Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, 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: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 70 of 130
Found at i:14590794 original size:15 final size:16
Alignment explanation
Indices: 14590769--14590800 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
14590759 TTTGCATACA
14590769 TGCATTTTTCATTCAT
1 TGCATTTTTCATTCAT
14590785 TGCA-TTTTCATTCAT
1 TGCATTTTTCATTCAT
14590800 T
1 T
14590801 ACACTTAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.19, C:0.19, G:0.06, T:0.56
Consensus pattern (16 bp):
TGCATTTTTCATTCAT
Found at i:14598027 original size:9 final size:9
Alignment explanation
Indices: 14598007--14598073 Score: 104
Period size: 8 Copynumber: 7.7 Consensus size: 9
14597997 TACTATGCTT
14598007 AAAAAATG-
1 AAAAAATGA
14598015 AAAAAATGA
1 AAAAAATGA
14598024 AAAAAATGAA
1 AAAAAATG-A
14598034 AAAAAATGA
1 AAAAAATGA
14598043 AAAAAATG-
1 AAAAAATGA
14598051 AAAAAATG-
1 AAAAAATGA
14598059 AAAAAATGA
1 AAAAAATGA
14598068 AAAAAA
1 AAAAAA
14598074 AAAGTGAAAA
Statistics
Matches: 56, Mismatches: 0, Indels: 5
0.92 0.00 0.08
Matches are distributed among these distances:
8 24 0.43
9 23 0.41
10 9 0.16
ACGTcount: A:0.79, C:0.00, G:0.10, T:0.10
Consensus pattern (9 bp):
AAAAAATGA
Found at i:14598053 original size:36 final size:35
Alignment explanation
Indices: 14598007--14598074 Score: 127
Period size: 35 Copynumber: 1.9 Consensus size: 35
14597997 TACTATGCTT
14598007 AAAAAATGAAAAAATGAAAAAAATGAAAAAAAATGA
1 AAAAAATGAAAAAATG-AAAAAATGAAAAAAAATGA
14598043 AAAAAATGAAAAAATGAAAAAATGAAAAAAAA
1 AAAAAATGAAAAAATGAAAAAATGAAAAAAAA
14598075 AAGTGAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 16 0.50
36 16 0.50
ACGTcount: A:0.79, C:0.00, G:0.10, T:0.10
Consensus pattern (35 bp):
AAAAAATGAAAAAATGAAAAAATGAAAAAAAATGA
Found at i:14598073 original size:17 final size:17
Alignment explanation
Indices: 14598007--14598072 Score: 107
Period size: 19 Copynumber: 3.8 Consensus size: 17
14597997 TACTATGCTT
14598007 AAAAAATGAAAAAATGA
1 AAAAAATGAAAAAATGA
14598024 AAAAAATGAAAAAAAATGA
1 AAAAAATG--AAAAAATGA
14598043 AAAAAATGAAAAAATG-
1 AAAAAATGAAAAAATGA
14598059 AAAAAATGAAAAAA
1 AAAAAATGAAAAAA
14598073 AAAAGTGAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
16 14 0.30
17 16 0.34
19 17 0.36
ACGTcount: A:0.79, C:0.00, G:0.11, T:0.11
Consensus pattern (17 bp):
AAAAAATGAAAAAATGA
Found at i:14598075 original size:36 final size:38
Alignment explanation
Indices: 14598007--14598084 Score: 126
Period size: 36 Copynumber: 2.1 Consensus size: 38
14597997 TACTATGCTT
14598007 AAAAAATGAAAAAATGAAAAAAATG-AAAAAAAA-TGA
1 AAAAAATGAAAAAATGAAAAAAATGAAAAAAAAAGTGA
14598043 AAAAAATGAAAAAATG-AAAAAATGAAAAAAAAAAGTGA
1 AAAAAATGAAAAAATGAAAAAAATG-AAAAAAAAAGTGA
14598081 AAAA
1 AAAA
14598085 GGAGGACTCA
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
35 8 0.21
36 16 0.41
37 8 0.21
38 7 0.18
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.10
Consensus pattern (38 bp):
AAAAAATGAAAAAATGAAAAAAATGAAAAAAAAAGTGA
Found at i:14599281 original size:43 final size:42
Alignment explanation
Indices: 14599088--14599296 Score: 228
Period size: 42 Copynumber: 5.0 Consensus size: 42
14599078 TCAAGGAGTA
* * *
14599088 ATTTACTTTTTCAAAGTCATGTT--GCCTCTGTTTAGAGGAGCA
1 ATTTATTTTTTCAAAGTC--GTTGAGCCTCTGATTAGAGGAGCC
* * * * * *
14599130 ATTTA-CTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCC
* * *
14599171 ATTTATTTTTTCAAAGTTGTTGAGCCTTTGATTAGAAGAGCC
1 ATTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCC
*
14599213 ATTTATTTTTTCAAAGTCGTTGAGCCTCTAATTAGAGGAGCC
1 ATTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCC
*
14599255 ATTT-TTGTTTCTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGC
1 ATTTATT-TTT-TCAAAGTCGTTGAGCCTCTGATTAGAGGAGC
14599297 TTTGATCAAA
Statistics
Matches: 144, Mismatches: 18, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
39 2 0.01
41 36 0.25
42 77 0.53
43 29 0.20
ACGTcount: A:0.23, C:0.16, G:0.21, T:0.39
Consensus pattern (42 bp):
ATTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCC
Found at i:14599549 original size:7 final size:6
Alignment explanation
Indices: 14599509--14599591 Score: 64
Period size: 6 Copynumber: 13.5 Consensus size: 6
14599499 TTTCTCTTCA
14599509 TTTTAT TTTTAT TTTT-T TAATTTAT TTTTAT TTTGTA- TTTTACT TTTT-T
1 TTTTAT TTTTAT TTTTAT T--TTTAT TTTTAT TTT-TAT TTTTA-T TTTTAT
* * * *
14599558 AATTTAT TTTTAA TTTTAT TATTAT TATTAT TTT
1 -TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
14599592 ATATATGTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
5 5 0.08
6 46 0.73
7 10 0.16
8 2 0.03
ACGTcount: A:0.22, C:0.01, G:0.01, T:0.76
Consensus pattern (6 bp):
TTTTAT
Found at i:14599550 original size:31 final size:30
Alignment explanation
Indices: 14599508--14599583 Score: 107
Period size: 31 Copynumber: 2.4 Consensus size: 30
14599498 TTTTCTCTTC
14599508 ATTTTATTTTTATTTTTTTAATTTATTTTTA
1 ATTTTA-TTTTATTTTTTTAATTTATTTTTA
* *
14599539 TTTTGTATTTTACTTTTTTAATTTATTTTTA
1 ATTT-TATTTTATTTTTTTAATTTATTTTTA
14599570 ATTTTATTATTATT
1 ATTTTATT-TTATT
14599584 ATTATTTTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
30 4 0.10
31 33 0.85
32 2 0.05
ACGTcount: A:0.22, C:0.01, G:0.01, T:0.75
Consensus pattern (30 bp):
ATTTTATTTTATTTTTTTAATTTATTTTTA
Found at i:14599555 original size:19 final size:19
Alignment explanation
Indices: 14599508--14599556 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
14599498 TTTTCTCTTC
*
14599508 ATTTTATTTTTATTTTTTT
1 ATTTTATTTTTATTTTTGT
*
14599527 AATTTATTTTTA-TTTTGT
1 ATTTTATTTTTATTTTTGT
14599545 ATTTTACTTTTT
1 ATTTTA-TTTTT
14599557 TAATTTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 10 0.38
19 16 0.62
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.78
Consensus pattern (19 bp):
ATTTTATTTTTATTTTTGT
Found at i:14599776 original size:21 final size:21
Alignment explanation
Indices: 14599719--14599796 Score: 70
Period size: 22 Copynumber: 3.6 Consensus size: 21
14599709 TCTTTTTTTC
*
14599719 CTGTTAATATTTATGTAA-TTAT
1 CTGTTAAT-TTT-TTTAATTTAT
14599741 CTGTT-ATTTAATTTTAATTTAT
1 CTGTTAATTT--TTTTAATTTAT
*
14599763 CTGTTAATTTTTTTGATTTAT
1 CTGTTAATTTTTTTAATTTAT
*
14599784 CTGATTTATTTTT
1 CTG-TTAATTTTT
14599797 GTTTGATTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
20 2 0.04
21 19 0.40
22 23 0.48
23 4 0.08
ACGTcount: A:0.24, C:0.05, G:0.08, T:0.63
Consensus pattern (21 bp):
CTGTTAATTTTTTTAATTTAT
Found at i:14599814 original size:24 final size:22
Alignment explanation
Indices: 14599752--14599827 Score: 56
Period size: 21 Copynumber: 3.6 Consensus size: 22
14599742 TGTTATTTAA
* **
14599752 TTTTAATTTATCTG-TTAATTT
1 TTTTGATTTATCTGATTTTTTT
14599773 TTTTGATTTATCTGATTTATTTT
1 TTTTGATTTATCTGATTT-TTTT
*
14599796 TGTTTGATTT-T-T--TTTATTT
1 T-TTTGATTTATCTGATTTTTTT
14599815 TTTT-ATTTATCTG
1 TTTTGATTTATCTG
14599828 GCTGAAAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
17 4 0.09
18 4 0.09
19 5 0.11
20 3 0.07
21 13 0.29
22 3 0.07
23 5 0.11
24 8 0.18
ACGTcount: A:0.17, C:0.04, G:0.08, T:0.71
Consensus pattern (22 bp):
TTTTGATTTATCTGATTTTTTT
Found at i:14600695 original size:5 final size:5
Alignment explanation
Indices: 14600685--14600769 Score: 81
Period size: 5 Copynumber: 17.6 Consensus size: 5
14600675 TCTTTTTACC
* * *
14600685 TTTAT TTTAT TTT-T TTAAT TTTGT TTTAC TTTAT TTTAT TTTA- TTT-T
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
*
14600732 TTTAT TTTCACT TTTAT TTTGT TTTA- -TTAT TTTAT TTT
1 TTTAT TTT-A-T TTTAT TTTAT TTTAT TTTAT TTTAT TTT
14600770 CTTTAAATAA
Statistics
Matches: 65, Mismatches: 8, Indels: 14
0.75 0.09 0.16
Matches are distributed among these distances:
3 3 0.05
4 9 0.14
5 47 0.72
6 2 0.03
7 4 0.06
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.78
Consensus pattern (5 bp):
TTTAT
Found at i:14600719 original size:29 final size:28
Alignment explanation
Indices: 14600678--14600774 Score: 108
Period size: 30 Copynumber: 3.4 Consensus size: 28
14600668 TTAGTATTCT
*
14600678 TTTTACCTTTATTTTATTTTTTTAATTTTG
1 TTTTA-CTTTATTTTATTTTTTT-ATTTTA
14600708 TTTTACTTTATTTTATTTTATTT-TTTTA
1 TTTTACTTTATTTTATTTT-TTTATTTTA
* *
14600736 TTTTCACTTTTATTTTGTTTTATTATTTTA
1 TTTT-AC-TTTATTTTATTTTTTTATTTTA
14600766 TTTT-CTTTA
1 TTTTACTTTA
14600775 AATAAAAATC
Statistics
Matches: 60, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
27 4 0.07
28 9 0.15
29 18 0.30
30 29 0.48
ACGTcount: A:0.16, C:0.06, G:0.02, T:0.75
Consensus pattern (28 bp):
TTTTACTTTATTTTATTTTTTTATTTTA
Found at i:14600848 original size:58 final size:58
Alignment explanation
Indices: 14600786--14601296 Score: 689
Period size: 58 Copynumber: 8.8 Consensus size: 58
14600776 ATAAAAATCA
14600786 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTC
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTC
* * * *
14600844 AAAAAATATTTTTGAGAAAAAGTTGAAAGCATCAATTTTCCTTAAAAAT-AAATTTTC
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTC
14600901 AAAAAA-AGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTC
1 AAAAAATA--TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTC
** * * * *
14600960 AAAAAATATTTTTGAAAAAAAGTTGAAAGCATCAATTTTTCTTAAAAAT-AAAATTTC
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTC
* *
14601017 AAAAAAATGTTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAATCAAAGTTTC
1 -AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTC
* * * * *
14601076 AAAAAATATTTTTG-GAAAAAAGTTGAAAGCATCAATTTTTCTTAAAAAT-AAAATTTC
1 AAAAAATATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTC
* * *
14601133 AAAAAA-AGGTTTTTGAAGAAAAGTTAAAAGTATCAATTTTCTTTGAAAATCAAAGTTTC
1 AAAAAATA--TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTC
*
14601192 AAAAAA-AGGTTTTTGAGAAAAAGTTGAAAGTATCAA-TTTCCTTGAAAATCAAAGTTTC
1 AAAAAATA--TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTC
*
14601250 CAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAA
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAA
14601297 GTTGAAAGTA
Statistics
Matches: 397, Mismatches: 43, Indels: 27
0.85 0.09 0.06
Matches are distributed among these distances:
56 2 0.01
57 64 0.16
58 269 0.68
59 61 0.15
60 1 0.00
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.34
Consensus pattern (58 bp):
AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTC
Found at i:14600903 original size:116 final size:116
Alignment explanation
Indices: 14600774--14601296 Score: 815
Period size: 116 Copynumber: 4.5 Consensus size: 116
14600764 TATTTTCTTT
* *
14600774 AAATAAAA-ATCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAA
1 AAATAAAATTTCAAAAAAATGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAA
14600838 AGTTTCAAAAAATATTTTTGAGAAAAAGTTGAAAGCATCAATTTTCCTTAA
66 AGTTTCAAAAAATATTTTTGAGAAAAAGTTGAAAGCATCAATTTTCCTTAA
* *
14600889 AAATAAATTTTCAAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAA
1 AAATAAAATTTCAAAAAAATGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAA
* *
14600954 AGTTTCAAAAAATATTTTTGAAAAAAAGTTGAAAGCATCAATTTTTCTTAA
66 AGTTTCAAAAAATATTTTTGAGAAAAAGTTGAAAGCATCAATTTTCCTTAA
*
14601005 AAATAAAATTTCAAAAAAATGTTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAATCAA
1 AAATAAAATTTCAAAAAAATGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAA
*
14601070 AGTTTCAAAAAATATTTTTG-GAAAAAAGTTGAAAGCATCAATTTTTCTTAA
66 AGTTTCAAAAAATATTTTTGAG-AAAAAGTTGAAAGCATCAATTTTCCTTAA
* * * *
14601121 AAATAAAATTTCAAAAAAAGGTTTTTGAAGAAAAGTTAAAAGTATCAATTTTCTTTGAAAATCAA
1 AAATAAAATTTCAAAAAAATGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAA
* *
14601186 AGTTTCAAAAAA-AGGTTTTTGAGAAAAAGTTGAAAGTATCAA-TTTCCTTGA
66 AGTTTCAAAAAATA--TTTTTGAGAAAAAGTTGAAAGCATCAATTTTCCTTAA
* * *
14601237 AAATCAAAGTTTC-CAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAA
1 AAAT-AAAATTTCAAAAAAATGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAA
14601297 GTTGAAAGTA
Statistics
Matches: 379, Mismatches: 23, Indels: 12
0.92 0.06 0.03
Matches are distributed among these distances:
115 12 0.03
116 335 0.88
117 31 0.08
118 1 0.00
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.33
Consensus pattern (116 bp):
AAATAAAATTTCAAAAAAATGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAA
AGTTTCAAAAAATATTTTTGAGAAAAAGTTGAAAGCATCAATTTTCCTTAA
Found at i:14601288 original size:26 final size:26
Alignment explanation
Indices: 14601259--14601315 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
14601249 CCAAAAATAT
*
14601259 TTTTGAGGAAAAGTTGAAAGTATCAA
1 TTTTCAGGAAAAGTTGAAAGTATCAA
***
14601285 TTTTCCTTAAAAGTTGAAAGTATCAA
1 TTTTCAGGAAAAGTTGAAAGTATCAA
14601311 TTTTC
1 TTTTC
14601316 CTTGAAAATC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.39
Consensus pattern (26 bp):
TTTTCAGGAAAAGTTGAAAGTATCAA
Found at i:14601316 original size:26 final size:27
Alignment explanation
Indices: 14601266--14601323 Score: 109
Period size: 26 Copynumber: 2.2 Consensus size: 27
14601256 TATTTTTGAG
14601266 GAAAAGTTGAAAGTATCAATTTTCCTT
1 GAAAAGTTGAAAGTATCAATTTTCCTT
14601293 -AAAAGTTGAAAGTATCAATTTTCCTT
1 GAAAAGTTGAAAGTATCAATTTTCCTT
14601319 GAAAA
1 GAAAA
14601324 TCAAAATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
26 26 0.87
27 4 0.13
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.34
Consensus pattern (27 bp):
GAAAAGTTGAAAGTATCAATTTTCCTT
Found at i:14601361 original size:86 final size:83
Alignment explanation
Indices: 14601210--14601382 Score: 276
Period size: 86 Copynumber: 2.0 Consensus size: 83
14601200 GTTTTTGAGA
*
14601210 AAAAGTTGAAAGTATCAATTTCCTTGAAAATCAAAGTTTCCAAAAATATTTTTGAGGAAAAGTTG
1 AAAAGTTGAAAGTATCAATTTCCTTGAAAATCAAAGTTTCAAAAAATATTTTTGAGGAAAAGTTG
*
14601275 AAAGTATCAATTTTCCTT
66 AAAGCATCAATTTTCCTT
*
14601293 AAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTTCAAAAAAATATTTTTG-GAGAAAA
1 AAAAGTTGAAAGTATCAA-TTTCCTTGAAAATC-AAAGTTTC-AAAAAATATTTTTGAG-GAAAA
14601357 GTTGAAAGCATCAATTTTCCTT
62 GTTGAAAGCATCAATTTTCCTT
14601379 AAAA
1 AAAA
14601383 ATAAAATTTA
Statistics
Matches: 83, Mismatches: 3, Indels: 5
0.91 0.03 0.05
Matches are distributed among these distances:
83 18 0.22
84 14 0.17
85 8 0.10
86 43 0.52
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.34
Consensus pattern (83 bp):
AAAAGTTGAAAGTATCAATTTCCTTGAAAATCAAAGTTTCAAAAAATATTTTTGAGGAAAAGTTG
AAAGCATCAATTTTCCTT
Found at i:14601362 original size:60 final size:58
Alignment explanation
Indices: 14601293--14601616 Score: 361
Period size: 60 Copynumber: 5.4 Consensus size: 58
14601283 AATTTTCCTT
14601293 AAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTTCAAAAAAATATTTTTGGAG
1 AAAAGTTGAAAGTATCAATTTTCCTT-AAAAT-AAAATTTTCAAAAAAATATTTTTGGAG
* * * *
14601353 AAAAGTTGAAAGCATCAATTTTCCTTAAAAATAAAA-TTTAAAAAAAAAAGGTTTTTTTGAG
1 AAAAGTTGAAAGTATCAATTTTCCTT-AAAATAAAATTTTCAAAAAAATA---TTTTTGGAG
* *
14601414 AGAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTCCAAAAAAAAATATTTTTGGGG
1 A-AAAGTTGAAAGTATCAATTTTCCTT-AAAAT-AAAATTTTC--AAAAAAATATTTTTGGAG
*
14601477 AAAAGTTGAAAGTATCAATTTT-CTTAAAAAATAAATTTTCAAAAAAATCAATTTTT-GAGG
1 AAAAGTTGAAAGTATCAATTTTCCTTAAAATA-AAATTTTCAAAAAAAT--ATTTTTGGA-G
* * *
14601537 AAAAGTTGAAAGTATCAATTTTCCTCT-AAATTAAAGTTTCAAAAGAATATTTTTAGG-G
1 AAAAGTTGAAAGTATCAATTTTCCT-TAAAATAAAATTTTCAAAAAAATATTTTT-GGAG
*
14601595 GAAAGTTGAAAGTATCAATTTT
1 AAAAGTTGAAAGTATCAATTTT
14601617 TCCTGCACAA
Statistics
Matches: 229, Mismatches: 19, Indels: 34
0.81 0.07 0.12
Matches are distributed among these distances:
58 47 0.21
59 6 0.03
60 85 0.37
61 17 0.07
62 52 0.23
63 12 0.05
64 2 0.01
66 8 0.03
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.34
Consensus pattern (58 bp):
AAAAGTTGAAAGTATCAATTTTCCTTAAAATAAAATTTTCAAAAAAATATTTTTGGAG
Found at i:14601427 original size:122 final size:118
Alignment explanation
Indices: 14601293--14601616 Score: 408
Period size: 122 Copynumber: 2.7 Consensus size: 118
14601283 AATTTTCCTT
14601293 AAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTTCAAAAAAATATTTTTGGAGAAAAG
1 AAAAGTTGAAAGTATCAATTTTCCTT-AAAATCAAAATTTTCAAAAAAATATTTTTGG-GAAAAG
*
14601358 TTGAAAGCATCAATTTTCCTT-AAAAATAAAATTT-AAAAAAA-AAAGGTTTTTTTGA-G
64 TTGAAAGTATCAATTTT-CTTAAAAAATAAAATTTCAAAAAAATAAA----TTTTTGAGG
*
14601414 AGAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTCCAAAAAAAAATATTTTTGGGGAA
1 A-AAAGTTGAAAGTATCAATTTTCCTT-AAAATCAAAATTTTC--AAAAAAATATTTTT-GGGAA
* *
14601479 AAGTTGAAAGTATCAATTTTCTTAAAAAATAAATTTTCAAAAAAATCAATTTTTGAGG
61 AAGTTGAAAGTATCAATTTTCTTAAAAAATAAAATTTCAAAAAAATAAATTTTTGAGG
* * * *
14601537 AAAAGTTGAAAGTATCAATTTTCCTCT-AAAT-TAAAGTTTCAAAAGAATATTTTTAGGGGAAAG
1 AAAAGTTGAAAGTATCAATTTTCCT-TAAAATCAAAATTTTCAAAAAAATATTTTT-GGGAAAAG
14601600 TTGAAAGTATCAATTTT
64 TTGAAAGTATCAATTTT
14601617 TCCTGCACAA
Statistics
Matches: 183, Mismatches: 11, Indels: 21
0.85 0.05 0.10
Matches are distributed among these distances:
118 37 0.20
120 6 0.03
121 5 0.03
122 70 0.38
123 6 0.03
124 48 0.26
125 9 0.05
126 2 0.01
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.34
Consensus pattern (118 bp):
AAAAGTTGAAAGTATCAATTTTCCTTAAAATCAAAATTTTCAAAAAAATATTTTTGGGAAAAGTT
GAAAGTATCAATTTTCTTAAAAAATAAAATTTCAAAAAAATAAATTTTTGAGG
Found at i:14603499 original size:63 final size:63
Alignment explanation
Indices: 14603429--14603569 Score: 167
Period size: 62 Copynumber: 2.3 Consensus size: 63
14603419 TTTGATCAGT
* ** * * *
14603429 ATGTTACAAAAAAAAAAGTCTTTGCATTCACATCACTTATGTTCGCATTTGCATTTGATTTGC
1 ATGTTACAAAAAAAAAAGGCTTCACATTCACATCACTTATGTTCACATTTGCATTTGATCTAC
** * ** *
14603492 ATGTTAC-AAAAAAAAAGGCTTCACATTTGCATCACTTTTGTTCATTTTTGCATTTGATCTAT
1 ATGTTACAAAAAAAAAAGGCTTCACATTCACATCACTTATGTTCACATTTGCATTTGATCTAC
14603554 ATGTTACAAAAAAAAA
1 ATGTTACAAAAAAAAA
14603570 TATAAACATT
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
62 50 0.77
63 15 0.23
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (63 bp):
ATGTTACAAAAAAAAAAGGCTTCACATTCACATCACTTATGTTCACATTTGCATTTGATCTAC
Found at i:14604008 original size:36 final size:36
Alignment explanation
Indices: 14603918--14604001 Score: 100
Period size: 36 Copynumber: 2.4 Consensus size: 36
14603908 GTTGTTTTGG
* * * *
14603918 TCATC-TTATCTT-CTCGACTATTGGTGTTATCCTAG
1 TCATCTTTATCTTCCT-AACTATTAGTATTATCCTAA
*
14603953 TCATTTTTATCTTCCTAACTATTAGTATTATCCTAA
1 TCATCTTTATCTTCCTAACTATTAGTATTATCCTAA
14603989 TCATCTTTATCTT
1 TCATCTTTATCTT
14604002 TTTAACTGTT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
35 4 0.10
36 35 0.85
37 2 0.05
ACGTcount: A:0.21, C:0.21, G:0.07, T:0.50
Consensus pattern (36 bp):
TCATCTTTATCTTCCTAACTATTAGTATTATCCTAA
Found at i:14604109 original size:35 final size:35
Alignment explanation
Indices: 14604012--14604109 Score: 106
Period size: 35 Copynumber: 2.8 Consensus size: 35
14604002 TTTAACTGTT
* * *
14604012 GGTGTTGTCCCTATCACATTTATTTTTTTGACCTAC
1 GGTGTTGTCCCAATCATATTTA-TTTTTGGACCTAC
* * * *
14604048 GATGTTGTCCTAATCATCTTTGTTTTTGGACCTAC
1 GGTGTTGTCCCAATCATATTTATTTTTGGACCTAC
* *
14604083 GGTGTTGTCCCGATCATATTCATTTTT
1 GGTGTTGTCCCAATCATATTTATTTTT
14604110 TCAATCGATG
Statistics
Matches: 49, Mismatches: 13, Indels: 1
0.78 0.21 0.02
Matches are distributed among these distances:
35 33 0.67
36 16 0.33
ACGTcount: A:0.16, C:0.20, G:0.16, T:0.47
Consensus pattern (35 bp):
GGTGTTGTCCCAATCATATTTATTTTTGGACCTAC
Found at i:14604369 original size:36 final size:36
Alignment explanation
Indices: 14604300--14604457 Score: 108
Period size: 36 Copynumber: 4.5 Consensus size: 36
14604290 GTATTATCCT
* * * * *
14604300 GATCATCTTTATATTTTCAATCTATAGTGTTGTCTC
1 GATCATCTTTATTTTTTTAACCTACAGTATTGTCTC
*
14604336 GATCATCTTTATTTTTTTAACCTGCAGTATTGTCT-
1 GATCATCTTTATTTTTTTAACCTACAGTATTGTCTC
* * * * * *
14604371 TAGTTATCTTTA--TTTTTAACTTGCAATATTATCTC
1 GA-TCATCTTTATTTTTTTAACCTACAGTATTGTCTC
* * ** * *
14604406 GATC-TATTTGTTTTTTTAACCTATGGTGTTGTCCC
1 GATCATCTTTATTTTTTTAACCTACAGTATTGTCTC
*
14604441 AATCATCTTTATTTTTT
1 GATCATCTTTATTTTTT
14604458 CAACTTGTAG
Statistics
Matches: 91, Mismatches: 26, Indels: 10
0.72 0.20 0.08
Matches are distributed among these distances:
33 4 0.04
34 20 0.22
35 20 0.22
36 47 0.52
ACGTcount: A:0.21, C:0.16, G:0.10, T:0.53
Consensus pattern (36 bp):
GATCATCTTTATTTTTTTAACCTACAGTATTGTCTC
Found at i:14604519 original size:12 final size:12
Alignment explanation
Indices: 14604499--14604540 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
14604489 TTTAAAAAAA
14604499 AAAAAAAACAAC
1 AAAAAAAACAAC
* *
14604511 AAAACAAACAAA
1 AAAAAAAACAAC
*
14604523 AAAAAAAACACC
1 AAAAAAAACAAC
14604535 AAAAAA
1 AAAAAA
14604541 GAGAAGGATG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAAACAAC
Found at i:14612492 original size:6 final size:5
Alignment explanation
Indices: 14612467--14612523 Score: 53
Period size: 5 Copynumber: 10.4 Consensus size: 5
14612457 CCATTTCATT
14612467 TTTTA TTTT- TTTGTA TTTTATA TTTATA TTTGTA TTTATA TTTTA TTTTA
1 TTTTA TTTTA TTT-TA -TTT-TA TTT-TA TTT-TA TTT-TA TTTTA TTTTA
14612517 TTTTA TT
1 TTTTA TT
14612524 ATCTTATGTA
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
4 3 0.07
5 19 0.41
6 19 0.41
7 5 0.11
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:14612504 original size:12 final size:11
Alignment explanation
Indices: 14612487--14612523 Score: 58
Period size: 12 Copynumber: 3.4 Consensus size: 11
14612477 TTGTATTTTA
14612487 TATTTATATTT
1 TATTTATATTT
14612498 GTATTTATATTT
1 -TATTTATATTT
14612510 TATTT-TATTT
1 TATTTATATTT
14612520 TATT
1 TATT
14612524 ATCTTATGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 9 0.36
11 5 0.20
12 11 0.44
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (11 bp):
TATTTATATTT
Found at i:14612515 original size:5 final size:6
Alignment explanation
Indices: 14612483--14612523 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
14612473 TTTTTTGTAT
*
14612483 TTTATA TTTATA TTTGTA TTTATA TTT-TA TTT-TA TTT-TA TT
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TT
14612524 ATCTTATGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
5 14 0.42
6 19 0.58
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (6 bp):
TTTATA
Found at i:14612583 original size:6 final size:7
Alignment explanation
Indices: 14612518--14612673 Score: 56
Period size: 7 Copynumber: 21.4 Consensus size: 7
14612508 TTTATTTTAT
14612518 TTTATTA
1 TTTATTA
14612525 TCTTATGTA
1 T-TTAT-TA
14612534 TTTATTA
1 TTTATTA
*
14612541 -TTACTA
1 TTTATTA
14612547 TTTATCAATA
1 TTTAT---TA
* *
14612557 TATATAA
1 TTTATTA
14612564 TTTATTTA
1 TTTA-TTA
14612572 TTTATT-
1 TTTATTA
14612578 TTTATTA
1 TTTATTA
14612585 TTTA-TA
1 TTTATTA
* *
14612591 TGTCAATA
1 T-TTATTA
*
14612599 TATA-TA
1 TTTATTA
14612605 TTTATTA
1 TTTATTA
14612612 -TTACTTA
1 TTTA-TTA
**
14612619 GCTATTTA
1 TTTA-TTA
*
14612627 TATATTA
1 TTTATTA
14612634 TTATATATA
1 TT-TAT-TA
*
14612643 TGTATT-
1 TTTATTA
14612649 TATTATTA
1 T-TTATTA
14612657 TTTATCTA
1 TTTAT-TA
14612665 -TTATTA
1 TTTATTA
14612671 TTT
1 TTT
14612674 TATCTGTTAA
Statistics
Matches: 113, Mismatches: 17, Indels: 38
0.67 0.10 0.23
Matches are distributed among these distances:
6 25 0.22
7 43 0.38
8 33 0.29
9 6 0.05
10 6 0.05
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.61
Consensus pattern (7 bp):
TTTATTA
Found at i:14612654 original size:20 final size:20
Alignment explanation
Indices: 14612554--14612657 Score: 65
Period size: 20 Copynumber: 5.1 Consensus size: 20
14612544 CTATTTATCA
14612554 ATATATATA-ATTTATTTATT
1 ATATATATATATTTA-TTATT
* *
14612574 -TATTTTTATTATTTA-TATGT
1 ATATATATA-TATTTATTAT-T
14612594 CA-ATATATATATTTATTATT
1 -ATATATATATATTTATTATT
* *
14612614 ACT-TAGCTATTTATATATTATT
1 A-TATA--TATATATTTATTATT
*
14612636 ATATATATGTATTTATTATT
1 ATATATATATATTTATTATT
14612656 AT
1 AT
14612658 TTATCTATTA
Statistics
Matches: 65, Mismatches: 8, Indels: 22
0.68 0.08 0.23
Matches are distributed among these distances:
19 10 0.15
20 25 0.38
21 14 0.22
22 16 0.25
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (20 bp):
ATATATATATATTTATTATT
Found at i:14612677 original size:15 final size:15
Alignment explanation
Indices: 14612649--14612689 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
14612639 TATATGTATT
14612649 TATTATTA-TTTATC
1 TATTATTATTTTATC
14612663 TATTATTATTTTATC
1 TATTATTATTTTATC
* *
14612678 TGTTAATATTTT
1 TATTATTATTTT
14612690 TATTTATCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 8 0.33
15 16 0.67
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (15 bp):
TATTATTATTTTATC
Found at i:14613065 original size:12 final size:12
Alignment explanation
Indices: 14613032--14613065 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
14613022 TCAGTGGGAA
14613032 TTTTTTTGAATT
1 TTTTTTTGAATT
**
14613044 TTTTGGTGAATT
1 TTTTTTTGAATT
14613056 TTTTTTTGAA
1 TTTTTTTGAA
14613066 AATTTTTGAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.18, C:0.00, G:0.15, T:0.68
Consensus pattern (12 bp):
TTTTTTTGAATT
Found at i:14613518 original size:10 final size:10
Alignment explanation
Indices: 14613503--14613529 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
14613493 TTTTTGGAGT
14613503 CGAGTCGAGC
1 CGAGTCGAGC
14613513 CGAGTCGAGC
1 CGAGTCGAGC
14613523 CGAGTCG
1 CGAGTCG
14613530 TGTACTCCCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.30, G:0.41, T:0.11
Consensus pattern (10 bp):
CGAGTCGAGC
Found at i:14613540 original size:15 final size:14
Alignment explanation
Indices: 14613522--14613551 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
14613512 CCGAGTCGAG
14613522 CCGAGTCGTGTACTC
1 CCGAGTCGTGT-CTC
14613537 CCGAGTCGTGTCTC
1 CCGAGTCGTGTCTC
14613551 C
1 C
14613552 GACCTATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.10, C:0.37, G:0.27, T:0.27
Consensus pattern (14 bp):
CCGAGTCGTGTCTC
Found at i:14613630 original size:9 final size:10
Alignment explanation
Indices: 14613621--14613674 Score: 67
Period size: 9 Copynumber: 5.3 Consensus size: 10
14613611 TTTTTTCATT
14613621 TTATTTATTTA
1 TTATTTA-TTA
14613632 TTTATTTATTA
1 -TTATTTATTA
14613643 TTA-TTATTA
1 TTATTTATTA
14613652 TTA-TTATTA
1 TTATTTATTA
14613661 TTATTTATTGA
1 TTATTTATT-A
14613672 TTA
1 TTA
14613675 GATTAGAATT
Statistics
Matches: 40, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
9 18 0.45
10 8 0.20
11 7 0.17
12 7 0.17
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.69
Consensus pattern (10 bp):
TTATTTATTA
Found at i:14613645 original size:3 final size:3
Alignment explanation
Indices: 14613637--14613665 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
14613627 ATTTATTTAT
14613637 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
14613666 TATTGATTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:14618713 original size:19 final size:19
Alignment explanation
Indices: 14618700--14618756 Score: 114
Period size: 19 Copynumber: 3.0 Consensus size: 19
14618690 GGGCTGGTAT
14618700 CTAAGATTAGGGCTGGGCA
1 CTAAGATTAGGGCTGGGCA
14618719 CTAAGATTAGGGCTGGGCA
1 CTAAGATTAGGGCTGGGCA
14618738 CTAAGATTAGGGCTGGGCA
1 CTAAGATTAGGGCTGGGCA
14618757 AAAACTTACA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 38 1.00
ACGTcount: A:0.26, C:0.16, G:0.37, T:0.21
Consensus pattern (19 bp):
CTAAGATTAGGGCTGGGCA
Found at i:14622763 original size:6 final size:6
Alignment explanation
Indices: 14622752--14622818 Score: 65
Period size: 6 Copynumber: 11.7 Consensus size: 6
14622742 TTGAAATGAA
14622752 AAAATG AAAATG AAAATG AAAATG AAAAATGG AAAAATG -AAA-- AAAATG
1 AAAATG AAAATG AAAATG AAAATG -AAAAT-G -AAAATG AAAATG AAAATG
14622800 AAAA-- AAAATG AAAA-G AAAA
1 AAAATG AAAATG AAAATG AAAA
14622819 AAAGAAAAAA
Statistics
Matches: 54, Mismatches: 0, Indels: 15
0.78 0.00 0.22
Matches are distributed among these distances:
4 7 0.13
5 8 0.15
6 26 0.48
7 6 0.11
8 7 0.13
ACGTcount: A:0.73, C:0.00, G:0.15, T:0.12
Consensus pattern (6 bp):
AAAATG
Found at i:14622765 original size:19 final size:20
Alignment explanation
Indices: 14622745--14622813 Score: 74
Period size: 19 Copynumber: 3.5 Consensus size: 20
14622735 ACTATGCTTG
14622745 AAATGAAAAAATGAAAATGA
1 AAATGAAAAAATGAAAATGA
14622765 AAATG--AAAATGAAAAATGGAA
1 AAATGAAAAAATG-AAAAT-G-A
14622786 AAATGAAAAAAATGAAAA--A
1 AAATG-AAAAAATGAAAATGA
14622805 AAATGAAAA
1 AAATGAAAA
14622814 GAAAAAAAGA
Statistics
Matches: 43, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
18 10 0.23
19 11 0.26
20 6 0.14
21 6 0.14
23 4 0.09
24 6 0.14
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.13
Consensus pattern (20 bp):
AAATGAAAAAATGAAAATGA
Found at i:14622769 original size:12 final size:11
Alignment explanation
Indices: 14622752--14622818 Score: 59
Period size: 10 Copynumber: 5.8 Consensus size: 11
14622742 TTGAAATGAA
14622752 AAAATGAAAATG
1 AAAA-GAAAATG
14622764 AAAATGAAAATG
1 AAAA-GAAAATG
14622776 AAAAATGGAAAAATG
1 -AAAA--G-AAAATG
14622791 -AAA-AAAATG
1 AAAAGAAAATG
14622800 AAAA-AAAATG
1 AAAAGAAAATG
14622810 AAAAGAAAA
1 AAAAGAAAA
14622819 AAAGAAAAAA
Statistics
Matches: 49, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
9 6 0.12
10 13 0.27
11 4 0.08
12 12 0.24
13 7 0.14
14 1 0.02
15 6 0.12
ACGTcount: A:0.73, C:0.00, G:0.15, T:0.12
Consensus pattern (11 bp):
AAAAGAAAATG
Found at i:14622775 original size:26 final size:24
Alignment explanation
Indices: 14622745--14622828 Score: 79
Period size: 24 Copynumber: 3.5 Consensus size: 24
14622735 ACTATGCTTG
14622745 AAATGAAAAAATGAAAATGAAAATGA
1 AAATGAAAAAATGAAAATGAAAA--A
14622771 AAATG-AAAAATGGAAAAATG-AAAA
1 AAATGAAAAAAT-G-AAAATGAAAAA
14622795 AAATGAAAAAAAATGAAAA-G-AAAA
1 AAATG--AAAAAATGAAAATGAAAAA
14622819 AAA-GAAAAAA
1 AAATGAAAAAA
14622829 AAAGTGAATG
Statistics
Matches: 53, Mismatches: 0, Indels: 15
0.78 0.00 0.22
Matches are distributed among these distances:
21 6 0.11
23 1 0.02
24 14 0.26
25 10 0.19
26 10 0.19
27 12 0.23
ACGTcount: A:0.75, C:0.00, G:0.14, T:0.11
Consensus pattern (24 bp):
AAATGAAAAAATGAAAATGAAAAA
Found at i:14622796 original size:9 final size:9
Alignment explanation
Indices: 14622784--14622813 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
14622774 TGAAAAATGG
14622784 AAAAATGAA
1 AAAAATGAA
14622793 AAAAATGAAA
1 AAAAATG-AA
14622803 AAAAATGAA
1 AAAAATGAA
14622812 AA
1 AA
14622814 GAAAAAAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (9 bp):
AAAAATGAA
Found at i:14622813 original size:8 final size:7
Alignment explanation
Indices: 14622745--14622795 Score: 63
Period size: 6 Copynumber: 7.4 Consensus size: 7
14622735 ACTATGCTTG
14622745 AAATGAAA
1 AAATG-AA
14622753 AAATG-A
1 AAATGAA
14622759 AAATG-A
1 AAATGAA
14622765 AAATG-A
1 AAATGAA
14622771 AAATGAA
1 AAATGAA
14622778 AAATGGAA
1 AAAT-GAA
14622786 AAATGAA
1 AAATGAA
14622793 AAA
1 AAA
14622796 AATGAAAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
6 18 0.44
7 11 0.27
8 12 0.29
ACGTcount: A:0.71, C:0.00, G:0.16, T:0.14
Consensus pattern (7 bp):
AAATGAA
Found at i:14622831 original size:25 final size:26
Alignment explanation
Indices: 14622750--14622843 Score: 76
Period size: 25 Copynumber: 3.7 Consensus size: 26
14622740 GCTTGAAATG
*
14622750 AAAAAATGAAAATG--AAAATGAAAA
1 AAAAAATGAAAATGAAAAAAAGAAAA
*
14622774 TGAAAAATGGAAAAATGAAAAAAATG--AA
1 -AAAAAAT-G-AAAATGAAAAAAA-GAAAA
14622802 AAAAAATGAAAA-GAAAAAAAGAAAA
1 AAAAAATGAAAATGAAAAAAAGAAAA
*
14622827 AAAAAGTG--AATGAAAAA
1 AAAAAATGAAAATGAAAAA
14622844 GGAGGACTCA
Statistics
Matches: 57, Mismatches: 4, Indels: 17
0.73 0.05 0.22
Matches are distributed among these distances:
23 3 0.05
24 14 0.25
25 19 0.33
26 2 0.04
27 12 0.21
28 2 0.04
29 4 0.07
30 1 0.02
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.11
Consensus pattern (26 bp):
AAAAAATGAAAATGAAAAAAAGAAAA
Found at i:14622841 original size:24 final size:24
Alignment explanation
Indices: 14622786--14622843 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 24
14622776 AAAAATGGAA
14622786 AAATGAAAAAAATGAAAAAAAATG
1 AAATGAAAAAAATGAAAAAAAATG
*
14622810 AAAAGAAAAAAA-GAAAAAAAAAGTG
1 AAATGAAAAAAATG-AAAAAAAA-TG
14622835 -AATGAAAAA
1 AAATGAAAAA
14622844 GGAGGACTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 1 0.03
24 27 0.90
25 2 0.07
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.09
Consensus pattern (24 bp):
AAATGAAAAAAATGAAAAAAAATG
Found at i:14623913 original size:40 final size:40
Alignment explanation
Indices: 14623856--14624047 Score: 136
Period size: 40 Copynumber: 4.6 Consensus size: 40
14623846 ATCTGTTTTT
*
14623856 CAAAGTTGTGATACCTCTGATTAGAGGAACAATTTATTTC
1 CAAAGTTGTGATGCCTCTGATTAGAGGAACAATTTATTTC
* * * *
14623896 CGAAGTTGTGATGCCTCTGATTAGATGAGCAATTTATTTT
1 CAAAGTTGTGATGCCTCTGATTAGAGGAACAATTTATTTC
* * * * * *
14623936 CAAAGTCGTTAAGCCTCTTATTAGAGGAGCTTTATTTATTTATTTT
1 CAAAGTTGTGATGCCTCTGATTAGAGGAAC---A---ATTTATTTC
* *
14623982 CAAAGTCAT-TGA-GCCTCTGATTAGAGGAACTTTATTTATTTT
1 CAAAGT--TGTGATGCCTCTGATTAGAGGAAC--AATTTATTTC
* * *
14624024 CAAAGTCGTAAAGCCTCTGATTAG
1 CAAAGTTGTGATGCCTCTGATTAG
14624048 CAATTTACTT
Statistics
Matches: 124, Mismatches: 18, Indels: 18
0.77 0.11 0.11
Matches are distributed among these distances:
40 59 0.48
41 2 0.02
42 27 0.22
43 1 0.01
45 2 0.02
46 31 0.25
47 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.39
Consensus pattern (40 bp):
CAAAGTTGTGATGCCTCTGATTAGAGGAACAATTTATTTC
Found at i:14623997 original size:46 final size:46
Alignment explanation
Indices: 14623927--14624268 Score: 257
Period size: 46 Copynumber: 7.9 Consensus size: 46
14623917 TAGATGAGCA
* * *
14623927 ATTTATTTTCAAAGTCGTTAAGCCTCTTATTAGAGGAGCTTTATTT
1 ATTTATTTTCAAAGTCATTGAGCCTCTGATTAGAGGAGCTTTATTT
*
14623973 ATTTATTTTCAAAGTCATTGAGCCTCTGATTAGAGGAAC----TTT
1 ATTTATTTTCAAAGTCATTGAGCCTCTGATTAGAGGAGCTTTATTT
* **
14624015 ATTTATTTTCAAAGTCGTAAAGCCTCTGATT-----AGC---A---
1 ATTTATTTTCAAAGTCATTGAGCCTCTGATTAGAGGAGCTTTATTT
* *
14624050 ATTTACTTTCCAAAAGTCATTGAGCCTCTGATTAGAGGAGC------C
1 ATTTA-TTTTC-AAAGTCATTGAGCCTCTGATTAGAGGAGCTTTATTT
* *
14624092 GTTTATTTTCAAAAGTCATTGAGTCTCTGATTAGAGGAGCTTTATTT
1 ATTTATTTTC-AAAGTCATTGAGCCTCTGATTAGAGGAGCTTTATTT
* * *
14624139 ATTTATTTTCAAAGTCATTGAGCCTCTAATTAGAGGAACTTTGTTT
1 ATTTATTTTCAAAGTCATTGAGCCTCTGATTAGAGGAGCTTTATTT
* * ** * *
14624185 A--T-CTTTCAAAGTCGTAAAGCCTCTGATTAGAGAAGCTTTGTTT
1 ATTTATTTTCAAAGTCATTGAGCCTCTGATTAGAGGAGCTTTATTT
* ** * *
14624228 ATGT-TTTTCAAAGTTGTTGAGCCTCTGCTTAGAAGAGCTTT
1 ATTTATTTTCAAAGTCATTGAGCCTCTGATTAGAGGAGCTTT
14624269 GATCAGAATT
Statistics
Matches: 244, Mismatches: 35, Indels: 35
0.78 0.11 0.11
Matches are distributed among these distances:
35 5 0.02
36 4 0.02
37 20 0.08
41 33 0.14
42 38 0.16
43 35 0.14
44 1 0.00
45 31 0.13
46 68 0.28
47 9 0.04
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (46 bp):
ATTTATTTTCAAAGTCATTGAGCCTCTGATTAGAGGAGCTTTATTT
Found at i:14624077 original size:79 final size:79
Alignment explanation
Indices: 14623972--14624214 Score: 251
Period size: 79 Copynumber: 3.0 Consensus size: 79
14623962 GAGCTTTATT
* *
14623972 TATTTATTTTCAAAGTCATTGAGCCTCTGATTAGAGGAACTTTATTTATTTTCAAAGTCGTAAAG
1 TATTTATTTCCAAAGTCATTGAGCCTCTGATTAGAGGAACTTTGTTTATTTTCAAAGTCGTAAAG
14624037 CCTCTGATTAGC-A
66 CCTCTGATTAGCTA
* * * *
14624050 -ATTTACTTTCCAAAAGTCATTGAGCCTCTGATTAGAGGAGC--CGTTTATTTTCAAAAGTCATT
1 TATTTA-TTTCC-AAAGTCATTGAGCCTCTGATTAGAGGAACTTTGTTTATTTTC-AAAGTCGTA
* *
14624112 GAGTCTCTGATTAGAGGAGCTTTA
63 AAGCCTCTGATT-----AGC--TA
* *
14624136 TTTATTTATTTTCAAAGTCATTGAGCCTCTAATTAGAGGAACTTTGTTTATCTTTCAAAGTCGTA
1 --TATTTATTTCCAAAGTCATTGAGCCTCTGATTAGAGGAACTTTGTTTAT-TTTCAAAGTCGTA
14624201 AAGCCTCTGATTAG
63 AAGCCTCTGATTAG
14624215 AGAAGCTTTG
Statistics
Matches: 132, Mismatches: 16, Indels: 28
0.75 0.09 0.16
Matches are distributed among these distances:
77 14 0.11
78 21 0.16
79 28 0.21
83 3 0.02
84 2 0.02
86 1 0.01
87 27 0.20
88 4 0.03
89 28 0.21
90 4 0.03
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (79 bp):
TATTTATTTCCAAAGTCATTGAGCCTCTGATTAGAGGAACTTTGTTTATTTTCAAAGTCGTAAAG
CCTCTGATTAGCTA
Found at i:14624145 original size:166 final size:166
Alignment explanation
Indices: 14623908--14624214 Score: 517
Period size: 166 Copynumber: 1.8 Consensus size: 166
14623898 AAGTTGTGAT
* * *
14623908 GCCTCTGATTAGATGAGCAATTTATTTTCAAAGTCGTTAAGCCTCTTATTAGAGGAGCTTTATTT
1 GCCTCTGATTAGAGGAGCAATTTATTTTCAAAGTCATTAAGCCTCTGATTAGAGGAGCTTTATTT
*
14623973 ATTTATTTTCAAAGTCATTGAGCCTCTGATTAGAGGAACTTTATTTAT-TTTCAAAGTCGTAAAG
66 ATTTATTTTCAAAGTCATTGAGCCTCTAATTAGAGGAACTTTATTTATCTTTCAAAGTCGTAAAG
14624037 CCTCTGATTAGCAATTTACTTTCCAAAAGTCATTGA
131 CCTCTGATTAGCAATTTACTTTCCAAAAGTCATTGA
** * *
14624073 GCCTCTGATTAGAGGAGCCGTTTATTTTCAAAAGTCATTGAGTCTCTGATTAGAGGAGCTTTATT
1 GCCTCTGATTAGAGGAGCAATTTATTTTC-AAAGTCATTAAGCCTCTGATTAGAGGAGCTTTATT
*
14624138 TATTTATTTTCAAAGTCATTGAGCCTCTAATTAGAGGAACTTTGTTTATCTTTCAAAGTCGTAAA
65 TATTTATTTTCAAAGTCATTGAGCCTCTAATTAGAGGAACTTTATTTATCTTTCAAAGTCGTAAA
14624203 GCCTCTGATTAG
130 GCCTCTGATTAG
14624215 AGAAGCTTTG
Statistics
Matches: 131, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
165 26 0.20
166 78 0.60
167 27 0.21
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (166 bp):
GCCTCTGATTAGAGGAGCAATTTATTTTCAAAGTCATTAAGCCTCTGATTAGAGGAGCTTTATTT
ATTTATTTTCAAAGTCATTGAGCCTCTAATTAGAGGAACTTTATTTATCTTTCAAAGTCGTAAAG
CCTCTGATTAGCAATTTACTTTCCAAAAGTCATTGA
Found at i:14624206 original size:43 final size:42
Alignment explanation
Indices: 14624140--14624229 Score: 119
Period size: 43 Copynumber: 2.1 Consensus size: 42
14624130 GCTTTATTTA
**
14624140 TTTATTTTCAAAGTCATTGAGCCTCTAATTAGAGGAA-CTTTG
1 TTTATTTTCAAAGTCATAAAGCCTCTAATTAGA-GAAGCTTTG
* *
14624182 TTTATCTTTCAAAGTCGTAAAGCCTCTGATTAGAGAAGCTTTG
1 TTTAT-TTTCAAAGTCATAAAGCCTCTAATTAGAGAAGCTTTG
14624225 TTTAT
1 TTTAT
14624230 GTTTTTCAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
42 8 0.19
43 34 0.81
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (42 bp):
TTTATTTTCAAAGTCATAAAGCCTCTAATTAGAGAAGCTTTG
Found at i:14624213 original size:89 final size:86
Alignment explanation
Indices: 14624062--14624253 Score: 233
Period size: 89 Copynumber: 2.2 Consensus size: 86
14624052 TTACTTTCCA
* * ** *
14624062 AAAGTCATTGAGCCTCTGATTAGAGGAGCCGTTTATTTTCAAAAGTCATTGAGTCTCTGATTAGA
1 AAAGTCATTGAGCCTCTAATTAGAGGAACCGTTTATTTTCAAAAGTCATAAAGCCTCTGATTAGA
* *
14624127 GGAGCTTTATTTATTTATTTTC
66 GAAGCTTTATTTATGT-TTTTC
* *
14624149 AAAGTCATTGAGCCTCTAATTAGAGGAACTTTGTTTATCTTTC-AAAGTCGTAAAGCCTCTGATT
1 AAAGTCATTGAGCCTCTAATTAGAGGAAC--CGTTTAT-TTTCAAAAGTCATAAAGCCTCTGATT
*
14624213 AGAGAAGCTTTGTTTATGTTTTTC
63 AGAGAAGCTTTATTTATGTTTTTC
**
14624237 AAAGTTGTTGAGCCTCT
1 AAAGTCATTGAGCCTCT
14624254 GCTTAGAAGA
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
87 27 0.30
88 20 0.22
89 39 0.43
90 4 0.04
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.40
Consensus pattern (86 bp):
AAAGTCATTGAGCCTCTAATTAGAGGAACCGTTTATTTTCAAAAGTCATAAAGCCTCTGATTAGA
GAAGCTTTATTTATGTTTTTC
Found at i:14624474 original size:15 final size:15
Alignment explanation
Indices: 14624454--14624509 Score: 71
Period size: 15 Copynumber: 3.7 Consensus size: 15
14624444 CCATTTCATT
14624454 TTTTATTTTTTTATA
1 TTTTATTTTTTTATA
*
14624469 TTTTATATTTTTATA
1 TTTTATTTTTTTATA
14624484 -TTTATTTATATTT-TA
1 TTTTATTT-T-TTTATA
14624499 TTTTATTTTTT
1 TTTTATTTTTT
14624510 ATCTTATGTA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
14 8 0.22
15 18 0.50
16 10 0.28
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTATTTTTTTATA
Found at i:14624485 original size:25 final size:24
Alignment explanation
Indices: 14624451--14624590 Score: 94
Period size: 24 Copynumber: 5.8 Consensus size: 24
14624441 GGCCCATTTC
*
14624451 ATTTTTTATTTTTTTATATTTTAT
1 ATTTTTTATTTATTTATATTTTAT
14624475 ATTTTTATATTTATTTATATTTTAT
1 ATTTTT-TATTTATTTATATTTTAT
* *
14624500 -TTTATTT-TTTATCTTATGTATT-T
1 ATTT-TTTATTTAT-TTATATTTTAT
* *
14624523 ATTATTTATTTATTTAT-TATTACT
1 ATTTTTTATTTATTTATATTTTA-T
* * * *
14624547 ATTTATTA-ATATATATA-TATAT
1 ATTTTTTATTTATTTATATTTTAT
*
14624569 AATTTATTTATTTATTTTTATT
1 -ATTT-TTTATTTATTTATATT
14624591 ATTTATATGT
Statistics
Matches: 90, Mismatches: 14, Indels: 22
0.71 0.11 0.17
Matches are distributed among these distances:
22 5 0.06
23 25 0.28
24 34 0.38
25 25 0.28
26 1 0.01
ACGTcount: A:0.28, C:0.01, G:0.01, T:0.70
Consensus pattern (24 bp):
ATTTTTTATTTATTTATATTTTAT
Found at i:14624550 original size:44 final size:44
Alignment explanation
Indices: 14624446--14624677 Score: 157
Period size: 44 Copynumber: 5.4 Consensus size: 44
14624436 GGGTAGGCCC
* * *
14624446 ATTTCATTTTTTATT-TT-TTTATAT-TTTATATTTTTA-TATTT
1 ATTT-ATTTATTATTATTATTTATATATATATATATTTATTATTT
* * *
14624487 ATTTATATT-TTATT-TTATTT-TTTATCTTATGTATTTATTATTT
1 ATTTAT-TTATTATTATTATTTATATAT-ATATATATTTATTATTT
* * *
14624530 ATTTATTTATTATTACTATTTAT-TAATATATATATATATAATTT
1 ATTTATTTATTATTATTATTTATAT-ATATATATATTTATTATTT
* *
14624574 ATTTATTTATTTTTATTATTTATATGTCAATATATATTTATTA-TT
1 ATTTATTTATTATTATTATTTATATAT--ATATATATTTATTATTT
* ** *
14624619 ACTTAGCTA-T-TTA-TATATTATTATATATATGTATTTATTA-TT
1 ATTTATTTATTATTATTAT-TTA-TATATATATATATTTATTATTT
*
14624661 ATTTATCTATTATTATT
1 ATTTATTTATTATTATT
14624678 TTATCTGTTA
Statistics
Matches: 154, Mismatches: 20, Indels: 30
0.75 0.10 0.15
Matches are distributed among these distances:
40 11 0.07
41 10 0.06
42 36 0.23
43 23 0.15
44 49 0.32
45 13 0.08
46 12 0.08
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.66
Consensus pattern (44 bp):
ATTTATTTATTATTATTATTTATATATATATATATTTATTATTT
Found at i:14624610 original size:50 final size:46
Alignment explanation
Indices: 14624524--14624651 Score: 116
Period size: 48 Copynumber: 2.7 Consensus size: 46
14624514 TATGTATTTA
*
14624524 TTATTTATTTATTTATTATTACTATT-TAT-TAATATATATATATATAAT
1 TTATTTATTTATTT-TTATTA-T-TTATATGTAATATATATAT-TATAAC
*
14624572 TTATTTATTTATTTTTATTATTTATATGTCAATATATATTTATTATTAC
1 TTATTTATTTATTTTTATTATTTATATGT-AATATATA--TATTATAAC
** * *
14624621 TTAGCTATTTATATATTATTATATATATGTA
1 TTATTTATTTAT-TTTTATTATTTATATGTA
14624652 TTTATTATTA
Statistics
Matches: 68, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
45 2 0.03
46 4 0.06
47 7 0.10
48 22 0.32
49 15 0.22
50 18 0.26
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.60
Consensus pattern (46 bp):
TTATTTATTTATTTTTATTATTTATATGTAATATATATATTATAAC
Found at i:14624615 original size:4 final size:4
Alignment explanation
Indices: 14624446--14624596 Score: 84
Period size: 4 Copynumber: 37.5 Consensus size: 4
14624436 GGGTAGGCCC
*
14624446 ATTT CATTT -TTT ATTT TTTT ATATT -TTAT ATTT -TTAT ATTT ATTT
1 ATTT -ATTT ATTT ATTT ATTT AT-TT ATT-T ATTT ATT-T ATTT ATTT
* *
14624491 ATAT -TTT ATTTT ATTT -TTT ATCTT ATGT ATTT A-TT ATTT ATTT ATTT
1 ATTT ATTT A-TTT ATTT ATTT AT-TT ATTT ATTT ATTT ATTT ATTT ATTT
* * * * *
14624538 A-TT ATTACT ATTT ATTA ATAT ATAT ATAT A-TA ATTT ATTT ATTT ATTT
1 ATTT ATT--T ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
*
14624586 TTATT ATTT AT
1 AT-TT ATTT AT
14624597 ATGTCAATAT
Statistics
Matches: 116, Mismatches: 14, Indels: 33
0.71 0.09 0.20
Matches are distributed among these distances:
3 18 0.16
4 73 0.63
5 21 0.18
6 4 0.03
ACGTcount: A:0.28, C:0.02, G:0.01, T:0.70
Consensus pattern (4 bp):
ATTT
Found at i:14624659 original size:20 final size:19
Alignment explanation
Indices: 14624451--14624677 Score: 75
Period size: 18 Copynumber: 11.7 Consensus size: 19
14624441 GGCCCATTTC
* * *
14624451 ATTTTTTATTTTTTTATAT
1 ATTTATTATTATTATATAT
* *
14624470 -TTTA-TATTTTTATATTT
1 ATTTATTATTATTATATAT
*
14624487 ATTTA-TATT-TTAT-TTT
1 ATTTATTATTATTATATAT
* *
14624503 ATTTTTTATCTTATGTATTTATT
1 ATTTATTA--TTAT-TATATA-T
14624526 ATTTATTTATTTATTAT-TACT
1 ATTTA-TTA-TTATTATATA-T
14624547 ATTTATTAATATATATATATAT
1 ATTTATT-AT-TAT-TATATAT
*
14624569 AATTTATTTATTTATT-TTTATT
1 -ATTTA-TTA-TTATTATATA-T
14624591 ATTTA-TATGTCA--ATATAT
1 ATTTATTAT-T-ATTATATAT
* **
14624609 ATTTATTATTACT-TAGCT
1 ATTTATTATTATTATATAT
14624627 ATTTATATATTATTATATAT
1 ATTTAT-TATTATTATATAT
*
14624647 ATGTATTTATTATTAT-T-T
1 ATTTA-TTATTATTATATAT
*
14624665 ATCTATTATTATT
1 ATTTATTATTATT
14624678 TTATCTGTTA
Statistics
Matches: 165, Mismatches: 17, Indels: 54
0.70 0.07 0.23
Matches are distributed among these distances:
16 7 0.04
17 26 0.16
18 33 0.20
19 18 0.11
20 21 0.13
21 24 0.15
22 10 0.06
23 20 0.12
24 6 0.04
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.66
Consensus pattern (19 bp):
ATTTATTATTATTATATAT
Found at i:14624682 original size:15 final size:15
Alignment explanation
Indices: 14624654--14624711 Score: 64
Period size: 15 Copynumber: 3.8 Consensus size: 15
14624644 TATATGTATT
14624654 TATTATTA-TTTATC
1 TATTATTATTTTATC
14624668 TATTATTATTTTATC
1 TATTATTATTTTATC
* * *
14624683 TGTTAATATTTTATT
1 TATTATTATTTTATC
14624698 TATCTAATTATTTT
1 TAT-T-ATTATTTT
14624712 CTTTTAATTA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
14 8 0.22
15 20 0.56
16 1 0.03
17 7 0.19
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.66
Consensus pattern (15 bp):
TATTATTATTTTATC
Found at i:14625667 original size:5 final size:5
Alignment explanation
Indices: 14625657--14625685 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
14625647 GTTTAATACT
14625657 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
14625686 CTTTAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:14625774 original size:63 final size:63
Alignment explanation
Indices: 14625700--14626046 Score: 435
Period size: 63 Copynumber: 5.7 Consensus size: 63
14625690 AAATAAAATT
* * *
14625700 AAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAGTTTTTTTCA
1 AAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTTTTCA
* **
14625763 AAAAAAAATATTTTTGAGAAAAAGTTGAAAATATCAATTTTTTTTGAAAATAAGTTTTTTTCA
1 AAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTTTTCA
* *
14625826 AAAAAAAAAATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTTTTCA
1 AAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTTTTCA
* * *
14625889 AAAAAAAATATTTTTGAGGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAATAAG---CTTTC-
1 AAAAAAAATATTTTTGA-GAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTTTTCA
* * * *
14625949 -TAAAAAATATTTTTGAGAAAAAGTTGAAAGTATTAATTTTCGTTAAAAATAAG---TTTTC-
1 AAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTTTTCA
* * * * *
14626007 -AAAAATAGAGTTTTGAGGAAAAGTTGAAAGTATAAATTTT
1 AAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTT
14626047 TCCTGTACAA
Statistics
Matches: 256, Mismatches: 27, Indels: 7
0.88 0.09 0.02
Matches are distributed among these distances:
58 70 0.27
59 15 0.06
61 4 0.02
63 133 0.52
64 34 0.13
ACGTcount: A:0.46, C:0.05, G:0.12, T:0.37
Consensus pattern (63 bp):
AAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTTTTCA
Found at i:14635664 original size:14 final size:14
Alignment explanation
Indices: 14635645--14635671 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14635635 CTTTTCCTCA
14635645 AAAATTTATTTTTG
1 AAAATTTATTTTTG
14635659 AAAATTTATTTTT
1 AAAATTTATTTTT
14635672 AAGGAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (14 bp):
AAAATTTATTTTTG
Found at i:14635764 original size:59 final size:59
Alignment explanation
Indices: 14635558--14635951 Score: 455
Period size: 59 Copynumber: 6.7 Consensus size: 59
14635548 TCTTGTGCAG
* * ** *
14635558 GAAAAATTGATATTTTTAACTTTTTTTCAAAAATATTCTTTT-GAAAC-TTTAATTTCGA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATT-TTTTGGAAACTTTTATTTTCGA
* * * **
14635616 AAAAAATTGATACTTTCAACTTTTCCTCAAAAAT-TTATTTTTGAAA-ATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATT-TTTTGGAAACTTTTATTTTCGA
* *
14635674 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTTATTTTCGA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAACTTTTATTTTCGA
* * * *
14635733 GAAAAATTGATACTTTCAACTGTTCCTCAAAAACCTTTTTTTTTGAAA-TTTTATTTT-TA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAA--TATTTTTTGGAAACTTTTATTTTCGA
* * *
14635792 AAGAAAATTGATACTTTCAACTTTT-CTCCAAAAATATTTTTTGAAAACTTTGATTTTCGA
1 GA-AAAATTGATACTTTCAACTTTTCCT-CAAAAATATTTTTTGGAAACTTTTATTTTCGA
* *
14635852 GGAAAATTGATACTTTCAACTTTT-CTCCAAAAATATTTTTTGGAAACTTTGATTTTCGA
1 GAAAAATTGATACTTTCAACTTTTCCT-CAAAAATATTTTTTGGAAACTTTTATTTTCGA
*
14635911 GGAAAATTGATACTTTCAACTTTTTCC-CAAAAATATTTTTT
1 GAAAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTT
14635952 TGGATTTTAT
Statistics
Matches: 292, Mismatches: 32, Indels: 23
0.84 0.09 0.07
Matches are distributed among these distances:
57 6 0.02
58 90 0.31
59 143 0.49
60 41 0.14
61 12 0.04
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.45
Consensus pattern (59 bp):
GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAACTTTTATTTTCGA
Found at i:14635809 original size:119 final size:116
Alignment explanation
Indices: 14635560--14635951 Score: 518
Period size: 119 Copynumber: 3.3 Consensus size: 116
14635550 TTGTGCAGGA
* * *** * *
14635560 AAAATTGATATTTTTAACTTTTTTTCAAAAATATTCTTTT-GAAAC-TTTAATTTCGAAAAAAAT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATT-TTTTGGAAACTTTTATTTTCGAGAAAAAT
* *
14635623 TGATACTTTCAACTTTTCCTCAAAAATTTATTTTTGAAAATTTATTTTTAAGG
65 TGATACTTTCAAC-TTTCCTCAAAAATTTTTTTTTGAAATTTTATTTTTAAGG
14635676 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTTATTTTCGAGAAAAATT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTTATTTTCGAGAAAAATT
*
14635741 GATACTTTCAACTGTTCCTCAAAAACCTTTTTTTTTGAAATTTTATTTTTAAAG
66 GATACTTTCAACT-TTCCTCAAAAA--TTTTTTTTTGAAATTTTATTTTTAAGG
* * * *
14635795 AAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTGAAAACTTTGATTTTCGAGGAAAATT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTTATTTTCGAGAAAAATT
* * * * **
14635860 GATACTTTCAACTTTTCTCCAAAAATATTTTTTGGAAACTTTGATTTTCGAGG
66 GATACTTTCAACTTTCCT-CAAAAATTTTTTTTTGAAA-TTTTATTTTTAAGG
*
14635913 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT
14635952 TGGATTTTAT
Statistics
Matches: 246, Mismatches: 23, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
115 4 0.02
116 36 0.15
117 51 0.21
118 51 0.21
119 104 0.42
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.45
Consensus pattern (116 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTTATTTTCGAGAAAAATT
GATACTTTCAACTTTCCTCAAAAATTTTTTTTTGAAATTTTATTTTTAAGG
Found at i:14635873 original size:32 final size:32
Alignment explanation
Indices: 14635837--14635933 Score: 82
Period size: 32 Copynumber: 3.2 Consensus size: 32
14635827 ATTTTTTGAA
14635837 AACTTTGATTTTCGAGGAAAATTGATACTTTC
1 AACTTTGATTTTCGAGGAAAATTGATACTTTC
* * ** *
14635869 AAC-TT--TTCTCCA--AAAA-T-ATTTTTTGGA
1 AACTTTGATTTTCGAGGAAAATTGATACTTT--C
14635896 AACTTTGATTTTCGAGGAAAATTGATACTTTC
1 AACTTTGATTTTCGAGGAAAATTGATACTTTC
14635928 AACTTT
1 AACTTT
14635934 TTCCCAAAAA
Statistics
Matches: 46, Mismatches: 10, Indels: 18
0.62 0.14 0.24
Matches are distributed among these distances:
25 5 0.11
26 1 0.02
27 7 0.15
28 2 0.04
29 5 0.11
30 5 0.11
31 2 0.04
32 13 0.28
33 1 0.02
34 5 0.11
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.42
Consensus pattern (32 bp):
AACTTTGATTTTCGAGGAAAATTGATACTTTC
Found at i:14635889 original size:178 final size:175
Alignment explanation
Indices: 14635558--14635972 Score: 556
Period size: 178 Copynumber: 2.4 Consensus size: 175
14635548 TCTTGTGCAG
* * * ** * * **
14635558 GAAAAATTGATATTTTTAACTTTTTTTCAAAAATATTCTTTTGAAACTTTAATTTCGAAA-AAAA
1 GAAAAATTGATACTTTCAACTTGTTCCCAAAAATATTTTTTTGAAA-TTTTATTTTTAAAGAAAA
* *
14635622 TTGATACTTTCAACTTTTCCTCAAAAATTTATTTTTGAAAATTTATTTTTAAGGAAAATTGATAC
65 TTGATACTTTCAACTTTTCCTCAAAAATATATTTTTGAAAATTTATTTTCAAGGAAAATTGATAC
*
14635687 TTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTTATTTTCGA
130 TTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTGATTTTCGA
*
14635733 GAAAAATTGATACTTTCAAC-TGTTCCTCAAAAACCTTTTTTTTTGAAATTTTATTTTTAAAGAA
1 GAAAAATTGATACTTTCAACTTGTTCC-CAAAAA--TATTTTTTTGAAATTTTATTTTTAAAGAA
*
14635797 AATTGATACTTTCAACTTTT-CTCCAAAAATAT-TTTTTGAAAACTTTGATTTTCGAGGAAAATT
63 AATTGATACTTTCAACTTTTCCT-CAAAAATATATTTTTGAAAA-TTT-ATTTTCAAGGAAAATT
*
14635860 GATACTTTCAACTTTTCTCCAAAAATATTTTTTGGAAACTTTGATTTTCGA
125 GATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTGATTTTCGA
* * *
14635911 GGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTG-GATTTTA--TTTAAAGAAAAT
1 GAAAAATTGATACTTTCAACTTGTTCCCAAAAATATTTTTTTGAAATTTTATTTTTAAAGAAAAT
14635973 AAAATAATAA
Statistics
Matches: 213, Mismatches: 19, Indels: 18
0.85 0.08 0.07
Matches are distributed among these distances:
173 12 0.06
174 3 0.01
175 30 0.14
176 31 0.15
177 44 0.21
178 88 0.41
179 5 0.02
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.45
Consensus pattern (175 bp):
GAAAAATTGATACTTTCAACTTGTTCCCAAAAATATTTTTTTGAAATTTTATTTTTAAAGAAAAT
TGATACTTTCAACTTTTCCTCAAAAATATATTTTTGAAAATTTATTTTCAAGGAAAATTGATACT
TTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTGATTTTCGA
Found at i:14636007 original size:13 final size:12
Alignment explanation
Indices: 14635968--14636043 Score: 52
Period size: 13 Copynumber: 6.2 Consensus size: 12
14635958 TTATTTAAAG
14635968 AAAATAAAATAA
1 AAAATAAAATAA
14635980 TAAAATAAAAT-A
1 -AAAATAAAATAA
*
14635992 AAAGTGAAAATAA
1 AAAAT-AAAATAA
14636005 AAAA-AAGTAA-AA
1 AAAATAA--AATAA
*
14636017 CAAAATAAAA-AT
1 -AAAATAAAATAA
14636029 AAAATAAAGATAA
1 AAAATAAA-ATAA
14636042 AA
1 AA
14636044 GAACATTAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 16
0.72 0.06 0.23
Matches are distributed among these distances:
11 14 0.27
12 12 0.24
13 23 0.45
14 2 0.04
ACGTcount: A:0.78, C:0.01, G:0.05, T:0.16
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:14636012 original size:16 final size:16
Alignment explanation
Indices: 14635964--14636057 Score: 92
Period size: 16 Copynumber: 6.1 Consensus size: 16
14635954 GATTTTATTT
14635964 AAAG-AAAATAAAAT-
1 AAAGTAAAATAAAATA
14635978 -AA-TAAAATAAAATA
1 AAAGTAAAATAAAATA
14635992 AAAGTGAAAATAAAA-A
1 AAAGT-AAAATAAAATA
*
14636008 AAAGTAAAACAAAATA
1 AAAGTAAAATAAAATA
*
14636024 AAAATAAAATAAAGATA
1 AAAGTAAAATAAA-ATA
* *
14636041 AAAG-AACATTAAATA
1 AAAGTAAAATAAAATA
14636056 AA
1 AA
14636058 CCTAATCTAA
Statistics
Matches: 67, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
13 12 0.18
15 15 0.22
16 25 0.37
17 15 0.22
ACGTcount: A:0.76, C:0.02, G:0.06, T:0.16
Consensus pattern (16 bp):
AAAGTAAAATAAAATA
Found at i:14636041 original size:6 final size:5
Alignment explanation
Indices: 14635968--14636057 Score: 78
Period size: 5 Copynumber: 17.6 Consensus size: 5
14635958 TTATTTAAAG
14635968 AAAAT AAAAT --AAT AAAAT AAAAT AAAAGT GAAAAT AAAA- AAAAGT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA-T -AAAAT AAAAT AAAA-T
* * * *
14636013 AAAAC AAAAT AAAAAT AAAAT AAAGAT AAAAG AACAT TAAAT AAA
1 AAAAT AAAAT -AAAAT AAAAT AAA-AT AAAAT AAAAT AAAAT AAA
14636058 CCTAATCTAA
Statistics
Matches: 69, Mismatches: 8, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
3 3 0.04
4 4 0.06
5 42 0.61
6 16 0.23
7 4 0.06
ACGTcount: A:0.76, C:0.02, G:0.06, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:14636057 original size:26 final size:26
Alignment explanation
Indices: 14635968--14636043 Score: 77
Period size: 26 Copynumber: 3.0 Consensus size: 26
14635958 TTATTTAAAG
* *
14635968 AAAAT-AAAAT-AATAAAA-TAAAAT
1 AAAATAAAAATAAAAAAAAGTAAAAC
*
14635991 AAAAGTGAAAATAAAAAAAAGTAAAAC
1 AAAA-TAAAAATAAAAAAAAGTAAAAC
*
14636018 AAAATAAAAATAAAATAAAGATAAAA
1 AAAATAAAAATAAAAAAAAG-TAAAA
14636044 GAACATTAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
23 4 0.09
24 1 0.02
25 5 0.11
26 20 0.45
27 14 0.32
ACGTcount: A:0.78, C:0.01, G:0.05, T:0.16
Consensus pattern (26 bp):
AAAATAAAAATAAAAAAAAGTAAAAC
Found at i:14636512 original size:18 final size:19
Alignment explanation
Indices: 14636457--14636507 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
14636447 GATTCTGGAA
14636457 TTTTTCATCGAAATCTTGG
1 TTTTTCATCGAAATCTTGG
14636476 TTTTTCATCGAAATCTTGG
1 TTTTTCATCGAAATCTTGG
*
14636495 TTTTTAATCGAAA
1 TTTTTCATCGAAA
14636508 GTTGGCTGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.47
Consensus pattern (19 bp):
TTTTTCATCGAAATCTTGG
Found at i:14636968 original size:13 final size:13
Alignment explanation
Indices: 14636950--14636974 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14636940 CGGATAAACC
14636950 AAAAAATAAAAAT
1 AAAAAATAAAAAT
14636963 AAAAAATAAAAA
1 AAAAAATAAAAA
14636975 AAATCAGATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:14636988 original size:15 final size:14
Alignment explanation
Indices: 14636968--14637007 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
14636958 AAAATAAAAA
14636968 ATAAAAAAAATCAG
1 ATAAAAAAAATCAG
*
14636982 ATGAAAATAAATCAG
1 AT-AAAAAAAATCAG
14636997 ATAAATAAAAA
1 ATAAA-AAAAA
14637008 AAATTAACAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
14 5 0.23
15 17 0.77
ACGTcount: A:0.70, C:0.05, G:0.07, T:0.17
Consensus pattern (14 bp):
ATAAAAAAAATCAG
Found at i:14637027 original size:22 final size:22
Alignment explanation
Indices: 14636985--14637028 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
14636975 AAATCAGATG
14636985 AAAATAAATCAGATAAATAAAA
1 AAAATAAATCAGATAAATAAAA
* *
14637007 AAAATTAA-CAGATAAATTAAA
1 AAAATAAATCAGATAAATAAAA
14637028 A
1 A
14637029 TTAAATAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.20
Consensus pattern (22 bp):
AAAATAAATCAGATAAATAAAA
Found at i:14637088 original size:3 final size:3
Alignment explanation
Indices: 14637080--14637105 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
14637070 AACAGGAAAA
14637080 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
14637106 AGATATATAC
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:14637154 original size:6 final size:6
Alignment explanation
Indices: 14637143--14637256 Score: 51
Period size: 6 Copynumber: 19.2 Consensus size: 6
14637133 AATACCTAAG
* * * * * *
14637143 ATAAAA ATAAAA GA-AAAA TATAGAT ATAAAA A-AACA ACAACA ATAATA
1 ATAAAA ATAAAA -ATAAAA -ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA
* * * *
14637191 ATAATAA AAATAAA ATAGAA AT-AGA ATAAAA ATAAAA A-AATA A-AAAA
1 ATAA-AA ATA-AAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA
14637238 ATAAAA A-ATAAA ATAAAA A
1 ATAAAA ATA-AAA ATAAAA A
14637257 AACATAGACT
Statistics
Matches: 82, Mismatches: 17, Indels: 18
0.70 0.15 0.15
Matches are distributed among these distances:
5 16 0.20
6 54 0.66
7 11 0.13
8 1 0.01
ACGTcount: A:0.77, C:0.03, G:0.04, T:0.17
Consensus pattern (6 bp):
ATAAAA
Found at i:14637212 original size:11 final size:11
Alignment explanation
Indices: 14637187--14637256 Score: 79
Period size: 11 Copynumber: 6.2 Consensus size: 11
14637177 CAACAACAAT
14637187 AATAATAATAAA
1 AATAA-AATAAA
*
14637199 AATAAAATAGA
1 AATAAAATAAA
*
14637210 AATAGAATAAA
1 AATAAAATAAA
14637221 AATAAAA-AAA
1 AATAAAATAAA
*
14637231 TAAAAAAATAAAA
1 -AATAAAAT-AAA
14637244 AATAAAATAAA
1 AATAAAATAAA
14637255 AA
1 AA
14637257 AACATAGACT
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
10 3 0.06
11 31 0.63
12 12 0.24
13 3 0.06
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (11 bp):
AATAAAATAAA
Found at i:14637233 original size:45 final size:49
Alignment explanation
Indices: 14637143--14637255 Score: 128
Period size: 45 Copynumber: 2.3 Consensus size: 49
14637133 AATACCTAAG
* *
14637143 ATAAAAATAAAAGAAAAATATAGATATAAAAAAACAACAACAATAATAATA
1 ATAAAAATAAAA-TAAAATATAGATATAAAAAAACAACAACAATAA-AAAA
* *
14637194 ATAAAAATAAAATAGAA-ATAGA-ATAAAAATA-AA-AA-AATAAAAAA
1 ATAAAAATAAAATAAAATATAGATATAAAAAAACAACAACAATAAAAAA
14637238 ATAAAAAATAAAATAAAA
1 AT-AAAAATAAAATAAAA
14637256 AAACATAGAC
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
44 5 0.09
45 19 0.34
46 2 0.04
47 2 0.04
48 8 0.14
49 5 0.09
50 3 0.05
51 12 0.21
ACGTcount: A:0.77, C:0.03, G:0.04, T:0.17
Consensus pattern (49 bp):
ATAAAAATAAAATAAAATATAGATATAAAAAAACAACAACAATAAAAAA
Found at i:14637243 original size:15 final size:16
Alignment explanation
Indices: 14637218--14637250 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
14637208 GAAATAGAAT
14637218 AAAAATAAAAAAATAA
1 AAAAATAAAAAAATAA
14637234 AAAAAT-AAAAAATAA
1 AAAAATAAAAAAATAA
14637249 AA
1 AA
14637251 TAAAAAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (16 bp):
AAAAATAAAAAAATAA
Found at i:14637250 original size:28 final size:28
Alignment explanation
Indices: 14637145--14637258 Score: 88
Period size: 28 Copynumber: 3.9 Consensus size: 28
14637135 TACCTAAGAT
* * * *
14637145 AAAAATAAAAGA-AAAATATAGATATAA
1 AAAAATAAAAAATAAAATAAAAAAATAA
*
14637172 AAAAACAACAACAATAATAATAATAAAAATAA
1 AAAAATAA-AA-AATAA-AATAA-AAAAATAA
* *
14637204 AATAGAA-ATAGAATAAAAATAAAAAAATAA
1 AA-A-AATAAAAAAT-AAAATAAAAAAATAA
14637234 AAAAATAAAAAATAAAATAAAAAAA
1 AAAAATAAAAAATAAAATAAAAAAA
14637259 CATAGACTTA
Statistics
Matches: 69, Mismatches: 9, Indels: 17
0.73 0.09 0.18
Matches are distributed among these distances:
27 7 0.10
28 16 0.23
29 7 0.10
30 12 0.17
31 12 0.17
32 11 0.16
33 2 0.03
34 2 0.03
ACGTcount: A:0.78, C:0.03, G:0.04, T:0.16
Consensus pattern (28 bp):
AAAAATAAAAAATAAAATAAAAAAATAA
Found at i:14637258 original size:8 final size:8
Alignment explanation
Indices: 14637218--14637250 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
14637208 GAAATAGAAT
14637218 AAAAATAA
1 AAAAATAA
14637226 AAAAATAA
1 AAAAATAA
14637234 AAAAAT-A
1 AAAAATAA
14637241 AAAAATAA
1 AAAAATAA
14637249 AA
1 AA
14637251 TAAAAAAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.29
8 17 0.71
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAATAA
Found at i:14637412 original size:1 final size:1
Alignment explanation
Indices: 14637408--14637450 Score: 50
Period size: 1 Copynumber: 43.0 Consensus size: 1
14637398 ACCTTTTTAC
* * * *
14637408 TTTTTGTTTTTTTTTTGTTTTTTTTGTTTTTTTTTTTTGTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
14637451 CGATCAAAGC
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (1 bp):
T
Found at i:14637631 original size:41 final size:41
Alignment explanation
Indices: 14637459--14637712 Score: 292
Period size: 41 Copynumber: 6.1 Consensus size: 41
14637449 TTCGATCAAA
* *
14637459 GCTCCTCTAAACAGAGGCTCAACGACTTTGAAAAACATAAATG
1 GCTCCTCTAAACAGAGGCACAACGACTTTG-AAAA-ATAAATT
* * * ** *
14637502 GCTCTTCTGATCAGAGGCTTAACGACTTTGAAAAAATAAATG
1 GCTCCTCTAAACAGAGGCACAACGACTTTG-AAAAATAAATT
* * *
14637544 GCTCCTCTAATCAGAGGCTCAACAACTTTAGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACAACGACTTT-GAAAAATAAATT
* *
14637586 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACAACGACTTTGAAAAATAAATT
* * *
14637627 GCTCCTCTAAACAAAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACAACGACTTTGAAAAATAAATT
* * * *
14637668 GCTCCTCAAAACAGAGGCACCATGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACAACGACTTTGAAAAATAAATT
14637709 GCTC
1 GCTC
14637713 ATTGGCAATC
Statistics
Matches: 192, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
41 93 0.48
42 67 0.35
43 32 0.17
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACAACGACTTTGAAAAATAAATT
Found at i:14638743 original size:19 final size:18
Alignment explanation
Indices: 14638709--14638756 Score: 62
Period size: 17 Copynumber: 2.6 Consensus size: 18
14638699 CCTTGAGTCC
14638709 TCATTTTTCATTCATTTTTTT
1 TCATTTTT--TTCA-TTTTTT
14638730 TCATTTTTTTCATTTTTT
1 TCATTTTTTTCATTTTTT
14638748 T-ATTTTTTT
1 TCATTTTTTT
14638757 AAGCATAGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 8 0.30
18 7 0.26
19 4 0.15
21 8 0.30
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.77
Consensus pattern (18 bp):
TCATTTTTTTCATTTTTT
Found at i:14638757 original size:8 final size:9
Alignment explanation
Indices: 14638709--14638756 Score: 62
Period size: 9 Copynumber: 5.1 Consensus size: 9
14638699 CCTTGAGTCC
14638709 TCATTTTTCAT
1 TCATTTTT--T
14638720 TCATTTTTTT
1 TCA-TTTTTT
14638730 TCATTTTTT
1 TCATTTTTT
14638739 TCATTTTTT
1 TCATTTTTT
14638748 T-ATTTTTT
1 TCATTTTTT
14638756 T
1 T
14638757 AAGCATAGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.22
9 16 0.44
10 4 0.11
11 3 0.08
12 5 0.14
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.77
Consensus pattern (9 bp):
TCATTTTTT
Found at i:14648017 original size:104 final size:105
Alignment explanation
Indices: 14647909--14648103 Score: 261
Period size: 104 Copynumber: 1.9 Consensus size: 105
14647899 AAAGGTCTTA
* ** * *
14647909 CAAATCTTGACATCTTTGAATGTTCC-CTCCAAGCAGAGACATAGAAAC-TTGAAATTTTAAAAT
1 CAAATCTTAACATCTTTGAATACTCCTC-CCAAGCAAAGACATAGAAACATTGAAAATTTAAAAT
* *
14647972 ATTTTGCCTGA-AGGTCTTGGAGATTATACCCTGAGATTTTT
65 ATTTTACCT-ATAGGTCATGGAGATTATACCCTGAGATTTTT
* * *
14648013 CAAATCTTAACATCTTTGAATACTCCTCCCAATCAAAGGCATTGAAACATTGAAAATTTAAAATA
1 CAAATCTTAACATCTTTGAATACTCCTCCCAAGCAAAGACATAGAAACATTGAAAATTTAAAATA
14648078 TTTTACCTATAGGTCATGGAGATTAT
66 TTTTACCTATAGGTCATGGAGATTAT
14648104 GTTCAGAGGT
Statistics
Matches: 78, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
104 40 0.51
105 38 0.49
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (105 bp):
CAAATCTTAACATCTTTGAATACTCCTCCCAAGCAAAGACATAGAAACATTGAAAATTTAAAATA
TTTTACCTATAGGTCATGGAGATTATACCCTGAGATTTTT
Found at i:14648211 original size:32 final size:31
Alignment explanation
Indices: 14648120--14648212 Score: 105
Period size: 32 Copynumber: 2.9 Consensus size: 31
14648110 AGGTTTTAAA
** *
14648120 GATCTGGGTGCCAGTTTAATTGGCCTTAGTTT
1 GATCTGGGTGCCAACTTAATTGG-CTTAATTT
* * *
14648152 GATCTAGATGCCAACTTGATTGAGCTTAATTT
1 GATCTGGGTGCCAACTTAATTG-GCTTAATTT
14648184 GATCTGGGTGCCAACTTAACTTGGCTTAA
1 GATCTGGGTGCCAACTTAA-TTGGCTTAA
14648213 AGTGCCAGTC
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
32 46 0.92
33 4 0.08
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.37
Consensus pattern (31 bp):
GATCTGGGTGCCAACTTAATTGGCTTAATTT
Found at i:14648745 original size:26 final size:25
Alignment explanation
Indices: 14648686--14648752 Score: 64
Period size: 26 Copynumber: 2.6 Consensus size: 25
14648676 TGCAGATATA
*
14648686 ATGATGCAAATGCAAATTTTTTTCTT
1 ATGATGCAAATGCAAATATTTTTC-T
* *
14648712 ATGGTGCAAATGTGAATATATTTTTC-
1 ATGATGCAAATG-CAA-ATATTTTTCT
*
14648738 ATGATGCACATGCAA
1 ATGATGCAAATGCAA
14648753 GTGAGAATGC
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
25 2 0.06
26 21 0.64
27 2 0.06
28 8 0.24
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (25 bp):
ATGATGCAAATGCAAATATTTTTCT
Found at i:14649907 original size:16 final size:16
Alignment explanation
Indices: 14649886--14649916 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14649876 AAGCCATGCA
14649886 TCTTTTTTTTCTTTGC
1 TCTTTTTTTTCTTTGC
*
14649902 TCTTTTTTTTTTTTG
1 TCTTTTTTTTCTTTG
14649917 AAAAATTTTA
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:0.00, C:0.13, G:0.06, T:0.81
Consensus pattern (16 bp):
TCTTTTTTTTCTTTGC
Found at i:14650151 original size:147 final size:147
Alignment explanation
Indices: 14649893--14650258 Score: 371
Period size: 147 Copynumber: 2.5 Consensus size: 147
14649883 GCATCTTTTT
* * * * * ** * * *
14649893 TTTCTTTGCTCTTTTTTTTTTTTGAAAAATTTTACTTCAACTTTAATATTATACTTTGTTGAATT
1 TTTCTTTACTC-TTTCTTTTTTGGAAATATTTGACTTCAACTTTAGCATTCTATTTTCTTGAATT
* ** * * *
14649958 CTATCTTCTTTTTACTTAAGATTTTAACTGATGCTTCTTTCGCTTTTTG-CCATGAGCTATCATC
65 CTATCTTCCTTTTACTTAAGATTTTAACTGAAACTTCTTTCACTTTTTGTCC-TAAACTATCATC
*
14650022 TCTAAGGTGCATGTCTTCC
129 TCTAAGGCGCATGTCTTCC
* * *
14650041 TTTCTTTACT-TTTCTTCTTTTGGAAATATTTGACTTCAATTTTGGCATTCTATTTTCTTGAATA
1 TTTCTTTACTCTTTCTT-TTTTGGAAATATTTGACTTCAACTTTAGCATTCTATTTTCTTGAATT
* *
14650105 CTATCTTCCTTTTACTT-GGAATTTTAACTGAAACTT-TATTCACTTTTTGTCCTAAACTTTCAT
65 CTATCTTCCTTTTACTTAAG-ATTTTAACTGAAACTTCT-TTCACTTTTTGTCCTAAACTATCAT
* * * * **
14650168 TTTTGAGGCGTATGTCTTTG
128 CTCTAAGGCGCATGTCTTCC
* * * *
14650188 TTTCTTTGCTCTTTCTTTTTTGGAAGTATTTGACTTCAACTTTAGCATTCTATTTTCATAAATTC
1 TTTCTTTACTCTTTCTTTTTTGGAAATATTTGACTTCAACTTTAGCATTCTATTTTCTTGAATTC
14650253 TATCTT
66 TATCTT
14650259 TTTTTTTTAC
Statistics
Matches: 178, Mismatches: 35, Indels: 11
0.79 0.16 0.05
Matches are distributed among these distances:
146 7 0.04
147 154 0.87
148 17 0.10
ACGTcount: A:0.20, C:0.17, G:0.10, T:0.53
Consensus pattern (147 bp):
TTTCTTTACTCTTTCTTTTTTGGAAATATTTGACTTCAACTTTAGCATTCTATTTTCTTGAATTC
TATCTTCCTTTTACTTAAGATTTTAACTGAAACTTCTTTCACTTTTTGTCCTAAACTATCATCTC
TAAGGCGCATGTCTTCC
Found at i:14650301 original size:147 final size:149
Alignment explanation
Indices: 14650032--14650474 Score: 398
Period size: 149 Copynumber: 2.9 Consensus size: 149
14650022 TCTAAGGTGC
** * * *
14650032 ATGTCTTCCTTTCTTTACT-TTTCTTCTTTTGGAAATATTTGACTTCAATTTTGGCATTCTATTT
1 ATGTCTTTATTTCTTTGCTCTTTCTT-TTTTGGAAATATTTGACTTCAACTTTAGCATTCTATTT
* ** * ** *
14650096 TCTTGAATACTATC--TTCCTTTTACTTGGAATTTTAACTGAAACTTTATTCACTTTTTGT-CCT
65 TCTTGAATTCTATCTTTTTTTTTTACTTCGAATGCTAACTGAAACTTAATTCAC-TTTTGTACCT
** * *
14650158 AAACTTTCATTTTTGAGGCGT
129 AAACTTTCACCTCTGAAGCGT
* *
14650179 ATGTCTTTGTTTCTTTGCTCTTTCTTTTTTGGAAGTATTTGACTTCAACTTTAGCATTCTATTTT
1 ATGTCTTTATTTCTTTGCTCTTTCTTTTTTGGAAATATTTGACTTCAACTTTAGCATTCTATTTT
* * *
14650244 CATAAATTCTATCTTTTTTTTTTACTTCGAATGCTAACTG-AAGTCTAATTCAC-TTTGTACCCT
66 CTTGAATTCTATCTTTTTTTTTTACTTCGAATGCTAACTGAAACT-TAATTCACTTTTGTA-CCT
*
14650307 AAACTTTCACCTCTGAAGTGT
129 AAACTTTCACCTCTGAAGCGT
* * *
14650328 GTGTCTTTATTTCTTTGCTCTTTCATTTTTTTTTTTTGAAATATTTGACTTCAACTTTAGTA-TC
1 ATGTCTTTATTTCTTTGCTCTTTC------TTTTTTGGAAATATTTGACTTCAACTTTAGCATTC
* * * * * *
14650392 ATACTTTCTTGAATTCTATCTTTTTTTTTTTTTTACTTAGAATTCTAATTGAAGCTTTATTCACT
60 -TATTTTCTTGAATTCTATC----TTTTTTTTTTACTTCGAATGCTAACTGAAACTTAATTCACT
*
14650457 TTT-TACCTTGAACTTTCA
120 TTTGTACC-TAAACTTTCA
14650475 ATTTAAGGTG
Statistics
Matches: 240, Mismatches: 36, Indels: 28
0.79 0.12 0.09
Matches are distributed among these distances:
147 67 0.28
148 9 0.04
149 68 0.28
154 2 0.01
155 45 0.19
158 2 0.01
159 42 0.17
160 5 0.02
ACGTcount: A:0.21, C:0.17, G:0.09, T:0.53
Consensus pattern (149 bp):
ATGTCTTTATTTCTTTGCTCTTTCTTTTTTGGAAATATTTGACTTCAACTTTAGCATTCTATTTT
CTTGAATTCTATCTTTTTTTTTTACTTCGAATGCTAACTGAAACTTAATTCACTTTTGTACCTAA
ACTTTCACCTCTGAAGCGT
Found at i:14650341 original size:149 final size:149
Alignment explanation
Indices: 14650032--14650421 Score: 403
Period size: 149 Copynumber: 2.6 Consensus size: 149
14650022 TCTAAGGTGC
** * * *
14650032 ATGTCTTCCTTTCTTTACT-TTTCTTCTTTTGGAAATATTTGACTTCAATTTTGGCATTCTATTT
1 ATGTCTTTATTTCTTTGCTCTTTCTT-TTTTGGAAATATTTGACTTCAACTTTAGCATTCTATTT
* ** * ** * * **
14650096 TCTTGAATACTATC--TTCCTTTTACTTGGAATTTTAACTGAAACTTTATTCACTTTTTGTCCTA
65 TCTTGAATTCTATCTTTTTTTTTTACTTCGAATGCTAACTGAAACTTAATTCACTTTGTACCCTA
** * *
14650159 AACTTTCATTTTTGAGGCGT
130 AACTTTCACCTCTGAAGCGT
* *
14650179 ATGTCTTTGTTTCTTTGCTCTTTCTTTTTTGGAAGTATTTGACTTCAACTTTAGCATTCTATTTT
1 ATGTCTTTATTTCTTTGCTCTTTCTTTTTTGGAAATATTTGACTTCAACTTTAGCATTCTATTTT
* * *
14650244 CATAAATTCTATCTTTTTTTTTTACTTCGAATGCTAACTG-AAGTCTAATTCACTTTGTACCCTA
66 CTTGAATTCTATCTTTTTTTTTTACTTCGAATGCTAACTGAAACT-TAATTCACTTTGTACCCTA
*
14650308 AACTTTCACCTCTGAAGTGT
130 AACTTTCACCTCTGAAGCGT
* * *
14650328 GTGTCTTTATTTCTTTGCTCTTTCATTTTTTTTTTTTGAAATATTTGACTTCAACTTTAGTA-TC
1 ATGTCTTTATTTCTTTGCTCTTTC------TTTTTTGGAAATATTTGACTTCAACTTTAGCATTC
*
14650392 ATACTTTCTTGAATTCTATCTTTTTTTTTT
60 -TATTTTCTTGAATTCTATCTTTTTTTTTT
14650422 TTTTACTTAG
Statistics
Matches: 200, Mismatches: 32, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
147 62 0.31
148 9 0.05
149 72 0.36
154 2 0.01
155 55 0.28
ACGTcount: A:0.20, C:0.17, G:0.10, T:0.53
Consensus pattern (149 bp):
ATGTCTTTATTTCTTTGCTCTTTCTTTTTTGGAAATATTTGACTTCAACTTTAGCATTCTATTTT
CTTGAATTCTATCTTTTTTTTTTACTTCGAATGCTAACTGAAACTTAATTCACTTTGTACCCTAA
ACTTTCACCTCTGAAGCGT
Found at i:14658590 original size:9 final size:9
Alignment explanation
Indices: 14658576--14658634 Score: 50
Period size: 9 Copynumber: 6.6 Consensus size: 9
14658566 ACTGGCATTG
14658576 TCTTTATTT
1 TCTTTATTT
14658585 TCTTTATTT
1 TCTTTATTT
*
14658594 TC-TTCTTT
1 TCTTTATTT
14658602 TCTTTCATTT
1 TCTTT-ATTT
*
14658612 T-TTTCTTCT
1 TCTTTATT-T
* *
14658621 TATTTCTTT
1 TCTTTATTT
14658630 TCTTT
1 TCTTT
14658635 TTTCCTTTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
8 9 0.21
9 23 0.55
10 10 0.24
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (9 bp):
TCTTTATTT
Found at i:14658600 original size:21 final size:20
Alignment explanation
Indices: 14658576--14658630 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
14658566 ACTGGCATTG
14658576 TCTTTATTTTCTTTATTTTCT
1 TCTTTATTTTCTTT-TTTTCT
14658597 TCTTT-TCTTTCATTTTTTTCT
1 TCTTTAT-TTTC-TTTTTTTCT
14658618 TC-TTA-TTTCTTTT
1 TCTTTATTTTCTTTT
14658631 CTTTTTTCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
18 4 0.13
19 4 0.13
20 3 0.10
21 17 0.55
22 3 0.10
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.76
Consensus pattern (20 bp):
TCTTTATTTTCTTTTTTTCT
Found at i:14661289 original size:16 final size:16
Alignment explanation
Indices: 14661268--14661302 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
14661258 AAACAAGCTC
*
14661268 ATACCAATTGTTAAGG
1 ATACCAATTGTTAAAG
14661284 ATACCAATTGTTAAAG
1 ATACCAATTGTTAAAG
14661300 ATA
1 ATA
14661303 TGTTATCACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.31
Consensus pattern (16 bp):
ATACCAATTGTTAAAG
Found at i:14667743 original size:19 final size:19
Alignment explanation
Indices: 14667721--14667779 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
14667711 AAATTAGATT
14667721 TAAAATTTTGATTTGGGCC
1 TAAAATTTTGATTTGGGCC
* *
14667740 TAAAATTATAATTTGAGGCCC
1 TAAAATTTTGATTTG-GG-CC
* *
14667761 GAAAA-ATTGATTTGGGCC
1 TAAAATTTTGATTTGGGCC
14667779 T
1 T
14667780 TTATTGGGCC
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
18 2 0.06
19 15 0.48
20 8 0.26
21 6 0.19
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (19 bp):
TAAAATTTTGATTTGGGCC
Found at i:14668147 original size:19 final size:19
Alignment explanation
Indices: 14668122--14668171 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 19
14668112 ATTTTTCAAA
*
14668122 AGTTTTTTTATTATTTTTT
1 AGTTTTTTTATTACTTTTT
*
14668141 GGTTTTTTT-TTACTTTTT
1 AGTTTTTTTATTACTTTTT
*
14668159 AGTTTTTTAATTA
1 AGTTTTTTTATTA
14668172 ATAAATTTGC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 15 0.58
19 11 0.42
ACGTcount: A:0.16, C:0.02, G:0.08, T:0.74
Consensus pattern (19 bp):
AGTTTTTTTATTACTTTTT
Found at i:14669125 original size:12 final size:12
Alignment explanation
Indices: 14669108--14669143 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
14669098 TTTTTTCCCT
14669108 TCTTATTCTTTC
1 TCTTATTCTTTC
14669120 TCTTATTCTTT-
1 TCTTATTCTTTC
*
14669131 TCTTTTTCTTTC
1 TCTTATTCTTTC
14669143 T
1 T
14669144 TCTTTCTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.45
12 12 0.55
ACGTcount: A:0.06, C:0.22, G:0.00, T:0.72
Consensus pattern (12 bp):
TCTTATTCTTTC
Found at i:14669139 original size:11 final size:11
Alignment explanation
Indices: 14669089--14669161 Score: 60
Period size: 11 Copynumber: 6.6 Consensus size: 11
14669079 AATATTGTCT
*
14669089 TTTTTCCTTT-
1 TTTTTCTTTTC
**
14669099 TTTTTCCCTTC
1 TTTTTCTTTTC
*
14669110 TTATTCTTTCTC
1 TTTTTCTTT-TC
*
14669122 TTATTCTTTTC
1 TTTTTCTTTTC
14669133 TTTTTC-TTTC
1 TTTTTCTTTTC
14669143 TTCTTTCTTTTC
1 TT-TTTCTTTTC
*
14669155 ATTTTCT
1 TTTTTCT
14669162 CCCTTTCGAT
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
10 15 0.28
11 22 0.42
12 16 0.30
ACGTcount: A:0.04, C:0.23, G:0.00, T:0.73
Consensus pattern (11 bp):
TTTTTCTTTTC
Found at i:14671013 original size:14 final size:14
Alignment explanation
Indices: 14670994--14671030 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
14670984 TATACATACA
14670994 TTATATATATATAT
1 TTATATATATATAT
*
14671008 TTATATTTATATAT
1 TTATATATATATAT
14671022 TTATATATA
1 TTATATATA
14671031 GAATGGCCCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTATATATATATAT
Found at i:14671018 original size:12 final size:12
Alignment explanation
Indices: 14670978--14671030 Score: 52
Period size: 13 Copynumber: 4.1 Consensus size: 12
14670968 AAAATTTTAC
*
14670978 ATATTGTATACAT
1 ATATT-TATATAT
*
14670991 ACATTATATATAT
1 ATATT-TATATAT
14671004 ATATTTATATTTAT
1 ATATTTATA--TAT
14671018 ATATTTATATAT
1 ATATTTATATAT
14671030 A
1 A
14671031 GAATGGCCCC
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
12 8 0.24
13 14 0.41
14 12 0.35
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.53
Consensus pattern (12 bp):
ATATTTATATAT
Found at i:14671474 original size:37 final size:37
Alignment explanation
Indices: 14671419--14671495 Score: 109
Period size: 37 Copynumber: 2.1 Consensus size: 37
14671409 TTGTAAGGAA
* *
14671419 ACTTTATATAGTGATTAGGTTTGAACGACTAAACCTC
1 ACTTTACATAGTGATTAGGTTTGAACAACTAAACCTC
* * *
14671456 ACTTTACATAGTGGTTAGGTTTGAATAACTAAACTTC
1 ACTTTACATAGTGATTAGGTTTGAACAACTAAACCTC
14671493 ACT
1 ACT
14671496 AGACAAAACT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (37 bp):
ACTTTACATAGTGATTAGGTTTGAACAACTAAACCTC
Found at i:14672840 original size:13 final size:13
Alignment explanation
Indices: 14672824--14672848 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14672814 TCGAATAAAT
14672824 TTAATATTAAAAA
1 TTAATATTAAAAA
14672837 TTAATATTAAAA
1 TTAATATTAAAA
14672849 TTACTCTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TTAATATTAAAAA
Found at i:14673426 original size:25 final size:25
Alignment explanation
Indices: 14673375--14673447 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 25
14673365 TAAAAAATAT
* *
14673375 TTTTAACAAAAAAGTAATTTAAATAAA
1 TTTT-ACATAAAA-TAAATTAAATAAA
14673402 TTTTACATAAAATAAATTAAATAAA
1 TTTTACATAAAATAAATTAAATAAA
** * *
14673427 TAATAAATAAAATAAAATAAA
1 TTTTACATAAAATAAATTAAA
14673448 AATTTATCAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
25 29 0.73
26 7 0.17
27 4 0.10
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (25 bp):
TTTTACATAAAATAAATTAAATAAA
Found at i:14673431 original size:16 final size:17
Alignment explanation
Indices: 14673412--14673451 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
14673402 TTTTACATAA
14673412 AATAAATTAAAT-AAAT
1 AATAAATTAAATAAAAT
*
14673428 AATAAATAAAATAAAAT
1 AATAAATTAAATAAAAT
14673445 AA-AAATT
1 AATAAATT
14673452 TATCAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (17 bp):
AATAAATTAAATAAAAT
Found at i:14674147 original size:13 final size:13
Alignment explanation
Indices: 14674115--14674216 Score: 50
Period size: 13 Copynumber: 7.8 Consensus size: 13
14674105 ATAAAAAAAT
*
14674115 AAATCAATAACTAA
1 AAATAAATAA-TAA
*
14674129 AGATAAATAATAA
1 AAATAAATAATAA
* *
14674142 AAATAAACAA-AT
1 AAATAAATAATAA
14674154 AAATAAATAA-AA
1 AAATAAATAATAA
14674166 TAAGAGTAAA-AATACA
1 -AA-A-TAAATAATA-A
** *
14674182 ACTTAAATTAT-A
1 AAATAAATAATAA
* *
14674194 AATTAAAGAATAA
1 AAATAAATAATAA
14674207 AAATAAATAA
1 AAATAAATAA
14674217 ATTAAGTAAA
Statistics
Matches: 66, Mismatches: 15, Indels: 15
0.69 0.16 0.16
Matches are distributed among these distances:
12 20 0.30
13 26 0.39
14 13 0.20
15 6 0.09
16 1 0.02
ACGTcount: A:0.69, C:0.05, G:0.04, T:0.23
Consensus pattern (13 bp):
AAATAAATAATAA
Found at i:14675153 original size:20 final size:20
Alignment explanation
Indices: 14675130--14675177 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
14675120 TATATAACTT
14675130 TTATATAAAATA-TAATATAA
1 TTATATAAAATATTAATAT-A
* *
14675150 TTATATAAATTATTAATATT
1 TTATATAAAATATTAATATA
14675170 TTATATAA
1 TTATATAA
14675178 TACAAATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 19 0.76
21 6 0.24
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
TTATATAAAATATTAATATA
Found at i:14675176 original size:33 final size:33
Alignment explanation
Indices: 14675139--14675212 Score: 105
Period size: 33 Copynumber: 2.2 Consensus size: 33
14675129 TTTATATAAA
* *
14675139 ATATAATA-TAATTATATAAATTATTAATATTTT
1 ATATAATACAAATT-TATAAATTATTAAGATTTT
14675172 ATATAATACAAATTTATAAATTATTAAGATTTT
1 ATATAATACAAATTTATAAATTATTAAGATTTT
*
14675205 AAATAATA
1 ATATAATA
14675213 AAAAATACAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
33 33 0.89
34 4 0.11
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (33 bp):
ATATAATACAAATTTATAAATTATTAAGATTTT
Found at i:14677475 original size:18 final size:18
Alignment explanation
Indices: 14677453--14677488 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
14677443 TTTATCTGAT
14677453 AAAAAATTAATTAATTAAC
1 AAAAAA-TAATTAATTAAC
*
14677472 AAAAAATAATTTATTAA
1 AAAAAATAATTAATTAA
14677489 TTAATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAAAATAATTAATTAAC
Found at i:14677487 original size:22 final size:22
Alignment explanation
Indices: 14677453--14677500 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
14677443 TTTATCTGAT
14677453 AAAA-AATTAATTAATTAACAA
1 AAAATAATTAATTAATTAACAA
* *
14677474 AAAATAATTTATTAATTAATAA
1 AAAATAATTAATTAATTAACAA
14677496 AAAAT
1 AAAAT
14677501 GAAGTATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 4 0.17
22 20 0.83
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
AAAATAATTAATTAATTAACAA
Found at i:14677508 original size:22 final size:22
Alignment explanation
Indices: 14677462--14677508 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
14677452 TAAAAAATTA
*
14677462 ATTAATTAACAAAAAATAATTT
1 ATTAATTAACAAAAAATAATGT
*
14677484 ATTAATTAATAAAAAATGAA-GT
1 ATTAATTAACAAAAAAT-AATGT
14677506 ATT
1 ATT
14677509 TTTAAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 20 0.91
23 2 0.09
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.36
Consensus pattern (22 bp):
ATTAATTAACAAAAAATAATGT
Found at i:14677575 original size:16 final size:16
Alignment explanation
Indices: 14677554--14677584 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
14677544 TTTAAAAAAT
14677554 AATTATTTATGAATAG
1 AATTATTTATGAATAG
14677570 AATTATTTATGAATA
1 AATTATTTATGAATA
14677585 TTTTTAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (16 bp):
AATTATTTATGAATAG
Found at i:14677617 original size:15 final size:15
Alignment explanation
Indices: 14677599--14677696 Score: 84
Period size: 15 Copynumber: 7.0 Consensus size: 15
14677589 TAATATAATT
14677599 TTAATAAATAATATA
1 TTAATAAATAATATA
*
14677614 TTAATAAATATTATA
1 TTAATAAATAATATA
* * *
14677629 CTAATATATTA-ATA
1 TTAATAAATAATATA
*
14677643 TTAATACATAATATA
1 TTAATAAATAATATA
14677658 TT-AT---TAATA-A
1 TTAATAAATAATATA
* *
14677668 ATAAT-ATTAATATA
1 TTAATAAATAATATA
14677682 TTAATAAATAATATA
1 TTAATAAATAATATA
14677697 AAAATAATAA
Statistics
Matches: 66, Mismatches: 11, Indels: 12
0.74 0.12 0.13
Matches are distributed among these distances:
10 2 0.03
11 7 0.11
13 5 0.08
14 18 0.27
15 34 0.52
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (15 bp):
TTAATAAATAATATA
Found at i:14677636 original size:8 final size:8
Alignment explanation
Indices: 14677607--14677696 Score: 66
Period size: 8 Copynumber: 11.9 Consensus size: 8
14677597 TTTTAATAAA
14677607 TAATATAT
1 TAATATAT
*
14677615 TAATA-AA
1 TAATATAT
* *
14677622 TATTATAC
1 TAATATAT
14677630 TAATATAT
1 TAATATAT
14677638 T-A-ATAT
1 TAATATAT
*
14677644 TAATACA-
1 TAATATAT
14677651 TAATATAT
1 TAATATAT
*
14677659 TATTA-AT
1 TAATATAT
*
14677666 AAATAATAT
1 TAAT-ATAT
14677675 TAATATAT
1 TAATATAT
*
14677683 TAATA-AA
1 TAATATAT
14677690 TAATATA
1 TAATATA
14677697 AAAATAATAA
Statistics
Matches: 63, Mismatches: 12, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
6 5 0.08
7 23 0.37
8 30 0.48
9 5 0.08
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (8 bp):
TAATATAT
Found at i:14677642 original size:19 final size:21
Alignment explanation
Indices: 14677594--14677696 Score: 81
Period size: 21 Copynumber: 5.0 Consensus size: 21
14677584 ATTTTTAATA
* *
14677594 TAATTTTAATAAATAATATAT
1 TAATATTAATACATAATATAT
*
14677615 TAATAAATATTATAC-TAATATAT
1 TAAT--AT-TAATACATAATATAT
14677638 TAATATTAATACATAATATA-
1 TAATATTAATACATAATATAT
*
14677658 T--TATTAATAAATAATAT-T
1 TAATATTAATACATAATATAT
* *
14677676 AATATATTAATAAATAATATA
1 TA-ATATTAATACATAATATA
14677697 AAAATAATAA
Statistics
Matches: 67, Mismatches: 6, Indels: 17
0.74 0.07 0.19
Matches are distributed among these distances:
18 15 0.22
20 6 0.09
21 29 0.43
23 13 0.19
24 4 0.06
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (21 bp):
TAATATTAATACATAATATAT
Found at i:14677704 original size:18 final size:21
Alignment explanation
Indices: 14677607--14677709 Score: 70
Period size: 21 Copynumber: 4.8 Consensus size: 21
14677597 TTTTAATAAA
* *
14677607 TAATATATTAATAAATATTATAC
1 TAATATAATAATAAATA--ATAT
* *
14677630 TAATATATTAATATTAATACATAA
1 TAATATAATAATA--AATA-ATAT
*
14677654 T-ATATTATTAATAAATAATAT
1 TAATA-TAATAATAAATAATAT
*
14677675 TAATATATTAATAAATAATA-
1 TAATATAATAATAAATAATAT
14677695 TAA-A-AATAATAAATA
1 TAATATAATAATAAATA
14677710 GTTTTATTTT
Statistics
Matches: 72, Mismatches: 4, Indels: 13
0.81 0.04 0.15
Matches are distributed among these distances:
18 10 0.14
19 1 0.01
20 3 0.04
21 19 0.26
22 7 0.10
23 16 0.22
24 12 0.17
25 4 0.06
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
TAATATAATAATAAATAATAT
Found at i:14677762 original size:18 final size:19
Alignment explanation
Indices: 14677721--14677767 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
14677711 TTTTATTTTA
*
14677721 AATATTTT-ATATTAATAT
1 AATATTTTAATACTAATAT
14677739 AATATTTTAATACTAA-AT
1 AATATTTTAATACTAATAT
*
14677757 ATTATTATTAA
1 AATATT-TTAA
14677768 AATATAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 15 0.60
19 10 0.40
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (19 bp):
AATATTTTAATACTAATAT
Found at i:14677797 original size:15 final size:16
Alignment explanation
Indices: 14677703--14677811 Score: 57
Period size: 15 Copynumber: 6.6 Consensus size: 16
14677693 TATAAAAATA
*
14677703 ATAAATAGTTTT-ATT
1 ATAAATAATTTTAATT
*
14677718 TTAAAT-ATTTTATATT
1 ATAAATAATTTTA-ATT
14677734 AATATAAT-ATTTTAA-T
1 -ATA-AATAATTTTAATT
*
14677750 ACTAAATATTATTATTAAAAT
1 A-TAAATA--ATT-TT-AATT
* *
14677771 ATAATTATTTTTAA-T
1 ATAAATAATTTTAATT
*
14677786 ATTAATAATTTTAATT
1 ATAAATAATTTTAATT
14677802 ATAAATAATT
1 ATAAATAATT
14677812 CAATATATTT
Statistics
Matches: 73, Mismatches: 9, Indels: 23
0.70 0.09 0.22
Matches are distributed among these distances:
14 4 0.05
15 21 0.29
16 18 0.25
17 5 0.07
18 14 0.19
19 2 0.03
20 7 0.10
21 2 0.03
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (16 bp):
ATAAATAATTTTAATT
Found at i:14677810 original size:25 final size:25
Alignment explanation
Indices: 14677782--14677866 Score: 84
Period size: 25 Copynumber: 3.3 Consensus size: 25
14677772 TAATTATTTT
*
14677782 TAATATTAATAATTTTAATTATAAA
1 TAATATTAATAATTTTAATAATAAA
* *
14677807 TAAT-TCAATATATTTTAATCATAAA
1 TAATATTAATA-ATTTTAATAATAAA
*
14677832 TAATTTTTAAT-ATTTTAATAATAATA
1 TAA-TATTAATAATTTTAATAATAA-A
14677858 TTAATATTA
1 -TAATATTA
14677867 TTTGAAAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
24 5 0.10
25 32 0.64
26 6 0.12
27 7 0.14
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.49
Consensus pattern (25 bp):
TAATATTAATAATTTTAATAATAAA
Found at i:14677858 original size:41 final size:39
Alignment explanation
Indices: 14677733--14677858 Score: 102
Period size: 36 Copynumber: 3.2 Consensus size: 39
14677723 TATTTTATAT
14677733 TAATATAATATTTTAATACTAAAT-ATTATT-ATTA-AAAT-A
1 TAATAT-AT-TTTTAATA-TAAATAATT-TTAATTATAAATAA
*
14677772 TAAT-TATTTTTAATATTAATAATTTTAATTATAAATAA
1 TAATATATTTTTAATATAAATAATTTTAATTATAAATAA
* *
14677810 TTCAATATA-TTTTAATCATAAATAATTTTTAATATTTTAATAA
1 -T-AATATATTTTTAAT-ATAAATAA-TTTTAAT-TATAAATAA
14677853 TAATAT
1 TAATAT
14677859 TAATATTATT
Statistics
Matches: 73, Mismatches: 4, Indels: 18
0.77 0.04 0.19
Matches are distributed among these distances:
35 6 0.08
36 15 0.21
37 6 0.08
38 2 0.03
39 5 0.07
40 10 0.14
41 14 0.19
42 8 0.11
43 7 0.10
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (39 bp):
TAATATATTTTTAATATAAATAATTTTAATTATAAATAA
Found at i:14677951 original size:27 final size:26
Alignment explanation
Indices: 14677903--14677977 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 26
14677893 ATAATCGAAC
* *
14677903 AATAAAAAAT-ATTTTTTATTAATTT
1 AATAAATAATAATTTTTTTTTAATTT
*
14677928 ATTTAAATAATAATTTTTTTTTAATTT
1 A-ATAAATAATAATTTTTTTTTAATTT
* *
14677955 AAAAAATATATAATTATTTTTTA
1 AATAAATA-ATAATTTTTTTTTA
14677978 CGGAATGTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
25 1 0.02
26 12 0.29
27 28 0.68
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (26 bp):
AATAAATAATAATTTTTTTTTAATTT
Done.