Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 145 of 160
Found at i:27663571 original size:46 final size:46
Alignment explanation
Indices: 27663504--27663658 Score: 174
Period size: 46 Copynumber: 3.4 Consensus size: 46
27663494 GGTTTTACAT
*
27663504 CTTAAAGATTCTCATTTGAAAATATTTTAAAAGTTCTCATTTAAAA
1 CTTAAAGATTCTCATTTGAAAACATTTTAAAAGTTCTCATTTAAAA
* * * *
27663550 CTTAAAGATGCTCATTTGAAAACGTCTTAAAGGTTCTCATTTAAAA
1 CTTAAAGATTCTCATTTGAAAACATTTTAAAAGTTCTCATTTAAAA
* * * * *
27663596 CTTAAATATTCTCATTT--AAAGA-TTCAAAAATTCTCATTTAAGGA
1 CTTAAAGATTCTCATTTGAAAACATTTTAAAAGTTCTCATTTAA-AA
27663640 -TTCAAAGATTCTCATTTGA
1 CTT-AAAGATTCTCATTTGA
27663659 GTTCGGAGAT
Statistics
Matches: 90, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
43 17 0.19
44 17 0.19
46 56 0.62
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.39
Consensus pattern (46 bp):
CTTAAAGATTCTCATTTGAAAACATTTTAAAAGTTCTCATTTAAAA
Found at i:27663579 original size:25 final size:23
Alignment explanation
Indices: 27663503--27663636 Score: 102
Period size: 21 Copynumber: 5.9 Consensus size: 23
27663493 GGGTTTTACA
*
27663503 TCTTAAAGATTCTCATTTGAAAATA
1 TCTTAAAGATTCTCATTT-AAAA-C
*
27663528 TTTTAAA-AGTTCTCATTTAAAA-
1 TCTTAAAGA-TTCTCATTTAAAAC
*
27663550 -CTTAAAGATGCTCATTTGAAAAC
1 TCTTAAAGATTCTCATTT-AAAAC
*
27663573 GTCTTAAAGGTTCTCATTTAAAA-
1 -TCTTAAAGATTCTCATTTAAAAC
*
27663596 -CTTAAATATTCTCATTTAAAGA-
1 TCTTAAAGATTCTCATTTAAA-AC
* *
27663618 T-TCAAAAATTCTCATTTAA
1 TCTTAAAGATTCTCATTTAA
27663637 GGATTCAAAG
Statistics
Matches: 92, Mismatches: 9, Indels: 19
0.77 0.08 0.16
Matches are distributed among these distances:
21 31 0.34
22 22 0.24
24 9 0.10
25 30 0.33
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.40
Consensus pattern (23 bp):
TCTTAAAGATTCTCATTTAAAAC
Found at i:27663629 original size:22 final size:22
Alignment explanation
Indices: 27663583--27663656 Score: 98
Period size: 22 Copynumber: 3.4 Consensus size: 22
27663573 GTCTTAAAGG
*
27663583 TTCTCATTTAAA-ACTT-AAATA
1 TTCTCATTTAAAGA-TTCAAAAA
27663604 TTCTCATTTAAAGATTCAAAAA
1 TTCTCATTTAAAGATTCAAAAA
* *
27663626 TTCTCATTTAAGGATTCAAAGA
1 TTCTCATTTAAAGATTCAAAAA
27663648 TTCTCATTT
1 TTCTCATTT
27663657 GAGTTCGGAG
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
21 14 0.29
22 34 0.71
ACGTcount: A:0.38, C:0.15, G:0.05, T:0.42
Consensus pattern (22 bp):
TTCTCATTTAAAGATTCAAAAA
Found at i:27663728 original size:21 final size:21
Alignment explanation
Indices: 27663699--27663780 Score: 94
Period size: 21 Copynumber: 3.9 Consensus size: 21
27663689 GTTTCACACC
27663699 TCAAAGATTCTCATTTGAAAT
1 TCAAAGATTCTCATTTGAAAT
* ***
27663720 TCTAAGATTCTCATTTGACGC
1 TCAAAGATTCTCATTTGAAAT
27663741 TCAAAGATTCTCATTT-AAGGAT
1 TCAAAGATTCTCATTTGAA--AT
*
27663763 TCAAAAATTCTCATTTGA
1 TCAAAGATTCTCATTTGA
27663781 GTTTGAAGAT
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
20 1 0.02
21 32 0.65
22 15 0.31
23 1 0.02
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.38
Consensus pattern (21 bp):
TCAAAGATTCTCATTTGAAAT
Found at i:27663765 original size:122 final size:122
Alignment explanation
Indices: 27663619--27663857 Score: 363
Period size: 122 Copynumber: 2.0 Consensus size: 122
27663609 ATTTAAAGAT
* * * *
27663619 TCAAAAATTCTCATTTAAGGATTCAAAGATTCTCATTTGAGTTCGGAGATTCACGTTCGATAAAT
1 TCAAAAATTCTCATTTAAGGATTCAAAAATTCTCATTTGAGTTCGAAGATTCACATTCAATAAAT
* * *
27663684 TTT-GAGTTTCACACCTCAAAGATTCTCATTTGAAATTCTAAGATTCTCATTTGACGC
66 TTTGGA-TTTCACACCTCAAAGATTCTCATTTGAAATTCAAAAATTCTAATTTGACGC
* *
27663741 TCAAAGATTCTCATTTAAGGATTCAAAAATTCTCATTTGAGTTTGAAGATTCACATTCAATAAAT
1 TCAAAAATTCTCATTTAAGGATTCAAAAATTCTCATTTGAGTTCGAAGATTCACATTCAATAAAT
* *
27663806 TTTGGATTTCACACCTCAAAGATTTTTATTTGAAATTCAAAAATTCTAATTT
66 TTTGGATTTCACACCTCAAAGATTCTCATTTGAAATTCAAAAATTCTAATTT
27663858 AAAGATTCTT
Statistics
Matches: 105, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
122 103 0.98
123 2 0.02
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (122 bp):
TCAAAAATTCTCATTTAAGGATTCAAAAATTCTCATTTGAGTTCGAAGATTCACATTCAATAAAT
TTTGGATTTCACACCTCAAAGATTCTCATTTGAAATTCAAAAATTCTAATTTGACGC
Found at i:27663792 original size:42 final size:42
Alignment explanation
Indices: 27663698--27663780 Score: 123
Period size: 43 Copynumber: 2.0 Consensus size: 42
27663688 AGTTTCACAC
* *
27663698 CTCAAAGATTCTCATTTGAAATTCTAAGATTCTCATTTGACG
1 CTCAAAGATTCTCATTTGAAATTCAAAAATTCTCATTTGACG
27663740 CTCAAAGATTCTCATTT-AAGGATTCAAAAATTCTCATTTGA
1 CTCAAAGATTCTCATTTGAA--ATTCAAAAATTCTCATTTGA
27663781 GTTTGAAGAT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
41 2 0.05
42 17 0.46
43 18 0.49
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.37
Consensus pattern (42 bp):
CTCAAAGATTCTCATTTGAAATTCAAAAATTCTCATTTGACG
Found at i:27663919 original size:25 final size:25
Alignment explanation
Indices: 27663877--27663973 Score: 103
Period size: 25 Copynumber: 4.0 Consensus size: 25
27663867 TATAAGATTC
*
27663877 AAAGATTTTCATTTAAAAATATCTT
1 AAAGATTCTCATTTAAAAATATCTT
*
27663902 AAACATTCTCATTT--AAA-A-CTT
1 AAAGATTCTCATTTAAAAATATCTT
* **
27663923 AAAGATTCTCATTTGAAAACGTCTT
1 AAAGATTCTCATTTAAAAATATCTT
* *
27663948 AAAGATTCTCATTTAAGAATTTCTT
1 AAAGATTCTCATTTAAAAATATCTT
27663973 A
1 A
27663974 TTTAAAAACT
Statistics
Matches: 60, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
21 16 0.27
22 1 0.02
23 6 0.10
25 37 0.62
ACGTcount: A:0.40, C:0.13, G:0.06, T:0.40
Consensus pattern (25 bp):
AAAGATTCTCATTTAAAAATATCTT
Found at i:27663991 original size:37 final size:37
Alignment explanation
Indices: 27663948--27664215 Score: 369
Period size: 37 Copynumber: 7.1 Consensus size: 37
27663938 AAAACGTCTT
* * *
27663948 AAAGATTCTCATTTAAGAATTTCTTATTTAAAAACTT
1 AAAGATTCTCATTTGAGGATTTCTTATTTAAAAACTC
* *
27663985 AAAGATTCTCATTTGAGGATTTTTTATCTAAAAACTC
1 AAAGATTCTCATTTGAGGATTTCTTATTTAAAAACTC
* *
27664022 AAAAATTCTCATTTGAAGATTTCTTATTTAAAAAAAAAGAACTC
1 AAAGATTCTCATTTGAGGATTTCTTATTT------AAA-AACTC
27664066 AAAGATTCTCATTTGAGGATTTCTTATTTAAAAACTC
1 AAAGATTCTCATTTGAGGATTTCTTATTTAAAAACTC
*
27664103 AAATATTCTCATTTGAGGATTTCTTATTT-AAAACTC
1 AAAGATTCTCATTTGAGGATTTCTTATTTAAAAACTC
27664139 AAA-ATTTCTCATTTGAGGATTTCTTATTTAAAAACTC
1 AAAGA-TTCTCATTTGAGGATTTCTTATTTAAAAACTC
*
27664176 AAAGATTCTCATTTGAGAATTTCTTATTTAAAAACTC
1 AAAGATTCTCATTTGAGGATTTCTTATTTAAAAACTC
27664213 AAA
1 AAA
27664216 ATTTCTTTTG
Statistics
Matches: 208, Mismatches: 13, Indels: 20
0.86 0.05 0.08
Matches are distributed among these distances:
35 1 0.00
36 34 0.16
37 134 0.64
38 4 0.02
43 3 0.01
44 32 0.15
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.40
Consensus pattern (37 bp):
AAAGATTCTCATTTGAGGATTTCTTATTTAAAAACTC
Found at i:27664075 original size:81 final size:78
Alignment explanation
Indices: 27663952--27664209 Score: 324
Period size: 81 Copynumber: 3.4 Consensus size: 78
27663942 CGTCTTAAAG
* *
27663952 ATTCTCATTT-AAGAATTTCTTATTT----AAAAACTTAAAGATTCTCATTTGAGGATTTTTTAT
1 ATTCTCATTTGAAG-ATTTCTTATTTAAAAAAAAACTCAAAGATTCTCATTTGAGGATTTCTTAT
*
27664012 CTAAAAACTCAAAA
65 TTAAAAACTCAAAA
27664026 ATTCTCATTTGAAGATTTCTTATTTAAAAAAAAAGAACTCAAAGATTCTCATTTGAGGATTTCTT
1 ATTCTCATTTGAAGATTTCTTATTT--AAAAAAA-AACTCAAAGATTCTCATTTGAGGATTTCTT
*
27664091 ATTTAAAAACTCAAAT
63 ATTTAAAAACTCAAAA
*
27664107 ATTCTCATTTGAGGATTTCTTATTT-----AAAACTCAAA-ATTTCTCATTTGAGGATTTCTTAT
1 ATTCTCATTTGAAGATTTCTTATTTAAAAAAAAACTCAAAGA-TTCTCATTTGAGGATTTCTTAT
*
27664166 TTAAAAACTCAAAG
65 TTAAAAACTCAAAA
27664180 ATTCTCATTTG-AGAATTTCTTATTTAAAAA
1 ATTCTCATTTGAAG-ATTTCTTATTTAAAAA
27664210 CTCAAAATTT
Statistics
Matches: 162, Mismatches: 7, Indels: 26
0.83 0.04 0.13
Matches are distributed among these distances:
72 2 0.01
73 65 0.40
74 23 0.14
75 3 0.02
80 3 0.02
81 66 0.41
ACGTcount: A:0.38, C:0.12, G:0.08, T:0.41
Consensus pattern (78 bp):
ATTCTCATTTGAAGATTTCTTATTTAAAAAAAAACTCAAAGATTCTCATTTGAGGATTTCTTATT
TAAAAACTCAAAA
Found at i:27664155 original size:73 final size:74
Alignment explanation
Indices: 27664061--27664221 Score: 281
Period size: 73 Copynumber: 2.2 Consensus size: 74
27664051 AAAAAAAAAG
* *
27664061 AACTCAAAGA-TTCTCATTTGAGGATTTCTTATTTAAAAACTCAAATATTCTCATTTGAGGATTT
1 AACTCAAA-ATTTCTCATTTGAGGATTTCTTATTTAAAAACTCAAAGATTCTCATTTGAGAATTT
27664125 CTTATTT-AA
65 CTTATTTAAA
27664134 AACTCAAAATTTCTCATTTGAGGATTTCTTATTTAAAAACTCAAAGATTCTCATTTGAGAATTTC
1 AACTCAAAATTTCTCATTTGAGGATTTCTTATTTAAAAACTCAAAGATTCTCATTTGAGAATTTC
27664199 TTATTTAAA
66 TTATTTAAA
27664208 AACTCAAAATTTCT
1 AACTCAAAATTTCT
27664222 TTTGCATATG
Statistics
Matches: 84, Mismatches: 2, Indels: 3
0.94 0.02 0.03
Matches are distributed among these distances:
72 1 0.01
73 67 0.80
74 16 0.19
ACGTcount: A:0.36, C:0.14, G:0.08, T:0.42
Consensus pattern (74 bp):
AACTCAAAATTTCTCATTTGAGGATTTCTTATTTAAAAACTCAAAGATTCTCATTTGAGAATTTC
TTATTTAAA
Found at i:27665041 original size:15 final size:15
Alignment explanation
Indices: 27665021--27665053 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
27665011 TAGTGAGTCT
27665021 TGGTATAAAAGTAAA
1 TGGTATAAAAGTAAA
27665036 TGGTATAAAAGTAAA
1 TGGTATAAAAGTAAA
27665051 TGG
1 TGG
27665054 GGAAAGAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.24, T:0.27
Consensus pattern (15 bp):
TGGTATAAAAGTAAA
Found at i:27665347 original size:22 final size:22
Alignment explanation
Indices: 27665322--27665365 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
27665312 TCCTTTCATC
*
27665322 ATTTTTCATTTTTTTATTTTTT
1 ATTTTTCATTTTTCTATTTTTT
*
27665344 ATTTTTCATTTTTCTCTTTTTT
1 ATTTTTCATTTTTCTATTTTTT
27665366 CCATCCATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.11, C:0.09, G:0.00, T:0.80
Consensus pattern (22 bp):
ATTTTTCATTTTTCTATTTTTT
Found at i:27665378 original size:44 final size:43
Alignment explanation
Indices: 27665328--27665439 Score: 122
Period size: 44 Copynumber: 2.6 Consensus size: 43
27665318 CATCATTTTT
*
27665328 CATTTTTTTATTTTTTATTTTTCATTTTTC-TCTTTTTTCCATC
1 CATTTTTTTTTTTTTTATTTTTCATTTTTCATCTTTTTT-CATC
*
27665371 CATTTTTTCCTTTTTTTTCTTTTT--TTTTTCATCTTTTTTCATTC
1 CATTTTTT--TTTTTTTTATTTTTCATTTTTCATCTTTTTTCA-TC
** *
27665415 TTTTTTTTTTTTTTTTATCTTTCAT
1 CATTTTTTTTTTTTTTATTTTTCAT
27665440 CCACTATTGA
Statistics
Matches: 57, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
42 12 0.21
43 16 0.28
44 17 0.30
45 12 0.21
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (43 bp):
CATTTTTTTTTTTTTTATTTTTCATTTTTCATCTTTTTTCATC
Found at i:27665388 original size:10 final size:10
Alignment explanation
Indices: 27665373--27665428 Score: 53
Period size: 10 Copynumber: 5.6 Consensus size: 10
27665363 TTTCCATCCA
*
27665373 TTTTTTCCTT
1 TTTTTTCATT
*
27665383 TTTTTTCTTTT
1 TTTTTTC-ATT
*
27665394 TTTTTTCATC
1 TTTTTTCATT
27665404 TTTTTTCATT
1 TTTTTTCATT
27665414 CTTTTTT--TT
1 -TTTTTTCATT
27665423 TTTTTT
1 TTTTTT
27665429 TTATCTTTCA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
8 6 0.15
9 2 0.05
10 17 0.43
11 15 0.38
ACGTcount: A:0.04, C:0.12, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTTCATT
Found at i:27665408 original size:30 final size:30
Alignment explanation
Indices: 27665373--27665436 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 30
27665363 TTTCCATCCA
*
27665373 TTTTTTCCTT-TTTTTTCTTTTTTTTTTCATC
1 TTTTTTCATTCTTTTTT-TTTTTTTTTT-ATC
27665404 TTTTTTCATTCTTTTTTTTTTTTTTTTATC
1 TTTTTTCATTCTTTTTTTTTTTTTTTTATC
27665434 TTT
1 TTT
27665437 CATCCACTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
30 6 0.19
31 19 0.61
32 6 0.19
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.83
Consensus pattern (30 bp):
TTTTTTCATTCTTTTTTTTTTTTTTTTATC
Found at i:27665429 original size:11 final size:11
Alignment explanation
Indices: 27665381--27665430 Score: 57
Period size: 11 Copynumber: 4.4 Consensus size: 11
27665371 CATTTTTTCC
27665381 TTTTTTTTCTT
1 TTTTTTTTCTT
27665392 TTTTTTTTCATCT
1 TTTTTTTTC-T-T
*
27665405 TTTTTCATTCTT
1 TTTTT-TTTCTT
27665417 TTTTTTTT-TT
1 TTTTTTTTCTT
27665427 TTTT
1 TTTT
27665431 ATCTTTCATC
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
10 6 0.18
11 11 0.32
12 7 0.21
13 7 0.21
14 3 0.09
ACGTcount: A:0.04, C:0.10, G:0.00, T:0.86
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:27665818 original size:9 final size:8
Alignment explanation
Indices: 27665794--27665841 Score: 51
Period size: 9 Copynumber: 5.4 Consensus size: 8
27665784 TTCATTCTTT
27665794 TTTTTTTC
1 TTTTTTTC
27665802 TCTTTTTTC
1 T-TTTTTTC
27665811 TTTGTTTTGC
1 TTT-TTTT-C
27665821 TTTTCTTTC
1 TTTT-TTTC
27665830 TTTTCTTTC
1 TTTT-TTTC
27665839 TTT
1 TTT
27665842 CTATCTTTGA
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
8 3 0.08
9 26 0.72
10 7 0.19
ACGTcount: A:0.00, C:0.17, G:0.04, T:0.79
Consensus pattern (8 bp):
TTTTTTTC
Found at i:27665829 original size:19 final size:18
Alignment explanation
Indices: 27665788--27665849 Score: 60
Period size: 17 Copynumber: 3.6 Consensus size: 18
27665778 GTGACATTCA
27665788 TTCTTT-TTTTTTTCTCT
1 TTCTTTCTTTTTTTCTCT
27665805 TT-TTTCTTTGTTTTGCT-T
1 TTCTTTCTTT-TTTT-CTCT
*
27665823 TTCTTTCTTTTCTT-TCT
1 TTCTTTCTTTTTTTCTCT
*
27665840 TTCTATCTTT
1 TTCTTTCTTT
27665850 GAGATCTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
16 4 0.11
17 15 0.39
18 10 0.26
19 9 0.24
ACGTcount: A:0.02, C:0.18, G:0.03, T:0.77
Consensus pattern (18 bp):
TTCTTTCTTTTTTTCTCT
Found at i:27669574 original size:120 final size:115
Alignment explanation
Indices: 27669422--27669760 Score: 319
Period size: 120 Copynumber: 2.9 Consensus size: 115
27669412 TTTTATTTTT
* * * * *
27669422 AAAAAAATTGATGCTTTTAACTTTTCCATAAAATGCTTTTCTTGATAATTTTATTTTTAAGAAAA
1 AAAAAAATTGATACTTTCAACTTTTCCCTAAAAT-ATTTT-TT-ATAATTTTATTTTCAAGAAAA
* *
27669487 ATTGGTACTTTCAACTTTTTCTCAAAATATTTTTTTTTCTAAAATTTTAAT-TTAA
63 ATTGATACTTTCAACTTTTTCTCAAAATATATTTTTTT-T--AATTTTAATGTTAA
* *
27669542 AAAAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTATACCTTTCTATTTTCAAGAGA
1 AAAAAAATTGATACTTTCAACTTTTCCCT-AAAATA-TTTTTTATA-ATTT-TATTTTCAAGAAA
* * * ** *
27669607 AATTGATACTTTCAAC-TTTCCCCAAAAATCATATTTTTTTTATTTTTTGTGTTCA
62 AATTGATACTTTCAACTTTTTCTC-AAAAT-ATATTTTTTTTAATTTTAATGTTAA
** * *
27669662 AAGGAAATTGATA-TATTCAA-TTTTCCTTCAAAAATATTTTTTAAAATTTTATTTTCAAGAAAA
1 AAAAAAATTGATACT-TTCAACTTTTCC--CTAAAATATTTTTTATAATTTTATTTTCAAGAAAA
* *
27669725 ATTGATACTTTCAACTTTTTCTTAAAA-ATATGTTTT
63 ATTGATACTTTCAACTTTTTCTCAAAATATATTTTTT
27669761 AGGAATTGAA
Statistics
Matches: 183, Mismatches: 25, Indels: 27
0.78 0.11 0.11
Matches are distributed among these distances:
115 8 0.04
117 32 0.17
118 7 0.04
119 24 0.13
120 61 0.33
121 42 0.23
122 9 0.05
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.47
Consensus pattern (115 bp):
AAAAAAATTGATACTTTCAACTTTTCCCTAAAATATTTTTTATAATTTTATTTTCAAGAAAAATT
GATACTTTCAACTTTTTCTCAAAATATATTTTTTTTAATTTTAATGTTAA
Found at i:27669582 original size:60 final size:59
Alignment explanation
Indices: 27669412--27669760 Score: 257
Period size: 60 Copynumber: 5.9 Consensus size: 59
27669402 ATTTGGAGGT
* * * * * * * *
27669412 TTTTATTTT-TAAAAAAATTGATGCTTTTAACTTTTCCAT-AAAATGCTTTTCTTGATAA
1 TTTTATTTTCAAAAAAAATTGATACTTTCAACTTTTCCCTAAAAAT-ATTTTTTTTAAAA
* * * * *
27669470 TTTTATTTTTAAGAAAAATTGGTACTTTCAACTTTT-TCTCAAAATATTTTTTTTTCTAAAA
1 TTTTATTTTCAAAAAAAATTGATACTTTCAACTTTTCCCT-AAAA-ATATTTTTTT-TAAAA
* * **
27669531 TTTTAATTTAAAAAAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTTATACC
1 TTTTATTTTCAAAAAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTA-AAA
* * * * **
27669590 TTTCTATTTTCAAGAGAAATTGATACTTTCAAC-TTTCCCCAAAAATCATATTTTTTTTATT
1 TTT-TATTTTCAAAAAAAATTGATACTTTCAACTTTTCCCTAAAAAT-AT-TTTTTTTAAAA
* * ** *
27669651 TTTTGTGTTCAAAGGAAATTGATA-TATTCAA-TTTTCCTTCAAAAATA--TTTTTTAAAA
1 TTTTATTTTCAAAAAAAATTGATACT-TTCAACTTTTCCCT-AAAAATATTTTTTTTAAAA
* * * *
27669708 TTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTTCTTAAAAATATGTTTT
1 TTTTATTTTCAAAAAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTT
27669761 AGGAATTGAA
Statistics
Matches: 231, Mismatches: 42, Indels: 35
0.75 0.14 0.11
Matches are distributed among these distances:
57 38 0.16
58 20 0.09
59 48 0.21
60 65 0.28
61 51 0.22
62 9 0.04
ACGTcount: A:0.34, C:0.11, G:0.05, T:0.49
Consensus pattern (59 bp):
TTTTATTTTCAAAAAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTAAAA
Found at i:27669781 original size:19 final size:20
Alignment explanation
Indices: 27669749--27669786 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
27669739 CTTTTTCTTA
*
27669749 AAAATATGTTTTAGGAATTG
1 AAAATATGTTTTAGAAATTG
27669769 AAAATAT-TTTTAGAAATT
1 AAAATATGTTTTAGAAATT
27669787 TTATTTTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.45, C:0.00, G:0.13, T:0.42
Consensus pattern (20 bp):
AAAATATGTTTTAGAAATTG
Found at i:27669857 original size:19 final size:20
Alignment explanation
Indices: 27669826--27669863 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
27669816 TTTTTTCTCA
*
27669826 AAAATATTTTTTAGAAATTG
1 AAAATATTTTTTAAAAATTG
27669846 AAAATA-TTTTTAAAAATT
1 AAAATATTTTTTAAAAATT
27669864 TTATTTTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (20 bp):
AAAATATTTTTTAAAAATTG
Found at i:27669913 original size:77 final size:77
Alignment explanation
Indices: 27669692--27669915 Score: 358
Period size: 77 Copynumber: 2.9 Consensus size: 77
27669682 TTTTCCTTCA
* * *
27669692 AAAATATTTTTTAAAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTTCTTAAAAATATG
1 AAAATATTTTTAAAAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATT
*
27669757 TTTTAGGAATTG
66 TTTTAGAAATTG
* *
27669769 AAAATATTTTTAGAAATTTTATTTTCAAGAAAAATTGATACTTTCAATTTTTTCTCAAAAATATT
1 AAAATATTTTTAAAAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATT
27669834 TTTTAGAAATTG
66 TTTTAGAAATTG
* * * *
27669846 AAAATATTTTTAAAAATTTTATTTTCAAGAAAATTTGATACTTTCAACTTTTCCTCAAAATTTTT
1 AAAATATTTTTAAAAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATT
27669911 TTTTA
66 TTTTA
27669916 ATTTTTAATT
Statistics
Matches: 135, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
77 135 1.00
ACGTcount: A:0.39, C:0.08, G:0.06, T:0.48
Consensus pattern (77 bp):
AAAATATTTTTAAAAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATT
TTTTAGAAATTG
Found at i:27669927 original size:18 final size:18
Alignment explanation
Indices: 27669904--27669940 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
27669894 TTTTCCTCAA
*
27669904 AATTTTTTTTTAATTTTT
1 AATTTTTATTTAATTTTT
*
27669922 AATTTTTATTTGATTTTT
1 AATTTTTATTTAATTTTT
27669940 A
1 A
27669941 TTAAATTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (18 bp):
AATTTTTATTTAATTTTT
Found at i:27670008 original size:16 final size:15
Alignment explanation
Indices: 27669976--27670013 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
27669966 AACCTCATAA
*
27669976 AAATAAATAACACAT
1 AAATAAATAACAAAT
27669991 AAATAAATAAACAAAT
1 AAATAAAT-AACAAAT
27670007 AAATAAA
1 AAATAAA
27670014 ATACCCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.74, C:0.08, G:0.00, T:0.18
Consensus pattern (15 bp):
AAATAAATAACAAAT
Found at i:27680549 original size:18 final size:19
Alignment explanation
Indices: 27680526--27680561 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
27680516 ACTTTAAATA
*
27680526 TTTTATTAAATTA-ATTTT
1 TTTTATAAAATTAGATTTT
27680544 TTTTATAAAATTAGATTT
1 TTTTATAAAATTAGATTT
27680562 CAAAAACTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (19 bp):
TTTTATAAAATTAGATTTT
Found at i:27681896 original size:33 final size:33
Alignment explanation
Indices: 27681852--27681922 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
27681842 TTTTACTAGT
* **
27681852 AAAAAATTTGGTTTGTATATAGCGTTTGGCATG
1 AAAAAAGTTGGTTTGTATATAGCGTTTCACATG
*
27681885 AAAAAAGTTGGTTTGTATATAGTGTTTCACATG
1 AAAAAAGTTGGTTTGTATATAGCGTTTCACATG
27681918 AAAAA
1 AAAAA
27681923 CGCATTCAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.37, C:0.06, G:0.21, T:0.37
Consensus pattern (33 bp):
AAAAAAGTTGGTTTGTATATAGCGTTTCACATG
Found at i:27682467 original size:61 final size:64
Alignment explanation
Indices: 27682402--27682558 Score: 166
Period size: 61 Copynumber: 2.5 Consensus size: 64
27682392 TATTCAAGGC
* *
27682402 ATTTTTTGTTAGAAAACGTCTTGAATAATCCCCT-CT-CATTTTT-TAGAGGATTATTCAA-AAT
1 ATTTTTTGTTA-AAAACGTCTTGAATAATCCCCTACTAAATTTTTATAAAGGATTATTCAAGAAT
* * * *
27682463 ATTTTTTGTCAAAAAACGTCTTTAATAA--CCCTATTAAATTTTTAATAAAGGATTATTCAAGAC
1 ATTTTTTGT-TAAAAACGTCTTGAATAATCCCCTACTAAATTTTT-ATAAAGGATTATTCAAGAA
27682526 T
64 T
* *
27682527 -TTTTTTGCTAAAAACGTCTAGAATAATCCCCT
1 ATTTTTTGTTAAAAACGTCTTGAATAATCCCCT
27682559 TCAAAGTATT
Statistics
Matches: 78, Mismatches: 10, Indels: 13
0.77 0.10 0.13
Matches are distributed among these distances:
59 4 0.05
60 1 0.01
61 30 0.38
62 16 0.21
63 21 0.27
64 6 0.08
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.41
Consensus pattern (64 bp):
ATTTTTTGTTAAAAACGTCTTGAATAATCCCCTACTAAATTTTTATAAAGGATTATTCAAGAAT
Found at i:27687997 original size:24 final size:26
Alignment explanation
Indices: 27687936--27687997 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 26
27687926 TGGTATGGTG
*
27687936 GATGG-AAAAATGAAAAGATAGAAAA
1 GATGGAAAAAAAGAAAAGATAGAAAA
* * *
27687961 -TTGGAACACAAGAAAAG-T-GAAAA
1 GATGGAAAAAAAGAAAAGATAGAAAA
27687984 GATGGAAAAAAAGA
1 GATGGAAAAAAAGA
27687998 TTTTTTTTTT
Statistics
Matches: 28, Mismatches: 7, Indels: 5
0.70 0.17 0.12
Matches are distributed among these distances:
23 5 0.18
24 14 0.50
25 9 0.32
ACGTcount: A:0.61, C:0.03, G:0.24, T:0.11
Consensus pattern (26 bp):
GATGGAAAAAAAGAAAAGATAGAAAA
Found at i:27691409 original size:2 final size:2
Alignment explanation
Indices: 27691402--27691427 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
27691392 CTATGAATTT
27691402 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
27691428 CATAGTGGAA
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):
TA
Found at i:27695550 original size:122 final size:122
Alignment explanation
Indices: 27695344--27695613 Score: 283
Period size: 122 Copynumber: 2.2 Consensus size: 122
27695334 AATCAATATC
* * * * * *
27695344 TATAAATCATCTCAATCTCCTCTAGTTCTATGGAGTATTCTTAACTAAAACAAACACATACACAT
1 TATAGATCATCTCAGTCTCTTATAGTTCTATGAAGTATTCTCAACTAAAACAAACACATACACAT
* * * * * *
27695409 ATGCACCATTTTAACACAAACAAATACATACTTATATGTA-CCTATTCATCATACCTA
66 ATACACCATTTCAACACAAACAAACACATACTCATATGTATCC-ATTAATCAAACCTA
* * * * *
27695466 TATAGATCATCTTAGTCTCTTATAGTTCTTTGAAGTATTCTCAACCT-AAATAAATACATACCCA
1 TATAGATCATCTCAGTCTCTTATAGTTCTATGAAGTATTCTCAA-CTAAAACAAACACATACACA
* * * * * *
27695530 TGTACACCCTTTCAATACAAATAAACATATACTCATATGTATCCATTAATCAAACTTA
65 TATACACCATTTCAACACAAACAAACACATACTCATATGTATCCATTAATCAAACCTA
* *
27695588 TGTAGATCATCTCAGTCTCTTCTAGT
1 TATAGATCATCTCAGTCTCTTATAGT
27695614 CCACTCATAT
Statistics
Matches: 120, Mismatches: 26, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
122 116 0.97
123 4 0.03
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.34
Consensus pattern (122 bp):
TATAGATCATCTCAGTCTCTTATAGTTCTATGAAGTATTCTCAACTAAAACAAACACATACACAT
ATACACCATTTCAACACAAACAAACACATACTCATATGTATCCATTAATCAAACCTA
Found at i:27696052 original size:3 final size:3
Alignment explanation
Indices: 27696044--27696069 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
27696034 TGTATTTGAC
27696044 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
27696070 CATCATCGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:27696385 original size:2 final size:2
Alignment explanation
Indices: 27696378--27696404 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
27696368 AAGGTTAATT
27696378 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 T
27696405 TAGGCTTATA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:27698308 original size:13 final size:14
Alignment explanation
Indices: 27698276--27698316 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
27698266 AAAAATCTAA
*
27698276 TAAATATATATTTT
1 TAAATAAATATTTT
27698290 TAAATAAATATTTT
1 TAAATAAATATTTT
*
27698304 TAATAAAAATATT
1 TAA-ATAAATATT
27698317 AACAAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 16 0.67
15 8 0.33
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
TAAATAAATATTTT
Found at i:27702667 original size:15 final size:15
Alignment explanation
Indices: 27702649--27702683 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
27702639 AAATAAAAAA
27702649 TAATTAAATTAAATT
1 TAATTAAATTAAATT
* *
27702664 TAATAAAATTATATT
1 TAATTAAATTAAATT
27702679 TAATT
1 TAATT
27702684 CACGTATATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
TAATTAAATTAAATT
Found at i:27702751 original size:59 final size:58
Alignment explanation
Indices: 27702626--27702753 Score: 136
Period size: 56 Copynumber: 2.2 Consensus size: 58
27702616 TTGAACTTAA
27702626 TTTATATA-ATAAAAAATAAAAAATAATTAAATTAAATTTAATAAAATTATATTTAATT
1 TTTATATATATAAAAAATAAAAAATAA-TAAATTAAATTTAATAAAATTATATTTAATT
**** * * *
27702684 CACGTATATAT-AAAAATTAAAAATAA-AAATTAAGTTTAATAAAATATATATTTTTTATT
1 TTTATATATATAAAAAATAAAAAATAATAAATTAAATTTAATAAAAT-TATA--TTTAATT
27702743 TTTATATATAT
1 TTTATATATAT
27702754 GTGATAGCTT
Statistics
Matches: 55, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
56 18 0.33
57 4 0.07
58 18 0.33
59 15 0.27
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (58 bp):
TTTATATATATAAAAAATAAAAAATAATAAATTAAATTTAATAAAATTATATTTAATT
Found at i:27706907 original size:6 final size:6
Alignment explanation
Indices: 27706898--27706929 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
27706888 CAATGCCCAT
27706898 ATCCAA ATCCAA ATCCAA ATCCAA ATCCAA AT
1 ATCCAA ATCCAA ATCCAA ATCCAA ATCCAA AT
27706930 GCAAGGCTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (6 bp):
ATCCAA
Found at i:27707344 original size:21 final size:19
Alignment explanation
Indices: 27707318--27707356 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
27707308 ACATCGACTC
27707318 TATATAATATTTTAATAATTT
1 TATAT-ATATTTTAA-AATTT
*
27707339 TATATATTTTTTAAAATT
1 TATATATATTTTAAAATT
27707357 AAGTTAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 8 0.47
21 5 0.29
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TATATATATTTTAAAATTT
Found at i:27712098 original size:39 final size:39
Alignment explanation
Indices: 27712042--27712153 Score: 179
Period size: 39 Copynumber: 2.9 Consensus size: 39
27712032 ATGCTTAAGC
* *
27712042 AGAAACACTACGAGAGGAACCCCCTTGATTGGCCGCCGA
1 AGAAACACTACGTGAGGAACCCCCTTGATTGGCCGCAGA
*
27712081 AGAAACACTACGTGAGGAACCCCCTTGATTCGCCGCAGA
1 AGAAACACTACGTGAGGAACCCCCTTGATTGGCCGCAGA
* *
27712120 AGAAACACTCCGTGAAGAACCCCCTTGATTGGCC
1 AGAAACACTACGTGAGGAACCCCCTTGATTGGCC
27712154 AAGAAACGGA
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 67 1.00
ACGTcount: A:0.30, C:0.31, G:0.23, T:0.15
Consensus pattern (39 bp):
AGAAACACTACGTGAGGAACCCCCTTGATTGGCCGCAGA
Found at i:27716295 original size:18 final size:18
Alignment explanation
Indices: 27716260--27716299 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
27716250 CAGAGGCTTC
* *
27716260 GTTTCTGTTTCGTCTTTG
1 GTTTCAGTTCCGTCTTTG
*
27716278 GTTTCAGTTCCGTTTTTG
1 GTTTCAGTTCCGTCTTTG
27716296 GTTT
1 GTTT
27716300 GTTGAAAGCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.03, C:0.15, G:0.23, T:0.60
Consensus pattern (18 bp):
GTTTCAGTTCCGTCTTTG
Found at i:27737979 original size:61 final size:61
Alignment explanation
Indices: 27737883--27738006 Score: 176
Period size: 61 Copynumber: 2.0 Consensus size: 61
27737873 CTAGGTCAAA
* * * *
27737883 AATATATTTTTTCAACATGGACATATGAAGCACATTTTGGACACTAGATAACTAAGGTGGC
1 AATATATTTTTTCAACATGGACACATGAAACACATTGTGCACACTAGATAACTAAGGTGGC
* * **
27737944 AATATATTTTTTCAACATGGACACATGAAATACATTGTGCATACTAGATAGTTAAGGTGGC
1 AATATATTTTTTCAACATGGACACATGAAACACATTGTGCACACTAGATAACTAAGGTGGC
27738005 AA
1 AA
27738007 GGCTATTCTA
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
61 55 1.00
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (61 bp):
AATATATTTTTTCAACATGGACACATGAAACACATTGTGCACACTAGATAACTAAGGTGGC
Found at i:27741273 original size:33 final size:32
Alignment explanation
Indices: 27741236--27741321 Score: 102
Period size: 33 Copynumber: 2.7 Consensus size: 32
27741226 TAATCTAATT
* *
27741236 ATCATAATTTAACTTCTTAAAAAATCTCTAAA
1 ATCATAATATAACTTCTTAAAAAATCTCCAAA
** *
27741268 GATCATAACCTAAGTTCTTAAAAAATCTCCAAA
1 -ATCATAATATAACTTCTTAAAAAATCTCCAAA
27741301 ATCATAATATAAGC-TCTTAAA
1 ATCATAATATAA-CTTCTTAAA
27741322 CATCCCACAT
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
32 17 0.38
33 28 0.62
ACGTcount: A:0.47, C:0.17, G:0.03, T:0.33
Consensus pattern (32 bp):
ATCATAATATAACTTCTTAAAAAATCTCCAAA
Found at i:27741305 original size:32 final size:33
Alignment explanation
Indices: 27741249--27741321 Score: 103
Period size: 32 Copynumber: 2.2 Consensus size: 33
27741239 ATAATTTAAC
* *
27741249 TTCTTAAAAAATCTCTAAAGATCATAACCTAAG
1 TTCTTAAAAAATCTCCAAAGATCATAACATAAG
*
27741282 TTCTTAAAAAATCTCCAAA-ATCATAATATAAG
1 TTCTTAAAAAATCTCCAAAGATCATAACATAAG
*
27741314 CTCTTAAA
1 TTCTTAAA
27741322 CATCCCACAT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
32 18 0.50
33 18 0.50
ACGTcount: A:0.47, C:0.18, G:0.04, T:0.32
Consensus pattern (33 bp):
TTCTTAAAAAATCTCCAAAGATCATAACATAAG
Found at i:27747013 original size:19 final size:20
Alignment explanation
Indices: 27746984--27747022 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
27746974 TACAATAAAT
*
27746984 ATATATTCATCCAACTCTCA
1 ATATATTCATCCAAATCTCA
27747004 ATAT-TTCATCCAAATCTCA
1 ATATATTCATCCAAATCTCA
27747023 TCCCATCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.36, C:0.28, G:0.00, T:0.36
Consensus pattern (20 bp):
ATATATTCATCCAAATCTCA
Found at i:27750484 original size:7 final size:7
Alignment explanation
Indices: 27750463--27750492 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
27750453 TAAAAAAATG
27750463 AAATTTA
1 AAATTTA
27750470 ACAATTTA
1 A-AATTTA
27750478 AAATTTA
1 AAATTTA
27750485 AAATTTA
1 AAATTTA
27750492 A
1 A
27750493 CATCTATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (7 bp):
AAATTTA
Found at i:27750491 original size:14 final size:15
Alignment explanation
Indices: 27750463--27750492 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
27750453 TAAAAAAATG
27750463 AAATTTAACAATTTA
1 AAATTTAACAATTTA
27750478 AAATTTAA-AATTTA
1 AAATTTAACAATTTA
27750492 A
1 A
27750493 CATCTATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (15 bp):
AAATTTAACAATTTA
Found at i:27751202 original size:20 final size:20
Alignment explanation
Indices: 27751158--27751209 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 20
27751148 ATACATCTGT
27751158 AAAATTATA-TCAAATAAAA
1 AAAATTATATTCAAATAAAA
*
27751177 ATAAATTATATTTAAA-AAATA
1 A-AAATTATATTCAAATAAA-A
27751198 AAAATATATATT
1 AAAAT-TATATT
27751210 ATTAAATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
19 1 0.04
20 15 0.54
21 12 0.43
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAATTATATTCAAATAAAA
Found at i:27751212 original size:24 final size:23
Alignment explanation
Indices: 27751169--27751222 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
27751159 AAATTATATC
27751169 AAATAAAAATAAATTATATTTAAA
1 AAATAAAAATAAATTATA-TTAAA
*
27751193 AAATAAAAATATA-TATTATTAAA
1 AAATAAAAATAAATTA-TATTAAA
*
27751216 TAATAAA
1 AAATAAA
27751223 TTAAATAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 13 0.48
24 14 0.52
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (23 bp):
AAATAAAAATAAATTATATTAAA
Found at i:27751325 original size:19 final size:19
Alignment explanation
Indices: 27751284--27751325 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
27751274 ATTATTATAC
* *
27751284 AAAATATGAAAAATGTTAG
1 AAAATATGAAAAATGTGAA
27751303 AAAATATGCAAAAAT-TGAA
1 AAAATATG-AAAAATGTGAA
27751322 AAAA
1 AAAA
27751326 ATATTATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.64, C:0.02, G:0.12, T:0.21
Consensus pattern (19 bp):
AAAATATGAAAAATGTGAA
Found at i:27751406 original size:46 final size:47
Alignment explanation
Indices: 27751354--27751443 Score: 146
Period size: 46 Copynumber: 1.9 Consensus size: 47
27751344 ATGAAACTAT
* * *
27751354 AATAATAATAAAATATATCTTAGAAAAAATTTACT-AAAAAAATTGC
1 AATAATAATAAAATATACCTTAGAAAAAAGTTAATGAAAAAAATTGC
27751400 AATAATAATAAAATATACCTTAGAAAAAAGTTAATGAAAAAAAT
1 AATAATAATAAAATATACCTTAGAAAAAAGTTAATGAAAAAAAT
27751444 AAAAAAATTA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
46 32 0.80
47 8 0.20
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.28
Consensus pattern (47 bp):
AATAATAATAAAATATACCTTAGAAAAAAGTTAATGAAAAAAATTGC
Found at i:27751468 original size:23 final size:21
Alignment explanation
Indices: 27751423--27751465 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
27751413 TATACCTTAG
*
27751423 AAAAAAGTTAATGAAAAAAAT
1 AAAAAAATTAATGAAAAAAAT
* *
27751444 AAAAAAATTAATGTATAAAAT
1 AAAAAAATTAATGAAAAAAAT
27751465 A
1 A
27751466 TAATTTTGTA
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:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (21 bp):
AAAAAAATTAATGAAAAAAAT
Found at i:27752094 original size:2 final size:2
Alignment explanation
Indices: 27752084--27752121 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
27752074 TATATGTTGT
*
27752084 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
27752122 GGGGAATGAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:27756404 original size:2 final size:2
Alignment explanation
Indices: 27756392--27756431 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
27756382 CTGCTTTGTA
*
27756392 TG TG TG CG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
27756432 AGAGAGAGAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.03, G:0.50, T:0.47
Consensus pattern (2 bp):
TG
Found at i:27756436 original size:2 final size:2
Alignment explanation
Indices: 27756431--27756459 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
27756421 GTGTGTGTGT
27756431 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
27756460 GTAATTTAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:27757057 original size:3 final size:3
Alignment explanation
Indices: 27757049--27757080 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
27757039 TATAGTTAAG
27757049 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
27757081 CTCACTTCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:27763841 original size:2 final size:2
Alignment explanation
Indices: 27763834--27763868 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
27763824 CTAAAGCTTT
27763834 TA TA 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 TA TA T
27763869 TTTCACCCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:27769193 original size:29 final size:29
Alignment explanation
Indices: 27769142--27769201 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
27769132 AGAAATCTTT
*
27769142 TTGTTCATTTCACATATCGATCTTTGAAA
1 TTGTTCATTTCACATATCGATCTCTGAAA
* * **
27769171 TTGTTCATTTCATATTTTTATCTCTGAAA
1 TTGTTCATTTCACATATCGATCTCTGAAA
27769200 TT
1 TT
27769202 CTGTATTAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.25, C:0.15, G:0.08, T:0.52
Consensus pattern (29 bp):
TTGTTCATTTCACATATCGATCTCTGAAA
Found at i:27770930 original size:18 final size:18
Alignment explanation
Indices: 27770904--27770946 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
27770894 TTTTTCACTT
*
27770904 AATTGCTGGATTGTGCTA
1 AATTTCTGGATTGTGCTA
*
27770922 AATTTCTGGATTGTGCTG
1 AATTTCTGGATTGTGCTA
27770940 AATTTCT
1 AATTTCT
27770947 TAGGAACAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.12, G:0.23, T:0.44
Consensus pattern (18 bp):
AATTTCTGGATTGTGCTA
Found at i:27773687 original size:26 final size:25
Alignment explanation
Indices: 27773617--27773707 Score: 80
Period size: 26 Copynumber: 3.6 Consensus size: 25
27773607 GTAAATAAAT
27773617 TTTTTATTAAAAATATAAATT-AT-TA
1 TTTTTATTAAAAA-AT-AATTAATATA
* **
27773642 TTTTAAATTAATTAA-AATTAATATA
1 TTTT-TATTAAAAAATAATTAATATA
27773667 TTTTTATTAAAAAATATATTAATATA
1 TTTTTATTAAAAAATA-ATTAATATA
* *
27773693 TATTTATAAAAAAAT
1 TTTTTATTAAAAAAT
27773708 TACCTAAATA
Statistics
Matches: 53, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
23 4 0.08
24 9 0.17
25 12 0.23
26 28 0.53
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
TTTTTATTAAAAAATAATTAATATA
Found at i:27782777 original size:21 final size:22
Alignment explanation
Indices: 27782737--27782778 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
27782727 AATAATTAAA
*
27782737 AATATAATCGATTGAATTTAAGT
1 AATATAATC-ATTAAATTTAAGT
27782760 AATATAAT-ATTAAATTTAA
1 AATATAATCATTAAATTTAA
27782779 ATTTGATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
23 8 0.44
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.40
Consensus pattern (22 bp):
AATATAATCATTAAATTTAAGT
Found at i:27791753 original size:21 final size:22
Alignment explanation
Indices: 27791714--27791759 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
27791704 AATTTAAAAT
* *
27791714 TTTAATAAAAATTATAAATAAA
1 TTTAATAAAAATAAAAAATAAA
*
27791736 TTTAAT-AAAATAAAAAATATA
1 TTTAATAAAAATAAAAAATAAA
27791757 TTT
1 TTT
27791760 TATATTTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
TTTAATAAAAATAAAAAATAAA
Found at i:27791761 original size:22 final size:22
Alignment explanation
Indices: 27791711--27791761 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
27791701 TATAATTTAA
* *
27791711 AATTTTAATAAAAATTATAAAT
1 AATTTTAATAAAAATAAAAAAT
*
27791733 AAATTTAAT-AAAATAAAAAAT
1 AATTTTAATAAAAATAAAAAAT
27791754 ATATTTTA
1 A-ATTTTA
27791762 TATTTTTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 11 0.46
22 13 0.54
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
AATTTTAATAAAAATAAAAAAT
Found at i:27791810 original size:32 final size:31
Alignment explanation
Indices: 27791736--27791812 Score: 86
Period size: 30 Copynumber: 2.5 Consensus size: 31
27791726 TATAAATAAA
* **
27791736 TTTA-ATAAAATAAAAAATATATTTTATATT
1 TTTATATAAAATATAAAATATATCATATATT
*
27791766 TTTATAT-GAATATAAAATATATCATATAATT
1 TTTATATAAAATATAAAATATATCATAT-ATT
*
27791797 TTTTTATAAAATATAA
1 TTTATATAAAATATAA
27791813 CTTATATGTA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
30 20 0.53
31 11 0.29
32 7 0.18
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (31 bp):
TTTATATAAAATATAAAATATATCATATATT
Found at i:27794365 original size:13 final size:13
Alignment explanation
Indices: 27794347--27794385 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 13
27794337 AGTCTTCTAT
27794347 TTATATTTTAAAA
1 TTATATTTTAAAA
27794360 TTATATTTT-AAA
1 TTATATTTTAAAA
*
27794372 TT-TTTTTTAAAA
1 TTATATTTTAAAA
27794384 TT
1 TT
27794386 TTTTGACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
11 5 0.21
12 10 0.42
13 9 0.38
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTATATTTTAAAA
Found at i:27794384 original size:12 final size:12
Alignment explanation
Indices: 27794352--27794389 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
27794342 TCTATTTATA
*
27794352 TTTTAAAATTATA
1 TTTTAAAATT-TT
27794365 TTTT-AAATTTT
1 TTTTAAAATTTT
27794376 TTTTAAAATTTT
1 TTTTAAAATTTT
27794388 TT
1 TT
27794390 GACATTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 5 0.22
12 14 0.61
13 4 0.17
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
TTTTAAAATTTT
Found at i:27794654 original size:23 final size:23
Alignment explanation
Indices: 27794628--27794671 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
27794618 TTTACTAGTT
*
27794628 CTCTTTA-AGTAAGTAAAAATTGA
1 CTCTTTATA-TAAATAAAAATTGA
27794651 CTCTTTATATAAATAAAAATT
1 CTCTTTATATAAATAAAAATT
27794672 TTACTTCAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.45, C:0.09, G:0.07, T:0.39
Consensus pattern (23 bp):
CTCTTTATATAAATAAAAATTGA
Found at i:27795402 original size:15 final size:15
Alignment explanation
Indices: 27795382--27795411 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
27795372 ATGTTTGATA
27795382 GGAAGGAAGGAAAAT
1 GGAAGGAAGGAAAAT
*
27795397 GGAAGGAAGGGAAAT
1 GGAAGGAAGGAAAAT
27795412 AGGTGAGGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.43, T:0.07
Consensus pattern (15 bp):
GGAAGGAAGGAAAAT
Found at i:27795436 original size:16 final size:16
Alignment explanation
Indices: 27795381--27795441 Score: 52
Period size: 16 Copynumber: 3.8 Consensus size: 16
27795371 TATGTTTGAT
*
27795381 AGGAAGG-AAGGAAAA
1 AGGAAGGAAAGAAAAA
* * * *
27795396 TGGAAGGAAGGGAAAT
1 AGGAAGGAAAGAAAAA
*
27795412 AGGTGAGGAAAGAAAAA
1 AGG-AAGGAAAGAAAAA
27795429 AGGAAGGAAAGAA
1 AGGAAGGAAAGAA
27795442 GGAAAGTCAT
Statistics
Matches: 35, Mismatches: 9, Indels: 3
0.74 0.19 0.06
Matches are distributed among these distances:
15 6 0.17
16 17 0.49
17 12 0.34
ACGTcount: A:0.56, C:0.00, G:0.39, T:0.05
Consensus pattern (16 bp):
AGGAAGGAAAGAAAAA
Found at i:27796912 original size:2 final size:2
Alignment explanation
Indices: 27796897--27796937 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
27796887 TGAAGTTCCT
* * *
27796897 TA TA TA TG TG TA TA TA GA 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 TA TA TA TA TA T
27796938 TTAACCTGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (2 bp):
TA
Found at i:27799996 original size:31 final size:31
Alignment explanation
Indices: 27799961--27800056 Score: 102
Period size: 31 Copynumber: 3.1 Consensus size: 31
27799951 AACCATGCTA
* *
27799961 ATACCATTTGTCGGGGATAACCACAATTTTG
1 ATACCATTTGTTGGGAATAACCACAATTTTG
* * * * * *
27799992 ATACCCTTTGTTAGGAATTACGACAACTCTG
1 ATACCATTTGTTGGGAATAACCACAATTTTG
* *
27800023 ATACCACTTGTTGGGAATCACCACAATTTTG
1 ATACCATTTGTTGGGAATAACCACAATTTTG
27800054 ATA
1 ATA
27800057 TTACTTGTTA
Statistics
Matches: 50, Mismatches: 15, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
31 50 1.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (31 bp):
ATACCATTTGTTGGGAATAACCACAATTTTG
Found at i:27802343 original size:24 final size:24
Alignment explanation
Indices: 27802299--27802345 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
27802289 GATTTATAAT
**
27802299 TTAATAGAAGTAATTGGGTTTAAA
1 TTAATAGAAGTAATTAAGTTTAAA
27802323 TTAATAGATA-TAATTAAGTTTAA
1 TTAATAGA-AGTAATTAAGTTTAA
27802346 TAAAATTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 19 0.95
25 1 0.05
ACGTcount: A:0.45, C:0.00, G:0.15, T:0.40
Consensus pattern (24 bp):
TTAATAGAAGTAATTAAGTTTAAA
Found at i:27802384 original size:30 final size:30
Alignment explanation
Indices: 27802350--27802406 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
27802340 GTTTAATAAA
27802350 ATTATAAATATTA-ATATTAAATATATTTAT
1 ATTATAAAT-TTATATATTAAATATATTTAT
***
27802380 ATTATTTGTTTATATATTAAATATATT
1 ATTATAAATTTATATATTAAATATATT
27802407 AAAAAATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 3 0.13
30 20 0.87
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (30 bp):
ATTATAAATTTATATATTAAATATATTTAT
Found at i:27808018 original size:27 final size:27
Alignment explanation
Indices: 27807987--27808040 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
27807977 TGTCTTTAAG
27807987 GTTGATTCACATGTAATAAAATCTATT
1 GTTGATTCACATGTAATAAAATCTATT
27808014 GTTGATTCACATGTAATAAAATCTATT
1 GTTGATTCACATGTAATAAAATCTATT
27808041 TGAATTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (27 bp):
GTTGATTCACATGTAATAAAATCTATT
Found at i:27813273 original size:82 final size:82
Alignment explanation
Indices: 27813136--27813299 Score: 265
Period size: 82 Copynumber: 2.0 Consensus size: 82
27813126 AATGTCAAAG
* * *
27813136 AATGACAATATTCATATTATCTGGCTTTGCTGCATTATCTCATATCAAGTTTATTCAGATTTCTT
1 AATGACAATATTCATATTATCTGGCTTTGCTGCATAATCTCATATCAAGGTTATTCAGATTTCTC
27813201 GTTGACTAATCCTGGTT
66 GTTGACTAATCCTGGTT
* * * *
27813218 AATGACAATTTTCATATTATCTGGTTTTGTTGCATAATCTCATGTCAAGGTTATTCAGATTTCTC
1 AATGACAATATTCATATTATCTGGCTTTGCTGCATAATCTCATATCAAGGTTATTCAGATTTCTC
27813283 GTTGACTAATCCTGGTT
66 GTTGACTAATCCTGGTT
27813300 TCTTGTCCTT
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 75 1.00
ACGTcount: A:0.25, C:0.16, G:0.15, T:0.44
Consensus pattern (82 bp):
AATGACAATATTCATATTATCTGGCTTTGCTGCATAATCTCATATCAAGGTTATTCAGATTTCTC
GTTGACTAATCCTGGTT
Found at i:27830294 original size:59 final size:58
Alignment explanation
Indices: 27830208--27830378 Score: 231
Period size: 57 Copynumber: 2.9 Consensus size: 58
27830198 GTTTTAAGGT
27830208 TTTTATTTTCAAAAAAAATTGATACTTTCAACTTTTCTTCAAAAATACTTTTTTGAAAAA
1 TTTTATTTTC-AAAAAAATTGATACTTTCAACTTTTCTTCAAAAATA-TTTTTTGAAAAA
*
27830268 TTTTATTTTCAAAAAAATTGATACTTTCAACATTTTCTT--AAAATATTTTTTGAAAAT
1 TTTTATTTTCAAAAAAATTGATACTTTCAAC-TTTTCTTCAAAAATATTTTTTGAAAAA
* * *
27830325 TTTTATTTTCAAGGAAAATTAATACATTCAA-TTTTCTTTCAAAAATTATTTTTT
1 TTTTATTTTCAA-AAAAATTGATACTTTCAACTTTTC-TTCAAAAA-TATTTTTT
27830379 TTATTTTTAT
Statistics
Matches: 101, Mismatches: 4, Indels: 12
0.86 0.03 0.10
Matches are distributed among these distances:
56 5 0.05
57 25 0.25
58 21 0.21
59 25 0.25
60 25 0.25
ACGTcount: A:0.38, C:0.10, G:0.04, T:0.49
Consensus pattern (58 bp):
TTTTATTTTCAAAAAAATTGATACTTTCAACTTTTCTTCAAAAATATTTTTTGAAAAA
Found at i:27830385 original size:58 final size:56
Alignment explanation
Indices: 27830207--27830391 Score: 205
Period size: 58 Copynumber: 3.2 Consensus size: 56
27830197 CGTTTTAAGG
27830207 TTTTTATTTTCAAAAAAAATTGATACTTTCAACTTTTCTTCAAAAATACTTTTTTGAAAA
1 TTTTTATTTTC-AAAAAAATTGATACTTTCAA-TTTTCTTCAAAAATA-TTTTTT-AAAA
*
27830267 ATTTTATTTTCAAAAAAATTGATACTTTCAACATTTTCTT--AAAATATTTTTTGAAAA
1 TTTTTATTTTCAAAAAAATTGATACTTTC-A-ATTTTCTTCAAAAATATTTTTT-AAAA
* * * **
27830324 TTTTTATTTTCAAGGAAAATTAATACATTCAATTTTCTTTCAAAAATTATTTTTT-TTA
1 TTTTTATTTTCAA-AAAAATTGATACTTTCAATTTTC-TTCAAAAA-TATTTTTTAAAA
27830382 TTTTTATTTT
1 TTTTTATTTT
27830392 AAAGAGATCA
Statistics
Matches: 111, Mismatches: 7, Indels: 16
0.83 0.05 0.12
Matches are distributed among these distances:
56 6 0.05
57 26 0.23
58 30 0.27
59 22 0.20
60 26 0.23
61 1 0.01
ACGTcount: A:0.36, C:0.09, G:0.03, T:0.51
Consensus pattern (56 bp):
TTTTTATTTTCAAAAAAATTGATACTTTCAATTTTCTTCAAAAATATTTTTTAAAA
Found at i:27830462 original size:4 final size:4
Alignment explanation
Indices: 27830445--27830483 Score: 60
Period size: 4 Copynumber: 9.5 Consensus size: 4
27830435 ATTTTAATTT
*
27830445 AATA AATT AATA AATA AATA AATA AATA AACTA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AA-TA AATA AA
27830484 AAAAACTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
4 28 0.88
5 4 0.12
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (4 bp):
AATA
Found at i:27831132 original size:52 final size:52
Alignment explanation
Indices: 27831042--27831198 Score: 199
Period size: 52 Copynumber: 3.0 Consensus size: 52
27831032 TATAACCATA
* * *
27831042 CAAACTTGCCCATTAAGAATCTCTCTCCTCTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTGCCTATTAAGAATCTCTTTCCTCTTAGAATTCTTCTCCTGCAAGT
* * * *
27831094 CAAACTTGCCTATTAAGAATCCCTTTCCTTTTATAATTCTTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCTCTTTCCTCTTAGAATTCTTCTCCTGCAAGT
** **
27831146 CAAACTTATCTATTAAGAATCATCTTT-CTCTTAGAATTCTTCTTTTGCAAGT
1 CAAACTTGCCTATTAAGAATC-TCTTTCCTCTTAGAATTCTTCTCCTGCAAGT
27831198 C
1 C
27831199 TTCTTGTCCA
Statistics
Matches: 91, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
52 87 0.96
53 4 0.04
ACGTcount: A:0.26, C:0.25, G:0.08, T:0.41
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCTCTTTCCTCTTAGAATTCTTCTCCTGCAAGT
Found at i:27831241 original size:11 final size:11
Alignment explanation
Indices: 27831225--27831264 Score: 71
Period size: 11 Copynumber: 3.6 Consensus size: 11
27831215 AATATCTGAA
27831225 AAATCTCAAAC
1 AAATCTCAAAC
*
27831236 AAATCTCTAAC
1 AAATCTCAAAC
27831247 AAATCTCAAAC
1 AAATCTCAAAC
27831258 AAATCTC
1 AAATCTC
27831265 TTATGAGATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.50, C:0.28, G:0.00, T:0.23
Consensus pattern (11 bp):
AAATCTCAAAC
Found at i:27831253 original size:22 final size:21
Alignment explanation
Indices: 27831209--27831265 Score: 80
Period size: 22 Copynumber: 2.7 Consensus size: 21
27831199 TTCTTGTCCA
*
27831209 TCAAACAATATCT-GAAAAATC
1 TCAAACAA-ATCTCTAAAAATC
27831230 TCAAACAAATCTCTAACAAATC
1 TCAAACAAATCTCTAA-AAATC
27831252 TCAAACAAATCTCT
1 TCAAACAAATCTCT
27831266 TATGAGATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
20 4 0.12
21 10 0.30
22 19 0.58
ACGTcount: A:0.49, C:0.25, G:0.02, T:0.25
Consensus pattern (21 bp):
TCAAACAAATCTCTAAAAATC
Found at i:27832340 original size:22 final size:22
Alignment explanation
Indices: 27832315--27832359 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
27832305 CTTATGATTT
*
27832315 GCTTCTGGGTTAGATTTATAGA
1 GCTTCTGGGATAGATTTATAGA
*
27832337 GCTTCTGGGATGGATTTATAGA
1 GCTTCTGGGATAGATTTATAGA
27832359 G
1 G
27832360 ATCACTCAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.22, C:0.09, G:0.31, T:0.38
Consensus pattern (22 bp):
GCTTCTGGGATAGATTTATAGA
Found at i:27832794 original size:24 final size:24
Alignment explanation
Indices: 27832767--27832822 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
27832757 TAATTTTTTT
*
27832767 TAATTTTTTTAATTACAATTATAA
1 TAATTTTTTTAATCACAATTATAA
27832791 TAATTTTTTTAATCACAATTATAA
1 TAATTTTTTTAATCACAATTATAA
27832815 TAATTTTT
1 TAATTTTT
27832823 ATTTTTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.55
Consensus pattern (24 bp):
TAATTTTTTTAATCACAATTATAA
Found at i:27832827 original size:30 final size:29
Alignment explanation
Indices: 27832763--27832830 Score: 74
Period size: 24 Copynumber: 2.4 Consensus size: 29
27832753 AACATAATTT
*
27832763 TTTTTAATTTTTTTAATTACAATTATAATA
1 TTTTT-ATTTTTTTAATCACAATTATAATA
27832793 -----ATTTTTTTAATCACAATTATAATAA
1 TTTTTATTTTTTTAATCACAATTATAAT-A
27832818 TTTTTATTTTTTT
1 TTTTTATTTTTTT
27832831 TTTAATTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 12
0.70 0.02 0.27
Matches are distributed among these distances:
24 22 0.71
25 1 0.03
30 8 0.26
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (29 bp):
TTTTTATTTTTTTAATCACAATTATAATA
Found at i:27843154 original size:25 final size:26
Alignment explanation
Indices: 27843126--27843174 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
27843116 AAAATAAAAA
* *
27843126 TAAATATTTTATAC-TTAAATTTATT
1 TAAATATATTAAACTTTAAATTTATT
27843151 TAAATATATTAAACTTTAAATTTA
1 TAAATATATTAAACTTTAAATTTA
27843175 AAAAACAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (26 bp):
TAAATATATTAAACTTTAAATTTATT
Found at i:27844194 original size:74 final size:75
Alignment explanation
Indices: 27844065--27844205 Score: 166
Period size: 74 Copynumber: 1.9 Consensus size: 75
27844055 AAACATTATC
***
27844065 TTTTCAACCAAAAATTATATTTTTATCTTTAAAAAGTCATTTTTATATAATTTTAAAA-ATTATA
1 TTTTCAACCAAAAATTATATTTTTATCTTTAAAAAGTCATCGCTATATAATTTTAAAATA-TATA
27844129 TTTTTTTCAAG
65 TTTTTTTCAAG
* *
27844140 TTTTCAA-CAAATATTATATTTTATAT-TTTAAAAATGTTATCGCTAT-TGAA-TTTAAAATATA
1 TTTTCAACCAAAAATTATATTTT-TATCTTTAAAAA-GTCATCGCTATAT-AATTTTAAAATATA
27844201 TATTT
63 TATTT
27844206 ATCATATTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
74 37 0.65
75 20 0.35
ACGTcount: A:0.39, C:0.07, G:0.04, T:0.50
Consensus pattern (75 bp):
TTTTCAACCAAAAATTATATTTTTATCTTTAAAAAGTCATCGCTATATAATTTTAAAATATATAT
TTTTTTCAAG
Found at i:27844247 original size:19 final size:21
Alignment explanation
Indices: 27844219--27844264 Score: 60
Period size: 19 Copynumber: 2.3 Consensus size: 21
27844209 ATATTTTGAA
*
27844219 TAAAAGCTACA-TATTTATC-
1 TAAAAACTACATTATTTATCT
*
27844238 TAAAAACTACATTTTTTATCT
1 TAAAAACTACATTATTTATCT
27844259 TAAAAA
1 TAAAAA
27844265 TATCATTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 10 0.43
20 7 0.30
21 6 0.26
ACGTcount: A:0.46, C:0.13, G:0.02, T:0.39
Consensus pattern (21 bp):
TAAAAACTACATTATTTATCT
Found at i:27844273 original size:20 final size:20
Alignment explanation
Indices: 27844219--27844273 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 20
27844209 ATATTTTGAA
* *
27844219 TAAAAGCTACA-TATTTATC
1 TAAAAACTACATTTTTTATC
27844238 TAAAAACTACATTTTTTATC
1 TAAAAACTACATTTTTTATC
27844258 TTAAAAA-TATCATTTT
1 -TAAAAACTA-CATTTT
27844274 GATTCAATTC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 10 0.32
20 9 0.29
21 12 0.39
ACGTcount: A:0.42, C:0.13, G:0.02, T:0.44
Consensus pattern (20 bp):
TAAAAACTACATTTTTTATC
Found at i:27844345 original size:112 final size:112
Alignment explanation
Indices: 27844228--27844460 Score: 241
Period size: 112 Copynumber: 2.1 Consensus size: 112
27844218 ATAAAAGCTA
* *
27844228 CATATTTATC-TAAAAACTACAT-TTTTTATC-TTAAAAATATCA-TTTTGATTCAAT-TCTGAA
1 CATATTTATCATAAAAACT--ATGTTTTTATCTTTAAAAA-ATCATTTTTG-TTAAATAT-TAAA
* *
27844288 AATTATTTTTTTCATATTTACAATAAAAA-C-TGTATTTTTA-TTTTAAAAATAT
61 AATTAATTTTTTCATATTTA-AA-AAAAACCAAGT-TTTTTATTTTTAAAAATAT
* * *
27844340 CATATTT-TCAATATAAACTATGTTTTTATCTTTTAAAAGTCATTTTTGTTAAATATTAAAAATT
1 CATATTTATC-ATAAAAACTATGTTTTTATCTTTAAAAAATCATTTTTGTTAAATATTAAAAATT
* *
27844404 AATTTTTTCATATTTAAAAAAAACCAAGTTTTTTATTTTTGAAACTAT
65 AATTTTTTCATATTTAAAAAAAACCAAGTTTTTTATTTTTAAAAATAT
27844452 CATATTTAT
1 CATATTTAT
27844461 TGAATTATGA
Statistics
Matches: 102, Mismatches: 9, Indels: 19
0.78 0.07 0.15
Matches are distributed among these distances:
110 5 0.05
111 13 0.13
112 64 0.63
113 20 0.20
ACGTcount: A:0.39, C:0.09, G:0.03, T:0.49
Consensus pattern (112 bp):
CATATTTATCATAAAAACTATGTTTTTATCTTTAAAAAATCATTTTTGTTAAATATTAAAAATTA
ATTTTTTCATATTTAAAAAAAACCAAGTTTTTTATTTTTAAAAATAT
Found at i:27844358 original size:40 final size:41
Alignment explanation
Indices: 27844299--27844377 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 41
27844289 ATTATTTTTT
*
27844299 TCATATTTACAATAAAAACTGTATTTTTAT-TTTAAAAATA
1 TCATATTTACAATAAAAACTATATTTTTATCTTTAAAAATA
* * * *
27844339 TCATATTTTCAATATAAACTATGTTTTTATCTTTTAAAA
1 TCATATTTACAATAAAAACTATATTTTTATCTTTAAAAA
27844378 GTCATTTTTG
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
40 26 0.79
41 7 0.21
ACGTcount: A:0.41, C:0.09, G:0.03, T:0.48
Consensus pattern (41 bp):
TCATATTTACAATAAAAACTATATTTTTATCTTTAAAAATA
Found at i:27847655 original size:14 final size:14
Alignment explanation
Indices: 27847629--27847667 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
27847619 ATTATAAATA
27847629 ATTTTTA-ATTATT
1 ATTTTTATATTATT
27847642 -TTTTATATATTATT
1 ATTTT-TATATTATT
27847656 ATTTTTATATTA
1 ATTTTTATATTA
27847668 AATTATATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 4 0.17
13 2 0.09
14 13 0.57
15 4 0.17
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
ATTTTTATATTATT
Found at i:27847730 original size:13 final size:12
Alignment explanation
Indices: 27847688--27847718 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
27847678 ATTTATCATT
27847688 TTAAAATTTTTA
1 TTAAAATTTTTA
*
27847700 TTAAAATTTTTG
1 TTAAAATTTTTA
27847712 TTAAAAT
1 TTAAAAT
27847719 CATTTTTTAA
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:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (12 bp):
TTAAAATTTTTA
Found at i:27847899 original size:21 final size:21
Alignment explanation
Indices: 27847873--27847912 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
27847863 ATTTTAAAAT
27847873 AAATA-TATTAACAAAATATAA
1 AAATATTATTAA-AAAATATAA
*
27847894 AAATATTATTCAAAAATAT
1 AAATATTATTAAAAAATAT
27847913 TAAATTCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (21 bp):
AAATATTATTAAAAAATATAA
Found at i:27849340 original size:61 final size:59
Alignment explanation
Indices: 27849273--27849412 Score: 155
Period size: 57 Copynumber: 2.4 Consensus size: 59
27849263 ATATTTAAAA
* *
27849273 ATTTAAAATTTAAAATAGATATATTTAGATTGTTAAAAATATATTTAAATTATATATATAT
1 ATTTAAAATTTAAAATAGATATATATAGATTGTTAAAAATAAATTTAAATTATATAT-T-T
* * * *
27849334 ATTTAAAA---AAGAT-TATATATATAGATTGTTAGAGATAAATTTAAATTATATATTT
1 ATTTAAAATTTAAAATAGATATATATAGATTGTTAAAAATAAATTTAAATTATATATTT
* *
27849389 -TTAAAAATTTAAAAAAGATATATA
1 ATTTAAAATTTAAAATAGATATATA
27849413 GATGGTTTAA
Statistics
Matches: 65, Mismatches: 10, Indels: 11
0.76 0.12 0.13
Matches are distributed among these distances:
54 6 0.09
55 1 0.02
56 1 0.02
57 38 0.58
58 11 0.17
61 8 0.12
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (59 bp):
ATTTAAAATTTAAAATAGATATATATAGATTGTTAAAAATAAATTTAAATTATATATTT
Found at i:27849711 original size:2 final size:2
Alignment explanation
Indices: 27849704--27849735 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
27849694 CTATAAGATA
27849704 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27849736 TAGATTTAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27849804 original size:30 final size:29
Alignment explanation
Indices: 27849750--27849820 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 29
27849740 TTTAACATGA
* *
27849750 AAATTTTTTGAATTTTCAAAATCTTATGT
1 AAATTGTTTAAATTTTCAAAATCTTATGT
* * *
27849779 AAAGTTGTTTAAATTTTTAATATCTTTTGT
1 AAA-TTGTTTAAATTTTCAAAATCTTATGT
*
27849809 AAATTTTTTAAA
1 AAATTGTTTAAA
27849821 AATATAATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 11 0.31
30 24 0.69
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.54
Consensus pattern (29 bp):
AAATTGTTTAAATTTTCAAAATCTTATGT
Found at i:27850318 original size:17 final size:18
Alignment explanation
Indices: 27850291--27850324 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
27850281 TTAATGTCTT
27850291 ATATAAATTTTTTTAAAA
1 ATATAAATTTTTTTAAAA
27850309 ATAT-AATTTTTTTAAA
1 ATATAAATTTTTTTAAA
27850325 TTAAGATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATATAAATTTTTTTAAAA
Found at i:27850459 original size:21 final size:21
Alignment explanation
Indices: 27850419--27850469 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
27850409 ATAATTGTTT
* * *
27850419 AAATAAGATTATTTGGTAAAT
1 AAATAAAATTATTTAGTAAAA
* *
27850440 AACTAAAATTATTTATTAAAA
1 AAATAAAATTATTTAGTAAAA
27850461 AAATAAAAT
1 AAATAAAAT
27850470 CAATATTTTA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (21 bp):
AAATAAAATTATTTAGTAAAA
Found at i:27850714 original size:487 final size:480
Alignment explanation
Indices: 27849707--27850685 Score: 1421
Period size: 487 Copynumber: 2.0 Consensus size: 480
27849697 TAAGATAATA
* *
27849707 TATATATATATATATATATATATATATATTAGATTTAACATGAAAATTTTTTGAATTTTCAAAAT
1 TATATA-ATTTATATATATATATATATATTAAATTTAACATGAAAATTTTTTGAATTTTCAAAAT
** * * * *
27849772 CTTATGTAAAGTTGTTTAAATTTTTAATATCTTTTGTAAATTTTTTAAAAATATAATTTTTTTAA
65 CTTACATAAAATTGCTTAAATTTTTAATATCTTATATAAATTTTTTAAAAATATAATTTTTTTAA
* *
27849837 ATCAAGATAAAAAAGATTGGTGAAAATTTTAAATAAATTTAATCTTTGTAATTTTTAAATATGTT
130 ATCAAGATAAAAAAGATTAGTGAAAATTTTAAATAAACTTAATCTTTGTAATTTTTAAATATGTT
* * *
27849902 TAAAATATTTTGATAATTAAATAATTTTTTAAATAAGGTTATTTGATAAACAACTAAAATTATTT
195 TAAAAAATTTTGATAATTAAATAATTGTTTAAATAAGATTATTTGATAAACAACTAAAATTATTT
* * *
27849967 ATTAAAAAATAAAATTCATATTTTATTTTTTTAATTTTTAAAAATATATCTTTAAATTGATTTGA
260 ATTAAAAAATAAAATTCATATTTTATATTTTTAA-TTTTAAAAATAAATCTCTAAATTGATTTGA
* * *
27850032 TTTTCAATTATAATTTGAATAATTTTGATATTTGAATAAATTTAAAATTGTCTAATTTGTAATTA
324 TTTTCAATTATAATTTGAATAATTTTGATATTTAAATAAATATAAAATTATCTAATTTGTAATTA
*
27850097 AAAGAAACTATCTTATTATTTAAAAAAATATCTTATGTGTCATTTAAGAGAGTTATCTACATAAG
389 AAAGAAAC-A-CTTATTATTTAAAAAAATATCTTA-GTG---TTTAAGAGAGTTATCCACATAAG
27850162 CACTCATGTGACAAATTTATTTATGTATATTGT
448 CACTCATGTGACAAATTTATTTATGTATATTGT
*
27850195 TATATAATTTATATATATATATATATATTAAATTTAAGATG-AAATTTTTTGAATTTTCAAAATC
1 TATATAATTTATATATATATATATATATTAAATTTAACATGAAAATTTTTTGAATTTTCAAAATC
* *
27850259 TTACATAAAATTGCTTGAATTTTTAATGTCTTATATAAATTTTTTTAAAAATATAATTTTTTTAA
66 TTACATAAAATTGCTTAAATTTTTAATATCTTATATAAA-TTTTTTAAAAATATAATTTTTTTAA
* * **
27850324 ATTAAGATAAAAAAGATTAGTGAGAATTTTGGATAAACTTAATCTTTGTAATTTTTAAATATGTT
130 ATCAAGATAAAAAAGATTAGTGAAAATTTTAAATAAACTTAATCTTTGTAATTTTTAAATATGTT
* * *
27850389 TAAAAAATTTTTATAATTAAATAATTGTTTAAATAAGATTATTTGGTAAATAACTAAAATTATTT
195 TAAAAAATTTTGATAATTAAATAATTGTTTAAATAAGATTATTTGATAAACAACTAAAATTATTT
27850454 ATTAAAAAAATAAAA-TCAATATTTTATATTTTTAA-TTTAAAAA-AAATCTCTAAATTGATTTG
260 ATT-AAAAAATAAAATTC-ATATTTTATATTTTTAATTTTAAAAATAAATCTCTAAATTGATTTG
27850516 ATTTTCAATTATAATTTGAATAATTTTGATATTTAAATAAATATAAAATTATCTAATTTGTAATT
323 ATTTTCAATTATAATTTGAATAATTTTGATATTTAAATAAATATAAAATTATCTAATTTGTAATT
* *
27850581 AAAAG-AA-A-TTATT-TTTTAAAAAA-A-C-TA-TG-TTAAGAGAGTTATCCACGTAAGCA-TC
388 AAAAGAAACACTTATTATTTAAAAAAATATCTTAGTGTTTAAGAGAGTTATCCACATAAGCACT-
* * *
27850636 CATGTGAGAAATTTGTTTATGTATGTTGT
452 CATGTGACAAATTTATTTATGTATATTGT
*
27850665 TATAT-ATATATATATATATAT
1 TATATAATTTATATATATATAT
27850686 TAGATTATAA
Statistics
Matches: 451, Mismatches: 36, Indels: 27
0.88 0.07 0.05
Matches are distributed among these distances:
469 16 0.04
470 53 0.12
474 2 0.00
476 2 0.00
477 1 0.00
478 1 0.00
479 9 0.02
480 5 0.01
482 1 0.00
484 2 0.00
485 84 0.19
486 62 0.14
487 180 0.40
488 33 0.07
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (480 bp):
TATATAATTTATATATATATATATATATTAAATTTAACATGAAAATTTTTTGAATTTTCAAAATC
TTACATAAAATTGCTTAAATTTTTAATATCTTATATAAATTTTTTAAAAATATAATTTTTTTAAA
TCAAGATAAAAAAGATTAGTGAAAATTTTAAATAAACTTAATCTTTGTAATTTTTAAATATGTTT
AAAAAATTTTGATAATTAAATAATTGTTTAAATAAGATTATTTGATAAACAACTAAAATTATTTA
TTAAAAAATAAAATTCATATTTTATATTTTTAATTTTAAAAATAAATCTCTAAATTGATTTGATT
TTCAATTATAATTTGAATAATTTTGATATTTAAATAAATATAAAATTATCTAATTTGTAATTAAA
AGAAACACTTATTATTTAAAAAAATATCTTAGTGTTTAAGAGAGTTATCCACATAAGCACTCATG
TGACAAATTTATTTATGTATATTGT
Found at i:27851673 original size:21 final size:21
Alignment explanation
Indices: 27851647--27851689 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
27851637 TTAAATAAGG
* * *
27851647 TTATTTAGTAAACAACTAAAA
1 TTATTTACTAAAAAAATAAAA
27851668 TTATTTACTAAAAAAATAAAA
1 TTATTTACTAAAAAAATAAAA
27851689 T
1 T
27851690 ACATATTTCA
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:0.56, C:0.07, G:0.02, T:0.35
Consensus pattern (21 bp):
TTATTTACTAAAAAAATAAAA
Found at i:27851911 original size:2 final size:2
Alignment explanation
Indices: 27851904--27851932 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
27851894 TGTATGTTGT
27851904 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
27851933 GACATTCATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:27855677 original size:31 final size:33
Alignment explanation
Indices: 27855642--27855722 Score: 112
Period size: 34 Copynumber: 2.5 Consensus size: 33
27855632 CAAACTGATG
*
27855642 CAAGTTGATTAAACT-A-AATTATTAAAATCTT
1 CAAGTTGATTAAACTAATAATTATTAAAATCGT
*
27855673 CAAGTTGATTTAACTAAATAATTATTAAAATCGT
1 CAAGTTGATTAAACT-AATAATTATTAAAATCGT
27855707 CAAGTTGATTTAAACT
1 CAAGTTGA-TTAAACT
27855723 GAAGTGCAGA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
31 14 0.33
33 1 0.02
34 22 0.51
35 6 0.14
ACGTcount: A:0.43, C:0.10, G:0.09, T:0.38
Consensus pattern (33 bp):
CAAGTTGATTAAACTAATAATTATTAAAATCGT
Found at i:27866172 original size:17 final size:17
Alignment explanation
Indices: 27866150--27866216 Score: 57
Period size: 17 Copynumber: 4.1 Consensus size: 17
27866140 CATTTTTAAA
27866150 ATTATTAAGATAATTTT
1 ATTATTAAGATAATTTT
* * ***
27866167 ATTATTATGATGATAAA
1 ATTATTAAGATAATTTT
* *
27866184 ATTATTAAAATAATTTG
1 ATTATTAAGATAATTTT
27866201 ATTATT-A-ATAATTTT
1 ATTATTAAGATAATTTT
27866216 A
1 A
27866217 AATTATTATA
Statistics
Matches: 38, Mismatches: 12, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
15 8 0.21
16 1 0.03
17 29 0.76
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (17 bp):
ATTATTAAGATAATTTT
Found at i:27866220 original size:34 final size:33
Alignment explanation
Indices: 27866143--27866224 Score: 92
Period size: 34 Copynumber: 2.4 Consensus size: 33
27866133 TTAATATCAT
* * *
27866143 TTTTAAAATTATTAAGATAATTTTATTATTATGA
1 TTTT-AAATTATTAAAATAATTTGATTATTATAA
* *
27866177 TGATAAAATTATTAAAATAATTTGATTATTAATAA
1 T-TTTAAATTATTAAAATAATTTGATTATT-ATAA
27866212 TTTTAAATTATTA
1 TTTTAAATTATTA
27866225 TATTTGATAT
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
34 34 0.87
35 5 0.13
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (33 bp):
TTTTAAATTATTAAAATAATTTGATTATTATAA
Found at i:27866248 original size:27 final size:30
Alignment explanation
Indices: 27866196--27866253 Score: 86
Period size: 27 Copynumber: 2.0 Consensus size: 30
27866186 TATTAAAATA
*
27866196 ATTTGATTATTAATAATTTTAAATTATTAT
1 ATTTGATTATTAATAATTATAAATTATTAT
27866226 ATTTGA-TA-TAAT-ATTATAAATTATTAT
1 ATTTGATTATTAATAATTATAAATTATTAT
27866253 A
1 A
27866254 AATTTTAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 15 0.56
28 4 0.15
29 2 0.07
30 6 0.22
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (30 bp):
ATTTGATTATTAATAATTATAAATTATTAT
Found at i:27866262 original size:17 final size:18
Alignment explanation
Indices: 27866232--27866265 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
27866222 TTATATTTGA
27866232 TATAATATTATAAATTAT
1 TATAATATTATAAATTAT
*
27866250 TATAA-ATTTTAAATTA
1 TATAATATTATAAATTA
27866266 ATGTATCTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TATAATATTATAAATTAT
Found at i:27867138 original size:27 final size:28
Alignment explanation
Indices: 27867086--27867138 Score: 65
Period size: 27 Copynumber: 1.9 Consensus size: 28
27867076 AATGTTGTAG
* *
27867086 TAAAAATAAATATTATCAAAAGTTATAA
1 TAAAAATAAATAATATCAAAAATTATAA
27867114 TAAAAA-AAATAATAT-AATAAATTAT
1 TAAAAATAAATAATATCAA-AAATTAT
27867139 TTTTTTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 2 0.09
27 14 0.64
28 6 0.27
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (28 bp):
TAAAAATAAATAATATCAAAAATTATAA
Found at i:27867754 original size:2 final size:2
Alignment explanation
Indices: 27867747--27867775 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
27867737 TTTATTGCGT
27867747 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
27867776 ATTACAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:27873648 original size:19 final size:19
Alignment explanation
Indices: 27873611--27873649 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
27873601 ATTTCTCATT
**
27873611 TTTCTTTATTCCTTTTTCA
1 TTTCTTTATTCCTCGTTCA
*
27873630 TTTCTTTCTTCCTCGTTCA
1 TTTCTTTATTCCTCGTTCA
27873649 T
1 T
27873650 CTTAAATTCA
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:0.08, C:0.26, G:0.03, T:0.64
Consensus pattern (19 bp):
TTTCTTTATTCCTCGTTCA
Found at i:27889759 original size:15 final size:16
Alignment explanation
Indices: 27889739--27889768 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
27889729 CTCACTTGTT
27889739 TTGATTTTGT-TACTG
1 TTGATTTTGTATACTG
27889754 TTGATTTTGTATACT
1 TTGATTTTGTATACT
27889769 ATAATATGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.17, C:0.07, G:0.17, T:0.60
Consensus pattern (16 bp):
TTGATTTTGTATACTG
Found at i:27913590 original size:13 final size:13
Alignment explanation
Indices: 27913572--27913597 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27913562 AGCAAAATCT
27913572 GAGTTTTCTAGAA
1 GAGTTTTCTAGAA
27913585 GAGTTTTCTAGAA
1 GAGTTTTCTAGAA
27913598 CAGCTGATTA
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:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (13 bp):
GAGTTTTCTAGAA
Found at i:27922420 original size:7 final size:7
Alignment explanation
Indices: 27922396--27922439 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
27922386 TTTAATTTTT
27922396 ATATATA
1 ATATATA
27922403 ATAATTATA
1 AT-A-TATA
27922412 ATATATA
1 ATATATA
*
27922419 ATATTTA
1 ATATATA
*
27922426 ATATTTA
1 ATATATA
27922433 ATATATA
1 ATATATA
27922440 TTAAAGAGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
7 25 0.76
8 2 0.06
9 6 0.18
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (7 bp):
ATATATA
Found at i:27922427 original size:23 final size:21
Alignment explanation
Indices: 27922396--27922439 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
27922386 TTTAATTTTT
27922396 ATATATAATAATTATAATATATA
1 ATATATAAT-ATT-TAATATATA
*
27922419 ATATTTAATATTTAATATATA
1 ATATATAATATTTAATATATA
27922440 TTAAAGAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
22 3 0.15
23 8 0.40
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
ATATATAATATTTAATATATA
Found at i:27927655 original size:21 final size:19
Alignment explanation
Indices: 27927630--27927677 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 19
27927620 TTGGCTTGAT
*
27927630 TTTAGATATAGAAAATGAA
1 TTTAGATAGAGAAAATGAA
* *
27927649 TGTTTAGAGAGAGAATATGAA
1 --TTTAGATAGAGAAAATGAA
27927670 TTTAGATA
1 TTTAGATA
27927678 AAAAAATAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 7 0.30
21 16 0.70
ACGTcount: A:0.46, C:0.00, G:0.21, T:0.33
Consensus pattern (19 bp):
TTTAGATAGAGAAAATGAA
Found at i:27927802 original size:21 final size:19
Alignment explanation
Indices: 27927777--27927824 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 19
27927767 TTGGCTTGAT
*
27927777 TTTAGATATAGAAAATGAA
1 TTTAGATAGAGAAAATGAA
* *
27927796 TGTTTAGAGAGAGAATATGAA
1 --TTTAGATAGAGAAAATGAA
27927817 TTTAGATA
1 TTTAGATA
27927825 AAAAAATAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 7 0.30
21 16 0.70
ACGTcount: A:0.46, C:0.00, G:0.21, T:0.33
Consensus pattern (19 bp):
TTTAGATAGAGAAAATGAA
Found at i:27927825 original size:147 final size:147
Alignment explanation
Indices: 27927558--27927849 Score: 575
Period size: 147 Copynumber: 2.0 Consensus size: 147
27927548 GTGACGGTGG
27927558 TGTAGAAATTTTAGTGATTTGAAGGTTGTTATTTGTAGATTGATTTGAGTTTAAAGAGATAATTG
1 TGTAGAAATTTTAGTGATTTGAAGGTTGTTATTTGTAGATTGATTTGAGTTTAAAGAGATAATTG
27927623 GCTTGATTTTAGATATAGAAAATGAATGTTTAGAGAGAGAATATGAATTTAGATAAAAAAATAAA
66 GCTTGATTTTAGATATAGAAAATGAATGTTTAGAGAGAGAATATGAATTTAGATAAAAAAATAAA
27927688 TAAAAAAGTAACGATGA
131 TAAAAAAGTAACGATGA
*
27927705 TGTAGAGATTTTAGTGATTTGAAGGTTGTTATTTGTAGATTGATTTGAGTTTAAAGAGATAATTG
1 TGTAGAAATTTTAGTGATTTGAAGGTTGTTATTTGTAGATTGATTTGAGTTTAAAGAGATAATTG
27927770 GCTTGATTTTAGATATAGAAAATGAATGTTTAGAGAGAGAATATGAATTTAGATAAAAAAATAAA
66 GCTTGATTTTAGATATAGAAAATGAATGTTTAGAGAGAGAATATGAATTTAGATAAAAAAATAAA
27927835 TAAAAAAGTAACGAT
131 TAAAAAAGTAACGAT
27927850 TTTAGGTTAA
Statistics
Matches: 144, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
147 144 1.00
ACGTcount: A:0.42, C:0.01, G:0.21, T:0.36
Consensus pattern (147 bp):
TGTAGAAATTTTAGTGATTTGAAGGTTGTTATTTGTAGATTGATTTGAGTTTAAAGAGATAATTG
GCTTGATTTTAGATATAGAAAATGAATGTTTAGAGAGAGAATATGAATTTAGATAAAAAAATAAA
TAAAAAAGTAACGATGA
Found at i:27927921 original size:147 final size:145
Alignment explanation
Indices: 27927592--27927891 Score: 374
Period size: 147 Copynumber: 2.1 Consensus size: 145
27927582 GTTGTTATTT
*
27927592 GTAGATTGATTTGAGTTTAAAGAGATAATTGGCTTGATTTTAGATATAGAAAATGAATGTTTAGA
1 GTAGATTAATTTGAG-TTAAAGAGATAATTGGCTTGATTTTAGATATAGAAAATGAATGTTTAGA
** ***
27927657 GAGAGAATATGAATTTAGATAAAAAAATAAATAAAAAAGTAACGATGATGTAGAGATTTTAGTGA
65 GAGAGAATATGAATTTAGATAAAAAAATAAATAAAAAAGTAACGAT-ATGTAGAGATTAAAAAAA
* * ***** **
27927722 TTTGAAGGTTGTTATTT
129 TATAAAACAAATTATAG
*
27927739 GTAGATTGATTTGAGTTTAAAGAGATAATTGGCTTGATTTTAGATATAGAAAATGAATGTTTAGA
1 GTAGATTAATTTGAG-TTAAAGAGATAATTGGCTTGATTTTAGATATAGAAAATGAATGTTTAGA
*
27927804 GAGAGAATATGAATTTAGATAAAAAAATAAATAAAAAAGTAACGAT-TTTAG-G-TTAAAAAAAT
65 GAGAGAATATGAATTTAGATAAAAAAATAAATAAAAAAGTAACGATATGTAGAGATTAAAAAAAT
27927866 AATAAAACAAATTATAAG
130 -ATAAAACAAATTAT-AG
27927884 GTA-ATTAA
1 GTAGATTAA
27927892 GTATTATTAA
Statistics
Matches: 135, Mismatches: 16, Indels: 7
0.85 0.10 0.04
Matches are distributed among these distances:
143 5 0.04
144 12 0.09
145 7 0.05
147 111 0.82
ACGTcount: A:0.46, C:0.02, G:0.19, T:0.33
Consensus pattern (145 bp):
GTAGATTAATTTGAGTTAAAGAGATAATTGGCTTGATTTTAGATATAGAAAATGAATGTTTAGAG
AGAGAATATGAATTTAGATAAAAAAATAAATAAAAAAGTAACGATATGTAGAGATTAAAAAAATA
TAAAACAAATTATAG
Found at i:27930330 original size:22 final size:23
Alignment explanation
Indices: 27930287--27930335 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 23
27930277 CAAAAGTAAC
*
27930287 TTTTAATATAAAAATCATTTTAA
1 TTTTAATATAAAAATCAATTTAA
* * *
27930310 TTTTAATAT-TAAATTAATTTAT
1 TTTTAATATAAAAATCAATTTAA
27930332 TTTT
1 TTTT
27930336 TGAAATTGTA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (23 bp):
TTTTAATATAAAAATCAATTTAA
Found at i:27930708 original size:28 final size:27
Alignment explanation
Indices: 27930662--27930714 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 27
27930652 TTTAGATATC
*
27930662 ATATTAATTAATAAATTTATAATTTAG
1 ATATTAATTAATAAATTTAAAATTTAG
27930689 ATATTATATTAA-AAATTTTAAAATTT
1 ATATTA-ATTAATAAA-TTTAAAATTT
27930715 TAAATATCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 9 0.39
28 14 0.61
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (27 bp):
ATATTAATTAATAAATTTAAAATTTAG
Found at i:27932878 original size:29 final size:27
Alignment explanation
Indices: 27932824--27932883 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 27
27932814 TTTTTAATTC
*
27932824 ATATTAATTAATAAATTTATAATTTAA
1 ATATTAATTAATAAATTTAAAATTTAA
*
27932851 ATATTATATTAA-AAATGTTTAAAATTTAG
1 ATATTA-ATTAATAAA--TTTAAAATTTAA
27932880 ATAT
1 ATAT
27932884 AAAATTGATG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 9 0.32
28 5 0.18
29 14 0.50
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (27 bp):
ATATTAATTAATAAATTTAAAATTTAA
Found at i:27933273 original size:5 final size:5
Alignment explanation
Indices: 27933248--27933294 Score: 53
Period size: 5 Copynumber: 9.4 Consensus size: 5
27933238 GAATATTGTC
*
27933248 TCCTC TCCTT TCCTCT T-CTT TCCTT TCCTT TCCTT T-CTT TCCCTT TC
1 TCCTT TCCTT TCCT-T TCCTT TCCTT TCCTT TCCTT TCCTT T-CCTT TC
27933295 TCTCTCTAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
4 6 0.16
5 25 0.68
6 6 0.16
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (5 bp):
TCCTT
Done.