Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 75 of 210
Found at i:26263143 original size:23 final size:21
Alignment explanation
Indices: 26263116--26263160 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
26263106 TAAAAATTTA
26263116 TAAAATATAAAATTTGAATTTTT
1 TAAAAT-T-AAATTTGAATTTTT
**
26263139 TAAAATTATTTTTGAATTTTT
1 TAAAATTAAATTTGAATTTTT
26263160 T
1 T
26263161 TGTAACTCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 13 0.65
22 1 0.05
23 6 0.30
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (21 bp):
TAAAATTAAATTTGAATTTTT
Found at i:26264360 original size:24 final size:24
Alignment explanation
Indices: 26264332--26264378 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
26264322 ATTGAAATGA
26264332 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
26264356 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
26264379 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:26264376 original size:15 final size:16
Alignment explanation
Indices: 26264356--26264432 Score: 58
Period size: 15 Copynumber: 5.0 Consensus size: 16
26264346 TGATGAATTT
26264356 ATTGAATT-TATATTG
1 ATTGAATTGTATATTG
26264371 ATTGAATTGGTATATAT-
1 ATTGAATT-GTATAT-TG
*
26264388 ATTG-ATTATATATTG
1 ATTGAATTGTATATTG
*
26264403 ATT-ATTTG-A-ATTG
1 ATTGAATTGTATATTG
*
26264416 AATTGAATTGAATATTG
1 -ATTGAATTGTATATTG
26264433 GTTGTATTTG
Statistics
Matches: 49, Mismatches: 4, Indels: 16
0.71 0.06 0.23
Matches are distributed among these distances:
13 4 0.08
14 5 0.10
15 22 0.45
16 4 0.08
17 13 0.27
18 1 0.02
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (16 bp):
ATTGAATTGTATATTG
Found at i:26264406 original size:11 final size:11
Alignment explanation
Indices: 26264383--26264407 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
26264373 TGAATTGGTA
26264383 TATATATTGAT
1 TATATATTGAT
26264394 TATATATTGAT
1 TATATATTGAT
26264405 TAT
1 TAT
26264408 TTGAATTGAA
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:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (11 bp):
TATATATTGAT
Found at i:26266445 original size:63 final size:63
Alignment explanation
Indices: 26266329--26266448 Score: 170
Period size: 63 Copynumber: 1.9 Consensus size: 63
26266319 ATCGTACTCG
* * **
26266329 TCAGTTGCTCATTCTTCCATCAAGATTCAAGACACTATCATTTTCCCGCTGCTTCCTCTATCA
1 TCAGTCGCTCATTCTTCCATCAAGATTCAAGACACTATCAGTCGCCCGCTGCTTCCTCTATCA
* *
26266392 TCAGTCGCTCATTCTTCCATCAAGATTCAAGACACTGTC-GTCGCCTCGTTGCTTCCT
1 TCAGTCGCTCATTCTTCCATCAAGATTCAAGACACTATCAGTCGCC-CGCTGCTTCCT
26266449 TAGTCACTGG
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
62 3 0.06
63 47 0.94
ACGTcount: A:0.20, C:0.33, G:0.12, T:0.35
Consensus pattern (63 bp):
TCAGTCGCTCATTCTTCCATCAAGATTCAAGACACTATCAGTCGCCCGCTGCTTCCTCTATCA
Found at i:26267182 original size:9 final size:9
Alignment explanation
Indices: 26267170--26267257 Score: 68
Period size: 9 Copynumber: 9.4 Consensus size: 9
26267160 AAAATTAGAA
26267170 AAAAATTAT
1 AAAAATTAT
**
26267179 AAAAATCGT
1 AAAAATTAT
26267188 AAAAATATAT
1 AAAAAT-TAT
*
26267198 AAAAATTGT
1 AAAAATTAT
*
26267207 AAAATTTTAT
1 AAAA-ATTAT
**
26267217 AAAAATCGT
1 AAAAATTAT
*
26267226 AAAATTTTAT
1 AAAA-ATTAT
*
26267236 AAAAATCAT
1 AAAAATTAT
*
26267245 AAAAAATAT
1 AAAAATTAT
26267254 AAAA
1 AAAA
26267258 TGCATCAAAG
Statistics
Matches: 59, Mismatches: 17, Indels: 6
0.72 0.21 0.07
Matches are distributed among these distances:
9 39 0.66
10 20 0.34
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:26267191 original size:19 final size:19
Alignment explanation
Indices: 26267169--26267257 Score: 101
Period size: 19 Copynumber: 4.7 Consensus size: 19
26267159 AAAAATTAGA
26267169 AAAAAATTATAAAAATCGT
1 AAAAAATTATAAAAATCGT
*
26267188 -AAAAATATATAAAAATTGT
1 AAAAAAT-TATAAAAATCGT
**
26267207 AAAATTTTATAAAAATCGT
1 AAAAAATTATAAAAATCGT
** *
26267226 AAAATTTTATAAAAATCAT
1 AAAAAATTATAAAAATCGT
26267245 AAAAAA-TATAAAA
1 AAAAAATTATAAAA
26267258 TGCATCAAAG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
18 13 0.21
19 44 0.72
20 4 0.07
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.30
Consensus pattern (19 bp):
AAAAAATTATAAAAATCGT
Found at i:26267248 original size:38 final size:38
Alignment explanation
Indices: 26267175--26267248 Score: 112
Period size: 38 Copynumber: 1.9 Consensus size: 38
26267165 TAGAAAAAAA
**
26267175 TTATAAAAATCGTAAAAATATATAAAAATTGTAAAATT
1 TTATAAAAATCGTAAAAATATATAAAAATCATAAAATT
* *
26267213 TTATAAAAATCGTAAAATTTTATAAAAATCATAAAA
1 TTATAAAAATCGTAAAAATATATAAAAATCATAAAA
26267249 AATATAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.34
Consensus pattern (38 bp):
TTATAAAAATCGTAAAAATATATAAAAATCATAAAATT
Found at i:26267448 original size:19 final size:19
Alignment explanation
Indices: 26267424--26267475 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
26267414 GTACGATAAT
26267424 TTTTATAATTTTTTACGA-A
1 TTTTATAATTTTTTAC-ATA
*
26267443 TTTTAT-ATTTCTTTACATT
1 TTTTATAATTT-TTTACATA
26267462 TTTTATAATTTTTT
1 TTTTATAATTTTTT
26267476 TCGACTTTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
18 5 0.17
19 20 0.69
20 4 0.14
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTTATAATTTTTTACATA
Found at i:26267501 original size:38 final size:37
Alignment explanation
Indices: 26267419--26267503 Score: 93
Period size: 38 Copynumber: 2.3 Consensus size: 37
26267409 TTTTGGTACG
*
26267419 ATAA-TTTTTATAATTTTTTACGAATTTTATATTTCT
1 ATAATTTTTTATAATTTTTTACGAATTTTAAATTTCT
* * *
26267455 TTACATTTTTTATAATTTTTTTCGACTTTGTAAAATTT-T
1 ATA-ATTTTTTATAATTTTTTACGAATTT-T-AAATTTCT
26267494 ATAATTTTTT
1 ATAATTTTTT
26267504 TTCTATATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
36 2 0.05
37 1 0.03
38 28 0.70
39 4 0.10
40 5 0.12
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.62
Consensus pattern (37 bp):
ATAATTTTTTATAATTTTTTACGAATTTTAAATTTCT
Found at i:26268511 original size:16 final size:16
Alignment explanation
Indices: 26268490--26268532 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
26268480 GCTAAATTTT
26268490 ATTTAATTTTCTTGAA
1 ATTTAATTTTCTTGAA
*
26268506 ATTTAACTTTTTCTTGAG
1 ATTTAA--TTTTCTTGAA
*
26268524 AGTTAATTT
1 ATTTAATTT
26268533 CCCATAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 9 0.39
18 14 0.61
ACGTcount: A:0.28, C:0.07, G:0.09, T:0.56
Consensus pattern (16 bp):
ATTTAATTTTCTTGAA
Found at i:26269837 original size:22 final size:22
Alignment explanation
Indices: 26269812--26269856 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
26269802 TTTTTTTTAC
26269812 TGTTTTACT-ACTATTTTCTTGT
1 TGTTTT-CTCACTATTTTCTTGT
*
26269834 TGTTTTCTCACTATTTTGTTGT
1 TGTTTTCTCACTATTTTCTTGT
26269856 T
1 T
26269857 ATTATTTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 2 0.10
22 19 0.90
ACGTcount: A:0.11, C:0.13, G:0.11, T:0.64
Consensus pattern (22 bp):
TGTTTTCTCACTATTTTCTTGT
Found at i:26269900 original size:17 final size:19
Alignment explanation
Indices: 26269867--26269901 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
26269857 ATTATTTGAA
26269867 TATTGTATAACTTTTGTTT
1 TATTGTATAACTTTTGTTT
26269886 TATTGT-TAA-TTTTGTT
1 TATTGTATAACTTTTGTT
26269902 ACTATTTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 3 0.19
19 6 0.38
ACGTcount: A:0.20, C:0.03, G:0.11, T:0.66
Consensus pattern (19 bp):
TATTGTATAACTTTTGTTT
Found at i:26277833 original size:6 final size:6
Alignment explanation
Indices: 26277822--26277861 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
26277812 CTTTCTCAAA
**
26277822 TTCTTT TTCTTT TTCTTT TCTCACT TTCTTT TTCTTT TTC
1 TTCTTT TTCTTT TTCTTT T-TCTTT TTCTTT TTCTTT TTC
26277862 GTGTTCTTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 25 0.86
7 4 0.14
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.75
Consensus pattern (6 bp):
TTCTTT
Found at i:26277841 original size:25 final size:25
Alignment explanation
Indices: 26277813--26277890 Score: 88
Period size: 25 Copynumber: 3.1 Consensus size: 25
26277803 TTCCTTCCAC
26277813 TTTCTCAAATTCTTTTTCTTTTTCT
1 TTTCTCAAATTCTTTTTCTTTTTCT
**
26277838 TTTCTCACTTTCTTTTTCTTTTTCGT
1 TTTCTCAAATTCTTTTTCTTTTTC-T
*
26277864 GTTCTTC-AATCTCTTTTTC-TTTTCT
1 TTTC-TCAAAT-TCTTTTTCTTTTTCT
26277889 TT
1 TT
26277891 CAAGCTCTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
25 24 0.55
26 10 0.23
27 10 0.23
ACGTcount: A:0.08, C:0.22, G:0.03, T:0.68
Consensus pattern (25 bp):
TTTCTCAAATTCTTTTTCTTTTTCT
Found at i:26277888 original size:20 final size:22
Alignment explanation
Indices: 26277854--26277900 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
26277844 ACTTTCTTTT
*
26277854 TCTTTTTCGTGTTC-TTCAATC
1 TCTTTTTCGTGTTCTTTCAAGC
*
26277875 TCTTTTTC-TTTTCTTTCAAGC
1 TCTTTTTCGTGTTCTTTCAAGC
26277896 TCTTT
1 TCTTT
26277901 CTTTCTTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.09, C:0.23, G:0.06, T:0.62
Consensus pattern (22 bp):
TCTTTTTCGTGTTCTTTCAAGC
Found at i:26284645 original size:7 final size:6
Alignment explanation
Indices: 26284588--26284681 Score: 84
Period size: 6 Copynumber: 15.2 Consensus size: 6
26284578 AAAGTCTCAC
* * * * *
26284588 AAATAA AATAAAA AAACTAA CAAT-A AAATAA AAGTAC AACTAA AAATAA
1 AAATAA AA-ATAA AAA-TAA AAATAA AAATAA AAATAA AAATAA AAATAA
26284637 AAATAA AAATAA AAATAA AAATAAA AAACTAA AAACT-A AAATAA A
1 AAATAA AAATAA AAATAA AAAT-AA AAA-TAA AAA-TAA AAATAA A
26284682 TCAGTGATTG
Statistics
Matches: 73, Mismatches: 9, Indels: 12
0.78 0.10 0.13
Matches are distributed among these distances:
5 5 0.07
6 46 0.63
7 21 0.29
8 1 0.01
ACGTcount: A:0.77, C:0.06, G:0.01, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:26286279 original size:21 final size:21
Alignment explanation
Indices: 26286252--26286295 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
26286242 AATTTTTTTC
*
26286252 AATTTTTTAAATAATAAAAATA
1 AATTTTGT-AATAATAAAAATA
26286274 AATTTTGTAATAATAAAAATA
1 AATTTTGTAATAATAAAAATA
26286295 A
1 A
26286296 CATGAAAGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (21 bp):
AATTTTGTAATAATAAAAATA
Found at i:26291251 original size:46 final size:46
Alignment explanation
Indices: 26291194--26291283 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
26291184 TAGATAAAAG
26291194 TTACGTATCACTTAATAAA-AAAACAAATTCAATTTATTTTATTTAA
1 TTACGTATCACTTAATAAATAAAA-AAATTCAATTTATTTTATTTAA
* * * *
26291240 TTACTTATCACTTAATAAATAAAAAATTTTATTTTATTTTATTT
1 TTACGTATCACTTAATAAATAAAAAAATTCAATTTATTTTATTT
26291284 TATTTTAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
46 35 0.90
47 4 0.10
ACGTcount: A:0.42, C:0.09, G:0.01, T:0.48
Consensus pattern (46 bp):
TTACGTATCACTTAATAAATAAAAAAATTCAATTTATTTTATTTAA
Found at i:26291302 original size:5 final size:5
Alignment explanation
Indices: 26291265--26291290 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
26291255 TAAATAAAAA
26291265 ATTTT ATTTT ATTTT ATTTT ATTTT A
1 ATTTT ATTTT ATTTT ATTTT ATTTT A
26291291 ATATTATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
ATTTT
Found at i:26295971 original size:14 final size:14
Alignment explanation
Indices: 26295952--26295980 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
26295942 TTGGTAGTCC
26295952 ACAATGATCTAAAA
1 ACAATGATCTAAAA
26295966 ACAATGATCTAAAA
1 ACAATGATCTAAAA
26295980 A
1 A
26295981 GGGATTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.14, G:0.07, T:0.21
Consensus pattern (14 bp):
ACAATGATCTAAAA
Found at i:26298533 original size:129 final size:127
Alignment explanation
Indices: 26298267--26298533 Score: 365
Period size: 129 Copynumber: 2.1 Consensus size: 127
26298257 TAATCTAAAG
26298267 TAATTTTCTCTTTCTCTCAACCAAAAGAAGCCTTTTTATTCTAATTACAACCCAAAAATTGTGCC
1 TAATTTT-TCTTTCTCTCAACCAAAAGAAGCCTTTTTATTCTAATTACAACCCAAAAATTGTGCC
* * * * *
26298332 CAAAATGGCCTTCAGTGTGTATTTTTTAGTGGTGTTGGAGTTGGACAAGAACTACCTCTACAT
65 CAAAATGCCCCTCAGCGTGTATTTTTTAGTAGTGTTGGAGTTGGACAAGAACTACCTCGACAT
* * * *
26298395 TCAATTTTTTCTTTCTCTCAACCAAAAGAAGGCTTTTTGTTCTGATTACAACCCAAAAATTTTGC
1 T-AA-TTTTTCTTTCTCTCAACCAAAAGAAGCCTTTTTATTCTAATTACAACCCAAAAATTGTGC
* * *
26298460 CCAAAATGCCCCTCAGCGTGTATTTTTTTATTAGTGTTGGAGTTGGACAAGGATTACCTCCGGA-
64 CCAAAATGCCCCTCAGCGTGTA-TTTTTTAGTAGTGTTGGAGTTGGACAAGAACTACCT-C-GAC
26298524 AT
126 AT
26298526 TAATTTTT
1 TAATTTTT
26298534 TTCTCCTCTC
Statistics
Matches: 122, Mismatches: 12, Indels: 9
0.85 0.08 0.06
Matches are distributed among these distances:
128 1 0.01
129 78 0.64
130 38 0.31
131 4 0.03
132 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (127 bp):
TAATTTTTCTTTCTCTCAACCAAAAGAAGCCTTTTTATTCTAATTACAACCCAAAAATTGTGCCC
AAAATGCCCCTCAGCGTGTATTTTTTAGTAGTGTTGGAGTTGGACAAGAACTACCTCGACAT
Found at i:26310138 original size:14 final size:14
Alignment explanation
Indices: 26310121--26310162 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
26310111 TTATGTAATT
26310121 TATATAAAATTAAA
1 TATATAAAATTAAA
*
26310135 TATATAATATTATAA
1 TATATAAAATTA-AA
*
26310150 TATA-AACATTAAA
1 TATATAAAATTAAA
26310163 AAGACACATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 2 0.08
14 17 0.68
15 6 0.24
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (14 bp):
TATATAAAATTAAA
Found at i:26312833 original size:26 final size:26
Alignment explanation
Indices: 26312797--26312848 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
26312787 TGAACACTTA
26312797 TTAAGAATGACTTTTGCTACTGAGTT
1 TTAAGAATGACTTTTGCTACTGAGTT
26312823 TTAAGAATGACTTTTGCTACTGAGTT
1 TTAAGAATGACTTTTGCTACTGAGTT
26312849 GATCAATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.42
Consensus pattern (26 bp):
TTAAGAATGACTTTTGCTACTGAGTT
Found at i:26314173 original size:2 final size:2
Alignment explanation
Indices: 26314166--26314190 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
26314156 CATTTACACC
26314166 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
26314191 CCCCCCTCGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:26325956 original size:13 final size:13
Alignment explanation
Indices: 26325938--26325963 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
26325928 GGAAATCAAA
26325938 GGAATCAAAATTG
1 GGAATCAAAATTG
26325951 GGAATCAAAATTG
1 GGAATCAAAATTG
26325964 AATGAGAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.23, T:0.23
Consensus pattern (13 bp):
GGAATCAAAATTG
Found at i:26326493 original size:13 final size:11
Alignment explanation
Indices: 26326465--26326507 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
26326455 AGTTAAAAAT
26326465 TATTTTATTAA
1 TATTTTATTAA
26326476 TATTTTACTTAGA
1 TATTTTA-TTA-A
*
26326489 TA-TTTATTAT
1 TATTTTATTAA
26326499 TATTTTATT
1 TATTTTATT
26326508 TAGAAAATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 2 0.07
11 16 0.57
12 7 0.25
13 3 0.11
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:26326494 original size:23 final size:23
Alignment explanation
Indices: 26326468--26326511 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
26326458 TAAAAATTAT
26326468 TTTATTAATATTTTACTTAGATA
1 TTTATTAATATTTTACTTAGATA
* *
26326491 TTTATTATTATTTTATTTAGA
1 TTTATTAATATTTTACTTAGA
26326512 AAATGGTAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (23 bp):
TTTATTAATATTTTACTTAGATA
Found at i:26333896 original size:18 final size:18
Alignment explanation
Indices: 26333859--26333896 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
26333849 TAAATTATGA
26333859 ATTTAAAATATTAGTTGTT
1 ATTTAAAATATTA-TTGTT
26333878 ATTTAAAAGTATT-TTGTT
1 ATTTAAAA-TATTATTGTT
26333896 A
1 A
26333897 AGTGATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 8 0.44
20 4 0.22
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.53
Consensus pattern (18 bp):
ATTTAAAATATTATTGTT
Found at i:26334425 original size:29 final size:29
Alignment explanation
Indices: 26334383--26334510 Score: 193
Period size: 29 Copynumber: 4.4 Consensus size: 29
26334373 TCATCAACCA
* *
26334383 ATGAAAAGGGATAGCTTTGTCTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGATT
* * *
26334412 ATGAAAAGGGATAGCTCCGGCTATTGAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGATT
*
26334441 ATGAAAAGGGATAGCTTCGGCTATAGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGATT
*
26334470 ATGAAAAGGGATAGCTTTGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGATT
26334499 ATGAAAAGGGAT
1 ATGAAAAGGGAT
26334511 GGTGACGACC
Statistics
Matches: 89, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 89 1.00
ACGTcount: A:0.34, C:0.10, G:0.27, T:0.28
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCGGCTATCGATT
Found at i:26334555 original size:59 final size:59
Alignment explanation
Indices: 26334470--26334582 Score: 147
Period size: 59 Copynumber: 1.9 Consensus size: 59
26334460 GCTATAGATT
* * * *
26334470 ATGAAAAGGGATAGCTTTGGCTATCGATTATGAAAAGGGATGGTGACGACCATCAACTA
1 ATGAAAAGGGATAGCTTTGACCATCGAATATGAAAAGGGACGGTGACGACCATCAACTA
* * *
26334529 ATGAAAAGGGAT-GGTTTCGACCATCGAATATGAAAAGGGACGGTTATGACCATC
1 ATGAAAAGGGATAGCTTT-GACCATCGAATATGAAAAGGGACGGTGACGACCATC
26334583 GTTTAGCACA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
58 4 0.09
59 42 0.91
ACGTcount: A:0.35, C:0.14, G:0.27, T:0.23
Consensus pattern (59 bp):
ATGAAAAGGGATAGCTTTGACCATCGAATATGAAAAGGGACGGTGACGACCATCAACTA
Found at i:26334573 original size:29 final size:29
Alignment explanation
Indices: 26334383--26334583 Score: 122
Period size: 29 Copynumber: 6.9 Consensus size: 29
26334373 TCATCAACCA
* * * *
26334383 ATGAAAAGGGATAGCTTT-GTCTATCGATT
1 ATGAAAAGGGAT-GGTTTCGACCATCGAAT
* * * * * *
26334412 ATGAAAAGGGATAGCTCCGGCTATTGAAT
1 ATGAAAAGGGATGGTTTCGACCATCGAAT
* * * * * *
26334441 ATGAAAAGGGATAGCTTCGGCTATAGATT
1 ATGAAAAGGGATGGTTTCGACCATCGAAT
* * * *
26334470 ATGAAAAGGGATAGCTTT-GGCTATCGATT
1 ATGAAAAGGGAT-GGTTTCGACCATCGAAT
**
26334499 ATGAAAAGGGATGGTGACGACCATC-AACT
1 ATGAAAAGGGATGGTTTCGACCATCGAA-T
26334528 AATGAAAAGGGATGGTTTCGACCATCGAAT
1 -ATGAAAAGGGATGGTTTCGACCATCGAAT
*
26334558 ATGAAAAGGGACGGTTAT-GACCATCG
1 ATGAAAAGGGATGGTT-TCGACCATCG
26334584 TTTAGCACAC
Statistics
Matches: 142, Mismatches: 23, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
28 4 0.03
29 109 0.77
30 27 0.19
31 2 0.01
ACGTcount: A:0.34, C:0.13, G:0.27, T:0.25
Consensus pattern (29 bp):
ATGAAAAGGGATGGTTTCGACCATCGAAT
Found at i:26335876 original size:33 final size:33
Alignment explanation
Indices: 26335832--26335908 Score: 136
Period size: 33 Copynumber: 2.3 Consensus size: 33
26335822 TGATTCCTTG
*
26335832 ATGGTTAGTGTGCTTTTGGCACTTTAATGCTTA
1 ATGGTTGGTGTGCTTTTGGCACTTTAATGCTTA
*
26335865 ATGGTTGGTGTGCTTTTGGCACTTTGATGCTTA
1 ATGGTTGGTGTGCTTTTGGCACTTTAATGCTTA
26335898 ATGGTTGGTGT
1 ATGGTTGGTGT
26335909 TATAAGATCA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.14, C:0.10, G:0.30, T:0.45
Consensus pattern (33 bp):
ATGGTTGGTGTGCTTTTGGCACTTTAATGCTTA
Found at i:26341907 original size:45 final size:45
Alignment explanation
Indices: 26341834--26341959 Score: 112
Period size: 45 Copynumber: 2.8 Consensus size: 45
26341824 CCTATTTACA
* * ** * *
26341834 ATGATACCATTGTGTCTTTCAACCATGGTCTTACTCACTTTT-TTC
1 ATGATTCCATAGTGTCTTTCGGCTATGGTCTTACTCA-TTTTCATC
* *
26341879 ATGATTCCATAGTGTCTTTCGGCTATGGTCTTAGTTATTTTCATC
1 ATGATTCCATAGTGTCTTTCGGCTATGGTCTTACTCATTTTCATC
** * *
26341924 ATG-TTACCATAACGTTTTTAGGCTATGGTCTTACTC
1 ATGATT-CCATAGTGTCTTTCGGCTATGGTCTTACTC
26341960 GTTTCCGTCA
Statistics
Matches: 65, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
44 6 0.09
45 59 0.91
ACGTcount: A:0.20, C:0.21, G:0.15, T:0.44
Consensus pattern (45 bp):
ATGATTCCATAGTGTCTTTCGGCTATGGTCTTACTCATTTTCATC
Found at i:26346013 original size:16 final size:16
Alignment explanation
Indices: 26345989--26346019 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26345979 TGGCTAATTA
*
26345989 AAAATTTATAACGATT
1 AAAACTTATAACGATT
26346005 AAAACTTATAACGAT
1 AAAACTTATAACGAT
26346020 ATATTTGAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.10, G:0.06, T:0.32
Consensus pattern (16 bp):
AAAACTTATAACGATT
Found at i:26364003 original size:3 final size:3
Alignment explanation
Indices: 26363995--26364025 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
26363985 CAGCTAGACT
*
26363995 CTA CTA CTA GTA CTA CTA CTA CTA CTA CTA C
1 CTA CTA CTA CTA CTA CTA CTA CTA CTA CTA C
26364026 ACCACATTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.32, C:0.32, G:0.03, T:0.32
Consensus pattern (3 bp):
CTA
Found at i:26365760 original size:18 final size:18
Alignment explanation
Indices: 26365739--26365780 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
26365729 TTTTTTATTA
26365739 ATTTATATATTTTTAAAT
1 ATTTATATATTTTTAAAT
* * *
26365757 ATTTTTTTATTTTTAATT
1 ATTTATATATTTTTAAAT
26365775 ATTTAT
1 ATTTAT
26365781 GTTTGTCATG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
ATTTATATATTTTTAAAT
Found at i:26373841 original size:22 final size:22
Alignment explanation
Indices: 26373799--26373843 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
26373789 TATTTAACCC
*
26373799 AAATTAAATTGTATTTAAATTA
1 AAATTAAATTATATTTAAATTA
*
26373821 AAATT-AATTATATTATGAATTA
1 AAATTAAATTATATT-TAAATTA
26373843 A
1 A
26373844 TACACATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.44
Consensus pattern (22 bp):
AAATTAAATTATATTTAAATTA
Found at i:26373990 original size:21 final size:22
Alignment explanation
Indices: 26373966--26374006 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
26373956 GTGTAAATCT
26373966 ATATAAAA-TAATCAAAATTTG
1 ATATAAAATTAATCAAAATTTG
*
26373987 ATATAAAATTAATTAAAATT
1 ATATAAAATTAATCAAAATT
26374007 CAACATGTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (22 bp):
ATATAAAATTAATCAAAATTTG
Found at i:26386700 original size:9 final size:9
Alignment explanation
Indices: 26386686--26386736 Score: 65
Period size: 9 Copynumber: 6.1 Consensus size: 9
26386676 TTTTGTTACA
26386686 ACAATTAAT
1 ACAATTAAT
26386695 ACAATTAAT
1 ACAATTAAT
*
26386704 TCAATT-A-
1 ACAATTAAT
26386711 ACAATTAAT
1 ACAATTAAT
26386720 ACAATT-A-
1 ACAATTAAT
26386727 ACAATTAAT
1 ACAATTAAT
26386736 A
1 A
26386737 ATTTGATAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
7 11 0.31
8 4 0.11
9 21 0.58
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (9 bp):
ACAATTAAT
Found at i:26386716 original size:16 final size:16
Alignment explanation
Indices: 26386695--26386736 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
26386685 AACAATTAAT
*
26386695 ACAATTAATTCAATTA
1 ACAATTAATACAATTA
26386711 ACAATTAATACAATTA
1 ACAATTAATACAATTA
26386727 ACAATTAATA
1 ACAATTAATA
26386737 ATTTGATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (16 bp):
ACAATTAATACAATTA
Found at i:26386719 original size:25 final size:23
Alignment explanation
Indices: 26386685--26386739 Score: 83
Period size: 25 Copynumber: 2.3 Consensus size: 23
26386675 ATTTTGTTAC
26386685 AACAATTAATACAATTAATTCAATT
1 AACAATTAATACAATTAA--CAATT
26386710 AACAATTAATACAATTAACAATT
1 AACAATTAATACAATTAACAATT
*
26386733 AATAATT
1 AACAATT
26386740 TGATAATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 11 0.38
25 18 0.62
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.35
Consensus pattern (23 bp):
AACAATTAATACAATTAACAATT
Found at i:26386764 original size:16 final size:16
Alignment explanation
Indices: 26386743--26386784 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
26386733 AATAATTTGA
*
26386743 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
*
26386759 TAATTTTAATAATAAT
1 TAATTTTAATAACAAT
*
26386775 TAGTTTTAAT
1 TAATTTTAAT
26386785 TTTATTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:26386768 original size:22 final size:23
Alignment explanation
Indices: 26386758--26386819 Score: 81
Period size: 22 Copynumber: 2.7 Consensus size: 23
26386748 TTACTAACAA
* *
26386758 TTAATTTTAATAATAAT-TAGTT
1 TTAATTTTAATAAAAATATAATT
*
26386780 TTAATTTTATTAAAAATATAATT
1 TTAATTTTAATAAAAATATAATT
26386803 TTAATTTTAATTAAAAA
1 TTAATTTTAA-TAAAAA
26386820 CGGGCCGGGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 15 0.44
23 13 0.38
24 6 0.18
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TTAATTTTAATAAAAATATAATT
Found at i:26394904 original size:21 final size:21
Alignment explanation
Indices: 26394880--26394922 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
26394870 TAACAATAAT
26394880 TCTATAAAAT-TAAAAAATATA
1 TCTA-AAAATATAAAAAATATA
26394901 TCTAAAAATATAAAAAATATA
1 TCTAAAAATATAAAAAATATA
26394922 T
1 T
26394923 ATCTTTAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (21 bp):
TCTAAAAATATAAAAAATATA
Found at i:26397616 original size:3 final size:3
Alignment explanation
Indices: 26397608--26397632 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
26397598 CAAGCTCAAG
26397608 CTC CTC CTC CTC CTC CTC CTC CTC C
1 CTC CTC CTC CTC CTC CTC CTC CTC C
26397633 ACCGGTTCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.68, G:0.00, T:0.32
Consensus pattern (3 bp):
CTC
Found at i:26416318 original size:25 final size:24
Alignment explanation
Indices: 26416269--26416325 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
26416259 TGTAATGATA
* *
26416269 TTAAATTTTTTTTTAATTTGGTAT
1 TTAAATTTTTTTCTAATTTAGTAT
*
26416293 TTAAATTTTTTATCTAATTTATTAT
1 TTAAATTTTTT-TCTAATTTAGTAT
*
26416318 TAAAATTT
1 TTAAATTT
26416326 AATATTTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 11 0.39
25 17 0.61
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.63
Consensus pattern (24 bp):
TTAAATTTTTTTCTAATTTAGTAT
Found at i:26416987 original size:5 final size:5
Alignment explanation
Indices: 26416979--26417005 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
26416969 ATAATTATTT
26416979 TTATA TTATA TTATA TTATA TTATA TT
1 TTATA TTATA TTATA TTATA TTATA TT
26417006 GATTGGTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
TTATA
Found at i:26420020 original size:41 final size:41
Alignment explanation
Indices: 26419963--26420115 Score: 193
Period size: 41 Copynumber: 3.7 Consensus size: 41
26419953 ATGTTTTTGC
26419963 GGCGCTTTTTCAAAAACGCCGCTAAAAGCCTGAGCATTAAA
1 GGCGCTTTTTCAAAAACGCCGCTAAAAGCCTGAGCATTAAA
**
26420004 GGCGCTTTTTCAAAAACGCCGCTAAAAGCCTGAGCATTAGC
1 GGCGCTTTTTCAAAAACGCCGCTAAAAGCCTGAGCATTAAA
* * ** *
26420045 GGCGCTTTCTCTAAAACGCCGCT-AAAGCTCCAAGCATTAGCA
1 GGCGCTTTTTCAAAAACGCCGCTAAAAGC-CTGAGCATTA-AA
* *
26420087 -GCGCTTTTTAAAAAATGCCGCTAAAAGCC
1 GGCGCTTTTTCAAAAACGCCGCTAAAAGCC
26420116 CCGAAAGGTC
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
40 5 0.05
41 87 0.90
42 5 0.05
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (41 bp):
GGCGCTTTTTCAAAAACGCCGCTAAAAGCCTGAGCATTAAA
Found at i:26420101 original size:82 final size:82
Alignment explanation
Indices: 26419961--26420115 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 82
26419951 AAATGTTTTT
* ** *
26419961 GCGGCGCTTTTTCAAAAACGCCGCTAAAAGCCTGAGCATTAAAGGCGCTTTTTCAAAAACGCCGC
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAAGCCCAAGCATTAAAGGCGCTTTTTAAAAAACGCCGC
26420026 TAAAAGCCTGAGCATTA
66 TAAAAGCCTGAGCATTA
* * *
26420043 GCGGCGCTTTCTCTAAAACGCCGCT-AAAGCTCCAAGCATTAGCA-GCGCTTTTTAAAAAATGCC
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAAGC-CCAAGCATTA-AAGGCGCTTTTTAAAAAACGCC
26420106 GCTAAAAGCC
64 GCTAAAAGCC
26420116 CCGAAAGGTC
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
81 5 0.08
82 58 0.91
83 1 0.02
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (82 bp):
GCGGCGCTTTCTCAAAAACGCCGCTAAAAGCCCAAGCATTAAAGGCGCTTTTTAAAAAACGCCGC
TAAAAGCCTGAGCATTA
Found at i:26420254 original size:40 final size:40
Alignment explanation
Indices: 26420210--26420285 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
26420200 CGTTTTCCTG
* *
26420210 AAAGCGCCGCTAATGCTCGGTCTTTAGCGGCGTTTTATTT
1 AAAGCACCGCTAATGCTCGATCTTTAGCGGCGTTTTATTT
* *
26420250 AAAGCACCGCTAATGCTTGATTTTTAGCGGCGTTTT
1 AAAGCACCGCTAATGCTCGATCTTTAGCGGCGTTTT
26420286 TTGTCCAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.20, C:0.21, G:0.24, T:0.36
Consensus pattern (40 bp):
AAAGCACCGCTAATGCTCGATCTTTAGCGGCGTTTTATTT
Found at i:26421234 original size:11 final size:11
Alignment explanation
Indices: 26421218--26421244 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
26421208 TTTTTGGGAA
26421218 AAAATTAAAAT
1 AAAATTAAAAT
26421229 AAAATTAAAAT
1 AAAATTAAAAT
26421240 AAAAT
1 AAAAT
26421245 AATATTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (11 bp):
AAAATTAAAAT
Found at i:26421244 original size:16 final size:17
Alignment explanation
Indices: 26421218--26421251 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
26421208 TTTTTGGGAA
26421218 AAAATTAAAATAAAATT
1 AAAATTAAAATAAAATT
*
26421235 AAAA-TAAAATAATATT
1 AAAATTAAAATAAAATT
26421251 A
1 A
26421252 TTTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAATTAAAATAAAATT
Found at i:26421259 original size:19 final size:19
Alignment explanation
Indices: 26421237--26421275 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
26421227 ATAAAATTAA
* *
26421237 AATAAAATAATATTATTTT
1 AATAAAATAACACTATTTT
*
26421256 AATAATATAACACTATTTT
1 AATAAAATAACACTATTTT
26421275 A
1 A
26421276 CTTTAAAACA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (19 bp):
AATAAAATAACACTATTTT
Found at i:26427024 original size:37 final size:37
Alignment explanation
Indices: 26426972--26427106 Score: 112
Period size: 37 Copynumber: 3.5 Consensus size: 37
26426962 TTATGAAGAA
26426972 ATATTT-AATAAATAAAATGACATGCTAAAAATAAAT
1 ATATTTAAATAAATAAAATGACATGCTAAAAATAAAT
* * * *
26427008 ATATTTAAATAGATAAACAAAT-AAATACAAACATAACTAATAT
1 ATATTTAAATA-A-ATA-AAATGACATGCTAA-A-AA-TAA-AT
* *
26427051 AATAATAATAATAAATAAAATGACATGCTAAAAATAAAT
1 -ATATTTA-AATAAATAAAATGACATGCTAAAAATAAAT
*
26427090 ATATTTAAATAGATAAA
1 ATATTTAAATAAATAAA
26427107 CAAATAAATA
Statistics
Matches: 75, Mismatches: 13, Indels: 21
0.69 0.12 0.19
Matches are distributed among these distances:
36 6 0.08
37 13 0.17
38 6 0.08
39 10 0.13
40 8 0.11
41 4 0.05
42 8 0.11
43 10 0.13
44 6 0.08
45 4 0.05
ACGTcount: A:0.61, C:0.06, G:0.04, T:0.29
Consensus pattern (37 bp):
ATATTTAAATAAATAAAATGACATGCTAAAAATAAAT
Found at i:26427063 original size:82 final size:82
Alignment explanation
Indices: 26426977--26427151 Score: 323
Period size: 82 Copynumber: 2.1 Consensus size: 82
26426967 AAGAAATATT
*
26426977 TAATAAATAAAATGACATGCTAAAAATAAATATATTTAAATAGATAAACAAATAAATACAAACAT
1 TAATAAATAAAATGACATGCTAAAAATAAATATATTTAAATAGATAAACAAATAAATACAAAAAT
26427042 AACTAATATAATAATAA
66 AACTAATATAATAATAA
26427059 TAATAAATAAAATGACATGCTAAAAATAAATATATTTAAATAGATAAACAAATAAATACAAAAAT
1 TAATAAATAAAATGACATGCTAAAAATAAATATATTTAAATAGATAAACAAATAAATACAAAAAT
26427124 AACTAATATAATAATAA
66 AACTAATATAATAATAA
* *
26427141 TCATAAGTAAA
1 TAATAAATAAA
26427152 TAAACAATAT
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
82 90 1.00
ACGTcount: A:0.62, C:0.07, G:0.04, T:0.27
Consensus pattern (82 bp):
TAATAAATAAAATGACATGCTAAAAATAAATATATTTAAATAGATAAACAAATAAATACAAAAAT
AACTAATATAATAATAA
Found at i:26427153 original size:41 final size:39
Alignment explanation
Indices: 26427026--26427155 Score: 104
Period size: 39 Copynumber: 3.2 Consensus size: 39
26427016 ATAGATAAAC
*
26427026 AAATAAATACAAACATAACTAATATAATAATAATAATAAAT
1 AAATAAATACAAAAATAACTAATATAATAATAAT-AT-AAT
* * * * *
26427067 AAAATGACATGCTAAAAATAAAT-ATAT-TTAAATAGATA-AAC
1 -AAAT-AAATAC-AAAAATAACTAATATAAT-AATA-ATATAAT
26427108 AAATAAATACAAAAATAACTAATATAATAATAATCATAAGT
1 AAATAAATACAAAAATAACTAATATAATAATAAT-ATAA-T
26427149 AAATAAA
1 AAATAAA
26427156 CAATATATAT
Statistics
Matches: 68, Mismatches: 11, Indels: 19
0.69 0.11 0.19
Matches are distributed among these distances:
38 11 0.16
39 13 0.19
40 7 0.10
41 9 0.13
42 5 0.07
43 13 0.19
44 10 0.15
ACGTcount: A:0.64, C:0.07, G:0.03, T:0.26
Consensus pattern (39 bp):
AAATAAATACAAAAATAACTAATATAATAATAATATAAT
Found at i:26430888 original size:13 final size:13
Alignment explanation
Indices: 26430858--26430901 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
26430848 TAATTTTTTA
26430858 ATAA-TATATTAA-
1 ATAATTATA-TAAT
*
26430870 ATAATTGTATAAT
1 ATAATTATATAAT
26430883 ATAATTATATAAT
1 ATAATTATATAAT
26430896 ATAATT
1 ATAATT
26430902 TCAATACTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 7 0.25
13 21 0.75
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (13 bp):
ATAATTATATAAT
Found at i:26434173 original size:31 final size:30
Alignment explanation
Indices: 26434138--26434206 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 30
26434128 AAAATTAATA
26434138 ATTATAAAAATTAATAAACATCATTAAAAAT
1 ATTATAAAAATTAATAAACAT-ATTAAAAAT
* * * *
26434169 ATTATAAAGATTCATAAATATATTAATAAT
1 ATTATAAAAATTAATAAACATATTAAAAAT
26434199 -TTATAAAA
1 ATTATAAAA
26434207 TAAAAAATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
29 7 0.21
30 8 0.24
31 18 0.55
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.36
Consensus pattern (30 bp):
ATTATAAAAATTAATAAACATATTAAAAAT
Found at i:26434197 original size:22 final size:22
Alignment explanation
Indices: 26434138--26434197 Score: 63
Period size: 21 Copynumber: 2.8 Consensus size: 22
26434128 AAAATTAATA
26434138 ATTATAAAA-ATTAATAAACATC
1 ATTA-AAAATATTAATAAACATC
*
26434160 ATTAAAAATATT-ATAAAGATTC
1 ATTAAAAATATTAATAAACA-TC
*
26434182 A-TAAATATATTAATAA
1 ATTAAAAATATTAATAA
26434198 TTTATAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 19 0.58
22 14 0.42
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (22 bp):
ATTAAAAATATTAATAAACATC
Found at i:26435120 original size:24 final size:24
Alignment explanation
Indices: 26435089--26435137 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
26435079 AGTTAATTTT
26435089 TATCCCACATTGAGTAGAAAATTC
1 TATCCCACATTGAGTAGAAAATTC
26435113 TATCCCACATTGAGTAGAAAATTC
1 TATCCCACATTGAGTAGAAAATTC
26435137 T
1 T
26435138 CTTATAACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.31
Consensus pattern (24 bp):
TATCCCACATTGAGTAGAAAATTC
Found at i:26435323 original size:94 final size:95
Alignment explanation
Indices: 26435218--26435390 Score: 235
Period size: 95 Copynumber: 1.8 Consensus size: 95
26435208 TCCCACGGTG
* *
26435218 AGAGAACACTCTCATACT-T-ACGCTTACCTTATAAATCAGTG-TAAATTTCTTCATTATTTTCA
1 AGAGAACACTCTCATA-TATCACACTTACCTTATAAATAAGTGAT-AATTTCTTCATTATTTTCA
*
26435280 TTAAATAGTTAATTTTTAATTACACGTTGACT
64 TTAAAAAGTTAATTTTTAATTACACGTTGACT
* * * *
26435312 AGAGAGCACTCTCATATATCACATTTACTTTATAAATAAGTGATAATTTCTTCATTATTTTTATT
1 AGAGAACACTCTCATATATCACACTTACCTTATAAATAAGTGATAATTTCTTCATTATTTTCATT
*
26435377 AAAAAGTTCATTTT
66 AAAAAGTTAATTTT
26435391 AATCTCACAT
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
93 1 0.01
94 16 0.24
95 50 0.74
96 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.08, T:0.43
Consensus pattern (95 bp):
AGAGAACACTCTCATATATCACACTTACCTTATAAATAAGTGATAATTTCTTCATTATTTTCATT
AAAAAGTTAATTTTTAATTACACGTTGACT
Found at i:26441515 original size:101 final size:102
Alignment explanation
Indices: 26441365--26441569 Score: 403
Period size: 101 Copynumber: 2.0 Consensus size: 102
26441355 AATAGTTTAT
26441365 TAAATTGACATCTTTAATTTCACTCATTGAAGATTATTTTCATTTAATAAAATATAATTAATTAA
1 TAAATTGACATCTTTAATTTCACTCATTGAAGATTATTTTCATTTAATAAAATATAATTAATTAA
26441430 TTTTTTCATGTGAAAACTAAACATTTTATTGAAATAA
66 TTTTTTCATGTGAAAACTAAACATTTTATTGAAATAA
26441467 TAAATTGACA-CTTTAATTTCACTCATTGAAGATTATTTTCATTTAATAAAATATAATTAATTAA
1 TAAATTGACATCTTTAATTTCACTCATTGAAGATTATTTTCATTTAATAAAATATAATTAATTAA
26441531 TTTTTTCATGTGAAAACTAAACATTTTATTGAAATAA
66 TTTTTTCATGTGAAAACTAAACATTTTATTGAAATAA
26441568 TA
1 TA
26441570 TTTTAATTAA
Statistics
Matches: 103, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
101 93 0.90
102 10 0.10
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (102 bp):
TAAATTGACATCTTTAATTTCACTCATTGAAGATTATTTTCATTTAATAAAATATAATTAATTAA
TTTTTTCATGTGAAAACTAAACATTTTATTGAAATAA
Found at i:26442474 original size:19 final size:19
Alignment explanation
Indices: 26442452--26442490 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
26442442 TTATACCAAC
26442452 TTTTTAATTTA-ATACATTA
1 TTTTTAATTTATATA-ATTA
*
26442471 TTTTTATTTTATATAATTA
1 TTTTTAATTTATATAATTA
26442490 T
1 T
26442491 ATCCATATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTTAATTTATATAATTA
Found at i:26442832 original size:21 final size:22
Alignment explanation
Indices: 26442808--26442862 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
26442798 CCATTTTTTT
*
26442808 TAATTTTTATGAACTTTTT-AA
1 TAATTTTTATAAACTTTTTGAA
26442829 TAATTTATT-TAAACTTTTTGAA
1 TAATTT-TTATAAACTTTTTGAA
26442851 T-ATTTTTATAAA
1 TAATTTTTATAAA
26442863 ATTTAAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
20 2 0.07
21 23 0.77
22 5 0.17
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (22 bp):
TAATTTTTATAAACTTTTTGAA
Found at i:26448089 original size:99 final size:99
Alignment explanation
Indices: 26447768--26448074 Score: 587
Period size: 99 Copynumber: 3.1 Consensus size: 99
26447758 GGATTTTGCA
* *
26447768 GGTTAGGGTTTATGGGAAGAGGTGGCGGAGGACCCATCGTGGTTTTGGCTGTTATGAGTTCGGAT
1 GGTTAGGGTTTATGGGAAGAGGTGGCGGAGGACCCATCGTGGTTTTGGCTGTTCTGGGTTCGGAT
*
26447833 TCTTCTGGGGCTATCGACTCGGGTTCGGTCGAGG
66 TCTTCTTGGGCTATCGACTCGGGTTCGGTCGAGG
26447867 GGTTAGGGTTTATGGGAAGAGGTGGCGGAGGACCCATCGTGGTTTTGGCTGTTCTGGGTTCGGAT
1 GGTTAGGGTTTATGGGAAGAGGTGGCGGAGGACCCATCGTGGTTTTGGCTGTTCTGGGTTCGGAT
26447932 TCTTCTTGGGCTATCGACTCGGGTTCGGTCGAGG
66 TCTTCTTGGGCTATCGACTCGGGTTCGGTCGAGG
26447966 GGTTAGGGTTTATGGGAAGAGGTGGCGGAGGACCCATCGTGGTTTTGGCTGTTCTGGGTTCGGAT
1 GGTTAGGGTTTATGGGAAGAGGTGGCGGAGGACCCATCGTGGTTTTGGCTGTTCTGGGTTCGGAT
26448031 TCTTCTTGGGCTATCGACTCGGGTTCGGTCGAGG
66 TCTTCTTGGGCTATCGACTCGGGTTCGGTCGAGG
26448065 GGTTAGGGTT
1 GGTTAGGGTT
26448075 CCTGGGAGGC
Statistics
Matches: 205, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
99 205 1.00
ACGTcount: A:0.13, C:0.15, G:0.41, T:0.31
Consensus pattern (99 bp):
GGTTAGGGTTTATGGGAAGAGGTGGCGGAGGACCCATCGTGGTTTTGGCTGTTCTGGGTTCGGAT
TCTTCTTGGGCTATCGACTCGGGTTCGGTCGAGG
Found at i:26449371 original size:15 final size:16
Alignment explanation
Indices: 26449340--26449372 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
26449330 TCCCTAGGAT
*
26449340 TTTTTGGGTTTAGGTG
1 TTTTAGGGTTTAGGTG
26449356 TTTTAGGGTTTA-GTG
1 TTTTAGGGTTTAGGTG
26449371 TT
1 TT
26449373 AGGGTTTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.09, C:0.00, G:0.33, T:0.58
Consensus pattern (16 bp):
TTTTAGGGTTTAGGTG
Found at i:26449446 original size:33 final size:33
Alignment explanation
Indices: 26449357--26449466 Score: 122
Period size: 33 Copynumber: 3.4 Consensus size: 33
26449347 GTTTAGGTGT
* * *
26449357 TTTAGGGTTTAGTGTTAGGGTTTTGTTAAAATAA
1 TTTA-GGTTTAGGGTTAAGATTTTGTTAAAATAA
* *
26449391 TTTATGG-TT----TTAGGATTTTGTTAAAATAG
1 TTTA-GGTTTAGGGTTAAGATTTTGTTAAAATAA
26449420 TTTAGGTTTAGGGTTAAGATTTTGTTAAAATAA
1 TTTAGGTTTAGGGTTAAGATTTTGTTAAAATAA
26449453 TTTAGGTTTAGGGT
1 TTTAGGTTTAGGGT
26449467 GTATGGTTTA
Statistics
Matches: 66, Mismatches: 5, Indels: 11
0.80 0.06 0.13
Matches are distributed among these distances:
28 2 0.03
29 24 0.36
33 34 0.52
34 6 0.09
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (33 bp):
TTTAGGTTTAGGGTTAAGATTTTGTTAAAATAA
Found at i:26449610 original size:34 final size:33
Alignment explanation
Indices: 26449491--26449616 Score: 162
Period size: 34 Copynumber: 3.7 Consensus size: 33
26449481 TTCTAAAAAA
26449491 TAAATTAGGGTTTAGAGTTTTTTTAAAAAAATTAAT
1 TAAATTAGGGTTTAGAG--TTTTT-AAAAAATTAAT
* * * *
26449527 TAAATTAGGCTTTAGGGGTTTTTAATAAATTATT
1 TAAATTAGGGTTTA-GAGTTTTTAAAAAATTAAT
26449561 TAAATTAGGGTTTAGAGTTTTTAAGAAAATTAAT
1 TAAATTAGGGTTTAGAGTTTTTAA-AAAATTAAT
*
26449595 TAAATTAGGGTTTAGATTTTTT
1 TAAATTAGGGTTTAGAGTTTTT
26449617 TTTTAAAAAT
Statistics
Matches: 79, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
33 9 0.11
34 50 0.63
35 5 0.06
36 13 0.16
37 2 0.03
ACGTcount: A:0.37, C:0.01, G:0.17, T:0.46
Consensus pattern (33 bp):
TAAATTAGGGTTTAGAGTTTTTAAAAAATTAAT
Found at i:26451644 original size:20 final size:20
Alignment explanation
Indices: 26451600--26451647 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 20
26451590 GTTTTATTAA
26451600 AAAATCACATTTTTTACATTT
1 AAAAT-ACATTTTTTACATTT
26451621 --AATACATTTTTTA-ATTT
1 AAAATACATTTTTTACATTT
26451638 CAAAATACAT
1 -AAAATACAT
26451648 GGTGATAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
17 4 0.17
18 10 0.42
19 3 0.12
20 7 0.29
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.46
Consensus pattern (20 bp):
AAAATACATTTTTTACATTT
Found at i:26459288 original size:14 final size:13
Alignment explanation
Indices: 26459263--26459292 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
26459253 TTAAGTCATG
26459263 ATTAAGTTAATTA
1 ATTAAGTTAATTA
26459276 ATTAAGATTAATTA
1 ATTAAG-TTAATTA
26459290 ATT
1 ATT
26459293 CCTAATCAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (13 bp):
ATTAAGTTAATTA
Found at i:26461033 original size:26 final size:26
Alignment explanation
Indices: 26460998--26461055 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 26
26460988 CCCAACAAAT
*
26460998 TTTGATGATTTTA-CCCTAAGTAAAAG
1 TTTGACGATTTTACCCCT-AGTAAAAG
*
26461024 TTTGACGATTTTACCCCTAGTAAAAT
1 TTTGACGATTTTACCCCTAGTAAAAG
26461050 TTTGAC
1 TTTGAC
26461056 AAAATCTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 25 0.86
27 4 0.14
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.40
Consensus pattern (26 bp):
TTTGACGATTTTACCCCTAGTAAAAG
Found at i:26464979 original size:24 final size:24
Alignment explanation
Indices: 26464943--26464997 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
26464933 ATAATAGCCA
26464943 TTCCATTGCTATCATTTTCAACCT
1 TTCCATTGCTATCATTTTCAACCT
* * *
26464967 TTCCGTTGTTATCCTTTTCAACCT
1 TTCCATTGCTATCATTTTCAACCT
26464991 TTCCATT
1 TTCCATT
26464998 ATTTCGGGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.16, C:0.29, G:0.05, T:0.49
Consensus pattern (24 bp):
TTCCATTGCTATCATTTTCAACCT
Found at i:26468577 original size:23 final size:26
Alignment explanation
Indices: 26468549--26468604 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
26468539 TCTTTCATAG
*
26468549 TTTTAGGTTAGGT-TT-C-TTTTCAT
1 TTTTAGATTAGGTATTCCTTTTTCAT
*
26468572 TTTTAGATTAGGTATTCCTTTTTCTT
1 TTTTAGATTAGGTATTCCTTTTTCAT
26468598 TTTTAGA
1 TTTTAGA
26468605 ATATATATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 12 0.43
24 2 0.07
25 1 0.04
26 13 0.46
ACGTcount: A:0.16, C:0.09, G:0.14, T:0.61
Consensus pattern (26 bp):
TTTTAGATTAGGTATTCCTTTTTCAT
Found at i:26471981 original size:24 final size:24
Alignment explanation
Indices: 26471954--26472055 Score: 63
Period size: 24 Copynumber: 4.3 Consensus size: 24
26471944 TGGGGTCAAA
26471954 CCACTCATTTA-CGTTGTGGCCAAG
1 CCACTCATTTAGCGTTGTGG-CAAG
* *
26471978 CCACTCA-ATATCGTTGTGGTCAAG
1 CCACTCATTTAGCGTTGTGG-CAAG
* * *
26472002 TCACTC-GTTAGCTTTGTAGGCAAG
1 CCACTCATTTAGCGTTGT-GGCAAG
*
26472026 CTACTCATATT---GTTGTGGACAAG
1 CCACTCAT-TTAGCGTTGTGG-CAAG
26472049 CCACTCA
1 CCACTCA
26472056 ATTTTACAGT
Statistics
Matches: 61, Mismatches: 11, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
22 2 0.03
23 16 0.26
24 39 0.64
25 2 0.03
26 2 0.03
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (24 bp):
CCACTCATTTAGCGTTGTGGCAAG
Found at i:26475179 original size:20 final size:21
Alignment explanation
Indices: 26475154--26475195 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
26475144 ATCTATCTTC
26475154 TTTATTGTTCTAATTT-TTTA
1 TTTATTGTTCTAATTTATTTA
*
26475174 TTTATTGTTCTATTTTATTTA
1 TTTATTGTTCTAATTTATTTA
26475195 T
1 T
26475196 CTAGTTACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.19, C:0.05, G:0.05, T:0.71
Consensus pattern (21 bp):
TTTATTGTTCTAATTTATTTA
Found at i:26475970 original size:2 final size:2
Alignment explanation
Indices: 26475963--26475988 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
26475953 ATCAACTTAC
26475963 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
26475989 TAAATTAGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26478004 original size:17 final size:18
Alignment explanation
Indices: 26477974--26478010 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
26477964 TATTATCACT
*
26477974 TTTACAATCCATTGAAAA
1 TTTACAATCAATTGAAAA
26477992 TTTA-AATCAATTGAAAA
1 TTTACAATCAATTGAAAA
26478009 TT
1 TT
26478011 AATATTTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.46, C:0.11, G:0.05, T:0.38
Consensus pattern (18 bp):
TTTACAATCAATTGAAAA
Found at i:26485319 original size:22 final size:22
Alignment explanation
Indices: 26485289--26485331 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
26485279 ACACCAAAAC
*
26485289 AGGCTTTTAGCAGCACTTTTTT
1 AGGCCTTTAGCAGCACTTTTTT
* *
26485311 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCAGCACTTTTT
26485332 AGCGCCGCAA
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:0.14, C:0.21, G:0.23, T:0.42
Consensus pattern (22 bp):
AGGCCTTTAGCAGCACTTTTTT
Found at i:26485638 original size:43 final size:43
Alignment explanation
Indices: 26485400--26485648 Score: 252
Period size: 43 Copynumber: 5.8 Consensus size: 43
26485390 AGAAATAAAT
* *
26485400 GCCGCTAAAGACCAAGACCTTTAGCGGCGC-TTTCACCACAAAC
1 GCCGCTAAAGACCATGATCTTTAGCGGCGCTTTTC-CCACAAAC
** * * *
26485443 GCCGCTAAAGGTCATGGTCTTTAGCGGCGCTTCTCCAACAAAC
1 GCCGCTAAAGACCATGATCTTTAGCGGCGCTTTTCCCACAAAC
* ** * *
26485486 GCCGCTAAAGACCCTGATCTTTAGTTGCGCTTCT-CCAGAAAAC
1 GCCGCTAAAGACCATGATCTTTAGCGGCGCTTTTCCCA-CAAAC
* * * * *
26485529 ACCGCTAAAGACCCTGATCGTTAGCGGCGCCTTTCCAACAAAC
1 GCCGCTAAAGACCATGATCTTTAGCGGCGCTTTTCCCACAAAC
*
26485572 GCCGCTGAAGACCATGATCTTTAGCGGCGCTTTTCCCACAAAC
1 GCCGCTAAAGACCATGATCTTTAGCGGCGCTTTTCCCACAAAC
* * * *
26485615 GCCACTAAAGACTATGA-CATTTAGTGGCGTTTTT
1 GCCGCTAAAGACCATGATC-TTTAGCGGCGCTTTT
26485649 TTTAAAAACG
Statistics
Matches: 168, Mismatches: 34, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
42 3 0.02
43 160 0.95
44 5 0.03
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.23
Consensus pattern (43 bp):
GCCGCTAAAGACCATGATCTTTAGCGGCGCTTTTCCCACAAAC
Found at i:26485638 original size:129 final size:129
Alignment explanation
Indices: 26485401--26485639 Score: 320
Period size: 129 Copynumber: 1.9 Consensus size: 129
26485391 GAAATAAATG
* * ** *
26485401 CCGCTAAAGACCAAGACCTTTAGCGGCGCTTTCACCACAAACGCCGCTAAAGGTCATGGTCTTTA
1 CCGCTAAAGACCAAGACCGTTAGCGGCGCTTTCACAACAAACGCCGCTAAAGACCATGATCTTTA
* *
26485466 GCGGCGCTTCTCCAACAAACGCCGCTAAAGACCCTGATCTTTAGTTGCGCTTCTCCAGAAAACA
66 GCGGCGCTTCTCCAACAAACGCCACTAAAGACCATGATCTTTAGTTGCGCTTCTCCAGAAAACA
** * *
26485530 CCGCTAAAGACCCTGATCGTTAGCGGCGCCTTTC-CAACAAACGCCGCTGAAGACCATGATCTTT
1 CCGCTAAAGACCAAGACCGTTAGCGGCG-CTTTCACAACAAACGCCGCTAAAGACCATGATCTTT
* * *
26485594 AGCGGCGCTTTTCCCACAAACGCCACTAAAGACTATGA-CATTTAGT
65 AGCGGCGCTTCTCCAACAAACGCCACTAAAGACCATGATC-TTTAGT
26485640 GGCGTTTTTT
Statistics
Matches: 94, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
128 1 0.01
129 88 0.94
130 5 0.05
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.22
Consensus pattern (129 bp):
CCGCTAAAGACCAAGACCGTTAGCGGCGCTTTCACAACAAACGCCGCTAAAGACCATGATCTTTA
GCGGCGCTTCTCCAACAAACGCCACTAAAGACCATGATCTTTAGTTGCGCTTCTCCAGAAAACA
Found at i:26487919 original size:10 final size:11
Alignment explanation
Indices: 26487898--26487940 Score: 54
Period size: 12 Copynumber: 4.0 Consensus size: 11
26487888 GCTTANNNNN
26487898 AAGTTATATAT
1 AAGTTATATAT
26487909 AAGTTTATATAT
1 AAG-TTATATAT
*
26487921 AAG-T-TATGT
1 AAGTTATATAT
26487930 AAGTTATATAT
1 AAGTTATATAT
26487941 GTAAGTTATG
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
9 7 0.26
10 2 0.07
11 7 0.26
12 11 0.41
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.47
Consensus pattern (11 bp):
AAGTTATATAT
Found at i:26487945 original size:22 final size:21
Alignment explanation
Indices: 26487908--26487951 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
26487898 AAGTTATATA
26487908 TAAGTTTATATATAAGTTATG
1 TAAGTTTATATATAAGTTATG
*
26487929 TAAGTTATATATGTAAGTTATG
1 TAAGTT-TATATATAAGTTATG
26487951 T
1 T
26487952 GTTGTGTAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (21 bp):
TAAGTTTATATATAAGTTATG
Found at i:26487995 original size:52 final size:51
Alignment explanation
Indices: 26487908--26488012 Score: 135
Period size: 52 Copynumber: 2.0 Consensus size: 51
26487898 AAGTTATATA
26487908 TAAGTTTATATATAAGTTATGTAAGTTATATATGTAAGTTATGT-GTTGTG
1 TAAGTTTATATATAAGTTATGTAAGTTATATATGTAAGTTATGTAGTTGTG
*
26487958 TAAGTTTATATATAAATTTTAT-TCAAGTTATGA-ATGTAAGTTATGTAAGTTGTG
1 TAAGTTTATATAT-AA-GTTATGT-AAGTTAT-ATATGTAAGTTATGT-AGTTGTG
26488012 T
1 T
26488013 GTAATGTAAG
Statistics
Matches: 48, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
50 13 0.27
51 3 0.06
52 24 0.50
53 1 0.02
54 7 0.15
ACGTcount: A:0.33, C:0.01, G:0.18, T:0.48
Consensus pattern (51 bp):
TAAGTTTATATATAAGTTATGTAAGTTATATATGTAAGTTATGTAGTTGTG
Found at i:26488023 original size:25 final size:25
Alignment explanation
Indices: 26487990--26488101 Score: 111
Period size: 25 Copynumber: 4.5 Consensus size: 25
26487980 TCAAGTTATG
*
26487990 AATGTAAGTTATGTAAGTTGTGTGT
1 AATGTAAGTTATGTAAGTTGTGTAT
*
26488015 AATGTAAGTTATGT-A-TTATGTAT
1 AATGTAAGTTATGTAAGTTGTGTAT
*
26488038 ATTATGTAAGTTATTTAAGTTGTGTAT
1 A--ATGTAAGTTATGTAAGTTGTGTAT
* * * * *
26488065 TATGTAAGTCATGTAGGCTATGTAT
1 AATGTAAGTTATGTAAGTTGTGTAT
*
26488090 TATGTAAGTTAT
1 AATGTAAGTTAT
26488102 AATAAGTAAG
Statistics
Matches: 72, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
23 7 0.10
24 1 0.01
25 56 0.78
26 1 0.01
27 7 0.10
ACGTcount: A:0.30, C:0.02, G:0.21, T:0.46
Consensus pattern (25 bp):
AATGTAAGTTATGTAAGTTGTGTAT
Found at i:26488035 original size:16 final size:16
Alignment explanation
Indices: 26487998--26488079 Score: 76
Period size: 16 Copynumber: 5.0 Consensus size: 16
26487988 TGAATGTAAG
* *
26487998 TTATGTAAGTTGTGTG
1 TTATGTAAGTTATGTA
*
26488014 TAATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
26488030 TTATGTATA-TTATGTAA
1 TTATGTA-AGTTATGT-A
* *
26488047 GTTATTTAAGTTGTGTA
1 -TTATGTAAGTTATGTA
*
26488064 TTATGTAAGTCATGTA
1 TTATGTAAGTTATGTA
26488080 GGCTATGTAT
Statistics
Matches: 53, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
16 38 0.72
17 4 0.08
18 11 0.21
ACGTcount: A:0.29, C:0.01, G:0.21, T:0.49
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:26488057 original size:50 final size:49
Alignment explanation
Indices: 26487991--26488101 Score: 143
Period size: 50 Copynumber: 2.2 Consensus size: 49
26487981 CAAGTTATGA
* * *
26487991 ATGTAAGTTATGTAAGTTGTGTGTAATGTAAGTTATGTA-TTATGTATATT
1 ATGTAAGTTATGTAAGTTGTGTATAATGTAAGTCATGTAGCTATG--TATT
* *
26488041 ATGTAAGTTATTTAAGTTGTGTATTATGTAAGTCATGTAGGCTATGTATT
1 ATGTAAGTTATGTAAGTTGTGTATAATGTAAGTCATGTA-GCTATGTATT
26488091 ATGTAAGTTAT
1 ATGTAAGTTAT
26488102 AATAAGTAAG
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
50 50 0.93
52 4 0.07
ACGTcount: A:0.30, C:0.02, G:0.22, T:0.47
Consensus pattern (49 bp):
ATGTAAGTTATGTAAGTTGTGTATAATGTAAGTCATGTAGCTATGTATT
Found at i:26488132 original size:34 final size:34
Alignment explanation
Indices: 26488093--26488169 Score: 97
Period size: 32 Copynumber: 2.3 Consensus size: 34
26488083 TATGTATTAT
26488093 GTAAGTTATA-ATAAGTAAGTTATGAAAGTTATATA
1 GTAAGTTATATAT-A-TAAGTTATGAAAGTTATATA
*
26488128 -TAAGTT-TATATATAAGTTATGTAAGTTATATA
1 GTAAGTTATATATATAAGTTATGAAAGTTATATA
26488160 TGTAAGTTAT
1 -GTAAGTTAT
26488170 GTGTTGTGTA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
32 19 0.51
33 3 0.08
34 14 0.38
35 1 0.03
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.43
Consensus pattern (34 bp):
GTAAGTTATATATATAAGTTATGAAAGTTATATA
Found at i:26488139 original size:10 final size:11
Alignment explanation
Indices: 26488118--26488160 Score: 54
Period size: 12 Copynumber: 4.0 Consensus size: 11
26488108 TAAGTTATGA
26488118 AAGTTATATAT
1 AAGTTATATAT
26488129 AAGTTTATATAT
1 AAG-TTATATAT
*
26488141 AAG-T-TATGT
1 AAGTTATATAT
26488150 AAGTTATATAT
1 AAGTTATATAT
26488161 GTAAGTTATG
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
9 7 0.26
10 2 0.07
11 7 0.26
12 11 0.41
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.47
Consensus pattern (11 bp):
AAGTTATATAT
Found at i:26488171 original size:9 final size:9
Alignment explanation
Indices: 26487991--26488156 Score: 88
Period size: 9 Copynumber: 19.2 Consensus size: 9
26487981 CAAGTTATGA
26487991 ATGTAAGTT
1 ATGTAAGTT
26488000 ATGTAAGTT
1 ATGTAAGTT
* *
26488009 GTGT--GTA
1 ATGTAAGTT
26488016 ATGTAAGTT
1 ATGTAAGTT
26488025 ATGT-A-TT
1 ATGTAAGTT
26488032 ATGTATA-TT
1 ATGTA-AGTT
26488041 ATGTAAGTT
1 ATGTAAGTT
*
26488050 ATTTAAGTT
1 ATGTAAGTT
*
26488059 GTGT-A-TT
1 ATGTAAGTT
*
26488066 ATGTAAGTC
1 ATGTAAGTT
* *
26488075 ATGTAGGCT
1 ATGTAAGTT
26488084 ATGT-A-TT
1 ATGTAAGTT
26488091 ATGTAAGTT
1 ATGTAAGTT
26488100 A--TAA--T
1 ATGTAAGTT
*
26488105 AAGTAAGTT
1 ATGTAAGTT
*
26488114 ATGAAAGTTAT
1 ATGTAAG-T-T
*
26488125 ATATAAGTTTAT
1 ATGTAAG--T-T
*
26488137 ATATAAGTT
1 ATGTAAGTT
26488146 ATGTAAGTT
1 ATGTAAGTT
26488155 AT
1 AT
26488157 ATATGTAAGT
Statistics
Matches: 122, Mismatches: 19, Indels: 32
0.71 0.11 0.18
Matches are distributed among these distances:
5 2 0.02
7 27 0.22
8 5 0.04
9 69 0.57
10 2 0.02
11 6 0.05
12 11 0.09
ACGTcount: A:0.34, C:0.01, G:0.19, T:0.45
Consensus pattern (9 bp):
ATGTAAGTT
Found at i:26488215 original size:52 final size:51
Alignment explanation
Indices: 26488128--26488232 Score: 126
Period size: 52 Copynumber: 2.0 Consensus size: 51
26488118 AAGTTATATA
*
26488128 TAAGTTTATATATAAGTTATGTAAGTTATATATGTAAGTTATGT-GTTGTG
1 TAAGTTTATATATAAGTTATGTAAGTTATATATGTAAGTAATGTAGTTGTG
*
26488178 TAAGTTTATATATAAATTTTAT-TCAAGTTATGA-ATGTAAGTAATGTAAGTTGTG
1 TAAGTTTATATAT-AA-GTTATGT-AAGTTAT-ATATGTAAGTAATGT-AGTTGTG
26488232 T
1 T
26488233 GTAATGTAAG
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
50 13 0.28
51 3 0.06
52 23 0.49
53 1 0.02
54 7 0.15
ACGTcount: A:0.34, C:0.01, G:0.18, T:0.47
Consensus pattern (51 bp):
TAAGTTTATATATAAGTTATGTAAGTTATATATGTAAGTAATGTAGTTGTG
Found at i:26488224 original size:61 final size:62
Alignment explanation
Indices: 26488121--26488244 Score: 148
Period size: 61 Copynumber: 2.0 Consensus size: 62
26488111 GTTATGAAAG
* * **
26488121 TTATATATAAGTTTATATATAAGTTATGTAAGTTATATATGTAAGTTATGTGTTGTGTAAGT
1 TTATATATAAATTTATATATAAGTTATGTAAGTAATATATGTAAGTTATGTGTAATGTAAGT
*
26488183 TTATATATAAATTT-TAT-TCAAGTTATG-AATGTAAGTA-ATGTAAGTTGTGTGTAATGTAAGT
1 TTATATATAAATTTATATAT-AAGTTATGTAA-GTAA-TATATGTAAGTTATGTGTAATGTAAGT
26488244 T
1 T
26488245 ATGCATTATG
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
60 3 0.06
61 36 0.67
62 15 0.28
ACGTcount: A:0.35, C:0.01, G:0.18, T:0.47
Consensus pattern (62 bp):
TTATATATAAATTTATATATAAGTTATGTAAGTAATATATGTAAGTTATGTGTAATGTAAGT
Found at i:26488271 original size:220 final size:220
Alignment explanation
Indices: 26487898--26488302 Score: 758
Period size: 220 Copynumber: 1.8 Consensus size: 220
26487888 GCTTANNNNN
26487898 AAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATATATGTAAGTTATGTGTTGTGTAAGT
1 AAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATATATGTAAGTTATGTGTTGTGTAAGT
*
26487963 TTATATATAAATTTTATTCAAGTTATGAATGTAAGTTATGTAAGTTGTGTGTAATGTAAGTTATG
66 TTATATATAAATTTTATTCAAGTTATGAATGTAAGTAATGTAAGTTGTGTGTAATGTAAGTTATG
*
26488028 TATTATGTATATTATGTAAGTTATTTAAGTTGTGTATTATGTAAGTCATGTAGGCTATGTATTAT
131 CATTATGTATATTATGTAAGTTATTTAAGTTGTGTATTATGTAAGTCATGTAGGCTATGTATTAT
26488093 GTAAGTTATAATAAGTAAGTTATGA
196 GTAAGTTATAATAAGTAAGTTATGA
26488118 AAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATATATGTAAGTTATGTGTTGTGTAAGT
1 AAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATATATGTAAGTTATGTGTTGTGTAAGT
26488183 TTATATATAAATTTTATTCAAGTTATGAATGTAAGTAATGTAAGTTGTGTGTAATGTAAGTTATG
66 TTATATATAAATTTTATTCAAGTTATGAATGTAAGTAATGTAAGTTGTGTGTAATGTAAGTTATG
* *
26488248 CATTATGTA-AGTTGTTTAAGTTATTTAAGTTGTGTATTATGTAAGTCATGTAGGC
131 CATTATGTATA-TTATGTAAGTTATTTAAGTTGTGTATTATGTAAGTCATGTAGGC
26488303 NNNNNNNNNN
Statistics
Matches: 180, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
219 1 0.01
220 179 0.99
ACGTcount: A:0.34, C:0.02, G:0.19, T:0.46
Consensus pattern (220 bp):
AAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATATATGTAAGTTATGTGTTGTGTAAGT
TTATATATAAATTTTATTCAAGTTATGAATGTAAGTAATGTAAGTTGTGTGTAATGTAAGTTATG
CATTATGTATATTATGTAAGTTATTTAAGTTGTGTATTATGTAAGTCATGTAGGCTATGTATTAT
GTAAGTTATAATAAGTAAGTTATGA
Found at i:26488292 original size:16 final size:16
Alignment explanation
Indices: 26488220--26488293 Score: 76
Period size: 16 Copynumber: 4.5 Consensus size: 16
26488210 AATGTAAGTA
* *
26488220 ATGTAAGTTGTGTGTA
1 ATGTAAGTTGTGTATT
* *
26488236 ATGTAAGTTATGCATT
1 ATGTAAGTTGTGTATT
*
26488252 ATGTAAGTTGTTTAAGTT
1 ATGTAAGTTGTGT-A-TT
*
26488270 ATTTAAGTTGTGTATT
1 ATGTAAGTTGTGTATT
26488286 ATGTAAGT
1 ATGTAAGT
26488294 CATGTAGGCN
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
16 31 0.67
17 2 0.04
18 13 0.28
ACGTcount: A:0.28, C:0.01, G:0.23, T:0.47
Consensus pattern (16 bp):
ATGTAAGTTGTGTATT
Found at i:26497671 original size:14 final size:15
Alignment explanation
Indices: 26497644--26497673 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
26497634 CACACTAAAT
26497644 CCTAAATCCCTAACC
1 CCTAAATCCCTAACC
26497659 CCTAAAT-CCTAACC
1 CCTAAATCCCTAACC
26497673 C
1 C
26497674 TTAACCCTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.33, C:0.47, G:0.00, T:0.20
Consensus pattern (15 bp):
CCTAAATCCCTAACC
Found at i:26498036 original size:14 final size:15
Alignment explanation
Indices: 26498019--26498051 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
26498009 CTTAAATCAG
26498019 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
26498033 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
26498048 AATC
1 AATC
26498052 TATAAACATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:26506162 original size:158 final size:157
Alignment explanation
Indices: 26505607--26506161 Score: 929
Period size: 158 Copynumber: 3.5 Consensus size: 157
26505597 TATAAATTTA
26505607 AAAGCAATGGCTTCGCCCGGACTCGAACCGGAGACCTTCAGTGTGTTAGACTGACGTGATAACCA
1 AAAGCAATGGCTTCGCCCGGACTCGAACCGGAGACCTTCAGTGTGTTAGACTGACGTGATAACCA
* * * *
26505672 ACTACACCACGAAACCAGAGTCAATAGATTTTGACATTTAACTTTAATCAAAAAAATAAAATGTG
66 ACTACACCACGAAACCAGAGTC-ATAGCTTTTGACATTTAATTTTAGTCAAAAAACTAAAATGTG
*
26505737 CAGACACTAAAAGACTAAAAATATGTTT
130 CAGAAACTAAAAGACTAAAAATATGTTT
* *
26505765 AAAGAAATGGCTTCG-CCGGACTCGAACCGGAGACCTTCAGTGTGTTAGATTGACGTGATAACCA
1 AAAGCAATGGCTTCGCCCGGACTCGAACCGGAGACCTTCAGTGTGTTAGACTGACGTGATAACCA
26505829 ACTACACCACGAAACCAGAGTCGAT-GCCTTTTGACATTTAATTTTAGTCAAAAAACTAAAATGT
66 ACTACACCACGAAACCAGAGTC-ATAG-CTTTTGACATTTAATTTTAGTCAAAAAACTAAAATGT
26505893 GCAGAAACTAAAAGACTAAAAATATGTTT
129 GCAGAAACTAAAAGACTAAAAATATGTTT
* *
26505922 AAAACAATGGCTTCGCCCGGACTCGAACCGGAGACCTTCAGTGTGTTAGACTGACGTGATAATCA
1 AAAGCAATGGCTTCGCCCGGACTCGAACCGGAGACCTTCAGTGTGTTAGACTGACGTGATAACCA
*
26505987 ACTACACCACGAAACCACG-CTCACTAGCTTTTGACATTT-ATTTTAGTCAAAAAACTAAAATGT
66 ACTACACCACGAAACCA-GAGTCA-TAGCTTTTGACATTTAATTTTAGTCAAAAAACTAAAATGT
26506050 GCAGAAACTAAAAAGACTAAAAATATGTTT
129 GCAGAAACT-AAAAGACTAAAAATATGTTT
*
26506080 GAAGCAATGGCTTCGCCCGGACTCGAACCGGAGACCTTCAGTGTGTTAGACTGACGTGATAACCA
1 AAAGCAATGGCTTCGCCCGGACTCGAACCGGAGACCTTCAGTGTGTTAGACTGACGTGATAACCA
26506145 ACTACACCACGAAACCA
66 ACTACACCACGAAACCA
26506162 CATCGATAAA
Statistics
Matches: 375, Mismatches: 16, Indels: 12
0.93 0.04 0.03
Matches are distributed among these distances:
156 1 0.00
157 180 0.48
158 192 0.51
159 2 0.01
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (157 bp):
AAAGCAATGGCTTCGCCCGGACTCGAACCGGAGACCTTCAGTGTGTTAGACTGACGTGATAACCA
ACTACACCACGAAACCAGAGTCATAGCTTTTGACATTTAATTTTAGTCAAAAAACTAAAATGTGC
AGAAACTAAAAGACTAAAAATATGTTT
Found at i:26508144 original size:20 final size:18
Alignment explanation
Indices: 26508121--26508159 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
26508111 TATTTTTTTA
*
26508121 ATTATTTTAATTTATAATAT
1 ATTA-TTTAATATA-AATAT
26508141 ATTATTTAATATAAATAT
1 ATTATTTAATATAAATAT
26508159 A
1 A
26508160 ATTTCAATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 8 0.44
20 4 0.22
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTATTTAATATAAATAT
Found at i:26513053 original size:26 final size:26
Alignment explanation
Indices: 26513017--26513078 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
26513007 TTTTACCCTA
*
26513017 GTAAAATTTTTGACAATTTTACCCCCG
1 GTAAAA-TTTTGACAATTTTAACCCCG
** * *
26513044 GTAAAATTTTGATGATTTTAATCCTG
1 GTAAAATTTTGACAATTTTAACCCCG
26513070 GTAAAATTT
1 GTAAAATTT
26513079 CAAGAAAATT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 24 0.80
27 6 0.20
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (26 bp):
GTAAAATTTTGACAATTTTAACCCCG
Found at i:26515450 original size:25 final size:24
Alignment explanation
Indices: 26515415--26515489 Score: 71
Period size: 24 Copynumber: 3.1 Consensus size: 24
26515405 CATACATGTA
* *
26515415 CATAAATGGAAAGCTCATGTGAGC
1 CATAAACGGAAAGCTCATGAGAGC
**
26515439 CATGAAACGGAAAGCTCCGGAGAGC
1 CAT-AAACGGAAAGCTCATGAGAGC
* *
26515464 CATTAACGGGAAGCTCAT-ACGAGC
1 CATAAACGGAAAGCTCATGA-GAGC
26515488 CA
1 CA
26515490 ATATTAGTAA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
23 1 0.02
24 20 0.49
25 20 0.49
ACGTcount: A:0.36, C:0.23, G:0.27, T:0.15
Consensus pattern (24 bp):
CATAAACGGAAAGCTCATGAGAGC
Found at i:26515487 original size:24 final size:24
Alignment explanation
Indices: 26515459--26515533 Score: 71
Period size: 24 Copynumber: 3.1 Consensus size: 24
26515449 AAAGCTCCGG
26515459 AGAGCCATTAACGGGAAGCTCATA
1 AGAGCCATTAACGGGAAGCTCATA
* * *** * *
26515483 CGAGCCAATATTAGTAAG-TCCTA
1 AGAGCCATTAACGGGAAGCTCATA
26515506 AGAGCCATTAATCGGGAAGCTCATA
1 AGAGCCATTAA-CGGGAAGCTCATA
26515531 AGA
1 AGA
26515534 TCTAGTTATT
Statistics
Matches: 35, Mismatches: 14, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
23 12 0.34
24 16 0.46
25 7 0.20
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.20
Consensus pattern (24 bp):
AGAGCCATTAACGGGAAGCTCATA
Found at i:26515728 original size:24 final size:24
Alignment explanation
Indices: 26515695--26515740 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
26515685 GAGAGCCAAA
26515695 TATCGAGATGCTCATGAGAGCTAT
1 TATCGAGATGCTCATGAGAGCTAT
* * *
26515719 TATCGGGATGCTCTTGCGAGCT
1 TATCGAGATGCTCATGAGAGCT
26515741 GCAATGTGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (24 bp):
TATCGAGATGCTCATGAGAGCTAT
Found at i:26522234 original size:55 final size:54
Alignment explanation
Indices: 26522132--26522236 Score: 147
Period size: 55 Copynumber: 1.9 Consensus size: 54
26522122 TTTAAAATTT
* *
26522132 TTAAAAAATAATATTTTATTTTGTGGAGTCATTCTAAATGGCGCCACCACTTTA
1 TTAAAAAATAATATTTTATTTTGTAGAGCCATTCTAAATGGCGCCACCACTTTA
* ** *
26522186 TTAAAAAATGATATTTTATTTTGGTAGAGCCATTCTTTATGGCTCCACCAC
1 TTAAAAAATAATATTTTATTTT-GTAGAGCCATTCTAAATGGCGCCACCAC
26522237 CTTGGTTGTC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
54 21 0.48
55 23 0.52
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.39
Consensus pattern (54 bp):
TTAAAAAATAATATTTTATTTTGTAGAGCCATTCTAAATGGCGCCACCACTTTA
Found at i:26522624 original size:218 final size:219
Alignment explanation
Indices: 26522217--26522646 Score: 801
Period size: 218 Copynumber: 2.0 Consensus size: 219
26522207 TGGTAGAGCC
*
26522217 ATTCTTTATGGCTCCACCACCTTGGTTGTCCTACATATATAGATATATTGAAGCATTTTTGTAAT
1 ATTCTTTATGGCTCCAACACCTTGGTTGTCCTACATATATAGATATATTGAAGCATTTTTGTAAT
26522282 AGATGAACTAGAAGAGAAGAAAAAAAAAAAGAAATTGTTGTGTTTAGTAGGAGAGCTAAAAAAAT
66 AGATGAACTAGAAGAGAAGAAAAAAAAAAAGAAATTGTTGTGTTTAGTAGGAGAGCTAAAAAAAT
*
26522347 TTTTGAAGATAAATAACGTAGTGTTTTAGGTGTACGTTCTTTTTTTATGGTGAAATTGTAGAAGG
131 TTTTGAAGATAAATAACGAAGTGTTTTAGGTGTACGTTCTTTTTTTATGGTGAAATTGTAGAAGG
26522412 TCTTGTTAGTTGTGTACGCTCAAA
196 TCTTGTTAGTTGTGTACGCTCAAA
26522436 ATTCTTTATGGCTCCAACACCTTGGTTGTCCTACATATATAGATATATTGAAGCATTTTTGTAAT
1 ATTCTTTATGGCTCCAACACCTTGGTTGTCCTACATATATAGATATATTGAAGCATTTTTGTAAT
*
26522501 AGATGAACTAGAAGAGAAG-AAAAAAAAAAGAAATTGTTGTGTTTAGTAGGAGAGCT-CAAAAAT
66 AGATGAACTAGAAGAGAAGAAAAAAAAAAAGAAATTGTTGTGTTTAGTAGGAGAGCTAAAAAAAT
*
26522564 TTGTTGAAGATAAATAACGAAGTGTTTTAGGTGTATGTTCTTTTTTTATGGTGAAATTGTAGAAG
131 TT-TTGAAGATAAATAACGAAGTGTTTTAGGTGTACGTTCTTTTTTTATGGTGAAATTGTAGAAG
26522629 GTCTTGTTAGTTGTGTAC
195 GTCTTGTTAGTTGTGTAC
26522647 TTCAAGGTCT
Statistics
Matches: 206, Mismatches: 4, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
217 8 0.04
218 115 0.56
219 83 0.40
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.36
Consensus pattern (219 bp):
ATTCTTTATGGCTCCAACACCTTGGTTGTCCTACATATATAGATATATTGAAGCATTTTTGTAAT
AGATGAACTAGAAGAGAAGAAAAAAAAAAAGAAATTGTTGTGTTTAGTAGGAGAGCTAAAAAAAT
TTTTGAAGATAAATAACGAAGTGTTTTAGGTGTACGTTCTTTTTTTATGGTGAAATTGTAGAAGG
TCTTGTTAGTTGTGTACGCTCAAA
Found at i:26525502 original size:14 final size:14
Alignment explanation
Indices: 26525485--26525512 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
26525475 AACGAAAATA
26525485 AGAATAAGAAAAAG
1 AGAATAAGAAAAAG
26525499 AGAATAAGAAAAAG
1 AGAATAAGAAAAAG
26525513 TGGTTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.21, T:0.07
Consensus pattern (14 bp):
AGAATAAGAAAAAG
Found at i:26528551 original size:21 final size:21
Alignment explanation
Indices: 26528525--26528567 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
26528515 CAAAACTTAC
* *
26528525 CATAAGGGTGGATAACCACAT
1 CATAAGGGCGGACAACCACAT
*
26528546 CATAAGGGCGGACAATCACAT
1 CATAAGGGCGGACAACCACAT
26528567 C
1 C
26528568 TTACCATACA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.16
Consensus pattern (21 bp):
CATAAGGGCGGACAACCACAT
Found at i:26529608 original size:97 final size:97
Alignment explanation
Indices: 26529442--26529635 Score: 379
Period size: 97 Copynumber: 2.0 Consensus size: 97
26529432 CCATATAGAC
26529442 CCACGCTATAAGAACTTAACATGCAAAGTTATAATACTTTACTAAGAGATAAAATAACCTCTAAT
1 CCACGCTATAAGAACTTAACATGCAAAGTTATAATACTTTACTAAGAGATAAAATAACCTCTAAT
26529507 TAGATCCAGAACCATAGTTTCTAGCTTAATGA
66 TAGATCCAGAACCATAGTTTCTAGCTTAATGA
*
26529539 CCACGCTATAAGAACTTAACATGCAAAGTTGTAATACTTTACTAAGAGATAAAATAACCTCTAAT
1 CCACGCTATAAGAACTTAACATGCAAAGTTATAATACTTTACTAAGAGATAAAATAACCTCTAAT
26529604 TAGATCCAGAACCATAGTTTCTAGCTTAATGA
66 TAGATCCAGAACCATAGTTTCTAGCTTAATGA
26529636 GGAAGAGTTA
Statistics
Matches: 96, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
97 96 1.00
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.29
Consensus pattern (97 bp):
CCACGCTATAAGAACTTAACATGCAAAGTTATAATACTTTACTAAGAGATAAAATAACCTCTAAT
TAGATCCAGAACCATAGTTTCTAGCTTAATGA
Found at i:26530974 original size:18 final size:18
Alignment explanation
Indices: 26530951--26530992 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
26530941 ATTCGGGTAA
26530951 AACCGAAAAAATTCAGTT
1 AACCGAAAAAATTCAGTT
**
26530969 AACCGATCAAATTCAGTT
1 AACCGAAAAAATTCAGTT
26530987 AACCGA
1 AACCGA
26530993 TCGGTTAACC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.45, C:0.21, G:0.12, T:0.21
Consensus pattern (18 bp):
AACCGAAAAAATTCAGTT
Found at i:26530993 original size:18 final size:18
Alignment explanation
Indices: 26530959--26530994 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
26530949 AAAACCGAAA
26530959 AAATTCAGTTAACCGATC
1 AAATTCAGTTAACCGATC
26530977 AAATTCAGTTAACCGATC
1 AAATTCAGTTAACCGATC
26530995 GGTTAACCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.28
Consensus pattern (18 bp):
AAATTCAGTTAACCGATC
Found at i:26531189 original size:51 final size:46
Alignment explanation
Indices: 26531124--26531245 Score: 142
Period size: 44 Copynumber: 2.6 Consensus size: 46
26531114 TAAACCCAGC
** *
26531124 TACCAAACCCAATAAAACTAAAACCCTTGTCTACCCAAACTTAATTACCATT
1 TACC-AACCCAATAAAACTAAAA-----GTCTACCCAAACCCAACTACCATT
26531176 TACCAACCCAAT-AAACT-AAAGTCTACCCAAACCCAACTACCATT
1 TACCAACCCAATAAAACTAAAAGTCTACCCAAACCCAACTACCATT
26531220 TACCAACCCAATAAAACT-AAAGTCTA
1 TACCAACCCAATAAAACTAAAAGTCTA
26531246 AAAATAAAGT
Statistics
Matches: 66, Mismatches: 3, Indels: 9
0.85 0.04 0.12
Matches are distributed among these distances:
44 33 0.50
45 13 0.20
49 3 0.05
50 5 0.08
51 8 0.12
52 4 0.06
ACGTcount: A:0.44, C:0.32, G:0.02, T:0.21
Consensus pattern (46 bp):
TACCAACCCAATAAAACTAAAAGTCTACCCAAACCCAACTACCATT
Found at i:26531202 original size:44 final size:45
Alignment explanation
Indices: 26531152--26531245 Score: 154
Period size: 44 Copynumber: 2.1 Consensus size: 45
26531142 TAAAACCCTT
** *
26531152 GTCTACCCAAACTTAATTACCATTTACCAACCCAAT-AAACTAAA
1 GTCTACCCAAACCCAACTACCATTTACCAACCCAATAAAACTAAA
26531196 GTCTACCCAAACCCAACTACCATTTACCAACCCAATAAAACTAAA
1 GTCTACCCAAACCCAACTACCATTTACCAACCCAATAAAACTAAA
26531241 GTCTA
1 GTCTA
26531246 AAAATAAAGT
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
44 33 0.72
45 13 0.28
ACGTcount: A:0.43, C:0.32, G:0.03, T:0.22
Consensus pattern (45 bp):
GTCTACCCAAACCCAACTACCATTTACCAACCCAATAAAACTAAA
Found at i:26534536 original size:37 final size:37
Alignment explanation
Indices: 26534485--26534596 Score: 181
Period size: 37 Copynumber: 3.0 Consensus size: 37
26534475 TGTTAATTTC
*
26534485 AAGACTTATCTAATGTTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
*
26534522 AAGACTTATGTAATGTTTTTAATTATGTATTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
*
26534559 AAGATTTATGTAAT-TCTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGT-TTTTAATTATGTAGTGATTCA
26534596 A
1 A
26534597 TTCGGTTAAA
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
36 1 0.01
37 69 0.99
ACGTcount: A:0.33, C:0.06, G:0.13, T:0.47
Consensus pattern (37 bp):
AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
Found at i:26534549 original size:17 final size:17
Alignment explanation
Indices: 26534490--26534550 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
26534480 ATTTCAAGAC
*
26534490 TTATCTAATGTTTTTAA
1 TTATGTAATGTTTTTAA
* ***
26534507 TTATGTAGTGATTCAAAGA
1 TTATGTAATG-TTTTTA-A
26534526 CTTATGTAATGTTTTTAA
1 -TTATGTAATGTTTTTAA
26534544 TTATGTA
1 TTATGTA
26534551 TTGATTCAAA
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
17 15 0.47
18 4 0.12
19 4 0.12
20 9 0.28
ACGTcount: A:0.31, C:0.05, G:0.13, T:0.51
Consensus pattern (17 bp):
TTATGTAATGTTTTTAA
Found at i:26534688 original size:9 final size:9
Alignment explanation
Indices: 26534598--26534686 Score: 142
Period size: 9 Copynumber: 9.9 Consensus size: 9
26534588 GTGATTCAAT
26534598 TCGGTTAAA
1 TCGGTTAAA
26534607 TCGGTTAAA
1 TCGGTTAAA
26534616 TCGGTTAAA
1 TCGGTTAAA
*
26534625 TCGGTTAAG
1 TCGGTTAAA
26534634 TCGGTTAAA
1 TCGGTTAAA
26534643 TCGGTTAAA
1 TCGGTTAAA
*
26534652 TCAGTTAAA
1 TCGGTTAAA
*
26534661 TCGGTTTAA
1 TCGGTTAAA
*
26534670 TCGGTTAAG
1 TCGGTTAAA
26534679 TCGGTTAA
1 TCGGTTAA
26534687 GTGGTTTAAT
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 73 1.00
ACGTcount: A:0.30, C:0.11, G:0.24, T:0.35
Consensus pattern (9 bp):
TCGGTTAAA
Found at i:26535732 original size:51 final size:51
Alignment explanation
Indices: 26535677--26535787 Score: 170
Period size: 51 Copynumber: 2.2 Consensus size: 51
26535667 AGGTCATATT
* *
26535677 CATTTTCATTTTGGAGAAAACCATATTCATTTCCAAATGGTTTC-ATTTCTC
1 CATTTTCATTTTGGAGAAAACCATAATCATTTCCAAAT-ATTTCTATTTCTC
*
26535728 CATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATATTTCTTATTTCTT
1 CATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATATTTC-TATTTCTC
26535780 CATTTTCA
1 CATTTTCA
26535788 CCATTTTTAT
Statistics
Matches: 55, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
50 4 0.07
51 37 0.67
52 14 0.25
ACGTcount: A:0.29, C:0.19, G:0.07, T:0.45
Consensus pattern (51 bp):
CATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATATTTCTATTTCTC
Found at i:26542196 original size:29 final size:29
Alignment explanation
Indices: 26542154--26542221 Score: 111
Period size: 29 Copynumber: 2.4 Consensus size: 29
26542144 TTTTTTTAAA
* *
26542154 AAAT-AATTAAATTAGGTTTTAGGGTTTT
1 AAATAAATTAAATTAGATTTTAGAGTTTT
26542182 AAATAAATTAAATTAGATTTTAGAGTTTT
1 AAATAAATTAAATTAGATTTTAGAGTTTT
26542211 AAATAAATTAA
1 AAATAAATTAA
26542222 TTAAATTAGG
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
28 4 0.11
29 33 0.89
ACGTcount: A:0.46, C:0.00, G:0.12, T:0.43
Consensus pattern (29 bp):
AAATAAATTAAATTAGATTTTAGAGTTTT
Found at i:26542196 original size:34 final size:31
Alignment explanation
Indices: 26542147--26542281 Score: 148
Period size: 34 Copynumber: 4.3 Consensus size: 31
26542137 TTAGAGTTTT
* *
26542147 TTTTAAAAAATAATTAAATTAGGTTTTAGGG
1 TTTTAAAAAATAATTAAATTAGGGTTTAGAG
* **
26542178 TTTT-AAATA-AATTAAATTAGATTTTAGAG
1 TTTTAAAAAATAATTAAATTAGGGTTTAGAG
26542207 TTTTAAATAAATTAATTAAATTAGGGTTTAGAG
1 TTTTAAA-AAA-TAATTAAATTAGGGTTTAGAG
**
26542240 TGTTTAAGAAAATTAATTAAATTAGGGTTTAGTT
1 T-TTTAA-AAAA-TAATTAAATTAGGGTTTAGAG
26542274 TTTTAAAA
1 TTTTAAAA
26542282 TAATTTTGTG
Statistics
Matches: 90, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
29 22 0.24
30 6 0.07
31 6 0.07
32 2 0.02
33 24 0.27
34 29 0.32
35 1 0.01
ACGTcount: A:0.42, C:0.00, G:0.14, T:0.44
Consensus pattern (31 bp):
TTTTAAAAAATAATTAAATTAGGGTTTAGAG
Found at i:26542285 original size:29 final size:31
Alignment explanation
Indices: 26542147--26542286 Score: 112
Period size: 33 Copynumber: 4.5 Consensus size: 31
26542137 TTAGAGTTTT
* *
26542147 TTTTAA-AAAATAATTAAATTAGGTTTTAGG
1 TTTTAATAAAATAATTAAATTAGGGTTTAAG
* **
26542177 GTTT--T-AAATAAATTAAATTAGATTTTAGAG
1 TTTTAATAAAAT-AATTAAATTAGGGTTTA-AG
*
26542207 TTTTAAATAAATTAATTAAATTAGGGTTTAGAG
1 TTTT-AATAAAATAATTAAATTAGGGTTTA-AG
*
26542240 TGTTTAAGAAAATTAATTAAATTAGGGTTT-AG
1 T-TTTAATAAAA-TAATTAAATTAGGGTTTAAG
*
26542272 TTTT-TTAAAATAATT
1 TTTTAATAAAATAATT
26542287 TTGTGTTTAG
Statistics
Matches: 90, Mismatches: 11, Indels: 19
0.75 0.09 0.16
Matches are distributed among these distances:
28 4 0.04
29 21 0.23
30 11 0.12
31 3 0.03
32 3 0.03
33 25 0.28
34 23 0.26
ACGTcount: A:0.42, C:0.00, G:0.14, T:0.44
Consensus pattern (31 bp):
TTTTAATAAAATAATTAAATTAGGGTTTAAG
Found at i:26542567 original size:126 final size:126
Alignment explanation
Indices: 26542341--26542861 Score: 751
Period size: 126 Copynumber: 4.1 Consensus size: 126
26542331 GGATTTTATT
* * * *
26542341 TTTTTCTACAGTAGTT-TTAGAAAAATTAATTTTGAGAAGACGGTTCTGAAAAGATAATGCCAAA
1 TTTTTCTACAGTAGTTCTT-GAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAA
* * * * * *
26542405 AACGCTTCAACCAGGATGCACTGTTAGCAAAATTACTGAAAAAAGCTCCCAAGTGGACGTTC
65 AACACTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* *
26542467 CTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTTTCAAAA
1 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
* *
26542532 ACACTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACGTAGACACTC
66 ACACTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * *
26542593 TTTTTCTACAATAGTTCCTG-AAAAATAATTTTGAGAAGACAGTTCTGAAAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
* *
26542657 ACACTTCAAACAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCATGTGGACGCTC
66 ACACTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * *
26542718 TTTTTCTACAATAGTT-TCAGAAAAAATAATTTTGAGAAGACGATTCTGAAAAAAATAGTGTCAA
1 TTTTTCTACAGTAGTTCT-TGAAAAAATAATTTTGAGAAGACGGTTCTG-AAAAAATAGTGTCAA
* * * * *
26542782 AAACGCTTCAAGCAGGATGCACTGTCAGGAAAATTACTTAAAAAAGCTCCCACGTGGATGCTC
64 AAACACTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
26542845 TTTTTCTACAGTAGTTC
1 TTTTTCTACAGTAGTTC
26542862 ATGTTTGGCC
Statistics
Matches: 355, Mismatches: 35, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
125 116 0.33
126 151 0.43
127 88 0.25
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
ACACTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
Found at i:26546429 original size:18 final size:18
Alignment explanation
Indices: 26546406--26546442 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
26546396 AGAAAAGAAA
*
26546406 ACATATAAGGGTTAGGAT
1 ACATATAAGGGCTAGGAT
26546424 ACATATAAGGGCTAGGAT
1 ACATATAAGGGCTAGGAT
26546442 A
1 A
26546443 TGCACCTGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.41, C:0.08, G:0.27, T:0.24
Consensus pattern (18 bp):
ACATATAAGGGCTAGGAT
Done.