16
Consensus pattern (12 bp):
CAAATACATCAC
Found at i:11909189 original size:26 final size:26
Alignment explanation
Indices: 11909155--11909205 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
11909145 CTTTCACATC
*
11909155 TTGCTGAGCTTGCAACTTGCACATTT
1 TTGCTGAGCTTACAACTTGCACATTT
11909181 TTGCTGAGCTTACAACTTGCACATT
1 TTGCTGAGCTTACAACTTGCACATT
11909206 GGAAAGCTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.37
Consensus pattern (26 bp):
TTGCTGAGCTTACAACTTGCACATTT
Found at i:11925982 original size:27 final size:27
Alignment explanation
Indices: 11925921--11925982 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 27
11925911 TGATAATTTG
* * *
11925921 AATATTTTAAAAAACATAATTTATTTC
1 AATATTTTAAAAAACAAAATTGACTTC
* *
11925948 AATTTTTTAATAAAATAAAATTGACTT-
1 AATATTTTAA-AAAACAAAATTGACTTC
11925975 AATATTTT
1 AATATTTT
11925983 CTACATTAAC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
27 16 0.57
28 12 0.43
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (27 bp):
AATATTTTAAAAAACAAAATTGACTTC
Found at i:11933052 original size:19 final size:19
Alignment explanation
Indices: 11933030--11933067 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
11933020 GTTTCATCGC
11933030 GGGCC-ATTTGCATTCTTTT
1 GGGCCAATTTGC-TTCTTTT
*
11933049 GGGCCAATTTTCTTCTTTT
1 GGGCCAATTTGCTTCTTTT
11933068 ATTTTCTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.11, C:0.21, G:0.18, T:0.50
Consensus pattern (19 bp):
GGGCCAATTTGCTTCTTTT
Found at i:11945218 original size:46 final size:46
Alignment explanation
Indices: 11945158--11945477 Score: 516
Period size: 46 Copynumber: 7.0 Consensus size: 46
11945148 TTTGACATGA
* * * * * *
11945158 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
11945204 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
11945250 TGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
11945296 TGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
11945342 TGCCATGATGTCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
11945388 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
11945434 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATTTCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
11945478 AGAGCACACA
Statistics
Matches: 259, Mismatches: 14, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
45 4 0.02
46 255 0.98
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:11945492 original size:23 final size:23
Alignment explanation
Indices: 11945462--11945509 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
11945452 CCATGGTCTT
11945462 ACACATTTCATTTCAGAGAGCAC
1 ACACATTTCATTTCAGAGAGCAC
11945485 ACACATTTCATTTCAGAGAGCAC
1 ACACATTTCATTTCAGAGAGCAC
11945508 AC
1 AC
11945510 TCCCGCGAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.35, C:0.27, G:0.12, T:0.25
Consensus pattern (23 bp):
ACACATTTCATTTCAGAGAGCAC
Found at i:11949417 original size:40 final size:40
Alignment explanation
Indices: 11949366--11949556 Score: 217
Period size: 40 Copynumber: 4.8 Consensus size: 40
11949356 TAGTGATTCA
* * * * * *
11949366 CACGATTGCCTTCGGGTCTTAACCCGAATTTGGT-AACTTG
1 CACGAATGCCTTCGGGTCTTAGCCCGGATAT-ATCAACTCG
* *
11949406 CACAAAGGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
1 CACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
11949446 CACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
1 CACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
* * *
11949486 CACGAATGCCTTCGGGTCTTAGCCCGGATGTAAT-TACTAG
1 CACGAATGCCTTCGGGTCTTAGCCCGGATAT-ATCAACTCG
* *
11949526 CA-TAATTGCCTTCGGGACTTAGCCCGGATAT
1 CACGAA-TGCCTTCGGGTCTTAGCCCGGATAT
11949557 CATTCCAATG
Statistics
Matches: 132, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
39 3 0.02
40 127 0.96
41 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
CACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
Found at i:11951459 original size:93 final size:93
Alignment explanation
Indices: 11951347--11951518 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
11951337 CGCCCATAAG
* *
11951347 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
11951412 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
11951440 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
11951505 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
11951519 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:11951515 original size:46 final size:46
Alignment explanation
Indices: 11951340--11951515 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
11951330 TGTAACCCGC
* * *
11951340 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
11951386 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
11951436 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
11951479 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
11951516 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:11954179 original size:29 final size:31
Alignment explanation
Indices: 11954136--11954197 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 31
11954126 TAAGGCTGTC
* *
11954136 ACACTATTAGTCCTTCAACTTTTCA-TATTT
1 ACACTATTAATCCTTCAAATTTTCAGTATTT
*
11954166 ACACT-TTAATCCTTCAAATTTTGAGTATTT
1 ACACTATTAATCCTTCAAATTTTCAGTATTT
11954196 AC
1 AC
11954198 TCTTGGTCCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 16 0.57
30 12 0.43
ACGTcount: A:0.29, C:0.21, G:0.05, T:0.45
Consensus pattern (31 bp):
ACACTATTAATCCTTCAAATTTTCAGTATTT
Found at i:11956057 original size:22 final size:22
Alignment explanation
Indices: 11956032--11956077 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
11956022 TAGTCCAACT
*
11956032 ATGGTTTTACACAT-ATAATGCC
1 ATGGTCTTACA-ATCATAATGCC
*
11956054 ATGGTCTTACATTCATAATGCC
1 ATGGTCTTACAATCATAATGCC
11956076 AT
1 AT
11956078 AACCCGGTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 20 0.95
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (22 bp):
ATGGTCTTACAATCATAATGCC
Found at i:11956123 original size:33 final size:33
Alignment explanation
Indices: 11956054--11956131 Score: 95
Period size: 33 Copynumber: 2.4 Consensus size: 33
11956044 ATATAATGCC
* * *
11956054 ATGGTCTTACATTCATAATGCCATAACCCGGTT
1 ATGGTCTTACATTCAGAATGCCATAACCCAGCT
*
11956087 ATGGTCTTATCATT-AGAATGCCATAGCCCAGCT
1 ATGGTCTTA-CATTCAGAATGCCATAACCCAGCT
*
11956120 ATGGTTTTACAT
1 ATGGTCTTACAT
11956132 ACTAATATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
32 3 0.08
33 32 0.82
34 4 0.10
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.35
Consensus pattern (33 bp):
ATGGTCTTACATTCAGAATGCCATAACCCAGCT
Found at i:11956509 original size:76 final size:76
Alignment explanation
Indices: 11956366--11956511 Score: 188
Period size: 76 Copynumber: 1.9 Consensus size: 76
11956356 CAGAAAAGGG
* * *
11956366 TTGCGCCCAGCGCTAGTCGGATGAACCGACAGTAATGAATGTGAGCCTAGCTCTGGTAGGATAAA
1 TTGCACCCAGCGCTAGTCGGATGAACCGACAGTAATGAATGTAAGCCTAGCTCTAGTAGGATAAA
11956431 CCAACAAAATT
66 CCAACAAAATT
* * * * *
11956442 TTGCACCCAGTGCTAGTCGGATGAACCGAC-G-ATATTAATTGTAAGCCTAGTTCTAGTTGGATG
1 TTGCACCCAGCGCTAGTCGGATGAACCGACAGTA-ATGAA-TGTAAGCCTAGCTCTAGTAGGATA
11956505 AACCAAC
64 AACCAAC
11956512 GGTGATTGTG
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
74 1 0.02
75 5 0.08
76 54 0.90
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (76 bp):
TTGCACCCAGCGCTAGTCGGATGAACCGACAGTAATGAATGTAAGCCTAGCTCTAGTAGGATAAA
CCAACAAAATT
Found at i:11960502 original size:19 final size:18
Alignment explanation
Indices: 11960478--11960516 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
11960468 TACGAAATCA
*
11960478 ACACGGCCTGGACCTCTTC
1 ACACGGCC-AGACCTCTTC
*
11960497 ACACGGGCAGACCTCTTC
1 ACACGGCCAGACCTCTTC
11960515 AC
1 AC
11960517 CTAAGGGGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.21, C:0.41, G:0.21, T:0.18
Consensus pattern (18 bp):
ACACGGCCAGACCTCTTC
Found at i:11967829 original size:17 final size:17
Alignment explanation
Indices: 11967791--11967823 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
11967781 TATTTCTTTT
11967791 ATTTTTAAGATTCATTC
1 ATTTTTAAGATTCATTC
11967808 ATTTTTAAGATTCATT
1 ATTTTTAAGATTCATT
11967824 TGTTTTCCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.09, G:0.06, T:0.55
Consensus pattern (17 bp):
ATTTTTAAGATTCATTC
Found at i:11979525 original size:12 final size:13
Alignment explanation
Indices: 11979500--11979528 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
11979490 AAAAAGGGAA
11979500 AAAAATTAGTAAT
1 AAAAATTAGTAAT
11979513 AAAAATTAG-AAT
1 AAAAATTAGTAAT
11979525 AAAA
1 AAAA
11979529 TTTAAATTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (13 bp):
AAAAATTAGTAAT
Found at i:11987779 original size:113 final size:112
Alignment explanation
Indices: 11987599--11987823 Score: 441
Period size: 113 Copynumber: 2.0 Consensus size: 112
11987589 TTGTTCTGTT
11987599 GTTTCCAGTTAGTGTTCTTGGCAATGGAAGTTCATTAATTTAGCAGTAGACTTAAAGATTTGATT
1 GTTTCCAGTTAGTGTTCTTGGCAATGGAAGTTCATTAATTTAGCAGTAGACTTAAAGATTTGATT
11987664 TTTACCGAGTCTTTTTTCCGTACAATGAGTGGTTTAGATCTGCCGAA
66 TTTACCGAGTCTTTTTTCCGTACAATGAGTGGTTTAGATCTGCCGAA
11987711 GTTTCCAGTTAAGTGTTCTTGGCAATGGAAGTTCATTAATTTAGCAGTAGACTTAAAGATTTGAT
1 GTTTCCAGTT-AGTGTTCTTGGCAATGGAAGTTCATTAATTTAGCAGTAGACTTAAAGATTTGAT
11987776 TTTTACCGAGTCTTTTTTCCGTACAATGAGTGGTTTAGATCTGCCGAA
65 TTTTACCGAGTCTTTTTTCCGTACAATGAGTGGTTTAGATCTGCCGAA
11987824 TTAAAGATAT
Statistics
Matches: 112, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
112 10 0.09
113 102 0.91
ACGTcount: A:0.25, C:0.14, G:0.21, T:0.39
Consensus pattern (112 bp):
GTTTCCAGTTAGTGTTCTTGGCAATGGAAGTTCATTAATTTAGCAGTAGACTTAAAGATTTGATT
TTTACCGAGTCTTTTTTCCGTACAATGAGTGGTTTAGATCTGCCGAA
Found at i:11991281 original size:15 final size:15
Alignment explanation
Indices: 11991261--11991289 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
11991251 TATGCATGTA
11991261 AAATATAAAAGACAG
1 AAATATAAAAGACAG
11991276 AAATATAAAAGACA
1 AAATATAAAAGACA
11991290 TAACAGTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.69, C:0.07, G:0.10, T:0.14
Consensus pattern (15 bp):
AAATATAAAAGACAG
Found at i:11993017 original size:22 final size:22
Alignment explanation
Indices: 11992978--11993020 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
11992968 AGCAAAATAA
*
11992978 TAGCGAAATGATAATAAAACAG
1 TAGCGAAATGACAATAAAACAG
* *
11993000 TAGCGAAATGGCAGTAAAACA
1 TAGCGAAATGACAATAAAACA
11993021 ACAACAACAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.51, C:0.12, G:0.21, T:0.16
Consensus pattern (22 bp):
TAGCGAAATGACAATAAAACAG
Found at i:11998172 original size:13 final size:13
Alignment explanation
Indices: 11998154--11998178 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11998144 TTTAGATTTT
11998154 TTTTAAAATTATA
1 TTTTAAAATTATA
11998167 TTTTAAAATTAT
1 TTTTAAAATTAT
11998179 TAATAATATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTTAAAATTATA
Found at i:11998209 original size:19 final size:20
Alignment explanation
Indices: 11998185--11998223 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
11998175 TTATTAATAA
*
11998185 TATAAAT-TTTTAGAATTTT
1 TATAAATATTTTAAAATTTT
11998204 TATAAATATTTTAAAATTTT
1 TATAAATATTTTAAAATTTT
11998224 AAAATTAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (20 bp):
TATAAATATTTTAAAATTTT
Found at i:11998220 original size:10 final size:9
Alignment explanation
Indices: 11998188--11998229 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
11998178 TTAATAATAT
11998188 AAATTTTTA
1 AAATTTTTA
*
11998197 GAATTTTTA
1 AAATTTTTA
11998206 TAAATATTTTA
1 -AAAT-TTTTA
11998217 AAA-TTTTA
1 AAATTTTTA
11998225 AAATT
1 AAATT
11998230 AGTTTGATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
8 8 0.29
9 9 0.32
10 6 0.21
11 5 0.18
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (9 bp):
AAATTTTTA
Found at i:11998224 original size:19 final size:19
Alignment explanation
Indices: 11998185--11998229 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
11998175 TTATTAATAA
*
11998185 TATAAATTTTTAGAATTTT
1 TATAAATTTTTAGAAATTT
11998204 TATAAATATTTTA-AAATTT
1 TATAAAT-TTTTAGAAATTT
11998223 TA-AAATT
1 TATAAATT
11998230 AGTTTGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 1 0.04
18 4 0.17
19 14 0.58
20 5 0.21
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (19 bp):
TATAAATTTTTAGAAATTT
Found at i:12002485 original size:2 final size:2
Alignment explanation
Indices: 12002478--12002504 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
12002468 AGAATCGCTA
12002478 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
12002505 AGAAGTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:12003312 original size:12 final size:12
Alignment explanation
Indices: 12003295--12003319 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12003285 CCTACCTATA
12003295 CTACTCTTTAAG
1 CTACTCTTTAAG
12003307 CTACTCTTTAAG
1 CTACTCTTTAAG
12003319 C
1 C
12003320 CATAGCAACT
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:0.24, C:0.28, G:0.08, T:0.40
Consensus pattern (12 bp):
CTACTCTTTAAG
Found at i:12003920 original size:31 final size:30
Alignment explanation
Indices: 12003827--12003920 Score: 79
Period size: 31 Copynumber: 3.1 Consensus size: 30
12003817 CACTTAGACT
*
12003827 TTACTTATTACTCTGAATTTGAA-TTAA-A
1 TTACTTATTACTCTGAATTTGAATTTAATC
* * * *
12003855 TGATTTATTCACT-TGCATTTG-ATTTATTCAC
1 TTACTTATT-ACTCTGAATTTGAATTTAAT--C
12003886 TTACTTATTACTCTGAATTTGAATTTCAATC
1 TTACTTATTACTCTGAATTTGAATTT-AATC
12003917 TTAC
1 TTAC
12003921 CCTAAATTAT
Statistics
Matches: 49, Mismatches: 9, Indels: 13
0.69 0.13 0.18
Matches are distributed among these distances:
27 1 0.02
28 17 0.35
29 3 0.06
30 3 0.06
31 19 0.39
32 4 0.08
33 2 0.04
ACGTcount: A:0.29, C:0.15, G:0.07, T:0.49
Consensus pattern (30 bp):
TTACTTATTACTCTGAATTTGAATTTAATC
Found at i:12010806 original size:4 final size:4
Alignment explanation
Indices: 12010797--12010873 Score: 64
Period size: 4 Copynumber: 18.8 Consensus size: 4
12010787 CCCTTTTCTA
** * * * **
12010797 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TCAC GTTTGC TCTC TGTA ACTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC -TTT-C TTTC TTTC TTTC
*
12010847 TTTC TATC TTTC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTT
12010874 TTTTTAACTT
Statistics
Matches: 57, Mismatches: 14, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
4 53 0.93
5 3 0.05
6 1 0.02
ACGTcount: A:0.05, C:0.26, G:0.04, T:0.65
Consensus pattern (4 bp):
TTTC
Found at i:12017280 original size:47 final size:47
Alignment explanation
Indices: 12017171--12017273 Score: 145
Period size: 47 Copynumber: 2.2 Consensus size: 47
12017161 CCGGGATAAG
* *
12017171 CACATAGTGCTTCATCGGAATAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
12017218 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
12017265 CACATAGTG
1 CACATAGTG
12017274 TCTCATCAAC
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
47 46 0.96
48 2 0.04
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:12018100 original size:4 final size:4
Alignment explanation
Indices: 12018083--12018115 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
12018073 CTCCTGTAAC
*
12018083 TCTT TCTA TCTT TCTT TCTT TCTT TCTT TCTT T
1 TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT T
12018116 TAACTTACTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.73
Consensus pattern (4 bp):
TCTT
Found at i:12021846 original size:7 final size:7
Alignment explanation
Indices: 12021830--12021858 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
12021820 TAATAACGAA
12021830 TTTC-TT
1 TTTCTTT
12021836 TTTCTTT
1 TTTCTTT
12021843 TTTCTTT
1 TTTCTTT
12021850 TTTCTTT
1 TTTCTTT
12021857 TT
1 TT
12021859 AAAGTTTCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.18
7 18 0.82
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTCTTT
Found at i:12027571 original size:2 final size:2
Alignment explanation
Indices: 12027564--12027594 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
12027554 ATTTTTATTT
12027564 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
12027595 CTTTTTCTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:12030117 original size:20 final size:20
Alignment explanation
Indices: 12030088--12030131 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
12030078 ACATAGTAAG
*
12030088 TTGATTAGTGATAAGGTATA
1 TTGATCAGTGATAAGGTATA
* *
12030108 TTGATCAGTGATATGGTATG
1 TTGATCAGTGATAAGGTATA
12030128 TTGA
1 TTGA
12030132 CTAAGTTGAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.30, C:0.02, G:0.27, T:0.41
Consensus pattern (20 bp):
TTGATCAGTGATAAGGTATA
Found at i:12030170 original size:21 final size:21
Alignment explanation
Indices: 12030144--12030187 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
12030134 AAGTTGACTA
12030144 GGCGTTGACCAACTATTAATT
1 GGCGTTGACCAACTATTAATT
** *
12030165 GGCGTTGGTCAACTATTGATT
1 GGCGTTGACCAACTATTAATT
12030186 GG
1 GG
12030188 TCAAAAATCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (21 bp):
GGCGTTGACCAACTATTAATT
Found at i:12031861 original size:25 final size:25
Alignment explanation
Indices: 12031827--12031877 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
12031817 GAGTTTAAAG
12031827 GATAGTAAACAACTTTTACTAAGTA
1 GATAGTAAACAACTTTTACTAAGTA
12031852 GATAGTAAACAACTTTTACTAAGTA
1 GATAGTAAACAACTTTTACTAAGTA
12031877 G
1 G
12031878 TTTTTCACGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (25 bp):
GATAGTAAACAACTTTTACTAAGTA
Done.